BtaINT0141470 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113471297-113471760:+
Coord C1 exon
chr4:113471297-113471503
Coord A exon
chr4:113471504-113471589
Coord C2 exon
chr4:113471590-113471760
Length
86 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
CTTCCTCTTCTGTTCCCCAGGAG
3' ss Score
10.91
Exon sequences
Seq C1 exon
GTCAGCCCACGTGGTCACCCTGGACCCCATGGAGCGAGTGCTCGGCCTCTTGTGGCCCAGCCCGGCGCCATAAACACCGCTTCTGCACCAGGCCCCCCGGTGGGGCACCGTCCAGCATGGCCCCGCCACTCCTGCTGTCCTCGGTGCCCCCTCTTTGCCCAGGCCCCGAGGCAGAGGAGGAGCCCTGCCTCCTGCCAGAGTGTGACC
Seq A exon
GTGAGTCCTGTGGAGCCCAGACGTGCCCACCACCTTGCCCCAGTCAAGCGCAGCCCCTCGCCACTGCTTCCTCTTCTGTTCCCCAG
Seq C2 exon
GAGCTGGAGGCTGGGGCCCTTGGGGACCCTGGTCCAGCTGTAGCCGGAGCTGTGGAGGGGGTCTCCGGAGCCGGAGCCGAGCCTGTGATCAGCCCCCACCCCAGGGCCTGGGGGATTACTGCGAGGGGCCTCGGGCCCAGGGGGCGGCCTGCCAGGCTCTGCCATGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:74
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=52.9)
A:
NA
C2:
PF0009014=TSP_1=WD(100=87.9)
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:
TAAACACCGCTTCTGCACCAG
R:
GCTACAGCTGGACCAGGGTC
Band lengths:
181-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]