MmuINT1020750 @ mm10
Intron Retention
Gene
ENSMUSG00000059005 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:MGI Symbol;Acc:MGI:1917171]
Coordinates
chr2:75665234-75669407:+
Coord C1 exon
chr2:75665234-75665301
Coord A exon
chr2:75665302-75665397
Coord C2 exon
chr2:75665398-75669407
Length
96 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
TATCCTATATTATTCAACAGGCT
3' ss Score
7.57
Exon sequences
Seq C1 exon
GTGGCTATGGATCTGGAGGTGGAAGTGGTGGATATGGTAGCAGAAGGTTTTAAAATAAAACAGAAACG
Seq A exon
GTAGGTATCTTTATATTTTTAAAAATAATGATAAAAAAGAATATATGGAACTGTTCACTGAGTGTAATAATTTTTTTATCCTATATTATTCAACAG
Seq C2 exon
GCTACAGTTCTTAGCAGGAGAGAGAGCGAGGAGTTGTCAGGAAAGCTGCAGGTTACTTTGAGACAGTCGTCCCAAATGCATTAGAGGAACTGTAAAAATCTGCCACAGAAGGAACGATGATCCATAGTCAGAAAAGTTACTGCAGCTTAAACAGGAAACCCTTCTTGTTCAGGACTGTCATAGCCACAGTTTGCAAAAAGTGCAGCTATTGATTAATGCAATGTAGTGTCAATTAGATGTACATTCCTGAGGTCTTTTATCTGTTGTAGCTTTGTCTTTTTCTTTTTCTTTTCATTACATCAGGTATATTGCCCTGTAAATTGTGGTAGTGGTACCAGGAATAAAAAATTAAGGAATTTTTAACTTTTCAATATTTGTGTAGTTCAGTTTTTCTACATTTTAGTACAGAAACTTTAACAAAATGCAGTTTCGAAGGTGTTTCCTTGTGAGTTAACACGTGAAGAAGATCATTGTTAATTACTATTTTGTATGAATTTTGCTAAAGTTAACTGTAAAGAAACACCTACTGACTTGCAATTTAAGGGGAATCTATTCTCCCCATTTCCAAAACAATGATGAATGGGCGCTGACATGTGGAGAGAATAGATATTTGTATGTTTGCAATGTGTGTTTTAGATAATTAGAATTGGGAAATAAAAAAATAGCATATTTGTGAATTTAATAGCATTAAGATTACCTTCAAATGAAAAAGATCTCAAAAGTTGCTGTTTGGTTTTTGTGCATTTTCTTTCAAAGTGTAATCATGATTTTAGTGTATTAGATTTATTGAGTCCTAGCCATGTTAAGAACATCTCCATTCCACATTTACCTTGATCCCGTTGAAACTGCTGCCAATAGTTCGGGGTACAAAGTGTTCATACTGCTCTTTACTCACCAAGGCTGGTAGATGTATGTCATCTCCCAGTTTAACATTACTTTCCCATACAGACCCACAAAGTCTGCTGGGTCTGAGCAAACTGGTGGGTACCTGGTTTGCTTTTGCTTATAAAGGTCTCAAGGCCCATTGGTCTAGTCATTTTCCTTGGTTAAGTGTCCCACACACACAGCTTTTCAGAGCAAAGGAATAAAAGTCACTCATTGAAACCCCTGACTGGCTGGCATGCTTTCCTGTTTATCCATTTTGCTAGATGATGAAACAAAATGATAGTAAGGTGTTGTCCAAACAAAGCAGCAGAAGATGTAGCACACACGGTTGCTCAGTGCAAGCACCTCACAGCCCCAAATATCTGAACTCAAATTCGGAATGTCTTAAATCCCCAAAGAAGAACACATGGTTATTCTTTGTGTATATATATATATATCTCTCATTTTAAAACGTCGGGTGTGACAATTTGTTTGGAGACCCTGTTTGAGAGGAGTTTCAGATAAAAGGTCATATATAAAAATTGTCTACTGTTGCGCCAGCTAGTGCTGAACAATTTCATTCAAATCCTGAGTATGTGCCCTGCTGTTACTTCCTTTGGCAGTTGACCGTTGAAATCAGATTTTTACTTGGTTTTTAAAGTATAAGCTAAACAAGCAATAAAAGGGGGAATGGGGCGTGCTAGTATTTCAATTTGCTCTCTTGTTGCTCTACTTCTGTGCCTCTGTGCATTATTAATATTTGGATGCATGCAGTGCTAGCATGGAACTTTGGTCTTCACAATTACTGCAGTTTTTCCAGAAAACACTCACACCAATAAATGTAACAGAACATTCCATTTGTTAATGGGCATATGTGCATAAGCAGTGTAGAAAATAGGCTCATGTTAGAAACTGGCTACATCCTTCATAACTAAAAGTGTGGTTATATGAATGGACACTGTCAATGTTCATAGCTTAAACCTGGGTACCTGGTCAAAATGCTTAGGAAACATTAAAATTGAGCTAAATTGTCTCAAGTCCTTTTATTCATATAATAAAGATTGAAGGGATGGGGGGGAGGCTGACATTTTCTGGTTTTGTTTGTGAAATTGCTGGACACAACCTTGACAGTATCCTTTAATGTAATGAGGTCAATTGTATTGTTAACCATCTTTTTATGTATAATAGTGAAAAATTTACAGTAAGTTGGTGTTTACAACCTATAATCAGGTAAAATCTGTATGTGACCTGTTTATAAGTTGTACTGAGTTAGTTTTTGTGAACTGTGGAAGAGTAAGCCATGAGAGCGATTTAACCAGCTTTAAAGGACATAAGTTGTGCTTTTTAAGCACGGTGGATCAAAGGAAAACCCACTAAGACAGGACTTCAGCAGCCATTTGAGTATGGACAAGTCAGCATAAATAAAGAATGAGAAGGCAGCAGCAGCAAGAGCTTCAACAACAGAGAAGTGGAGGCATAAGATACTATGATGCTAGTGAGCAACTTCCCAAAAGCTAGTTAAAGCTGCTTATTGCAACTGAAATGTCGAAGAAAGTAGCAGGAAGGAGCTTCGCCTTTTGGAACATCAATGAGCTAGTTGCCACAGGCGCTAGGTCTAGCATTTAGACCTGCAAGGAAGGGCAATAAGCATTAGGTAAGGCTTGAATTTGAATTTTTTCACTAATTAAATGAGTGCTTTTTTTGTAAAGCAAGGTAAGAGTAATCTTTTTGATTTGCAGGTGAATGAGAACCCTACCTGCCTAACGAGGAATGTCTTTCCCACACCTTAAATACGAAGGTTTCTGGCTGGGTAAGGTTTGTAGCTCACAGTAAAAACCGATGACACTGTTGGTTTCCCACAAGTCAATGTCACAGTTGAGACACCCCTCAAGCTCAGTTTTGTTTTGGTGCCCATTGAACAAATTCTAAGACATAGGCAGTTACATTCTGCAAAGCCATGGGTGTTTGTCATAAGCTAGATGTGCCTCTTCATGTGTACAACTCAATGTTCTAAGGTAAAGTCATCCTTCAATAAGGGGAAGTCATGTTGGCTTTTCAAAAGTAAGTTTTTCATGTATGACTTTAATAAGCTGTTCCCACCCTAAGAACTAGGAACTTTCACAGTTGTCAGAATAATTGTCTTCCTTAAAGCTCTATAGCGTGTAAGTTTACTCTTGTGTGGACCAGTAGGGATAGTCAAGTGTTTAGTCTTCTCCCCTAACCCATCACAAACAGGGTCTCACTGTTGTCCTAGCCTGGAACTCAATCCACCAGCCTTCTGTGTCTCCCAAGTGCTGGAGTTAAAAGGGTGGTGCCTGTATGATAACTCAAGTTCCTTTTTAAAAAAACATCCAAAGAACAGTTGGGTTACTATTCACATAATGTTGCTGGTTGTTCATAAGGGCTATTTCTGCTGCCCTGAAAGGGCTTATTTGAAAATTGCTTAATTCAGGTTACTTCTTAATAGAACATTTTCAGGGGACAAATCTGCAAAATGTTTCCCACACAGGGAACATCCCTGCATCAACAAGTTTGCTTGGCATTTAAGTCAGGACAAAGTTCACAGAAATCATAGTTACCAATGAGGTAGCAATCGTTCAATGGTGGTTAACAGATTGGAGAAAATACATTTGCTTAGGAGGCATTTACAGTCCATTTCCTTTCTGAAATAAAGTTATTTTACTAATATGGTTCCACTGTCATTTCTGCAAAAACACTTTACAATGGTAGAAGGGTAAGCATAAAACAAAAGAGGCTGCCTCTGGTTTTGTTGGACCTGTGGGATGCTGCTCCCAGTTTACATGTCTGAAAGGTGTGTTCACATTCGTGTATAAATTAGGGGACACATGGTAAGAAAAAGTCCATCTAGTAGGGGACTACAGAGAAATGGGCTCGGTTTTTAAGGGTTCTGTTAATGTCACAATTTGAAACGCTCCTGACAATAGTTCAGTAATTGGCATGGTAGCAAGCATGCAGATGTGCAAGGTGCTGTGAGGATTGGTAGCCTGAGTATTCAGTTTTAAACTTAACATGTCTTCTAATCTTTATGACAGCAGAGGTGGTCTGTAATTCAATTGTTTTCATTTGTAGCATAATGAAATGTTACAGAAAGATGACCTTTTCATTAAAATATTTTTAGAAATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059005:ENSMUST00000111962:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.691 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF116273=HnRNPA1=PD(2.6=5.6)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATCTGGAGGTGGAAGTGG
R:
CATCGTTCCTTCTGTGGCAGA
Band lengths:
180-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types