BtaINT0141856 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67730340-67731124:+
Coord C1 exon
chr5:67730340-67730465
Coord A exon
chr5:67730466-67731050
Coord C2 exon
chr5:67731051-67731124
Length
585 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGT
5' ss Score
7.92
3' ss Seq
GTGGGATTTTTGTTTTAAAGAGA
3' ss Score
2.99
Exon sequences
Seq C1 exon
CAATCAATGCCTGTGAGATCAGCAATGGAGGTTGCTCTGCCAAGGCTGTCTGTAAAAGAACCACCCCAGGAAGCCGGGTGTGTGTGTGCAAGGCAGGCTATACTGGCGATGGCATCGTGTGCATAG
Seq A exon
GTAGGTACCACCTCTCACCTGCGATTTCCAACTGCCTTTAGTTTTGACCCCTCGGTCAAGGTGCTGTCTGATCCTTCCACTTGCTTTCCATTTACTTGTTTTCCCTTGGCTGCTTATAAGCAATCGGATAGGAAATGCTTTCACACCAAGCAAACATCCTGCTTCCCATCAAAATGTCCTCCTAAATTGAGCATCTACTGATGATTCTTCTCTGAGCAAATTACACTGTGATGGTTATAAATGTGTTTTTTTTTTAAATTCCTACGTCTCTTCATTCATAACATGCTGAATTAGACTCCAAAATCTATTATTTCAAGTTCTTGGCTGCAAACACTCATATTCATTCAATAGAGGGACAGAGTCAAGCCTGCAGATACGCCTCTGCTGGCACAGTCCCGTCCCAGAGGAGTCAGTTTTGAGAAACCACAGCCAGCACCCTCCCTGTTGGGTTCTTTCAGCCACAGAGTTGCCAAGAAAACCGACTCATGCTTTGACACCTGCTCTGCTTGGTTGGATCCATCGAGATGCCTTTACTTAAAAATAAGGCTCAATTCTCATGCCAGGTGTGGGATTTTTGTTTTAAAG
Seq C2 exon
AGATCAACCCCTGCTTGGAGAACCATGGTGGCTGCCACAGGCATGCAGAGTGCACACAGACGGGACCCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:42
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:
PF129472=EGF_3=WD(100=86.0)
A:
NA
C2:
PF129472=EGF_3=PU(54.1=80.0)
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:
ATCAATGCCTGTGAGATCAGCA
R:
CTGGTTGGGTCCCGTCTGT
Band lengths:
198-783
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]