MmuINT0030006 @ mm9
Intron Retention
Gene
ENSMUSG00000040213 | Ccbl2
Description
cysteine conjugate-beta lyase 2 [Source:MGI Symbol;Acc:MGI:2677849]
Coordinates
chr3:142388928-142389266:+
Coord C1 exon
chr3:142388928-142389053
Coord A exon
chr3:142389054-142389145
Coord C2 exon
chr3:142389146-142389266
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTTTCTTTTCATGTGTGCAGGTG
3' ss Score
10.88
Exon sequences
Seq C1 exon
AAACCTACTGACGGGATGAAGTGGACTAGCTCTGACTGGACATTCGATCCTCGAGAACTGGAAAGTAAATTCAGTTCCAAAACGAAAGCCATAATATTAAATACTCCACACAACCCCCTCGGCAAG
Seq A exon
GTGAGCGAGCCTCTCTGCCCACACCGGCTGGGAGTCGCTGCTCTCTCATGTGTAGAGTAACATGGCTGTGCCCTTTCTTTTCATGTGTGCAG
Seq C2 exon
GTGTATACCAGACAGGAGCTGCAAGTCATTGCTGACCTTTGCGTCAAGCACGACACTCTGTGCATCAGCGATGAGGTTTATGAATGGCTTGTCTATACTGGACATACGCACGTAAAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040213-Ccbl2:NM_173763:7
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(10.7=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(10.4=100)
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:
ACGGGATGAAGTGGACTAGCT
R:
GATGCACAGAGTGTCGTGCTT
Band lengths:
182-274
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: