MmuINT0030005 @ mm9
Intron Retention
Gene
ENSMUSG00000040213 | Ccbl2
Description
cysteine conjugate-beta lyase 2 [Source:MGI Symbol;Acc:MGI:2677849]
Coordinates
chr3:142388385-142389053:+
Coord C1 exon
chr3:142388385-142388471
Coord A exon
chr3:142388472-142388927
Coord C2 exon
chr3:142388928-142389053
Length
456 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
ATCTTATTCTTCATGCCTAGAAA
3' ss Score
6.32
Exon sequences
Seq C1 exon
GTGATAATTATGGTGCCTTTTTACGACTGTTATGAGCCCATGGTGAGAATGGCCGGAGCAGTGCCTGTGTTTATTCCCCTGAGATCT
Seq A exon
GTAAGTCCCCTGTCATCTATGGGCTTGAAGAATGTCGTAAAATATCAATTACTTTGTCACTAAAGACATAGCTAAGTCTTTTGAAAATAACACAGTAACTAAGGTGATTCATAGACTCCTCCATCAGTCTTGGGCTGCCTCCTGTTGCCCATAGTTACAGCTGGCTTGTGGGAAAGAGCAACAGCTGTTTTGCTGAAGGGGTTCACTGTTTCCTTTAACCAGTGTGTACATAAGGCCTAGGTCCTCTGGGTTCTCAAGGTTGAATTAGAGCCTAATTGTGTGTGTGTTTGTGTGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCTTTGTTAATCATTTATTCGATTACCTATGTCAGGTCTGTCTTAACTCTTCGTTTTCCTTTATTAGGTTGTCTGTAAGACAGCAAACATGAATTAGTTTGTTCAAATCACATCTTATTCTTCATGCCTAG
Seq C2 exon
AAACCTACTGACGGGATGAAGTGGACTAGCTCTGACTGGACATTCGATCCTCGAGAACTGGAAAGTAAATTCAGTTCCAAAACGAAAGCCATAATATTAAATACTCCACACAACCCCCTCGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040213-Ccbl2:NM_173763:6
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(12.2=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(10.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTATGGTGCCTTTTTACGACTGT
R:
CTTGCCGAGGGGGTTGTG
Band lengths:
206-662
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: