MmuINT0036110 @ mm10
Intron Retention
Gene
ENSMUSG00000056486 | Chn1
Description
chimerin 1 [Source:MGI Symbol;Acc:MGI:1915674]
Coordinates
chr2:73614662-73618058:-
Coord C1 exon
chr2:73617921-73618058
Coord A exon
chr2:73614768-73617920
Coord C2 exon
chr2:73614662-73614767
Length
3153 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
ATCTCTCCTTGATGTTGTAGAAA
3' ss Score
8.12
Exon sequences
Seq C1 exon
ATGGTGAGAAGGCGGATATTTCTGTGAACATGTATGAGGACATCAACATTATCACTGGTGCACTTAAACTGTACTTCAGGGATCTGCCAATTCCTCTCATCACATACGATGCCTACCCCAAGTTCATTGAGTCTGCCA
Seq A exon
GTAAGTACACGGGTGTGGGAGGCCCTGCTAAGAATTGTCAGTGTGGTTTTTAAGTCTATCCCCTGCAGCTCTTGCCGCGCTCTGTGTATCTGCAAGCACTTATGCTCTAACCCAGATGATGTTCTTAGTTTCCAGACTTACACCAAACTCAGACCTCTAGAGTTCACAAACAAGCATTGGCCTACCAGTTATGCTCTGGGACTCAGGGTCACATCATCAAGAAGTTTGCTTTGTTTTGCTTTGTTTTCAGAATTGGGAAGCTGAACTCAGGCCTCGTTACTCATACTCTTCAGACAAAGAAGTATTTGGGTTTTTGTTTTTAGGGGTTTTTTTTGTTTGTTTTTGTGTGTTTTGGGGAGATTGGTTTTTTGTTTGTTGATTTTGGGGGGGGGGTTAAAAATCTAGTTAAGAAGATGGCTCATTTGTAAAATTTTATTTGTTCCAAAACTCATACCTGTAATTCATACCTAACCTTTAAAGAAGAGAAATCTTAACAGTTTCTGAGTATTGGCATCTTTAAAAAAAAAAAAAGATTGTTATTTCTGTTATTTTGCCTCTGTTTGTTGTTATTTCTGTCATTTTGCCTCTGTTTGTAAAACCGTATATCTCTGGAAAGTTTGGTGGGCAATACTTGAGTGCCTGGGATAGAAGAGGGGCTGCTGTCCAGAGGAGAACCTGGCCAGTGTGGTGTCAGAGGGTCAGTGCATTTTAGCACGTTCCAACTAGAACCAGTTGGAAATGAAGGGTGCCTCTTTCTGCAACCACAGGTTCACCCAGGTCAGCGTGTTCATTGGACATCTGAAATTGCAGATGGAGCTATCTCCAGACCTCCACCACTCCCAGTTGTCTGTACCCCAACCTTACTCGTTCCCTGTTCTGCCCTTTCGCTTACATTCTCCATCAGGAAATCGTAAGAGCTCTATCTTCAAAATAGGCTCAGAATAACCCACTTTCACGCTGCCGCCATCTGCACAATGCCTGCTCTATGCCCTGGACTCTGTCCTACTGGGATGGCCTTCCTGCCATTACTCTTGACCTTTGTGCTCCACGTGGCAGCCAGAGGAAAGGGAACTGTAGAAATTGAGCATTAGGGCCAGTGAGAGGGTTGGGGAGTAAAAGACACTTGCCACCAAGGCTGACAACCTGAGTCTGACTTCCAGTACCTGTGGGATAGAAAGAAGTGACCTCCATGATGTGCCACTGTGCTCACACGTGCAAAATAAGTAACCTGTTTAACTGAGCATGGGTTACGTAACTCTCATAACCTGACCGGTCTCGCCCTGAGCCTTCAGATTTTACACAGCTCGAATGAGACGAGCTCTGCAGCCACGTGTGCTGCACTCTCCCTCAGTCTTACTGGCATGCTCTGCTCTGGACCTGCATGAGCTCAGCGGCGACCACCTTCCCTCCTCAGCTCATTCCTTCAGGTCTCTGAGGTGGCTTTACTCAGGACCTTTCCCTCGCATCGAGGTTTTTCCTGACCACAATTTGAAATCCGGGCGCCCAGCACAGCATCCTCTGGGCTGTCTCACAGTGCCTGCCTCACTCTTGTGCACTGTAGCCTGGGATGCTGGCCTCCATGTTTGCTGTCAGCCCCTCCCTCCAGGAGGAAATAACTCTCCTGAGCTAGCACACCAGTGCTCTCCACAACTTCCCACTGCCTCAAGCTCCTCCTGGCCAGGATTAATTGTAGAAGTTAAAAGGAAAAGCCTGCTTTTAATTTCCAAAATCATGTAACTTCAAATTAATTGGCCCTATGCTACGAGTTAGCTTTCCATAGTAAACAGACTTTCCTTCTCTTCATTCTAGAAATCAAATTGCTACATCTCAGTGTCTGAGAAAATGGCTGTGTTCTGAATAGATATACCCTTTAAAGTCCCCCAAGGTTTAGAGTTCATGCATTATCCATATGGCAAAAGGCAAAACACATATTCTTTATTATAAAGAAATGAACAGGGAATTGAGAAAGCTTTGGACCAAAACTGTAGAGTAGTCAAAGGTCCTTTTGAACTAAATGGCCTCAGTCACTGATGATATATATTCTGACAGTCATTAGATCTGCTCTGCGTGCCTGAGCCCAGCCTTTGCTCTGCACTGGCATTTACTGGACCCAGTCTACATTGCCATTGAGCTGGGCTGGTTATTTGTTAGAGACTAGAGTTTCAGTCTTCTCTTTCAAACATTGGATACAGGGCCGATGGAGTCTTCCCAGCATTCGAGGTTATCATGTTGGTTAGGAGTGTGAGGTCCTGTTGTGGTTGGCTGAGACCAGCATGTAAGGCACTCCTGTAACCAGAGAGCTGGTGTACTGTGGTGCTCTTCAAGAGCACAGAGTTCCGACAGCATCAGCTCCTTGTATTACAGGTGTGATTGATAGCTCGAGCAGAGTTCTTATGGAAAGTGGTTGGTGTATGGGCCTCAGTGCAGCTCTCAGATGACCAGATGGAGGTCTCCCTTCATGATGGACTCCTTTAGGGGAACCCCTTATCCAGGGTCCCACCATGGCACAGCACACTTAGACTTGTGTGCAGTGTGTTCTTCAGAACATACTCGAGAAATGGAGAGTGCCCATGCTTTGAAGGGAGACTTCATTTTGTTATATAACACCGAGTGTAATAAGTACAGCAAACAAATGGTAGATGCTCCATTTCTTGATTTAGAAGAATAAAGAGCTGGCCTATTGCTCAGTGGTAGAGTGCTTGCCTGGCATGCATGAGGCATGAGTTCTTCCGTATCACTCCAAAGAAAAACAATGTCATGAAAAAAATTATCAGGAAGACTTGCCAGGAATCACAGGGGCAGTGGACCACCTTGTCATGTATACTACAAAGGGATTTTTAATATCCTGAGCAATATGTATGCCATTGTCAGATGAACTCCTTAGTATGTGTAAGGCTTTCTCCATGTCTCTACATGTATCTGCATGTGATAGAGCTGCATACCCAATATCTTGTGTATCCACTTTCCTCATGTGCCAGACCCTAAGACCCTCAGGTGATGGAAAAGGCCCATCAAACTGTATTCCCACCCTGAACCTAAGGTGGCCTTGGACAGCTGGGTTTTGGCTGTGAGAAATCGTTGTCACTAGCTTTACAAAGCATCCCATGAGATCACATCAGTTTTCTGCTAGAGCATCTCTCCTTGATGTTGTAG
Seq C2 exon
AAATTATGGACCCTGACGAGCAATTGGAGACCCTTCACGAAGCACTGAGATCGCTGCCGCCTGCCCACTGCGAGACGCTCCGGTACCTCATGGCGCATCTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056486:ENSMUST00000112024:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(29.9=100)
A:
NA
C2:
PF0062022=RhoGAP=FE(22.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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