MmuINT0029984 @ mm9
Intron Retention
Gene
ENSMUSG00000039648 | Ccbl1
Description
cysteine conjugate-beta lyase 1 [Source:MGI Symbol;Acc:MGI:1917516]
Coordinates
chr2:30041877-30042255:-
Coord C1 exon
chr2:30042166-30042255
Coord A exon
chr2:30042064-30042165
Coord C2 exon
chr2:30041877-30042063
Length
102 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGTCCATCTGCCTTGTTTAGGCT
3' ss Score
8.95
Exon sequences
Seq C1 exon
GTGGGCTGGGTCATGGGTCCAGATAACATCATGAAGCACCTGCGGACTGTGCACCAGAACTCTATCTTTCACTGCCCCACCCAGGCCCAG
Seq A exon
GTGAGAAGGGCAAGAAACCCCATGGTCTGGGAAGGTGCCAGAAAGCCCCCCAGACAGGTCATAGCTGACCCATCAGTCCGTCTGTCCATCTGCCTTGTTTAG
Seq C2 exon
GCTGCAGTAGCCCAGTGCTTTGAGCGGGAGCAGCAACACTTTGGACAACCCAGCAGTTACTTTTTGCAGCTGCCACAGGCCATGGGCCTGAACCGAGACCACATGATCCAGAGCCTGCAGTCAGTGGGCCTCAAGCCCTTGATCCCCCAGGGCAGCTACTTCCTCATTGCAGACATCTCAGACTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039648-Ccbl1:NM_172404:10
Average complexity
IR-S
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:
PF0015516=Aminotran_1_2=FE(12.8=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(16.0=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:
GCTGGGTCATGGGTCCAGATA
R:
TGCAATGAGGAAGTAGCTGCC
Band lengths:
257-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: