BtaINT0141788 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48890840-48891195:-
Coord C1 exon
chr22:48891070-48891195
Coord A exon
chr22:48890914-48891069
Coord C2 exon
chr22:48890840-48890913
Length
156 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGG
5' ss Score
5.5
3' ss Seq
CCCAGCGCCTCTTCCCCCAGAAG
3' ss Score
7.75
Exon sequences
Seq C1 exon
CGGTGGACCCATGTGCGCGTGACCATGGCGGCTGCTCCCCCCACGCCAACTGCACGACCGTGGCACCTGGTCAGCGGACGTGCACCTGCCTGGACGGCTACACGGGCGACGGGGAGCTGTGCCGGG
Seq A exon
GTGAGGCTGGCTGACGCGGGCTGAGGGTCTGGCTTCAGTCAGACCAGGACGGGCTGAGGGGCACACGGGAGTGTGGGTGCTGAGAGTAGGGGGAGAGCACCCAGACGGACGGACGGACGGAGGGGCTACCCCTCATCCCAGCGCCTCTTCCCCCAG
Seq C2 exon
AAGCCAACAGCTGTCTCATCCGCCATGGGGGCTGCCACATGCATGCCGAGTGTATCCCCACAGGCCCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:42
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=WD(100=86.0)
A:
NA
C2:
PF129472=EGF_3=PU(52.6=80.0)
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:
GACCCATGTGCGCGTGAC
R:
GGGCCTGTGGGGATACACTC
Band lengths:
188-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]