Mir-10-P2c

MirGeneDB ID

Xtr-Mir-10-P2c

Family name

MIR-10 (all species)

Species

Tropical clawed frog (Xenopus tropicalis)

MiRBase ID

xtr-mir-99

Paralogues

Xtr-Mir-10-P1b-v1 Xtr-Mir-10-P1c-v1 Xtr-Mir-10-P1d-v1 Xtr-Mir-10-P2b Xtr-Mir-10-P3b Xtr-Mir-10-P3c Xtr-Mir-10-P3d

Orthologues

Aae-Mir-10-P2 Aca-Mir-10-P2c Adi-Mir-10 Aga-Mir-10-P2 Agr-Mir-10-P2 Ami-Mir-10-P2c Asp-Mir-10 Bfl-Mir-10-P2-v1 Bge-Mir-10-P2 Bko-Mir-10-P2 Bla-Mir-10-P2-v1 Bpl-Mir-10-P2 Bta-Mir-10-P2c Cbr-Mir-10-P2 Cel-Mir-10-P2 Cfa-Mir-10-P2c Cin-Mir-10-P2 Cja-Mir-10-P2c Cli-Mir-10-P2c Cmi-Mir-10-P2c Cpi-Mir-10-P2c Cpo-Mir-10-P2c Cte-Mir-10-P2 Dan-Mir-10-P2 Dgr-Mir-10-P2 Dlo-Mir-10-P2 Dma-Mir-10-P2 Dme-Mir-10-P2 Dmo-Mir-10-P2 Dno-Mir-10-P2c Dpu-Mir-10-P2 Dre-Mir-10-P2c1 Dre-Mir-10-P2c2 Dsi-Mir-10-P2 Dya-Mir-10-P2 Eba-Mir-10-P2 Eca-Mir-10-P2c Ete-Mir-10-P2c Gga-Mir-10-P2c Gja-Mir-10-P2c Gmo-Mir-10-P2c2 Gpa-Mir-10-P2 Gsp-Mir-10-P2 Hru-Mir-10-P2 Hsa-Mir-10-P2c Isc-Mir-10-P2 Laf-Mir-10-P2c Lan-Mir-10-P2 Lch-Mir-10-P2c Lgi-Mir-10-P2 Lhy-Mir-10-P2 Llo-Mir-10-P2 Loc-Mir-10-P2c Mal-Mir-10-P2c2 Mgi-Mir-10-P2 Mml-Mir-10-P2c Mmr-Mir-10-P2c Mmu-Mir-10-P2c Mom-Mir-10-P2 Mun-Mir-10-P2c Neu-Mir-10-P2c Npo-Mir-10-P2 Nve-Mir-10 Oan-Mir-10-P2c Obi-Mir-10-P2 Ocu-Mir-10-P2c Ofu-Mir-10-P2 Ovu-Mir-10-P2 Pab-Mir-10-P2c Pau-Mir-10-P2 Pbv-Mir-10-P2c Pca-Mir-10-P2 Pdu-Mir-10-P2 Pfl-Mir-10-P2 Ple-Mir-10-P2 Pmi-Mir-10-P2 Pve-Mir-10-P2 Rno-Mir-10-P2c Rph-Mir-10-P2 Sha-Mir-10-P2c Sko-Mir-10-P2 Snu-Mir-10-P2 Spt-Mir-10-P2c Sto-Mir-10-P2c Tca-Mir-10-P2 Tgu-Mir-10-P2c Tur-Mir-10-P2 Xbo-Mir-10-P2 Xbo-Mir-10-P2-as Xla-Mir-10-P2c3 Xla-Mir-10-P2c4

Node of Origin (locus)

Gnathostomata

Node of Origin (family)

Eumetazoa

Genome context
(xenTro9_add)

chr2: 23121041-23121099 [+] UCSC Ensembl

Clustered miRNAs
(< 50kb from Mir-10-P2c)

Mir-10-P2c chr2: 23121041-23121099 [+] UCSC Ensembl
Let-7-P1c chr2: 23121735-23121801 [+] UCSC Ensembl

Seed

ACCCGUA

Precursor
(pre-Mir +30nt flank)

UUUCCAAUGCUGAUUUUACCUACUAACAUAAACCCGUAGAUCCGAUCUUGUGGUGAAUUCCUUUGCUCAAGCUCGUUUCUAUGGGUCUGUGUCAUUAUGGAUCCGGAACUACAUUCUAC

Get precursor sequence

Structure

        10         20         30        40        50         
UUUCCAAUGCUGAUUUUA-  UACUA-|    A         UC   U    UGGUGAAU 
                   CC      ACAUA ACCCGUAGA  CGA CUUG        \
                   GG      UGUGU UGGGUAUCU  GCU GAAC        U
CAUCUUACAUCAAGGCCUA  UAUUAC^    C         UU   C    UCGUUUCC 
       110       100        90        80        70        60

Deep sequencing

Go to detailed chart

Comment

Based on the 3' DcRNA reads in human (P2b) and platypus (P2c) it appears that this is a Group 2 miRNA.

3' NTU

Yes

Motifs

UGUG in loop

Tissue expression

An	Br	Em	Em	He	Ve

Mature sequence

Xtr-Mir-10-P2c_5p

mirBase accession

MIMAT0003582

Sequence

0- AACCCGUAGAUCCGAUCUUGUG -22

Get sequence

Proposed targets

TargetScanVert: xtr-miR-99

Star sequence

Xtr-Mir-10-P2c_3p*

mirBase accession

None

Sequence

37- CAAGCUCGUUUCUAUGGGUCUG -59

Get sequence