BtaINT0032425 @ bosTau6
Intron Retention
Gene
ENSBTAG00000036101 | CCBL1
Description
Bos taurus cysteine conjugate-beta lyase, cytoplasmic (CCBL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001077978]
Coordinates
chr11:99342453-99342990:-
Coord C1 exon
chr11:99342870-99342990
Coord A exon
chr11:99342530-99342869
Coord C2 exon
chr11:99342453-99342529
Length
340 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CTCTCTTTGATCTTGGGCAGCCA
3' ss Score
6.19
Exon sequences
Seq C1 exon
GTGTTCTCCAAGGAAGAGCTGGAGCTGGTGGCCAGCCTGTGCCAGCAGCATGACGTGGTGTGCATCTCGGACGAGGTGTACCAGTGGATGGTCTTCGATGGGTTCCAGCACATCAGCATCG
Seq A exon
GTGAGCCAAGCCGGCCAGGGCGCCCCCGTAACCCCGGACCTTTGCGGCAGGGCCTTGAGCCCAGTCCGGTGGCAGCGCAGGTCTGGTGATTAGGACCGAGGGGTCTGGACCCACACAGGTCAGGTGACCTGGGGCTGTGACTTCACTTCTCTCGGGACAGGGGAACATAGTGGCACCTACCTCCCGAGGTTGTCATGAGGAGGGGCTCAAATATGTCTTGGAAATAGCTTTACACGGAGTGGAGTCCGTGGCGCTGAGAGCCTGGGTGCCTGCTGGGACCCAGCCCCCACTCCGTGCCCCCACCCCCGTCTCAGCAGCCGCTCTCTTTGATCTTGGGCAG
Seq C2 exon
CCAGCCTCCCTGGCATGTGGGAACGCACCCTGACTATCGGTAGCGCTGGCAAGACCTTCAGTGTCACAGGCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000036101:ENSBTAT00000025004:4
Average complexity
IR
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(11.6=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(7.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCTCCAAGGAAGAGCTGG
R:
CTTCCAGCCTGTGACACTGAA
Band lengths:
198-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development