BtaINT0141427 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113450733-113451083:+
Coord C1 exon
chr4:113450733-113450829
Coord A exon
chr4:113450830-113450913
Coord C2 exon
chr4:113450914-113451083
Length
84 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CCCGGACGCCCTGTCCTCAGCAC
3' ss Score
5.17
Exon sequences
Seq C1 exon
GAGGTGTCTGCTTGGAGCCGGCTGCCTGCCCCTGCGAGTGGGGGGGCAGCTTCTTCCCACCGGGCACGGTGCTGCAGAAGGACTGTGGCAACAACTG
Seq A exon
GTGAGCAGGGGCGGGGGGGTGCCCCTGTGCCCTGGGCTGCCCAAGCCCAGTGCTGCCGCTGATCCCCGGACGCCCTGTCCTCAG
Seq C2 exon
CACGTGTCGGGAAAGTCAGTGGCTTTGTGGGGACGATGGCGGCCGCTGTGTGGAGCCCGGGCCTGGTTGTGCGGAGGGAGAGACCCCATGCCGCGAGAGCGGGCACTGTGTGCCCCACGGGTGGCTCTGTGACAACCAGGATGACTGTGGCGATGGCTCAGACGAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:33
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:
PF0182612=TIL=PD(15.8=27.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=PU(94.7=62.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCTGCAGAAGGACTGTG
R:
CATCCTGGTTGTCACAGAGCC
Band lengths:
173-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]