BtaINT0141437 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113454831-113455273:+
Coord C1 exon
chr4:113454831-113455013
Coord A exon
chr4:113455014-113455122
Coord C2 exon
chr4:113455123-113455273
Length
109 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GACTCATGGCCCCTCCTCAGTGA
3' ss Score
4.35
Exon sequences
Seq C1 exon
GCTGCTGGTGCCCTGCGGGGCAGGTGCTGGGTGCCCAGGGGCGGTGCGTGTGGCCACGGCAATGCCCCTGCCTGGTGGACGGCAGCCGCTACTGGCCCGGGCAGCGTGTCAAGACCGATTGCCAGCTCTGCGTCTGCCAGGACGGGCGGCCCCGGCGCTGCCAGCCCAGCCCAGACTGTGCAG
Seq A exon
GTGAGCCCCACCCCGAGCCTTCCTGAGGGGCTCTGGTCTCCCCCAGGGGCCTCTGGTCTCCCCCAGACTGCCCCACCTCCCCCAGCCCTGACTCATGGCCCCTCCTCAG
Seq C2 exon
TGAACTGCGGCTGGTCAGCGTGGTCCCCCTGGGCTGAGTGCCTGGGCCCCTGTGGCAGCCGGAGCGTCCAGTGGTCCTTCCGGAGCCCCAACAACCCCCGCCCGGCCGGTCGAGGGCACCAGTGCCGGGGCCTCCACCGCAAGGCCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:43
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=0.059
Domain overlap (PFAM):
C1:
PF0182612=TIL=PD(36.8=33.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGCCCCTGCCTGGTG
R:
CACTGGTGCCCTCGACCG
Band lengths:
248-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]