BtaINT0141882 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67778772-67779827:+
Coord C1 exon
chr5:67778772-67778879
Coord A exon
chr5:67778880-67779698
Coord C2 exon
chr5:67779699-67779827
Length
819 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
GCTGCCCTTTCTGTGTGTAGACG
3' ss Score
7.9
Exon sequences
Seq C1 exon
GAGACCAGGTTCGTGGATGGAAGAGCCATTCTGCAGTGGGACATCTTTGCCTCCAATGGAATTATTCATGTCATTTCCAAGCCTTTAAAAGCTCCCTCTATCCCAGGG
Seq A exon
GTGAGTATACAGCATTCCTGGTAAGGAGGAGCCTCGATGTCCACTCCCCAAGTAGCGAGCTACTCCTGGGAGCCCTGCCACCCCATCCATGGCAGCTGGCCTCAGGGATGCCCAGCCCGCATCCAGTGTGTCAGTGACATAACACGTGTCAGCACCAATATTTGCTGAATGAAAAGGGCAGGAAGTGCCAGTGGAGAAACCACTGGAAGGGGAGTGAAAATCCTGAGCCCCTCCACCTCGTAACCATGTGAATTCAGACAAGCCCCAGAAACATCATCGAGCCTCATTTTTCTTATCTGCAAAATGGAGGTCAAAATGCCTTCTTCCCTGGATTCTTGGAAAGACAATGAGTTAATGTAAAATAATAAAGACAGTTCCTGGCACTTGCTTTATAAGAGTTGGTCAGCTGGCTGTGGTCAGTTGGTGGTGATGTTAGTTTTCTAACTTTGTTCTAAAGGTATGAAGCTCCAAAACCAGGCTGGCTTCAAAGCCCACCTCTACCACTTACGGGCTGTGTGACACTGGGCAAGTGCTTACCCTCTCTGTGTCTCTGTTCTCCTGTATAAAAATGGAAACAGTAGAAACTGTTCTTATCTCTTTGTGTTATTATACATTTAATTGGATTATTTTATGTAAGGGGGCTTAGAACAGACCCTGGAAGTAGTAAGGGCTAGAAACATATTGACAGCTTTATCATTATTTTTATCCCAGCCGGCACAAGATGCCTCAGGCAAGCCAGAATGGGGTGGGCTCCAGGAAGCATGCCTCTATGGGGAAGTCACTAGTTCTGGTACCAACCGCTGCCCTTTCTGTGTGTAG
Seq C2 exon
ACGCCAGGCCACACCGGCCTGGGAACAGGGGTGTTCTTTGCCATCATCCTGGTCATCGGAGCCATTGCTTTGGCAGTGTACTCCTACTTTCGACTAAACCGGAGAACGATTGGCTTCCAGCATTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:66
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=PD(26.3=86.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACCAGGTTCGTGGATGGA
R:
TGCTGGAAGCCAATCGTTCTC
Band lengths:
230-1049
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]