BtaINT0141491 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113480749-113481037:+
Coord C1 exon
chr4:113480749-113480901
Coord A exon
chr4:113480902-113480990
Coord C2 exon
chr4:113480991-113481037
Length
89 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
AGTCTGGGCTCCTCCCTCAGCTC
3' ss Score
4.93
Exon sequences
Seq C1 exon
GTCTTCCACGTCGGGCTCGTGGGCCCCGGAGTGTCGGGAGGAGCAGTCCCAGAGCCAGCCCTGCCCTCAGTCCCCGTGCCCACCCCTGTGCCTGCAGGGCACTCGCCCCCGCTCCCTGGGGGACAGCTGGCTGCAGGATGGATGCCAGCAGTG
Seq A exon
GTGAGCCCTGGGGCAGGGGCGGGGGGCAGACAGGGGAGGGTGCCATGCTGCTGGGCAGCAGCGTCCCTGAGTCTGGGCTCCTCCCTCAG
Seq C2 exon
CTCCTGCACCCCGGAGGGCATCATATGTGAAGACGCCGAGTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:93
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(53.1=50.0),PF0009313=VWC=PU(33.3=40.4)
A:
NA
C2:
PF0009313=VWC=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGTCGGGAGGAGCAGTC
R:
CACACTCGGCGTCTTCACATA
Band lengths:
169-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]