MmuINT1020748 @ mm10
Intron Retention
Gene
ENSMUSG00000004980 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:MGI Symbol;Acc:MGI:104819]
Coordinates
chr6:51460932-51463493:-
Coord C1 exon
chr6:51463411-51463493
Coord A exon
chr6:51461434-51463410
Coord C2 exon
chr6:51460932-51461433
Length
1977 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CTTTTTTTTTCCTTTGGCAGGAA
3' ss Score
10.18
Exon sequences
Seq C1 exon
GGAACTATGGTCCTGGAGGAAGTGGAGGAAGTGGTGGCTATGGTGGAAGGAGCAGATATTAAGCTTCTTCCTACTTACCATGG
Seq A exon
GTAAGTAGTTTTTAAGTTTTACAATTATTATTATCTTGGGAGAACTAGCTGCAGGAGTTAAAAGCATTTTAGGATCATGTTATCTTTCCTTAAAATCTGGTTAGATGGATAATTTCATAACCTATTTTTTTTTACTCTTTACTTCTGTTGAAACAGGCTTCACTGTATAAATAGGAGAGGATGAGAGCCCAGAGGTAACAGAACAGCTTCAGGTTATGGAAATAACAATGTTAAGGAAACTCTTATCTCAGTCATGCATAAATATGCAGTGGTATGGCAGAAGACACCAGAGCAGATGCAGACAGCCATTTTGTGAATGGATTGGATTATTTAATAACATTACCTTACTGTGGAGGAAGGATTGTAAAAAAAAATGCCTTTGAGACAGTTTCTTAGCTTTTTAATTGTTGTTTCTTTCTAGTGGTCTTTGTAAGAGTGTAGAAGCATTCCTTCTTTGATAATGTTAAATTTGTAAGTTTCAGGTGACATGTGAAACCTTTTTTAAGATTTTTCTCAAAAGTTTTGAAAAGCTATTAGCCAGGATCATGGTGTAATAAGACATAACGTTTTTCCTTTAAAAATTTTAAGTGCGTGTGTAGAGTTAAGAAGCTGTTGTACATTTATGATTTAATAAAATAATTCTAAAGGAAATTGTGTAATTATAGACTTTTTATTTTAAATAAGTTAAGGAGTGGGTAGTATAATTAAGGTCCATTGCAAAGCTGTTGTTGTATTTGTGTAAGATAAAAATGCTGGTCAGATTTAAGTGTGTTGTCTGAAATTCATCAGGAATAAATTACCTAGTTAACTTAAGGGATATCTCTGCAAAGAGAAACACCTTTTTAGATCTTTTAGATGCTGCTTCTTCAATGCAAGGAAAGGAAATAACCCCAGCGAGGTACTCTTCAGGGACACAGGTCTAGTACAAGAGAACTCTTGACGACTAATCGCAGCCAGTCTTAAAAAACTGTGCTGTATCTACAAAGCTTTAACTACAGTAGTTGATAAGGATGCCAACGAAAGCTGAGGGTGTAGAGCAAAGTAGTTCTAAGCTTCAGTTAAACTTCTTTAGGTAAGAACTTATTTACTTTTTCTTTCTTAATTTTCCTCCCTTAAAAGATAAACTAATAAACTCTTCAATGGTCTTTTCAGTATAGTTCTTATGTAGTTTAACATAGCTTATAAATTGAGTTTAACAATAAACTCAAGATAATTTTATAAACCCTGTTTTCCAATCTGTCATTTACTTAAATTATTTTGGTTGTTTTCCCTTTTTTTCCTTCTTTCTCACCCCCTCCCTTTCCATGAAGATTCAGGTGCTTAACATATCATTTTTTTCCCTGCTGGAATTTTAGCATTGATATGAACCATGGACAAGTATATTCTGCTGCCACAAAGACTGTAAAGTGCTTCATTTCAACAGCTGAGGCAAGCCAAGTGATCATTAATAAAGCTTTTCTTGCTTCCTTCAGTGGTGTTGGTAGTAAAATGGTAGGTAAAAGTTAGGCTGCAAGTTCAATAAATGAGATTTACCTATCATTCCACCCTTGTGTATTCATTCACCTATCCTGGTTCAAGCAGTTTGAGTCAACTAGGCATTTAAAGGCATTGTGTTTATTGTGGTAACAACTATACATGCTTATCAGGGATGAGTCTGACAGTGTTTTCTTACAGTAGAAGTTTCTGTGCAACAGCAGCAGCAAAACCCTCTATGTACCCTGTACTAAATAGTTGGGGTAAAATGTGGTAATTTTTTGCCCATTGTCCTGCCCTAAAATGTTGTAGGTTGGCTATTGAAATTTCCTGAAACAGCCCTCTTGATTTCTAGGCTTTATTGCCTTTTCAGAAATGTGATATTGAGCGCTTATTATACACATCAGTGAGTCTGCTTTAATCCTAAACCCACCACTGAAGTTACTTAGGTTCTGTGGACAAACATGATAAACTTCTTCAGATACTTTTTTTTTCCTTTGGCAG
Seq C2 exon
GAAGGTGTCTTGCTGCAGGTAACTAATGAAGAAGTGGTCAACCACAGAGTCTTCAAGAAATAAGAAATTCTGTACCATCTGAAAGTAGTTCTTGTTGGTGCCTTCATTTAAGAAGCACTTTTAAGAAAAGGGAATGTTTTCTGATTTAAAACTTCATTTAGTACAGGTTCTTAATAAAATTACAAAAATGCTGATTGTAAAGGGTAACATCAAATTAGCAAAGGATAATGTATTGTTTTAGGATTTGTGAGTAGACAGATAAGAGCTCTATTTTAAATACAAGTTTTATAAAATAAATACTTTTGTATCCAAATTACTTGGTGTAATGCTTACACATAAGTGTGAATCTTGTTCTATCAACATCAGTTGTCTACAAGATCGACACTATAAATGCTAGACTAGTTTTGCACAGAACTATACATTTAGTTCTCATTCAATACTAATAGGAGAAAAAAGCATTAATAGGCATTATTTACTGTCTAATAAAATATACCTTACTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004980:ENSMUST00000069949:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.978 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF116273=HnRNPA1=PD(0.1=0.0)
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:
TCCTGGAGGAAGTGGAGGAAG
R:
AGAGCTCTTATCTGTCTACTCACA
Band lengths:
342-2319
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