BtaINT0141485 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113477951-113478814:+
Coord C1 exon
chr4:113477951-113478106
Coord A exon
chr4:113478107-113478604
Coord C2 exon
chr4:113478605-113478814
Length
498 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
GCATCCTGTCCCGCCCGCAGAGT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GCGGCTGGGGCCTGTGGTCCCCGTGGTCCCCCTGCTCCGGTACCTGCACAGACCCGGCTCACCCCGCTTGGCGCAGCCGCAGCCGCCTCTGCCTGGCGAACTGCACTGGGGGTGCCGCTTCCCAGGAACGCCCCTGCAACCTGCCCTCCTGCACAG
Seq A exon
GTGTGCCTTCTGGTCCTGACCTCTGACGCTGCTCCGGGTCTGGACCCTGAACCTCCCCTCTAACGCGTCATTCTAACCCCAGCCAACGTCCAGCCCCAAGCCCCACATCTAATACTCCTTGTGCAAATATGGAGTTCTCAACCTGACCCTGGGCCTCCTTTGTGAACCCCAACGGCTGTTGGAGAGCCCTGCCACCTTCCACCCATCCTCACTCATGTGGGTACCAAATACTCCCCCCTAAAAAGGTCCCATCCAAATCCCTCAGCCACCCTGGGAGTCTGGGACTACTGTCTCCCCGCCCTGAGCCACTGTCACCCCGAGAGAGGGGAAACCAAGGCCCGGTTGCCAAAGCCACACGACAGTCAGGGTCAGATCTGAAAGGGGGGCAGGATGGGGCATAGCCAGCTCCCGCTGAGGAGGTTGGCACTTGAGCTGGGCCGGGGAGGGTGGGGGTCAGGGAGCTGGCTGCAGCTCAGCGGCATCCTGTCCCGCCCGCAG
Seq C2 exon
AGTTGCCCCTGTGCCCGGGCCCTGGCTGCGAGGCCGGGAACTGTTCCTGGACTGCCTGGGCCCCGTGGGAGCCGTGCTCCCGCAGCTGTGGGGTGGGCCAGCAGCGCCGCCTGCGGGCCTACCACCCCCCAGGGCCCGGTGGACACTGGTGCCCTGACGTGCTTACAGCCTACCAGGAACGCCGCTTCTGCAACCTGCGAGCTTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:88
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:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=73.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGGTCCCCGTGGTCC
R:
AAGCTCGCAGGTTGCAGAAG
Band lengths:
349-847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]