MmuINT0078440 @ mm10
Intron Retention
Gene
ENSMUSG00000004980 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:MGI Symbol;Acc:MGI:104819]
Coordinates
chr6:51467185-51469894:-
Coord C1 exon
chr6:51469671-51469894
Coord A exon
chr6:51467296-51469670
Coord C2 exon
chr6:51467185-51467295
Length
2375 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACG
5' ss Score
9.65
3' ss Seq
AATGGTATTTCCCTTTGCAGAGA
3' ss Score
9.59
Exon sequences
Seq C1 exon
GTTAGTGGGGGGAAGGTTCTAGAAAAGCGGCGGTCTCGGCTCCAGCGGCAGTAGCAGCGGCGCCGGTCCCGTGTGCAGGAGCTCCTTTGCGGCCCAGTTTCTTGGCCATCGCCTGCTCTCCCCACAGCGCCAGGACGAGTCCCGTGCGCGTCCGTCCGCGGAGGTCTTTCTCATCTCGCTCGGCTGCGGGAAATCGGGCTGAAGCGACTGAGTCCGCGATGGAG
Seq A exon
GTAACGGGTTTGAAATCAATGAGTTATTAAAAATGGCATGGCGAGGCCGTAGGCACCGCAATGGAAACCGGCCACCCGCCTCCGTGGTCCGGCGGAGGGGATGCGGCCACTCGAGTGGCGGTTGGCCTTGGCGAGTTTCTGAGGGGTCGTTGGAGGAGGCCTCTGATTGTCCGACCGCCTTCCCCGCCCTCAGCCGCCCGGCGCCATTTCCCTCAGTTGGGGTGGGGGATGGGAAGTGCCCGCCGCGACCGGGCTGGACCGCTAAAGTAGCGCGTGAGCGGGCCATCGCTGGCCTTTCGATGTGCGCGGGCCTAGGGGCTCGGTTGTGTTCGCGGCGGAACGTTTCTGGGGCCCCCCCGGCTTCCCGGAGCGAGTCTGCGAAGCTTCCCCTCCCCCCTCTCCCGGGAACCGGATTTGGCGGCCGCCATTTTCCCGTCTCCTTCCTCGCCACGATTTTGCTTTCAACGCTTTAGGTTTACTAGTTTGGTTTTCTTTTTTCACCACTGCGTAGACGTGTTTAGCGATTTTCCTTTCTTTTGGAAGTCTTCATACCGTTTCGAGGTGGATTTAGCGTTTTGAGCTTGGGTCTTCAGCGTCCTGCGCACCTCGCTAAAGGCTCTCTGCCTTCCCCTCGACGAAATGGCGCCATTGCTTTCTGAAGCCACCGAGGCGCGGGGTGGGGGCGGGGTGGCGGCGCTCCACGAGCTTTACTGGAACAGGCAGAGAGAACGTAGTACAACCGAGGCCTGGGCGGGTGGCTGAAGGCAGCGTCGCTGCAAAGAGACCGTTTTATTTTTCATAATACGTAAGATTACGGGTGCTGTAGTAAAGCACTTGAGCATTAGTATAGTAGGAGGAAGTCAAAGTGGAAAAAATGGGAGCGCTCATCAGGAAGCTAGGGAGGCTATGTTGAGTGCAGGGTTACTTTCCTTTTATTGCAGAACTTTTATCTGCTTAAAGGATCCTCGGATCGAAATAATTCAAATTATAAGCATTTTTAAGGGAATCTTCGAATTTGTTGGTAAAGTCAACGGATCCTTAGCACGTGGTGTTCACTTTAAGGAAGTGAAATAGCTGACTTTTCATAGTTAGCCTTCGCTTAAAGCCTGGTTCAGTGGACGAAAATCCACGTCCTGGCTATATAAAAACTTAGTTTGGGGTCACAGTGTTTGAGCGTGGTCATTCGGTTTTTTTATTTTTTATTTGTTTGAAATTATGATGCATCATTACACTGATAAGCATTAGCTTTCGAATTGAAAGGGGTCTCCTTGGTTATTTTCTTTGACTCTAAGCACACTTATAAATAAAATAACCTTGTTTATAATCGATAGTGGACGTCTGGTAAGTTTGGAAAAAACCCGAGGTAAGTAAAGAGCTTTTGCTTTCGTTAGTGATATGAAAAAACAAGGTGTATTTAATACTTGCAACTTAGTTTAAGGAAAGCCAATTTACTGACATTTTAGTAGAGCTACCAGAAACACTATTTGGAGTCCTGATTAAGGCTTTTGTAACTATTTTGACTATTTAAAACAATTTTGGTCGTTTTTATTAAACATTTCAAAACCTAAAAATTGTAAACATTGGCTTTTTGAGCACATTTTGGAGAAACTTACAAATTTAGGCTATACAGTAAAATAACGGATTTGTTTTATAATTTTGCTTTTTCATTTCGTTGTGCAGTCATAGGTCCTGGATAGTATGACCTAATTTATGAACATCTTGATAAGTTTTTGTACTTAGCTATTGGAAAGCCAGTATTAAGTGCCTGACAAAACCAGATTTAAGGTGATATCTGGAGTTTCAGCATTCTTCATGGAGCTTGTTTCAGAGTTGCAGGATTTTTTTTTTTCATCTTGAGATACTTACAATTAACACCAGAGGGGGCAGCTCAGGGAAAAGCAAATATGCCACTTTTCAGAAACTGAATCTTGGAAGTGGTGAATTTGGAAACAGGTTTTTTAAATTTTTTTTAAATCTAAAAAGTAGTAAATTTTGGACTTGGGTTGTAGAATTTAATGAATTACAAAAGAATTCTTTAATACCCTTTAAATGACCTAAGAGCTGGGTATGGTTTTTCTGAATTTTTTTGAAGAAAATCTAAGAAAGTTTACGTGAATTAGAAGTTAGATCGAATATTAGTGACTTTGAAACTTGTATAGCTCAGGCAATTTTTGGTGTAACACAACTAATATGCAGTTTAACATATGGTTTAAATTTGATGTAAGTTTTTTTTCTCCCCCCCAGAAAACTTTAGAAACTGTTCCTTTGGAGAGGAAAAAGGTACTCTACCAGCAGGTCACCTCATATTTAAGAATTTAATTTCCTGCATACAAAGAAAGTGTAAATAAAAATTGAAATGGTATTTCCCTTTGCAG
Seq C2 exon
AGAGAAAAGGAACAGTTCCGAAAGCTCTTTATTGGTGGCTTAAGCTTTGAAACCACAGAAGAAAGTTTGAGAAACTACTATGAGCAATGGGGAAAGCTCACAGACTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004980:ENSMUST00000069949:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF142591=RRM_6=PU(40.0=75.7)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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