MmuINT0036115 @ mm10
Intron Retention
Gene
ENSMUSG00000004633 | Chn2
Description
chimerin 2 [Source:MGI Symbol;Acc:MGI:1917243]
Coordinates
chr6:54298045-54300721:+
Coord C1 exon
chr6:54298045-54298150
Coord A exon
chr6:54298151-54300072
Coord C2 exon
chr6:54300073-54300721
Length
1922 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TCTCTGTGCTTGCCTTCCAGGGT
3' ss Score
11.17
Exon sequences
Seq C1 exon
AAATCTCCAATGCGGATGAGAGGCTGGAAGCTGTCCATGAGGTCCTGATGCTGCTGCCTCCTGCCCACTATGAGACCCTGCGCTACCTGATGATCCACCTGAAAAA
Seq A exon
GTAAGCCAACACCTCCATCCCTGACCACCCCTGATCTGCCCAGGGCAAGAAGGCATTAGGAAACCCCATGGAGAGTACATAGAGCATCTCTTGGTTGATACAGTGTGGTTTCTAGAAGCTGTGATTGTAACTAGCCAAGGAAGGGAATATTCTTTCCCTTTAAAGGAGACTCCAACTACTCCAGAAAGGCCAACAACTTTCTCATTGCGAAGTGTGGCTGTTCAGCATGAGATGTAACCTGGGCTCTCCTTGGACCACAGCTTCTGTATGCTGACTCTGGGAAAACCTCCCCAGAAGATAGCTCAGTGATGCTGGTTTCCTAATCACAGCTGATTTTTCATCTCCAACTGATCAGCATCAGTTGTCCCAAAAAGAACAGAGGTTTCACTTCAGTGGTGCACCTGGTCCCTTCTGAATCACAGCTGATTCTTCAGCCCCAGCTGACCAGAACTACAGTCCAAACTATTGTATGGACAGCTCAGACAGTCTTTGCTTCCTTCTGACACCTCCCAAGCCAGGCCTCCATCATCTTCACTGTTCTCAGAATTCTTCCAAGATCACACAGAATACACCCCAGTAAGCTTTGAGCACAAAGTTCCAAACACTTCATGGAGTCTGTTAGGACAGCACTCCACTTTTGAGTACTCATGTCTGCCCTAGTTTGGTTTCTATGGCTGTGATAAAGGCCATGACTAAAAGCAGCTAGGGGAGGAAAGGTTTTATTTGGCTTATGTTATCATGCCATACTCCATGATGAGGGAAGTCAGGGCAGGAACTCAAGGCAGGAACATGGAGACAGGAACTGGAGCTGAGGCCATTGAGGAACTCTGCTTACCAGTGGAACTACGTGGCTTCCTCAGGCTACTTACTTATACAACCCAGGACAGCTCAGGAATGGTACTGCCCACAGTGAGATAGATGGGCCATGTTAATCACCAATCTAGGAAATGCCTGAAATGCCAGTCTGCTGGAAGGAAGCCTTTTCTCATTGTGGTTCCTCTTCCCAGAAGGAAGAATGACCTCTTTCCTGTTTGTTTCTCAGCTGTGGAACATGAAAATTATTCAAACTGAATTTACTAAAGCTAACATTAAGTAGCTAATTTGAATCTGCTCCAGGGGAATAGAGAGCCACGGGTTGTCTCTGCACAAAATCTAAGTAGATTTTTAACACGGCATAATCTACTTTCTAGAATTTACTCCTTTTTTTTATCAGTGATGAGCATTCAAAAGACAAAATTCCTGAAGGCAAGAATCTAGAAAATCATTATTCATTTCATAAGGAAACCAGTTAGGGCTTATTAGATTTCCCCCTTAAAGCCTCTTTGCTGCTTCTCTTGATGCTGATCCAACAATAATGATGGCTCTGTACCTCATCCTTTGGGAACCAGGCATAATAAACAATGGGCCTCCAGTCTGGCCACTTTCCAGCCATTCTCCTGCCCCATGATAATAGCCAGGGTCTTCCTAAACACATAGCAGCCTGCTCTACAAACAGTCTTTCTCCTATGGTACAGAGCCTGCCTGCGCTCAGCCCCTCTCCAGTGTGCAGACCACTAGGAAATGGTGACAAAAAGCAGACTTCCATATGAGACCCATGAAGGTACCATGAGTGACCTTCTGTCCCTTCAAACGGATATTCCCTAACTAAAAGTTGCACATTTCTTTAAGAAGGACAGATTGCCAATCCTTAATGTACACAGTTGGTTCTAATAAGTCATTTCCTTCTACTGGCTGAAGGCAGTATCAACAGCTTAAATAAGAAAACAAGTCAGAAAATTACCCGTTAATGAATGTCTTCCTGCTATTCTTACTCTCGATTTTTGCACGCTCCTGACCGCAGAGATGAGCTCAGGCCTGCTGTGCATAGCTAGAATCTCAGTCCTTCTGAAAATCCGCCTGAGGTCTCTGTGCTTGCCTTCCAG
Seq C2 exon
GGTTACCATGAATGAAAAGGACAATTTAATGAATGCCGAAAATCTGGGGATCGTGTTTGGGCCCACCCTGATGAGACCCCCTGAGGACAGCACCCTCACCACCCTCCATGACATGCGGTACCAAAAGCTGATCGTGCAGATTTTAATAGAAAACGAAGATGTTCTGTTTTAATCCACCAGGGAAGTGAGCTGATAGAGCTAGTGGAATAAAAACGTTTCTCACACTTGATTTGTTTATTCAAACAAGTGGCAGAATTTCCTGGACCACAGTGGATCGCAGAGTTGGGGACTGTGTCTCCCGCCTCCACGTGAGAGCAAGGGTGAGGGTAGGAAACCCCTTACCTTGGGTCTTTTGCCGTGCCTCGTATGTATGTCTGTTTTGCTGGAAGAGTGATTAATAAATCTTTCTTTAACTTATTAAAAAAAAAAACTAGACTTTTAAGCTTCGGTCTTAACAGTAATAAAAGGGAACTTAGTTCATAAAGGTACTTGGTACAGTATGCATTTCCCACCTTCAAAAAGAGAAGACAATTCTATATGTTAAATGTTAAATGAAACCTATATTGTAAGATGTATTTTATTTTAGCTGCAAGAATGTTATTTTATTTTAGCAAATAGAATCCAATGCAGTGCGTTGGTTATGGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004633:ENSMUST00000046856:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.002
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PD(8.9=11.1),PF0062022=RhoGAP=FE(50.0=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(21.3=56.9)
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:
CTGCGCTACCTGATGATCCAC
R:
TACCCTCACCCTTGCTCTCAC
Band lengths:
358-2280
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