BtaINT0040554 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021861 | COBRA1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:G5E5S2]
Coordinates
chr11:105846321-105846696:-
Coord C1 exon
chr11:105846601-105846696
Coord A exon
chr11:105846464-105846600
Coord C2 exon
chr11:105846321-105846463
Length
137 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACA
5' ss Score
4.87
3' ss Seq
CTCTAGGGCCTGCGCCCCAGGAG
3' ss Score
2.12
Exon sequences
Seq C1 exon
GACAGCCCGGACCTCCTCCTGCTGCTCCGGCTGCTGGCGCTGGGCCAGGGTGCGTGGGACATGATCGACAGCCAGGTCTTCAAGGAGCCCAAGATG
Seq A exon
GTAACAGGGTCAGGCGGGCTCCACCGTGAGGGGCCGTGGCGGGGCTTGGGGGTGCCGGGCCTACGGCTGGGGGGTGGTCGGAGGCCGGGGTCCGGGGGCGGGCGCAGCATGCGACAGCTCTAGGGCCTGCGCCCCAG
Seq C2 exon
GAGGTGGAGCTGGTCACCAGGTTCCTGCCCATGCTCATGTCCTTCGTGGTGGACGACCACACCTTCAACGTGGATCAGAAGCTCCCAGCCGAGGAGAAGGCCCCGGTCACGTACCCAAACACGCTGCCGGAGAGCTTCACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021861:ENSBTAT00000029144:8
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=0.021
Domain overlap (PFAM):
C1:
PF062098=COBRA1=FE(6.5=100)
A:
NA
C2:
PF062098=COBRA1=FE(9.9=100)
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:
GACAGCCCGGACCTCCTC
R:
TTGGTGAAGCTCTCCGGCAG
Band lengths:
239-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development