BtaINT0141794 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48888883-48889542:-
Coord C1 exon
chr22:48889396-48889542
Coord A exon
chr22:48889024-48889395
Coord C2 exon
chr22:48888883-48889023
Length
372 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
TGTCCCGGGCCCACCCCCAGGGC
3' ss Score
7.37
Exon sequences
Seq C1 exon
GACGAGCTGGCCCGCATTCGTGCCAACCGCCAGCTTGTGTTCCGGTACCACGTTGTTGGCTGCCGACAGCTGCGAAGCCAGGAGCTGCTGGAGGAGGGCTATGCCACCGCACTCTCGGGGCATCCGCTGCGCTTCAGCGAGAGGGAG
Seq A exon
GTAGGCCCAGCTCCGCCCACCCCCGATGGGGGCTGTCCACAGACCCAGCACTCCACTGCTCTCAGGGTCCTCGCCTGGGCCCTGCGCCCGTGCCTTCAAGACCCTCTCACCTTCCCAGGCTGGCTTTACTGACAGGGAGATGACACCAGCCCTGGACGCTGCCTACTACCAGCCAGGGGCTAGTCCTGGGCTCAGGACTTCTGAGTGTGGCCCCGTGTCCGTGGGGCTCCCACCAGCCAAATCCAACAGCTCTTTCCCTGGGCAGGAGGCGAGGCCCGCACTCTGCCTTGATCCTGCCCACTTCCTTCCCCAAGATTTGTCCAACCAGGCCCCCAACCACTTGGCTTCATTCTGTCCCGGGCCCACCCCCAG
Seq C2 exon
GGCAACATCTACATCAACGACTTTGCACGCGTGGTGAGCAGCGACCAGGAGGCTGTGAACGGTGTCCTGCATTTCATCGACCGTGTCCTGCTGCCGCCGGAAGTGCTGCACTGGGAAGCTGATGCTGCCCCAGCTCCGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782:ENSBTAT00000019663:48
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(41.4=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(26.7=66.0)
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:
CCCGCATTCGTGCCAACC
R:
GCATCAGCTTCCCAGTGCAG
Band lengths:
262-634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]