BtaINT0141469 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113471031-113471503:+
Coord C1 exon
chr4:113471031-113471083
Coord A exon
chr4:113471084-113471296
Coord C2 exon
chr4:113471297-113471503
Length
213 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
CTCCCTGCTGCGCACCCCAGGTC
3' ss Score
7.3
Exon sequences
Seq C1 exon
CTCCTGTGTCTCTGGGCTCATCACTAACTGCACCTCCTGGCCCTGTAAGGAGG
Seq A exon
GTGAGAAGGGGGCCTCTCCTGACTTCACTCCCCCTGCCCCGCCAGAGTGGGTCTGTGCAGGGGTGGGAGGGAGGTAGCACTGGGGAGGAAAGCCCTTGGGAGAGGGGGGCAGGGAGGGGGCGGCCTGTCCTATGCACCCTGCCCCTCGCCCTTTGGGCCCCTTCGGCCTTCCATTGCTCTGTCCTCTCTGCCTCTCCCTGCTGCGCACCCCAG
Seq C2 exon
GTCAGCCCACGTGGTCACCCTGGACCCCATGGAGCGAGTGCTCGGCCTCTTGTGGCCCAGCCCGGCGCCATAAACACCGCTTCTGCACCAGGCCCCCCGGTGGGGCACCGTCCAGCATGGCCCCGCCACTCCTGCTGTCCTCGGTGCCCCCTCTTTGCCCAGGCCCCGAGGCAGAGGAGGAGCCCTGCCTCCTGCCAGAGTGTGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:73
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=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=52.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGTGTCTCTGGGCTCAT
R:
GGTCACACTCTGGCAGGAGG
Band lengths:
260-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]