BtaINT0141817 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48903003-48903544:-
Coord C1 exon
chr22:48903434-48903544
Coord A exon
chr22:48903194-48903433
Coord C2 exon
chr22:48903003-48903193
Length
240 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
CTCTCTCTGTGCCCCCGCAGCCT
3' ss Score
10.88
Exon sequences
Seq C1 exon
AGCTGCTCGCCTGCCAGGCCCTGAACTGTCCTCGGAACTCCCAGTGCTCTGAAGAGGCCCCCTCCTGTAGCTGCCTGCCTGGCTATACGCAGCAGGGTCATGAGTGCCGGG
Seq A exon
GTAAGTCAGGGGTCTAGAGGAGGCCGGGGCCCCAGCTCGGGGCGAGCATCCTTTTAAAGCAGCGAGTACAATCTGGCCATATTCAGGGAGGGAGAGCTGTCCCTGAGGGAGGGAAATAGGGCCCGTCCCCAAGGTGTGGATCAGTCTGCTCACCCGTCTCTGGGCCATCCTGGTTAGAGGCTGCAGAGGGCGGGGCTCCTGGGGGCCCGGCTCATGTGGGCTCTCTCTGTGCCCCCGCAG
Seq C2 exon
CCTCCGACCCCTGCCGGCCGTCACCCTGCTCCCCGCTTGCCCAGTGCTCTGTGGGCCCTGGAGGGCAGGCCCAGTGTCGCTGCCCTGAGAACTACCACGGGGATGGGACGGTGTGTCTGCCCCAGGACCCGTGCACCACCAACAACGGCGGCTGCCCCAGCAACTCCACCTTGTGTCTGTACAGGAAGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:7
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:
PF129472=EGF_3=WD(100=53.1),PF146701=FXa_inhibition=PU(45.2=29.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCAGGCCCTGAACTGT
R:
GGGCTTCCTGTACAGACACAA
Band lengths:
292-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]