BtaINT0141801 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48887486-48887824:-
Coord C1 exon
chr22:48887768-48887824
Coord A exon
chr22:48887688-48887767
Coord C2 exon
chr22:48887486-48887687
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCCGATCCCTCTTGGCCCAGGGC
3' ss Score
6.01
Exon sequences
Seq C1 exon
AAAGTTTGCAGCATTTGTGGGCTGGAACCCCCCTGCCCTCCGGGCTCACAGGAGCAG
Seq A exon
GTAAGGGGCTGGGCACTAGGTGGTGGGGTTGGGCAGGGCCCAACAGGCGCAGGTTTGCAGCCCGATCCCTCTTGGCCCAG
Seq C2 exon
GGCAGCCCTGAGGCCTGCTGGCGCTACTTCTCCAAGTTCTGGACGTCCCCTCCGCTGCACTCCTTGGCCCTGCGCAGTGTGTGGACCCGGCCCAGCCACTGGGGTCACCCCCAAGGCCTGGGCAGGGGCTGCTACCGCAACTGTGTCACCACCACCTGGAAGCCCAGCTGCTGCCCTGGTCACTACGGCAGCGAGTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:54
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:
NO
A:
NA
C2:
NO
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:
AAGTTTGCAGCATTTGTGGGC
R:
CCAGGCCTTGGGGGTGAC
Band lengths:
177-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]