MmuINT0036111 @ mm9
Intron Retention
Gene
ENSMUSG00000056486 | Chn1
Description
chimerin (chimaerin) 1 [Source:MGI Symbol;Acc:MGI:1915674]
Coordinates
chr2:73448717-73452824:-
Coord C1 exon
chr2:73452719-73452824
Coord A exon
chr2:73451254-73452718
Coord C2 exon
chr2:73448717-73451253
Length
1465 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
GGTTTGCTGTGTTTTTTCAGAGT
3' ss Score
8.81
Exon sequences
Seq C1 exon
AAATTATGGACCCTGACGAGCAATTGGAGACCCTTCACGAAGCACTGAGATCGCTGCCGCCTGCCCACTGCGAGACGCTCCGGTACCTCATGGCGCATCTCAAGAG
Seq A exon
GCAAGTTGTAGCTCATATCTTACTGCTGTATTACAACCAAACTTCAAGAATAAAATTAAGCAAAAGGTAAAAGAAAGGTCACATTCTATTCAGTGAATGCGTAGGTGCATAGCAACACTGTCTTTTGAGAAATTGTGCCAGTTGGGAAAGGATGCTAAAAATATTGTGCACTGCAGTACCTCATCCTGACATCCGAGCACTGCAGTTCTAGGAGCTGCTTGTAAGTGTGCTGGTATTCTGCAGATATTGGTGAACATTTTGTGGACAGAGAAAGAGTTGCTGGTGTTAGCTTGTGAGACAACTCATTGTTCTTTGCTTGTTGCTCCAAGTAAGCGCTTGAAGCTTGGCGTAAGCAGTTTGGGCTTAACTTCTGCTTTAACTGATGTTACCAACAGGGAAACTGCATCAACAGTGATGGAGTAGGGAGGAGTGTGCTCAGTTTAACTGATGTTACCAACAGGGAAACTGCATCAACGATGATGGAGTAGGGAGGAGTGTGGTCAGTTGGAAGCTAAGATGGGATTGGTGATGATCAAAACTTTCAGTTATGTGATGTCAGTGGCTTTAGGGCTTCAAATGCTAAAATCAATTAGAAACAAAAATTCTATATGCTCCAAAGCACATTTCAGTCTGTTTCTTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTTCCTTCCTTCCTTCCTTCCTTCCCATCTTTCTTCCTCTTCCACATCCTACTCCTTCTTCTCTTTGTCTTGCCATGTAACGTGGCTGACCTGTATAAACCAGGTGCATCTCCAACTCAGACATCTGCCTGCCTCTGGAGTTAGAGGTGTAAGCCCACGCCCAGCTCTGTCCCATTTGAAAGGCGTCATGTTCAAACTTCCTTTGAGTATGTTCACAGCTAACGCCGCTTGTAAACTGAAGTTTGTTTCATATTTGGTGTTAGTTAAGTGTCCACGATAAATCTAATAGCTCCCTGTGCTGTTGCTGTAGGGTAAGAGGGAGAGACACAGAGCCCGACCTCTAAACTGTAAGCCACTGTCCCTGTCTGCACAGAGCCTCTTCCAGACACTCACGGCTCACTCTGCCTAAGGGAGCCACAGAGACAAGGGAAAGGGAAGGCAGGCTGCCGCCTCCTCCTCCTCCTCTTCCTTCTCCTCCTCTTCCTTCTCCTCCTCTTCCGCCCCCTCCTTTTTGGAAATGTGTCTGGCCAGGGGAATCCACAAACATCTGAACCCACACAGTCCAAATGTGAGCCCCAGCAATCACCAGGACTTTAAATTATTTTCCAGTATGACTTACTTCAAAAGAGTGGCATCCCTTGAAGTTTCTAAGAAGCACAGAATAATGATTTAGGAGAACTGGCCAGTGGGCACACCGTGACTGTGGCTCCAGTTTCATTAGGGTCCTCAGACTTGCTGAAGAGCATCCTGCATCACTGAGTCATCTGTGGTTTGCTGTGTTTTTTCAG
Seq C2 exon
AGTGACCCTTCATGAGAAGGAGAATCTGATGAGTGCAGAGAACCTTGGGATCGTGTTTGGACCAACCCTCATGAGATCCCCAGAGCTCGACCCCATGGCCGCCCTGAACGACATACGCTATCAGAGACTGGTGGTGGAGCTGCTTATCAAAAACGAAGACATTTTATTTTAGAGTTTTGATTTGAGGAGAAGAAAAATGGTTTACAGATGAAGGAATGTTTTCTAGTAATTTAATTAGCTTCATTAGCTGAATTGTTTCTTCGTTAGAGGTTTGGCCAAATACCCAGATTAAAATGAAGGAACTTCCTGTCATTTCTATAGCACCGCTCAGCTGTCCTTGTAAAACAGTGCACACACGCTTTCTGGTCCCGGTAACCCTGGGTGTCTATCATGTTAAGAGAAACTCAAGCTACTGCATGATTACCCCTTTTTGGTGAGGAAACCCCACATTGAGGAATCACAGACTTGTGCCTGCACCACCTCTGTCCTGGGTTGTCTGTGGTTGTCACCCAGCATGCTTCCCAGAGTAAACTGTCATGACTTTGCTTTTGGGGTCCATGCCATTGGTTTCTGATGCTTGCACACACACACACATAAGCAGTGCCCTGGCTGTTACATCACCATCCCCATACCATATGCCAACTCCACAACGGTTCCTTTCCAGCTTCTTCCTCCTCCTCTGACATAGCGCTTTGTCCTCAGCAGAAGCCAGATGTGTTTTAGATCTTACTTCAGTACGCTACCAATAAAAATGCACCACACAACATTTTCTGTTAAATTATTGGTTTTCAACTGTAAATTTATATTTTTACCTGGCATGCAGTTATTAATTTATTAAATTTGGCTTTTAGAAATCAAAAACACTAATAGCTTTTTTTCTTGCTGTGGGACGAATAGCTAGAAAACTATGTTTGGCATTTATTTAACATCAATTACTTCTCTAGCCTGACATTAAAATATTGTGGTAATGTCCTAAAATAACTTAAGCTGCCTAAAATTGACATTCATTCATTGGGCTTATTTTTTCTCCTATTGCTCTGGGAGAAATTAACATTTTCTCCACTTTGGGGTCAGTTTTCCTCTAGCTTCATGTGAGGAGTGCTAACTGCTTGGGCTCTGCACACCTGCCAGGCTTGTCTGGAACAGCCAGGGTCATGTGTGGGATGCCATGACACACGGGTGAGAGGCGTTACAAGGCAGCTCGTCAGGCAGAGAGCCCAAGGTCTGCGTTTGGGACTGCCACCTGTCAGCCATGTGACTTTGAGCAGAAGCCTATTTTGTTCTGTCTCTTGGACTGTTAGATGAGCCCGCCCCTGGAACTGAAGTTCCATCCTGCTGTAAACAATAAAACAAAACGTGTGTGGTTTTAGGTTTCCAGTAATAAAAGTGCTGTAATCCCAGCACTGGGGAGGAAGAATCAGGACGATGGAGCTCAGGGCCAGCCTAGGGTACAGAGATTCTGTCTCAAGCAAACGCTCAGTGGAACGGCCAAGCACAGTAGTATAATATGGTCCTAACTACTGAAGGAGAAAGAGCACTTGAATCCAAGGGTTCAAGACCAACCCAGGCAACTTCAGGAAAGTGGCTCAAAATAAAAGGTGAAGATGAAATAAATTTCTGAGCTCTAAAGCCTGCCTCAAAACAGTGGGAAGTTATGGAAATACAGAACATGTCTAACTCCACTTTCCAGGCTGTAGTGGGCAGCTGGTAAGTGGTGGGTTTGCTTTCTCACTGTTTACATTGAAGGAAAGTATTGATATTCAGGGATACTCCATCTAGCTGTCGTCTTAACCAATGTCCTGTGAAAAGTTTCACCACACTAAGAATCAAACAGAATGCACAGATTGACTAAGTACAGAGATTTGGCTTAATAAATCATCTTCAAAAGTAGAAACAAGTCACGGGGCGGGAGTCAGCTCAGTAGTAGAGAGCCTGCCTAATATGTGCAAAGGATTTAAACAACCACACTGGAAAAAAAAAATATTAAGCCAAATTACAGCCGTGAAGTTCATCCGCATTTAAGCACACAGCTGATAGATCAGGGCCTGTTGTGGTTGTGGTGGTTGTTGGTACTAGTACTACTAATACTACTAAAAGGAGGGCGAGAAGGGACAGAAGAGAAAAAGAAAGAAAGTTATACTGTCAAGCATCCGCCAGAGTTAAGAAGCTTTCGGGTTTGGAGACAGGATCTCGCTCTGTACCCAGTCTGGCATAGGACTTACTATGTAGCAGGTAAGATTCAAACTTCTCAGTGTTGGGGTTACATGCCAGACCTCAAAATACCTTTTTATTATCCTAAACTATCAGATTAATTTTTGGAGTTAAATGAATCATAATTTAAATAAGGCACACTATATTACATGTGGTTGCCATGGCTTAATGTATGGACGGATCCTCCACTGTCTTGCAATTCATTTGTTGAAAAATACCAATACTGATTTGGAATTTTCCCAATTATTGCATTTGCCAATTATATCCTGTGTGTCATTTGACATGTTCCTCTGGTCCTTGTTTCTCTATAAACTGGGAATTGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056486-Chn1:NM_175752:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(22.7=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.8=55.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCATGGCGCATCTCAAGAG
R:
ACAGCTGAGCGGTGCTATAGA
Band lengths:
356-1821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: