MmuINT1020757 @ mm10
Intron Retention
Gene
ENSMUSG00000059005 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:MGI Symbol;Acc:MGI:1917171]
Coordinates
chr2:75663571-75665150:+
Coord C1 exon
chr2:75663571-75663714
Coord A exon
chr2:75663715-75665027
Coord C2 exon
chr2:75665028-75665150
Length
1313 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TAAGATCTTTGTCATTTCAGGTA
3' ss Score
7.53
Exon sequences
Seq C1 exon
GTGGCAACTATGGTGGTGGTCCTGGTTACAGCAGTAGAGGAGGTTATGGAGGTGGTGGACCAGGATATGGAAACCAGGGTGGTGGATATGGTGGTGGAGGAGGAGGCTATGATGGTTACAATGAAGGAGGAAATTTTGGTGGAG
Seq A exon
GTAAGTTACATAGATGTCTGGATTAAATGCAAACCAGCGTTTAAATTAAAATTCCTTGCAGTATGTGGAACTGCTTTAAAAGATAAGCTGAAATAAAGTTAACTGTTACAGCTCTACTGTAACACAGCTTATCCATGTGAAATTTACAACTTAACCCTAACTAGTCATTATTTTTAACTTGTGGGAATATAGCACTACATAAATTTCACATTTGAAGGTGAGTGTGCAAGGGGGGGGGTCCTTTGAATTCCAGGTTAGTCTGGATATTAGAGAAGAAAAGTGAAGGTTTCTATTGTACAACTCAATGGTTTTTTGTTTTTTAAAAGATTATTTGAGTAAAAGGTTTAAAAGTTTATGACTGCAGCTGTCCAGACACACCAGAAGAGGGCATCAGATCAATTGTACGTGATTGTGAGCCACCGTGTGGGTGCTGGGAATTGAAGTCAGGACCCTTAACCACTCAGCCCATCTCTCCAGCTCCCAATTCAATACTTTTAAGAATATTCACAGTATTTTATAATGCTCATCACTAGTCCCAGAACATTTTCGTCAACTCAAATATAGGACCTTATTTTATTTAGCCCAGCAAGCCTCGGGCTACATTGGCCTCTGGCTTTGTTCTTTCTTGGACCCACCTCCCGAGTGTTGGGACTGGATTTAGCATGCTAGGCATTTGATTTTTAAAAATTGTTTTGCAGTGTCTGTAGATACTGCAAATTGGCAAGCTTTACTGTTTATTTAGCATAGTGAAACGTACATTTACTAGTTTAGTAAATTAAAAGAGAAGTTTTAAATTTTGGCTTATTGCTGAGATTTCCTTAATTCTTGGTGAATGCAATGCCAAATCAGCTTTTGGAATACATTGGATATTACTGTATTATTATCTATTGATAAATACTGCTTATATACTAACTGTACGGTGGACTGTACACAATTATTGCATGTAATTTACAGGAGAAACTTGAACCTAATTGATGTGAGTGACTGACATTAACATACCTTCCGTTACTGCTTTAAAAGTTGCATCAAAATCACAGCAAATACTGGTCTAAATGATGTGGCAGGAATAGAAAAGTGGGTGTTTTTTATGTATGCTAAAATTTGATAAGCGTCTTAGAAGTAGACAGATTCCACTTACTGGTCCCTCTTTACCTGTTTATTAGATCACTTAGGCTTCTGATAAATGGAGTTTAGTACCTAAAATTGCAATTGATGCTTGCATGAAAATACGTATAATACTTGCTGCCATGATGGTCCGAATAGTTACAGTGGTATTATTTTAGAAACTACAAATAAGATCTTTGTCATTTCAG
Seq C2 exon
GTAACTATGGTGGTGGTGGAAACTATAATGACTTTGGAAATTATAGTGGACAGCAACAATCAAATTATGGACCCATGAAGGGGGGCAGTTTTGGTGGAAGAAGCTCAGGCAGTCCCTATGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059005:ENSMUST00000111962:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.464 A=NA C2=0.746
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF116273=HnRNPA1=PU(94.7=85.7)
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:
GCAACTATGGTGGTGGTCCTG
R:
CCATAGGGACTGCCTGAGCTT
Band lengths:
262-1575
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