BtaINT0141878 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006010 | STAB2
Description
Bos taurus stabilin 2 (STAB2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206679]
Coordinates
chr5:67769820-67770235:+
Coord C1 exon
chr5:67769820-67769985
Coord A exon
chr5:67769986-67770128
Coord C2 exon
chr5:67770129-67770235
Length
143 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TGTGTGTTTCTGCCTTCCAGATG
3' ss Score
12.04
Exon sequences
Seq C1 exon
GCCAAGTACCACCTCTGCTCAGCAGGTTGGCTAGACAGTGGGCGAGTAGCCTACCCCACATCCTATGCCTCCCAGAACTGCGGCTCTGGTATCGTTGGGATAGTGGACTATGGACCAAGAAACAACAAGAGCGAGATGTGGGATGTCTTCTGCTACCGGATGAAAG
Seq A exon
GTAATGGCCCCAACCTTGCTTCAGATTCCAGGCCATGCAGCTGCTAAGCCTTCCTCAGCTGGGCTGGCCAACCTCCCAGCGTGAGATGGGGTAGCCAAGACGCCTGCCGCACCAGTGTGACTCTGTGTGTTTCTGCCTTCCAG
Seq C2 exon
ATGTGAACTGCACCTGCAAGGTGGGCTACGTGGGAGATGGCTTCTCGTGCAGTGGAAATCTGTTGCAGGTCCTAATGTCCTTCCCCTCACTCACAAACTTCCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006010:ENSBTAT00000007896:62
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:
PF0019312=Xlink=PD(54.3=91.1),PF129472=EGF_3=PU(46.9=26.8)
A:
NA
C2:
PF129472=EGF_3=PD(50.0=44.4)
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:
CAGCAGGTTGGCTAGACAGTG
R:
TTGTGAGTGAGGGGAAGGACA
Band lengths:
243-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]