BtaINT0040544 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021861 | COBRA1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:G5E5S2]
Coordinates
chr11:105849860-105850401:-
Coord C1 exon
chr11:105850300-105850401
Coord A exon
chr11:105850024-105850299
Coord C2 exon
chr11:105849860-105850023
Length
276 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GCCGCCCTCTGCTTCCTTAGACA
3' ss Score
7.95
Exon sequences
Seq C1 exon
CTATTTGCGGGGCTGCAGGACCTGGGTGTGGCCAACGGCGAGGACCTAAAGGAGACGCTGACCAACTGCACGGAGCCGCTCAAGGCCATCGAGCAGTTCCAG
Seq A exon
GTGGGGCTGCGCGAGGGGCCGGGGGCGGGCGCGCGTGTGAAGTGGGCGTATCCGTCTGCTCCGCGGCCCGGGGGGGCCGGACACGCCGAGCTCGGGCCGCTTCGACGGCCGGCGGGCGGCTCCCAGCGTCTGGTGCTACAGCCGGCGCGGCGCGGACACCCTTCTGTGCCTGCCTCTTCGACCGCTCGGGTCAGCCAGGACGCCTGCCCACGAGCGGCAGCGACTGAGGTCTCTCTTGCCGCCCCGAGGAAGCAACGCCGCCCTCTGCTTCCTTAG
Seq C2 exon
ACAGAGAACGGCGTGCTGCTGCCCTCCCTGCAGTCGGCCTTGCCGTTCTTGGACCTGCACGGGACTCCGCGGCTGGAGTTCCACCAGTCGGTTTTTGATGAGCTTCGGGACAAGCTGCTGGAGCGTGTGTCAGCCATCGCTTCCGAGGGGAAGGCCGAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021861:ENSBTAT00000029144:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTATTTGCGGGGCTGCAGG
R:
CTTTCCTCGGCCTTCCCCTC
Band lengths:
266-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development