BtaINT0141487 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113440458-113441068:+
Coord C1 exon
chr4:113440458-113440610
Coord A exon
chr4:113440611-113440896
Coord C2 exon
chr4:113440897-113441068
Length
286 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GGGCTGTCTTGTCTTGGCAGGTG
3' ss Score
9.57
Exon sequences
Seq C1 exon
CTTGGGTGTCTGGATGCGGTGGAGGCAGCTCAAGGCTGTGAGGACCCCCTGAGGGGCACAGAGACGGGCACGGAGGCTGGCCAGCTTCGGGCTGAAGCCCAGGATGTGTGCCACCAGCTGCTGGAAGGCCCATTCAGAGAATGTCACACCCAG
Seq A exon
GTATGGATGGGGGTGGAGGTGGCATCAGGCATTAGAGAGGTGACGAGTGCTAGGGTGGTGCCAAACGGGGCCCCTGGTCCTGCCACCAAATTGCTTTGGGGCATGGGTCAGGGCACCCCGCCCCACTTGCCTTGATTTGATCTCTGGGAGATGAGATGGCCCCAATATGTTATCTCTAAGGTCCTTTGCAGCGTTCACATTTTTGATCGTAAAACAAAGGTGTTTGAGAAGCAAAAGGAGGGAGGCGCTGGATGCTGGTTGCTGAAGGGCTGTCTTGTCTTGGCAG
Seq C2 exon
GTGCCCCCTGCAGAGTACCACGAGGCCTGCCTCTTCGCCTACTGTGCTGGGGCCCCAGCGGGCAGTGGGCGGGCAGAGCGGCTGGAGGCTGTGTGCGCCACCCTGGCCAGCTACGCCCAGGACTGTGCGGCTAGGCGCATCGCGGTGCGCTGGAGGAAGCCGGGCTTCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF087426=C8=PU(26.2=41.2)
A:
NA
C2:
PF087426=C8=FE(71.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAAGGCTGTGAGGACCCC
R:
AAGCCCGGCTTCCTCCAG
Band lengths:
292-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]