BtaINT0141419 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113447526-113448132:+
Coord C1 exon
chr4:113447526-113447620
Coord A exon
chr4:113447621-113447875
Coord C2 exon
chr4:113447876-113448132
Length
255 bp
Sequences
Splice sites
5' ss Seq
GTGGTATAT
5' ss Score
2.63
3' ss Seq
CTCTCCCCTGTTGCCCACAGCGT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GAGGAACGCTGCGTGCCTCCTGAGCTCTGTCCCTGCCGTCATGGCGGCCAGTGGTACCTGCCCAATGCTACAATCCAGGAGGACTGCAACCTGTG
Seq A exon
GTATATAGGCCCCGCCCTGTGACCTGTGACCCTGTGACCTAGTGACCCCTGGCTGGGGGTTGGGATGATGGGTGGGGCGGGATATCCAGACAGGCCTGGACAGTGGAAGCTCCCAGCATCTCTCTGACCTGAGGGTTTGTCTGGCGTTGCCTGGAATCCGGACTGCTGCCTCTCCGGCATTCAGCCCATTGCCCCCCGACCCTCTGCAATGGGTCCTGGTCTTCCTGATGGTTTCCTCTCCCCTGTTGCCCACAG
Seq C2 exon
CGTGTGCCAGGGTCAGCAGTGGCACTGCACGGGCCAGCGGTGCGATGGACGGTGCCGGGCGTCAGGCGCCCCTCACTATGTGACGTTCGACGGGCTGGCCCTCACCTTCCCCGGGGCCTGCGAGTACCTGCTGGTGCGAGAGGCCAGTGGCCAGTTCATGGTCTCCGCCCAAAACCTGCCGTGCGGAGCCAGTGGCCTCACCTGCACCAAGGCGCTGACTGTGCGGCTGCAGGGCACCGTTGTGCACATGCTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:26
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:
PF0182612=TIL=PD(17.3=28.1),PF053758=Pacifastin_I=PU(33.3=37.5)
A:
NA
C2:
PF053758=Pacifastin_I=PD(63.9=26.4),PF0009420=VWD=PU(45.3=78.2)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTACCTGCCCAATGCTAC
R:
CTCTGAGCATGTGCACAACGG
Band lengths:
302-557
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]