MmuINT0029987 @ mm9
Intron Retention
Gene
ENSMUSG00000039648 | Ccbl1
Description
cysteine conjugate-beta lyase 1 [Source:MGI Symbol;Acc:MGI:1917516]
Coordinates
chr2:30040651-30041273:-
Coord C1 exon
chr2:30041187-30041273
Coord A exon
chr2:30041090-30041186
Coord C2 exon
chr2:30040651-30041089
Length
97 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
GCTCAGTGTGTATCTTGCAGGAC
3' ss Score
7.44
Exon sequences
Seq C1 exon
GGGCTGTCAGCCATCCCTGTCTCCACCTTCTATAGCCAGCCCCATCATAAGGACTTTGACCACTACATCCGATTCTGTTTTGTGAAG
Seq A exon
GTTAGAGAAAGCTGGGGGCGGGGGTGGGGGAGAGAAGGCTGCTGGGCCTGGCTAACCACTGGGTGGGGGGAAAGAAGGCTCAGTGTGTATCTTGCAG
Seq C2 exon
GACAAGGCTACACTCCAGGCCATGGATAAGAGGCTGTGCAGCTGGAAAGGAGAGCCCCAAGCCTGAGGCGCTCAGGCCCGCCTCCAACCCCGAGACCTCAGCTGTGCCTTATCACAGAGATGGCGCTGCAGGGCCCAGATGTGTGACTGGGCATGTTTCCAGGAAAGAGGCCATCTCTTGGGGGTTTCAGCCATCTTACCCAGTGTCTGGACTGCTATATTGGGTTGGGGGCTGGTTCTGGAACTCAGTCTGCGCCTCTATAGGTTCTTGTAGAGCCTTGGTTGTTTCTGGCCTCTGCCTGGGACAGTAAAGGATGGAGGATCAGGCCTGGAGCCCCAGCCCCACCTTAGCCCTGCTGAGGCTCCATGGCTTCTCCACTTCTTCTCATGTGACCTCACAGTGTTGCTACTGTTCCTAATAAAGTTTTAAGTTATTAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039648-Ccbl1:NM_172404:13
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:
PF0015516=Aminotran_1_2=FE(12.3=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=PD(2.8=50.0)
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:
TCCACCTTCTATAGCCAGCCC
R:
TAAGGCACAGCTGAGGTCTCG
Band lengths:
177-274
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: