MmuINT1020753 @ mm10
Intron Retention
Gene
ENSMUSG00000059005 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:MGI Symbol;Acc:MGI:1917171]
Coordinates
chr2:75661896-75662576:+
Coord C1 exon
chr2:75661896-75662106
Coord A exon
chr2:75662107-75662486
Coord C2 exon
chr2:75662487-75662576
Length
380 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTTGACTTAAAAAAATATAGTTC
3' ss Score
0.86
Exon sequences
Seq C1 exon
GATTCTGTAAAGCCTGGTGCCCATTTAACGGTGAAGAAAATTTTTGTTGGTGGTATTAAAGAGGATACGGAAGAATATAACCTGAGAGACTACTTTGAAAAGTATGGCAAGATTGAAACCATAGAGGTTATGGAAGACAGGCAGAGTGGGAAAAAGAGAGGATTTGCTTTTGTAACTTTTGATGATCATGACACAGTTGATAAAATTGTTG
Seq A exon
GTAAGTAACAATTTATTTGAGTTTCGTTTTCATAAATCATCTAAGTCAGTGGTTCTCAACCTTCCTTATGCTGTGACTCTTAATACAGATACTCATGTTGTGAACCCCAACCATAAAATTTTCATTGCTACTTCATAACTAATTTTGCTACTGTTATAAATCCATGTATATCTGATAAGCAGGATGTCTGTGACTCAACCTATAGGCTGAGAACTATTGATCTAGATCAGGAAACATTTCTAAAATATTGACTCATTCTCTTCTCAGTCTACCATCTTAATAATATTTTAATTAATTGCATGGTGATAAAGGGTTCACTTTAACATGGTTTTCCAAACAAAAAATAACTTTTCTTTTGTTTTTGACTTAAAAAAATATAG
Seq C2 exon
TTCAGAAATACCACACTATTAATGGGCATAATTGTGAAGTGAAAAAGGCCCTTTCTAAACAAGAGATGCAGTCTGCTGGATCACAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059005:ENSMUST00000111962:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.096 A=NA C2=0.620
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(81.4=80.3),PF072928=NID=PU(34.9=21.1)
A:
NA
C2:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(62.8=87.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTAAAGCCTGGTGCCCATT
R:
CTCTGTGATCCAGCAGACTGC
Band lengths:
295-675
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