BtaINT0141775 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48894193-48894740:-
Coord C1 exon
chr22:48894629-48894740
Coord A exon
chr22:48894271-48894628
Coord C2 exon
chr22:48894193-48894270
Length
358 bp
Sequences
Splice sites
5' ss Seq
GGAGTATGT
5' ss Score
4.82
3' ss Seq
CTCTCCCTGCTGCCTTCCAGAGG
3' ss Score
8.49
Exon sequences
Seq C1 exon
GGCCCATTTTCTCCAGGGCGCCCTGTCCGAGGAGGAGCTGGCCCGGCTGCACGGGCAGAATGTATCCACCCTGAACCCCACCGTACGCTGGGAGATTCACAACGTCAGTGGA
Seq A exon
GTATGTGGTGGGCTTTGGGCAGAAGGGGCCCTATGGGCATGGGGTCGATTCGAGTGGTGGCTGCAGGCTTCAGCCCAGGGTCTCCTCGCCCTGCCAGGGCCGAGCCCAGACGCTGTGCTCAGAACACATTTGCTGCCGGAATGAGTGCCCGGCTGGGGGTTGTCCATCGTGGTCTGCATATGCACCCCTGTCCCCTCATGCCTGGGCCCCAGCGAGGGTCTGTGTGCCCATGTGGTAGGTGCTGAGTCAGAGGGTGTCCAGGTCAGTTGGGCACCTTGTGGCCAGCGGCCTCTGTTGGTGCTATACCCACTCTTAAGCATCTGCCTGTGTCTCCTGAGCTCTCCCTGCTGCCTTCCAG
Seq C2 exon
AGGGTCTGGGTGCAAAATGCCAGCGTGGACGTGGCTGACCTCCTTGCCACCAATGGAGTCCTCCACGTCCTCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:30
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=FE(30.3=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(20.5=100)
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:
GGCCCATTTTCTCCAGGGC
R:
CTGGCTGAGGACGTGGAGG
Band lengths:
190-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]