BtaINT0141782 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48891888-48892614:-
Coord C1 exon
chr22:48892531-48892614
Coord A exon
chr22:48892084-48892530
Coord C2 exon
chr22:48891888-48892083
Length
447 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
CGTCCTCATGCTCCCCGCAGGTG
3' ss Score
12.27
Exon sequences
Seq C1 exon
GACACCCCCAGGAAGAGCTGTGTCTACCGGTCTGGCTACTCCTTCTCCCGGGGCTGTTCATACACGTGTGCCAAGAAGATCCAG
Seq A exon
GTTTGCCCTGAAATAGGCCCCCCACCCCACCCCCCACTTTGACCAGAGAGGAGGTGGGAGGGGGGCAGGGCAGGAGGCCAGATCAGGCTTCAGGGGCAGTGGTGGGGGCTGGGACACAGATGAAGCCAGGAAGCCACGGCCTGGAGGAAGGGGAAGGGAGAGCAGGCTGAGGTTGGAGGGGCCAGTGTGTGTCCCTGAGGCCACGTCTCCAGGGACTGGGGGTGCAGAGGGGGAGAAAGGGCTCAGCCTGGAGCTGACTGCACCAGCCAAGCCCTGGGGCAGCAGTGGGGCAACTGCGCCCCCCACCGTGGGGTCCGGACTGGCCCTTCTTTCAGTTCTGTTGCAGAGGCTTGTAGAGGGCAGGCTCCGTTTCTCTGAGGCCCCAAGATGCCCGGCCCTGCCGTCCCCACGGTTTCCCGCCCCCTGACGTCCTCATGCTCCCCGCAG
Seq C2 exon
GTGCCTGACTGCTGCCCTGGCTTCTTCGGCACCCTGTGTGAGCCGTGCCCGGGGGGTCTGGGTGGCGTGTGCTCAGGCCACGGGCAGTGCCAGGACCGGCTCCTGGGCAGCGGGGAGTGCCGCTGCCACGAGGGCTTCCACGGGACGGCCTGTGAGATGTGCGAGCTGGGCCGCTACGGGCCCAACTGCACCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:37
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAGGAAGAGCTGTGTCTA
R:
GTGCAGTTGGGCCCGTAG
Band lengths:
270-717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]