GgaINT1026462 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:421773-422339:+
Coord C1 exon
chr2:421773-421870
Coord A exon
chr2:421871-422197
Coord C2 exon
chr2:422198-422339
Length
327 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTCT
5' ss Score
1.07
3' ss Seq
TCACCGCTGCCCTCCCACAGCTC
3' ss Score
9.53
Exon sequences
Seq C1 exon
GGGTGGTGGTGCAGGGGGCCGGGGCTGGGGATGCCTTCATCACTGCCTTCCAGCTGCAGTTCAGCACTGATGGGAACCGCTGGCACAACTACCAACAG
Seq A exon
GTCTCTGACAGCAGCTGGCCGGAGCCCAAGGTGCTGCCTGTGCCATGGGCACCCGCATGTGTGTGTGTGTGTGGGGAGGGGCTGCACAGAGCTGTCCCGAAGTGCACCGAGTGTCCCTTTGCAGCCAGTAACGTGATGACCCCGTGTCCCCTTCCCTGCACGTGTGGCTGGGTGCAGGTGTGCTGGTGCACAGCTGTGCACATGGATTTGCGCAAGGGTTTGTGCATGAGTTTGTGCAGGGGTGTATGCATGGGTGTGCACATGGGCACGTGCACAGGTGTGCACCCAGGAGTGCACCCCTTCACACTCACCGCTGCCCTCCCACAG
Seq C2 exon
CTCTTCCAGGGCAACTGGGATGCCACCACGCCGGTGGTGCAGCCGCTGGGCCGCATGGTGCAGGCGCGCTACGTCCGCATCCTCCCTCAGAGCTTCCACAACGCCATCTTCCTGCGGGCCGAGCTGCTGGGCTGCCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=FE(24.1=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=PD(30.8=85.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGGGGATGCCTTCATC
R:
CAGGAAGATGGCGTTGTGGAA
Band lengths:
190-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]