BtaINT0141493 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113481224-113482340:+
Coord C1 exon
chr4:113481224-113481568
Coord A exon
chr4:113481569-113482172
Coord C2 exon
chr4:113482173-113482340
Length
604 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TGGCCCCACTTGGTCCCTAGAGG
3' ss Score
7.33
Exon sequences
Seq C1 exon
GGCTCGGGGCCTGGACGCCGTGGTCCCCCTGGTCTGACTGCCCTGTCTCCTGTGGAGGTGGAAACCAGGTCCGCACCCGGGTCTGTGTGGCCTCGGCCCCTCCCCGAGGGGGCTCCCCCTGCCTGGGCCCCGATGTCCAGAGCCAGCGCTGCGGGCTGTGGCCTTGCCCGGCGCTGCCAGACACCTGCTCCTGGGGCCCCTGGGGGCCCTGCTCCCGCAGCTGCGGTCCGGGCCTGGCCTCTCGCTCTGCGTCCTGCCCCTGCCTGCTAGCTGAGGCTGAGCCCGCCTGCAACAGTACCTCCCCGCGCCTGGACACCCAGGCCTGCTATGCGGGGCCCTGCCTGG
Seq A exon
GTGAGTGCGCGTCAGAAGCGAAGCCCCCTTCTCTGTCTCCTACTTGCGCAAGATCCAGAGAATGTTTATTATTATAATCAAGTTCCAGATTATCTCCCCAAAATATACGTCTGTTTATTTCCTCCCAAGGGATTCCCAGGTGGCTCAATGGTAAAGAATCTGCCTGCCAGTGCAGGAGCCACAGGGGACCTGTGTTTGATCCCTGGATTGGGAAGATCCCCTGGAGGAGGGCATGGTAACCTACTCCAGGAATCTTGCCTGGAGAATCCCATGGACAGAGGAGCCTGGCAGGCTACAGTCTGTGGGGTCACAAAGAGTCAGACACGACTGAGTGACTGAGCAAGCATGCACCTCCTCTCAAGACTTTTTTCAGTGTTTTCCCTCTTCCACCATCAGTCCTTTAGAGCCCTGTGGCATGTGACCCTCACTGCTGGGTGGCAGGGAAGCCCGCCAGCTGGGACCTTTCGGAATTCTTGGCTTCCTTTGGCCCTTTGCCTGTTCAGGGTGTTGGCTGGGGCTGGGATGAGAGGGGAGGGTGGGTGGGAGAGAGGCTGGGGAGCTCAGAGAGGCCCTTGGCTGAGCCCTGGCCCCACTTGGTCCCTAG
Seq C2 exon
AGGAGTGTGTGTGGAGCAGCTGGAGCAGCTGGACGCGGTGCTCATGCGAGGTGCTGGTGCAGCAGCGCTACCGACACCAGCGGCCCGCGCCCGGGGGCGCCGGGGCGGGCCCCCCCTGCACTCGACTGGACGGCCACTTCCGGCCTTGCCTCACGGGAAACTGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:95
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=0.018
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(39.7=21.6),PF0009014=TSP_1=WD(100=44.0),PF0009014=TSP_1=WD(100=44.8)
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:
TCCTGTGGAGGTGGAAACCAG
R:
CACCAGCACCTCGCATGAG
Band lengths:
357-961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]