MmuINT0029993 @ mm9
Intron Retention
Gene
ENSMUSG00000039648 | Ccbl1
Description
cysteine conjugate-beta lyase 1 [Source:MGI Symbol;Acc:MGI:1917516]
Coordinates
chr2:30042707-30043337:-
Coord C1 exon
chr2:30043209-30043337
Coord A exon
chr2:30042828-30043208
Coord C2 exon
chr2:30042707-30042827
Length
381 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
TGTGACCTTGGCTCCCACAGGTA
3' ss Score
10.27
Exon sequences
Seq C1 exon
AGTCCTGCTCCTAAGGGGCAGCTGGGATCCAGCAATGATTGGCAGCTGGACCCCACAGAACTGGCCAGCAAGTTCACACCTCGCACCAAGATCCTGGTCCTCAACACACCCAACAACCCTCTGGGAAAG
Seq A exon
GTACCAGGGGGCCCATTCAGAGATCTCTGCAAGCAGACTTTTCCTTCTGATCTTGAACATGAACACTCTCAGGCCTCAGTTTCCCTGCATGAAGTGGGAGGGCTGAATGTCTGAAACTCTGAGGACCAATCCTCCCAGAGGTGTGAAGGCTTGTGCGTATGGGCAGAGTGTTTTGGAACAGTGACTTTATCTGTCTATGCAGTGGGATCCAGACATAGCCAATCCCACAGAGTCATCATTGCAGAGCTAGATGCAATACTGACCAATAGTGCAAAGAGATGGTCCAGAGCAACCCTGAGACCTGATATAGTCTTGCATTCTAAGCAGGCTCTGCCCTTGGGGACAGTCCCAGCTGCACACCTGTGACCTTGGCTCCCACAG
Seq C2 exon
GTATTCTCTAAGAAGGAGCTGGAGCTGGTGGCTGCACTGTGCCAACAGCATGATGTCCTGTGCTTCTCTGATGAGGTCTACCAGTGGCTGGTCTATGATGGGCACCAGCACATCAGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039648-Ccbl1:NM_172404:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0015516=Aminotran_1_2=FE(10.8=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(10.3=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:
GTCCTGCTCCTAAGGGGCAG
R:
CAATGCTGATGTGCTGGTGC
Band lengths:
249-630
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: