BtaINT0141787 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48891070-48891443:-
Coord C1 exon
chr22:48891367-48891443
Coord A exon
chr22:48891196-48891366
Coord C2 exon
chr22:48891070-48891195
Length
171 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCAG
5' ss Score
-0.26
3' ss Seq
CTCGGCCCGTCTGCCCCTAGCGG
3' ss Score
9.15
Exon sequences
Seq C1 exon
CTGCGTGCAGGACTCGGCTGCAGCCCCTGTCTGCGTCTGTGCCGCGGGGTACTCGGGTGATGGCGTCTCCTGTTCAG
Seq A exon
GTCCAGCCACTCCACCGCCCCAGAGCCCTTTCCATGCCCTTAAATCCAGTCTCTGTCCCCTCTGGGGTCTCACCCTCCCCCTGGCCTTCCCCTTTCTCGCCTGCCCTGCTCCTGGTCCCTGCTGCCCCGCCCCCGCCCTGCTCACGGCTCTCTCGGCCCGTCTGCCCCTAG
Seq C2 exon
CGGTGGACCCATGTGCGCGTGACCATGGCGGCTGCTCCCCCCACGCCAACTGCACGACCGTGGCACCTGGTCAGCGGACGTGCACCTGCCTGGACGGCTACACGGGCGACGGGGAGCTGTGCCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129472=EGF_3=PD(72.7=88.9)
A:
NA
C2:
PF129472=EGF_3=WD(100=86.0)
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:
TGCAGGACTCGGCTGCAG
R:
CCCGTGTAGCCGTCCAGG
Band lengths:
178-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]