BtaINT0141772 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48894896-48895222:-
Coord C1 exon
chr22:48895175-48895222
Coord A exon
chr22:48895027-48895174
Coord C2 exon
chr22:48894896-48895026
Length
148 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TCCACACACCGCGTGCACAGGGG
3' ss Score
4.85
Exon sequences
Seq C1 exon
GAGCTGGAGGCAAATGCCCACTTCTCCGTCTTCTACCAGTGGATTAAG
Seq A exon
GTAGGATTGGGTGGAATGCTGGGCTGGGGACTCACATCCAGGCCATGTAACAGCTGGGGGTGGAGGGCAGGCCAGGAGGCTGGGAACGGCGATCTCAAGGCGGTGGCTGCCTTCATGACTCCTGTACCTCCACACACCGCGTGCACAG
Seq C2 exon
GGGGCCGGCATCACTCTTCCTGCCGACAGCCAAGTCACAGCCCTGGTTCCCTCGGAGTCTGCCATCCGTCGGCTGAGCACCGAGGACCAGGCCTTCTGGCTTCAGCCAAGGCTGCTGCCGCAGCTGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:28
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=PU(8.2=62.5)
A:
NA
C2:
PF0246917=Fasciclin=FE(35.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATGCCCACTTCTCCGTCT
R:
CAGCAGCCTTGGCTGAAGC
Band lengths:
155-303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]