BtaINT0141868 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67748930-67750398:+
Coord C1 exon
chr5:67748930-67749076
Coord A exon
chr5:67749077-67750341
Coord C2 exon
chr5:67750342-67750398
Length
1265 bp
Sequences
Splice sites
5' ss Seq
TCGGTCAGT
5' ss Score
7.03
3' ss Seq
TTTCTTTTCTTGCATACTAGGGG
3' ss Score
8.67
Exon sequences
Seq C1 exon
GGCGACCTCTTCCTGAACAGCCAAACGTGCAGAATTGTGCAGCGGGAGCTCTTATTTGACTTGGGTGTGGCCTACGGTATCGACTGTCTACTGATTGACCCCACCTTGGGGGGCCGTTGTGACACATTTACCACTTTCGATGTCTCG
Seq A exon
GTCAGTCCTGAAAACACTACTGTAGAAAGAGACCCTTGGGCCAACAAACAGCCCTTGTGACCTAGCGTGGACCCCGCTCTGAAGACTCAGAGGGCTGGTCCCCAGCGAACATGGGAACCAGGGGCTCAGGAGGCCATAGGACAGGGCTTTTCAGATTCACCATCAACAAGCATCTACTCAGTCCCGTACAGACCTTTCCCATTCTCATTTATCCACCCACCCGTTCATCCCCTCACCATTAAGCGAGCAGCTGTTGGGGACCAACAGTATGCCCTGTTCTGCCAGTCATTTTCTAACCCACCCATCCACTCAGTCATTCACTTATCCATTCAACAAGCAGTTTTTGAGCCTCTGCCAGAATAAACCAGGTGAAACTGCCATGTTTGACAGAGTATGGCTACAAAAATGACCGTGTCATATGGTTCTAATATCTAATATATGTGGCCCATACTTCCATTCACTTGCTCAGGCAGTAACACTGGTTGGACCTCTGTCCTGGGCCCTGCACTGTGCGAGGCACATGTGCATTTCACACTCGTTCATCCATCCAGTACCATTTATTGAGTGTGACCTTTGAGCCTACTATTTGGCCCAATGCCCATCTTACCCCTATCCAACAATAGAAGTAGTGATCATCAACTCCGTTATGTCAATTTGGAAATTGAGTCTCAAAGAGATGAAGTGACTTAAATGGCAAAGTCTGTGACCAGTTGATTTCTATACCAGGTGACTTATAGGCATTCAATAAATACCCAAATTACTAGAATACCAATCAGCCAAAGTAAGGGATGAAAAAACAGTTGTTAACTTCTTAACTTCCAAAGTACATATACGCACATTTTTTTTTTTCAGTTAATCATTTTTCCTCACAAATCCCCTGAAAATCAATAGCAAGAATTAGTATCCCTATTTTATAGGTTAGAAGACTAAGGATCAAAGAATGTGATTCACAAAAATTTCACAGCTGATCTCTAAGGGAACTGACACTTGTATCCACATTTCCCATGGCTGCTGTGCCATGTGCCATGTGCGCCTGCCCTGTTGCCCCTTCATCTAATAGGGAACTTATCACCTCAAAGAGCTAACCAAGGAGCTGAGGTCCAAGACAGACCTTAAGAATTCTCTATGGCAAAATTGCAGTGCATTTGTTTTTATATTCTTAATCATAGCTTGAGTCTTAATCAAGATTAAGTTCTTAGTCAAATAATCTTTGCTTTGTTTCCTGATATTCTGGATTTTTAAGTGTTTCTTTTCTTGCATACTAG
Seq C2 exon
GGGAATTGTGGAAACTGTATCTTTACTCCCAGTTGCCCCAAGTGGACTAAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:53
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=PD(24.1=65.3)
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:
GCGACCTCTTCCTGAACAGC
R:
GGTTTAGTCCACTTGGGGCAA
Band lengths:
199-1464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]