MicroRNA Mouse Mus musculus

mmu-miR-196a-5p

The 5p arm of 2 hairpins: mmu-mir-196a-1 (MI0000552) and mmu-mir-196a-2 (MI0000553); the other arm is mmu-miR-196a-1-3p.

Sequence of mmu-miR-196a-5p: UAGGUAGUUU CAUGUUGUUG GG

22 nt, as miRBase release 23 writes it, 5' to 3'; unchanged in miRBase release 23.

Rat: no vote names an ortholog of Mir196a-1: the Alliance, NCBI and Ensembl Compara answered and named none; RGD did not answer (upstream error, reference 83254193-5a3).

Mir196a-1 placement: NCBI: 11:96,155,990-96,156,091 on the plus strand, GRCm39 (GCF_000001635.27), sequence NC_000077.7, annotation GCF_000001635.27-RS_2024_02Ensembl: 11:96,155,990-96,156,091 on the plus strand, GRCm39 (GCA_000001635.9), Ensembl release 116
Mir196a-1 host gene: Lies within Gm53, on the same strand (Ensembl release 116, GRCm39).
Mir196a-1 is also known as: Mirn196, miR-196, Mirn196a-1, mir-196a-1 (names of the gene Mir196a-1, as NCBI Datasets 18.38.0 lists them)
Mir196a-2 placement: NCBI: 15:102,881,785-102,881,869 on the plus strand, GRCm39 (GCF_000001635.27), sequence NC_000081.7, annotation GCF_000001635.27-RS_2024_02Ensembl: 15:102,881,785-102,881,869 on the plus strand, GRCm39 (GCA_000001635.9), Ensembl release 116
Mir196a-2 host gene: Lies within Hoxc5, on the same strand (Ensembl release 116, GRCm39).
Mir196a-2 is also known as: Mirn196a-2, mir-196a-2 (names of the gene Mir196a-2, as NCBI Datasets 18.38.0 lists them)

miRBase placement: The mature: 11:96,156,013-96,156,034 on the plus strand, GRCm39 (GCA_000001635.9) (on mmu-mir-196a-1; the sequence card lists its span on each hairpin)The hairpin mmu-mir-196a-1: 11:96,155,990-96,156,091 on the plus strand, GRCm39 (GCA_000001635.9)The hairpin mmu-mir-196a-2: 15:102,881,785-102,881,869 on the plus strand, GRCm39 (GCA_000001635.9)Coordinates are one-based with both ends included, as each source reports them.

MicroRNA identity, from miRBase · miRBase v23 (2026-07-29), GRCm39 · read 2026-10-06 ET · miRBase MIMAT0000518miRBase release 23; Kozomara A, Birgaoanu M, Griffiths-Jones S. Nucleic Acids Research (2019).

Inhibit or mimic this microRNA

The order page opens with mmu-miR-196a-5p and mouse filled in; the price is on that page.

Order for mmu-miR-196a-5p

AUMantagomir sdASO (inhibitor) or AUMmimic sdASO (mimic)

Bring your own sequence The hairpins' gene pages

For research use only. Not for use in diagnostic or therapeutic procedures.

Sequence and arms
The gene and its locus
In other species
Cross-references
Pathways
Targets
Literature
AUM BioTech's studies
Inhibit or mimic this microRNA

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01 Sequence and arms

The mature, its arm and its hairpin

mmu-miR-196a-5p is 22 nt, the 5p arm of 2 hairpins, mmu-mir-196a-1 (MI0000552), mmu-mir-196a-2 (MI0000553); the other arm is mmu-miR-196a-1-3p. Its sequence did not change in miRBase release 23.

miRBase

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What this tells you

miRBase's files name this mature, its accession, its sequence and the hairpin it derives from, and the GFF3 places both on the genome. Of the hairpins the GFF3's header says: “Note, these sequences do not represent the full primary transcript, rather a predicted stem-loop portion that includes the precursor miRNA.”

A sentence from RefSeq's summary on the genes Mir196a-1, Mir196a-2, as NCBI Gene carries it: “The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products.” [RefSeq, Sep 2009].

The arm suffix is miRBase's naming. The README of release 23 says: “20514 mature sequences have had their names clarified, usually upon the addition of a 2nd mature product from the same locus. For example, hsa-miR-107 is renamed to hsa-miR-107-3p on the addition of hsa-miR-107-5p to the database.” The convention that mir names a hairpin and miR a mature is the annotation guidelines paper the README cites: Ambros V, Bartel B, Bartel DP, Burge CB, Carrington JC, Chen X, Dreyfuss G, Eddy SR, Griffiths-Jones S, Marshall M, Matzke M, Ruvkun G, Tuschl T. A uniform system for microRNA annotation. RNA 2003 9(3):277-279. PubMed 12592000, DOI 10.1261/rna.2183803. miRBase itself is cited as the credit line carries it: Kozomara A, Birgaoanu M, Griffiths-Jones S. miRBase: from microRNA sequences to function. Nucleic Acids Res 2019 47(D1):D155-D162. PubMed 30423142, DOI 10.1093/nar/gky1141.

The seed drawn on the mature is a cited definition, not a measurement. MirGeneDB's information page (read 2026-09-08) says: “Nucleotide positions 2 through 8 of the mature sequence (the "seed") are strongly conserved through evolution, as are positions 13-16 (the 3' complementary region) (13,20,21).” TargetScan's FAQ defines its site types by the same positions counted two ways: “7mer-m8: An exact match to positions 2-8 of the mature miRNA (the seed + position 8)” and “7mer-1A: An exact match to positions 2-7 of the mature miRNA” followed by an A. So TargetScan's seed proper is positions 2 to 7, and the span this page shades, 2 to 8, is MirGeneDB's.

The two arms are different microRNAs, so an antagomir or a mimic is made against one of them; the other arm has its own page, and the order door of this page carries this arm's name.

The mature sequence

Positions 1 to 22 of mmu-miR-196a-5p, 5' to 3', as MirGeneDB's definition counts them. The shaded positions 2 to 8 are the seed region, nucleotides 2 to 8, as MirGeneDB's information page defines it (read 2026-09-08); nothing else on the sequence is marked.

The records of mmu-miR-196a-5p as text
Mature name	mmu-miR-196a-5p
Accession	MIMAT0000518
Sequence, 5' to 3'	UAGGUAGUUUCAUGUUGUUGGG
Length	22 nt, as miRBase release 23 writes it
Seed, positions 2 to 8	AGGUAGU
Changed in this release	no: the diff of miRBase release 23 carries no SEQUENCE line for MIMAT0000518
Placement	11:96,156,013-96,156,034 on the plus strand, GRCm39 (GCA_000001635.9)

The hairpin mmu-mir-196a-1 MI0000552 102 nt

The hairpin mmu-mir-196a-1 drawn as a line, 5' to 3': each mature at the positions the records give it, the bases between two matures labelled the loop, and the bases before and after them the flanks. No fold is drawn: the shape of the hairpin is not in any file this page reads.

The segments of mmu-mir-196a-1 as text
Segment	Positions	Length	Bases, 5' to 3'
5' flank

The hairpin mmu-mir-196a-2 MI0000553 85 nt

The hairpin mmu-mir-196a-2 drawn as a line, 5' to 3': each mature at the positions the records give it, the bases between two matures labelled the loop, and the bases before and after them the flanks. No fold is drawn: the shape of the hairpin is not in any file this page reads.

The segments of mmu-mir-196a-2 as text
Segment	Positions	Length	Bases, 5' to 3'
5' flank

The hairpin and the matures are written as RNA, with U, as miRBase's files write them; the genomic and RefSeq records of the same span are written as DNA, with T. miRBase's entry page for MIMAT0000518 carries an Evidence line that no downloadable file carries, so it is not on this page; read it there.

Notes from the reads

mmu-miR-196a-5p sits at 2 loci in mmu.gff3; the placement shown is the one on mmu-mir-196a-1, and each hairpin carries its own.

Mature and hairpin sequences and spans, from miRBase · miRBase v23 (2026-07-29), GRCm39 · read 2026-10-06 ET · miRBase MIMAT0000518miRBase release 23; Kozomara A, Birgaoanu M, Griffiths-Jones S. Nucleic Acids Research (2019).
Seed definition, from MirGeneDB · MirGeneDB information page, read 2026-09-08 · MirGeneDB information

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02 The gene and its locus

The genes of the hairpins and where they sit

2 genes: Mir196a-1 (MGI:2676860), 11 D, within Gm53 on the same strand; Mir196a-2 (MGI:3618739), 15 F3, within Hoxc5 on the same strand. RefSeq NR_029721.1, 102 nt; NR_029722.1, 85 nt.

NCBI Gene · MGI · Ensembl

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What this tells you

The hairpin is a gene to the nomenclature authorities and to NCBI Gene and Ensembl: HGNC for human, MGI for mouse and RGD for rat name it, NCBI places it on the reference annotation and RefSeq holds its stem-loop record, and Ensembl places it and says what other gene its span lies inside. Each placement is on the assembly its source names, and the card never converts one into another.

A sentence from RefSeq's summary on the genes Mir196a-1, Mir196a-2, as NCBI Gene carries it: “miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding.” [RefSeq, Sep 2009].

The gene page holds the locus's own records: the transcripts, the variants and the disease associations are the gene's, and this card links to it rather than repeating them as if they were this arm's.

The gene Mir196a-1 of the hairpin mmu-mir-196a-1

Symbol

Mir196a-1 microRNA 196a-1

Type

non-coding RNA ncRNA

MGI

MGI:2676860

NCBI Gene

387191

Ensembl

ENSMUSG00000065546.3

RefSeq records

NR_029721.1 102 nt, the length of the hairpin in miRBase release 23 non-coding (NON_CODING) Ensembl ENSMUST00000083612.3
Annotation GCF_000001635.27-RS_2024_02.

Cytogenetic band

11 D

Also known as

Mirn196, miR-196, Mirn196a-1, mir-196a-1

RefSeq's summary on the gene Mir196a-1, as NCBI Gene carries it, quoted as written.

microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop.
[provided by RefSeq, Sep 2009]

Placements, each on the assembly its source names

miRBase, the hairpin mmu-mir-196a-1: 11:96,155,990-96,156,091 on the plus strand, GRCm39 (GCA_000001635.9)
NCBI, the gene: 11:96,155,990-96,156,091 on the plus strand, GRCm39 (GCF_000001635.27), sequence NC_000077.7, annotation GCF_000001635.27-RS_2024_02
Ensembl, the gene: 11:96,155,990-96,156,091 on the plus strand, GRCm39 (GCA_000001635.9), Ensembl release 116

Coordinates are one-based with both ends included, as each source reports them.

The host gene of Mir196a-1, from Ensembl's overlap

Gm53 ENSMUSG00000078706.7lncRNA

predicted gene 53 (Ensembl credits MGI Symbol, Acc:MGI:2684899)

11:96,126,719-96,160,566 on the plus strand, GRCm39 (GCA_000001635.9); Mir196a-1 lies within the span of Gm53; sense, on the same strand as Gm53.

Ensembl release 116, GRCm39 (GCA_000001635.9): the overlap is by span, over every biotype, and says nothing about the two being one transcript. The hairpin mmu-mir-196a-1 is placed by miRBase on its own build, above.

The Mir196a-1 gene pageThe locus's own records, the transcripts, the variants and the disease associations, are the gene's and are on that page.

The gene Mir196a-2 of the hairpin mmu-mir-196a-2

Symbol

Mir196a-2 microRNA 196a-2

Type

non-coding RNA ncRNA

MGI

MGI:3618739

NCBI Gene

723958

Ensembl

ENSMUSG00000065488.4

RefSeq records

NR_029722.1 85 nt, the length of the hairpin in miRBase release 23 non-coding (NON_CODING) Ensembl ENSMUST00000083554.4
Annotation GCF_000001635.27-RS_2024_02.

Cytogenetic band

15 F3

Also known as

Mirn196a-2, mir-196a-2

RefSeq's summary on the gene Mir196a-2, as NCBI Gene carries it, quoted as written.

microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop.

Gene records and placements, from MGI, NCBI Gene and Ensembl · miRBase v23 (2026-07-29); NCBI Datasets 18.38.0; NCBI Datasets 18.38.0 · read 2026-10-06 ET · NCBI Gene 387191Data from NCBI, provided as is; NCBI's policies and disclaimers apply.
Hairpin and mature placements, from miRBase · miRBase v23 (2026-07-29), GRCm39 · read 2026-10-06 ET · miRBase MI0000552miRBase release 23; Kozomara A, Birgaoanu M, Griffiths-Jones S. Nucleic Acids Research (2019).
Host gene of Mir196a-1, from Ensembl's overlap · Ensembl 116 · read 2026-10-01 ET · Ensembl ENSMUSG00000078706Ensembl release 116, GRCm39 (GCA_000001635.9)
RefSeq records of Mir196a-1, from NCBI Datasets · NCBI Datasets 18.38.0; GCF_000001635.27-RS_2024_02 · read 2026-10-06 ET · NR_029721.1NCBI Datasets 18.38.0; annotation GCF_000001635.27-RS_2024_02 (public domain)
Host gene of Mir196a-2, from Ensembl's overlap · Ensembl 116 · read 2026-09-30 ET · Ensembl ENSMUSG00000022485Ensembl release 116, GRCm39 (GCA_000001635.9)
RefSeq records of Mir196a-2, from NCBI Datasets · NCBI Datasets 18.38.0; GCF_000001635.27-RS_2024_02 · read 2026-10-06 ET · NR_029722.1NCBI Datasets 18.38.0; annotation GCF_000001635.27-RS_2024_02 (public domain)

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03 In other species

The same arm in mouse, rat and human

Human hsa-miR-196a-5p (MIR196A1, by the Alliance); rat: no vote names an ortholog (the Alliance, NCBI and Ensembl Compara answered and named none; RGD did not answer (upstream error, reference 83254193-5a3)). The same-arm sequences share 22 of 22 compared positions with human.

Alliance · NCBI · Ensembl Compara · miRBase

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04 Cross-references

The sequence at RNAcentral and its member databases

Listed by 7 member databases at RNAcentral (URS00000DA6A7) for mouse. RNAcentral's copy of the sequence is miRBase release 23's.

RNAcentral

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05 Pathways

Where Reactome places mmu-miR-196a-5p

Reactome v97 maps no pathway to mmu-miR-196a-5p (MIMAT0000518) or to mmu-mir-196a-1 (MI0000552) or mmu-mir-196a-2 (MI0000553) in mouse.

Reactome

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06 Targets

Where the target databases are

Predicted and validated targets are held by databases whose terms do not grant display on a company's website; 7 doors open them for mmu-miR-196a-5p.

Reading RNAcentral and the ortholog votes, for the doors.Still reading. A first read of a microRNA can take a while; this page waits up to 120 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.

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07 Literature

Papers that mention mmu-miR-196a-5p or its base name miR-196a

5,478 PubMed-indexed papers match the query for mmu-miR-196a-5p or its base name miR-196a at Europe PMC, 25 a page.

Europe PMC

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08 AUM BioTech's studies on this microRNA

AUM BioTech's published work on mmu-miR-196a-5p

No checked AUM BioTech record names mmu-miR-196a-5p in mouse.

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09 Inhibit or mimic this microRNA

Targeting mmu-miR-196a-5p

The order page opens with mmu-miR-196a-5p and mouse filled in, with AUMantagomir sdASO and AUMmimic sdASO side by side and the price on that page. Five decisions are yours before it does. What is written under each is AUM's guidance; the timings and the concentrations are in the usage guide below.

01
Choose the arm
The mature named on this page is one arm of its hairpin; the other arm, mmu-miR-196a-1-3p, is a different microRNA with its own page. An inhibitor or a mimic is made against one arm, and the order door of this page carries mmu-miR-196a-5p.
02
Inhibit or replace
An AUMantagomir sdASO inhibits the mature microRNA; an AUMmimic sdASO supplies one. Both are self-delivering. AUMantagomir toASO is the transfection-optimised version of AUMantagomir sdASO, a lower-cost option that needs a transfection reagent.
03
Check the species
The sequence is mouse's, as miRBase release 23 writes it. Where the orthologs card shows the same arm in another species with another sequence, a design for one species is not a design for the other; where the bases are the same, that is a sequence fact the card states, not a claim about the two.
04
Run the controls
A scramble control of the same chemistry, the positive control the order page offers for the product, untreated cells, and a mock condition wherever a transfection reagent is used. The order page lists the controls beside the product.
05
Read the result at the target level
Inhibiting or supplying a microRNA is read in what it acts on, not in the microRNA alone: the transcripts and the proteins your own experiment names as its targets. The usage guide gives the timing and the concentrations to start from; nothing on this page names a target.

Order for mmu-miR-196a-5p Bring your own sequence The usage guide

AUMantagomir sdASO (inhibitor) or AUMmimic sdASO (mimic)

For research use only. Not for use in diagnostic or therapeutic procedures.

Mature name

mmu-miR-196a-5p

Accession

MIMAT0000518

Sequence, 5' to 3'

UAGGUAGUUUCAUGUUGUUGGG

Length

22 nt, as miRBase release 23 writes it

Seed, positions 2 to 8

AGGUAGU

Changed in this release

no: the diff of miRBase release 23 carries no SEQUENCE line for MIMAT0000518

Placement

11:96,156,013-96,156,034 on the plus strand, GRCm39 (GCA_000001635.9)

The segments of mmu-mir-196a-1 as text
Segment	Positions	Length	Bases, 5' to 3'
5' flank

Segment

Positions

Length

Bases, 5' to 3'

5' flank

The segments of mmu-mir-196a-2 as text
Segment	Positions	Length	Bases, 5' to 3'
5' flank

Segment

Positions

Length

Bases, 5' to 3'

5' flank

mmu-miR-196a-5p

The mature, its arm and its hairpin

The mature sequence

The hairpin mmu-mir-196a-1 MI0000552 102 nt

The hairpin mmu-mir-196a-2 MI0000553 85 nt

The genes of the hairpins and where they sit

The gene Mir196a-1 of the hairpin mmu-mir-196a-1

Placements, each on the assembly its source names

The host gene of Mir196a-1, from Ensembl's overlap

The gene Mir196a-2 of the hairpin mmu-mir-196a-2

The same arm in mouse, rat and human

The sequence at RNAcentral and its member databases

Where Reactome places mmu-miR-196a-5p

Where the target databases are

Papers that mention mmu-miR-196a-5p or its base name miR-196a

AUM BioTech's published work on mmu-miR-196a-5p

Targeting mmu-miR-196a-5p

Choose the arm

Inhibit or replace

Check the species

Run the controls

Read the result at the target level

The mature sequence

The hairpin mmu-mir-196a-1 MI0000552 102 nt

The hairpin mmu-mir-196a-2 MI0000553 85 nt

The gene Mir196a-1 of the hairpin mmu-mir-196a-1

Placements, each on the assembly its source names

The host gene of Mir196a-1, from Ensembl's overlap

The gene Mir196a-2 of the hairpin mmu-mir-196a-2

Placements, each on the assembly its source names

The host gene of Mir196a-2, from Ensembl's overlap