MmuINT0078451 @ mm9
Intron Retention
Gene
ENSMUSG00000059005 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:MGI Symbol;Acc:MGI:1917171]
Coordinates
chr2:75503291-75507464:+
Coord C1 exon
chr2:75503291-75503358
Coord A exon
chr2:75503359-75503454
Coord C2 exon
chr2:75503455-75507464
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-Hnrnpa3:NM_053263:10
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.710 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
Rat
(rn6)
No conservation detected
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]
Other AS DBs: