BtaINT0141467 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113469853-113470491:+
Coord C1 exon
chr4:113469853-113469998
Coord A exon
chr4:113469999-113470396
Coord C2 exon
chr4:113470397-113470491
Length
398 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGGAGGGTTTTTGATTCCAGAAC
3' ss Score
3.98
Exon sequences
Seq C1 exon
GGCCAGCGCCCGGTGTGTGTCCCCCGGGCAAGCGGTGGCTGGACTGTGCCCAGGGGCCTGCGTCCTGTGCAGAGCTCAGCGCCCCAAGAGGGGCTGACCAGCCCTGCCACCCTGGCTGCTACTGCCCTTCCGGGATGCTCCTGCTG
Seq A exon
GTGAGTGTCCCCTGCCTGGCCTCCTCAGGGCCTGGGCAGGGGCAAAGCCAAGAGTGTGGGGTGGGAGGGAGGGAGAGCCTGCAGGGTTGAGGACAGAGTGCTGAACTTGGGACACGTGGTTCTGCTCTGCCAGCTCCATGACCAGCACGTGACCCTGGGTGAGTGGCCATCAGGTCTTTTCTCCCAGAAATTGGGGGTCCATGCCCCTCCCCATGGCCCTTGCACCTGATGGTGTGCATTTACCCAGTGCTGGAAATTGGGAAGAAATGGGTGTTTGGAAGGAGTATCCGTGACATTTGAGGGTGGGTGCCTGCCAGGTGGGTGCTGAGCTCTGCTTTGGGGGAGCGTGGGCAGAACGCGCTGGAAACCAGAAGGCAGTGGAGGGTTTTTGATTCCAG
Seq C2 exon
AACAACGTGTGCGTGCCCACCCAGGACTGCCCCTGCACCCATGGGGGACGCCTCCACCCCCCAGGCAGTGCTGTGCTTCGTCCATGTGAGAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:71
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:
PF0009014=TSP_1=PD(2.3=2.0),PF0182612=TIL=PU(79.2=85.7)
A:
NA
C2:
PF0182612=TIL=PD(17.0=28.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGACTGTGCCCAGGGG
R:
TCTCACATGGACGAAGCACAG
Band lengths:
199-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]