BtaINT0141791 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48889946-48890390:-
Coord C1 exon
chr22:48890268-48890390
Coord A exon
chr22:48889994-48890267
Coord C2 exon
chr22:48889946-48889993
Length
274 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
CCTTGCCTTCCCTGCCTCAGGAG
3' ss Score
8.51
Exon sequences
Seq C1 exon
AACAACGGAGGCTGCAGCCCCTATGCCGTGTGCAAAAGCACAGGGGATGGCCAGAGGACCTGTGCCTGCGACGCAGTCCGCACCGTGGGGGATGGCTTCACCTGCCGAGCCCGCATCAGCCTG
Seq A exon
GTAATGATGCCCAGGGAGGGCCCTGACCCGACCCTGGCAGTGCCCCCCACGGGCCTGAGCCATGGTGTTGGCTATTGCTCCTGATCCTGACTCCACCTGGGCCTGACCCAGTTACGGTCCATGAAACCCATTCTGATCCCAGAGCAGACTGCCCTGGCTTTCTTTTCTTCGTCTCTGCCTTGGCCAGACCTTGGGCTCCCGGTGCTGGGACAAGCACCAGCCCTGACTGCAGGCCGACCAAACTCTGAGCTGACCCTTGCCTTCCCTGCCTCAG
Seq C2 exon
GAGCTGCTTCGGGACAAGCACGCCTCCTTCTTCAGCCTCCATCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:45
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:
PF129472=EGF_3=PD(89.5=82.9)
A:
NA
C2:
PF0246917=Fasciclin=PU(6.9=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAACGGAGGCTGCAGC
R:
ATGGAGGCTGAAGAAGGAGGC
Band lengths:
165-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]