BtaINT0040555 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021861 | COBRA1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:G5E5S2]
Coordinates
chr11:105846141-105846463:-
Coord C1 exon
chr11:105846321-105846463
Coord A exon
chr11:105846248-105846320
Coord C2 exon
chr11:105846141-105846247
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGG
5' ss Score
5.98
3' ss Seq
CTGACGGCGCTGGGGTGCAGGTT
3' ss Score
2.59
Exon sequences
Seq C1 exon
GAGGTGGAGCTGGTCACCAGGTTCCTGCCCATGCTCATGTCCTTCGTGGTGGACGACCACACCTTCAACGTGGATCAGAAGCTCCCAGCCGAGGAGAAGGCCCCGGTCACGTACCCAAACACGCTGCCGGAGAGCTTCACCAA
Seq A exon
GTACGGCTGCGGGCGTGGCGGGGGAGGGCCCTGGCCCGCAGGCCGCTCGGGGGCTGACGGCGCTGGGGTGCAG
Seq C2 exon
GTTCCTGCAGGAGCAGCGCATGGCCTGCGAAGTGGGGCTGTACTACGTGCTGCACATCACCAAGCAGAGGAATAAGAACGCACTGCTGCGCCTGCTGCCGGGGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021861:ENSBTAT00000029144:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF062098=COBRA1=FE(9.9=100)
A:
NA
C2:
PF062098=COBRA1=FE(7.6=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:
ATGCTCATGTCCTTCGTGGTG
R:
ATGTGCAGCACGTAGTACAGC
Band lengths:
170-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development