BtaINT0141815 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48884469-48884814:-
Coord C1 exon
chr22:48884668-48884814
Coord A exon
chr22:48884586-48884667
Coord C2 exon
chr22:48884469-48884585
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
CAACTCACCTGCCTTTCTAGGCA
3' ss Score
7.94
Exon sequences
Seq C1 exon
TGGGCAGTGGTGGCCCCAGAGGCCCCGCCTGTGGCAGCGGGCGTGGGGGCTGTGGTGGCTGCTGGAGCCGTCCTTGGCCTGGTGGCCGGAGCCCTCTACTTTCGTGGCCGAAGCCGGTCCGCGGGCTTTGGCTTCTCTGCCTTCCAG
Seq A exon
GTAGCTGGGCAGGGGGCTGAGGGAGGTGTGGGATCTGAGCCAGCAAGGCTGCTAAGGTCTCACAACTCACCTGCCTTTCTAG
Seq C2 exon
GCAGAAGATGCTGCTGCTGACGACTTCTCCCCGTGGCAGGAAGGGACCAGCCCACCTCTGGTCTCCGTCCCTAACCCGGTCTTTGGTAGCCATGAGGCCTTTTGTGAACCCTTTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:67
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=0.103
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGAGCCCTCTACTTTCGT
R:
AAGGGTTCACAAAAGGCCTCA
Band lengths:
175-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]