BtaINT0141795 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48888746-48889023:-
Coord C1 exon
chr22:48888883-48889023
Coord A exon
chr22:48888806-48888882
Coord C2 exon
chr22:48888746-48888805
Length
77 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGA
5' ss Score
7.22
3' ss Seq
CACTGAGCCCCTGTCCCCAGAGA
3' ss Score
5.55
Exon sequences
Seq C1 exon
GGCAACATCTACATCAACGACTTTGCACGCGTGGTGAGCAGCGACCAGGAGGCTGTGAACGGTGTCCTGCATTTCATCGACCGTGTCCTGCTGCCGCCGGAAGTGCTGCACTGGGAAGCTGATGCTGCCCCAGCTCCGCGG
Seq A exon
GTAGGACCTGGCTGCGGGCCTGGGACCCTCCCTCACCCCCTTCCTGACCTCGCTGCTCACTGAGCCCCTGTCCCCAG
Seq C2 exon
AGAAACTTCACTGCTGCTGCAGAGACCTTCGGTTATAAGATCTTCAGTGGCCTTGTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:49
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=PD(26.7=66.0)
A:
NA
C2:
PF0246917=Fasciclin=PU(7.6=50.0)
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:
GTGGTGAGCAGCGACCAG
R:
CGTCACAAGGCCACTGAAGAT
Band lengths:
171-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]