BtaINT0141433 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113438367-113439021:+
Coord C1 exon
chr4:113438367-113438546
Coord A exon
chr4:113438547-113438776
Coord C2 exon
chr4:113438777-113439021
Length
230 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
3' ss Seq
CGTTGGTGTATCTCCCCCAGGCA
3' ss Score
8.71
Exon sequences
Seq C1 exon
TCCATCCAGAGGCCAGCCCTGAGGGCCACTGCTTTGCCACCTGGCTGTGCAACCTGGGGGCAGGCTCAGTGAATGCGTCTGCAGGAAGTCTGGAGGAGTGCTGTGCCCAACCCTGGGGACACAGCTGGCGGGATGGCCGTTCCCAGACCTGCCACAGCTGCTCCAACCACAGTCGACTGG
Seq A exon
GTGGGTCCGCAGAGTTCCAGCCTGCGTGAAAAGCACAGCCCCAGCCAGGACCCTGTCCCCGACAGGCACCCCACTTAGAATTCTTGAGCTCTGGATCCCTCTGTGGAGCCCACTGCCCTCTTTGCTCAGAAAAGCCGCCCGCCACTTTTGGTCACCGTTGGTAACCGCGCACTGACCACCTCCACGCCGCTTCCTGCGCTCAGAGGTCACCGTTGGTGTATCTCCCCCAG
Seq C2 exon
GCAGCACACCCTCCCCAGCCATCCTGCAGCCCCTGGCGGGGGCTGTGGCCCAGCTCTGGAGCCAGCGCCAGCGTCCCTCGGCCACCTGCGCCACCTGGTCCGGCTTCCACTATCGCACCTTCGATGGACGCCACTTCCACTTCCTGGGCCGCTGCACCTACCTGCTGGCGGGTGCGGCTGATGCCACCTGGGCCGTCCACCTCCAGCCCATGGGGCATTGTCCCCAGCCTGGGCACTGTCAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:4
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:
NO
A:
NA
C2:
PF0009420=VWD=PU(35.4=63.4)
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:
CCTGAGGGCCACTGCTTTG
R:
GAAGTGGAAGTGGCGTCCATC
Band lengths:
306-536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]