BtaINT0141398 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113486624-113486944:+
Coord C1 exon
chr4:113486624-113486766
Coord A exon
chr4:113486767-113486895
Coord C2 exon
chr4:113486896-113486944
Length
129 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
AGCATTTGTCTTCCCCGCTTTAC
3' ss Score
-9.18
Exon sequences
Seq C1 exon
CTACTGCACAACGGCACGTGTGTGCCCCCTGCCGAGTGCCCCTGCACCCAGCTGTCTCTGCCCTGGGGCCTCACCTTGACTCTTGAAGAGCAGCATCGAGAGCTGCCCCCAGGGACTCTGCTCACCCAGAACTGCACCCACTG
Seq A exon
GTAAGGGCCGGGAGTGTGGGTGGGGAGAGTGTCAGGGTGGGGTGCTGGGAGTACGGGTGGGGAGCTGAGAATGGGGGTGGGGAGGAAGGCATGGCAGGCATCTGAAGAGAGCATTTGTCTTCCCCGCTT
Seq C2 exon
TACTAGCCAAGGTGGAGCCTTCAGCTGCTCCCTCACTGACCTGTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:106
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0182612=TIL=PD(21.8=25.0)
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:
CCTGCACCCAGCTGTCTCT
R:
GACAGGTCAGTGAGGGAGCAG
Band lengths:
148-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]