GgaINT1026480 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:436226-436899:+
Coord C1 exon
chr2:436226-436378
Coord A exon
chr2:436379-436852
Coord C2 exon
chr2:436853-436899
Length
474 bp
Sequences
Splice sites
5' ss Seq
ATGGTCAGT
5' ss Score
6.57
3' ss Seq
CTTTTTATCCCCTCCCACAGCAC
3' ss Score
9.8
Exon sequences
Seq C1 exon
GACGCCCACGGCGGGCTCATGGGATGAGGAGTGCCAGGGGGAGCAGATGGAGAACCGGGGCTGTGCTGCAGGGCCTTGCCCACCCCTGTGCCCCCAGGGCAGCTGGGAGAGGCGGCTGGGGGACACGTGGCTGCAGGGCGAGTGCCAGCGATG
Seq A exon
GTCAGTGCCCCAAGGGGGGGTGTGGGGTAGGCAGGGCTGCTCCTGCATTGCCTGCAACGTGGGCATCATCTACCCCATGGGTACAACCTACCCTATGGGCATCACCCATCCCATTAGCATCACCCACCCCATGGGCATCACCATCAGCCCAATGGGCATCACCCACCCTACAGGAACAACCTACCCCGTGGGCACCACCTCCCCTGTAGGCATCATCCACCCCACTAGTTTCCTACCCCATGGGCAACACCTATCCTATGGGCATCACATACCCCTCGGGCATCACCCACCCCATGGATAACACCCACCCCCACGGGGAGCACTTATCCTATAGGCATCACCTACCCTGTGGGCACCACCTGCCCTATGGGCATCTCCTGCCCCGTAAACATCATTTACCTCTTTAGCATCCTGCACCGTGTTGCCATCACCACCCGCCCCATGGGCACTGACCCTTTTTATCCCCTCCCACAG
Seq C2 exon
CACCTGCACACCAGAGGGCACTGTCTGTGAGGACACCACCTGTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:82
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(54.2=50.0)
A:
NA
C2:
NO
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:
GGCGGGCTCATGGGATGA
R:
GGCACAGGTGGTGTCCTCA
Band lengths:
190-664
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]