BtaINT0141778 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48893566-48893877:-
Coord C1 exon
chr22:48893779-48893877
Coord A exon
chr22:48893698-48893778
Coord C2 exon
chr22:48893566-48893697
Length
81 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
GCGTCTCCTCCTCGCTCCAGGAC
3' ss Score
9.81
Exon sequences
Seq C1 exon
CGCCACAGGCTGGTTCCCCAGATTGAGGCTGCCACCGCCTACACCATCTTCGTGCCAACCAACCACTCTCTGGAGGCCCAGGCCAACAGCAGCAGCCTG
Seq A exon
GTGAGACCACCGGGACTGGGGCCACCGGGGGCGGGCCAGCCTCCCATCGCATGGCCCCTGAGCGTCTCCTCCTCGCTCCAG
Seq C2 exon
GACTCGGATGTTGTGCGACACCACGTGATCCTGGGCGAGGCGCTCTCCACAGAGGCCCTGGGCAAGGGGGGGCACCGCAACTCCCTCCTGGGGCCCGCCCACTGGCTTGTCTTCTACAACCACAGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=FE(27.6=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(37.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCAACCAACCACTCTCTG
R:
TGGCCACTGTGGTTGTAGAAG
Band lengths:
179-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]