BtaINT0141403 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113488003-113488437:+
Coord C1 exon
chr4:113488003-113488063
Coord A exon
chr4:113488064-113488306
Coord C2 exon
chr4:113488307-113488437
Length
243 bp
Sequences
Splice sites
5' ss Seq
CGGGTACGC
5' ss Score
8.33
3' ss Seq
GCCCTGCCCCTCTCCTACAGAAG
3' ss Score
10.22
Exon sequences
Seq C1 exon
GGTGAGACGGCCGTGCAGGAGCCTGGAGGCTGCTGTCCCACTTGCCGCCAGGAGGCTCCGG
Seq A exon
GTACGCCGGGACGGGGGGCCCCTCCTGCCTGCTCTGGGCCCTTCTCCCACCCCCACCCCCTGCCCTCGGGAGGCCACCTTCCCCCGTCCTCCCCACCATGTAGATTAGCAGAGTGAAGACCCCCCGGCACTGCGTCACAATACCAGGCCACCCCACCCAGCCTGCCCTGCTCGGGTCCACGCTCTGTTGCCTCATGAAGTCCCCTCATCACGGTCCACTCCCTGCCCTGCCCCTCTCCTACAG
Seq C2 exon
AAGAGCAGCCCGTCTCCTGCAGGCACCTCACGGAGCTTCGCAACCTCACCAAGGGCGCCTGCTACCTAGAGCAGGTGGAAGTGAACTACTGCAGCGGGCACTGCCCGTCCAGCACCAACGTCCTGCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:110
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:
PF0009313=VWC=PD(25.0=66.7),PF053758=Pacifastin_I=PD(5.6=9.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACGGCCGTGCAGGAG
R:
CTCAGGCAGGACGTTGGTG
Band lengths:
189-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]