BtaINT0141798 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48888188-48888534:-
Coord C1 exon
chr22:48888358-48888534
Coord A exon
chr22:48888275-48888357
Coord C2 exon
chr22:48888188-48888274
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
CCAGGGCTCCATGTGTTCAGGCC
3' ss Score
3.94
Exon sequences
Seq C1 exon
ATGGCTGGCCTCCTGCCCCTGCTTCAAGATTCCTCCCACAGGCCGCTCACCATGCTGTGGCCCACAGATTCCGCCCTACAAGCCTTGCCTCCTGATCGCCAGGTCTGGCTCTACCATAAGGACCACCGTGACAAGCTGGCAGCCATTCTGCGGGGCCACGTGATCCGCAACGTCGAG
Seq A exon
GTAGGTGCACCCCCAGGGCGTGGTCCCTACTGCCTGCCCCTCAGGCTGCCCACCCAGCTCCAACCAGGGCTCCATGTGTTCAG
Seq C2 exon
GCCTTGGCATCTGACCTGCCCAACCTGGGCCCCCTGCGCACCATGCATGGGACCCCCATCTCCTTCTCCTGCAGCCATGCACGGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:51
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:
PF0246917=Fasciclin=FE(43.9=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(21.2=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:
GATTCCGCCCTACAAGCCTTG
R:
CAGGAGAAGGAGATGGGGGTC
Band lengths:
182-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]