GgaINT0095173 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:415624-416063:+
Coord C1 exon
chr2:415624-415826
Coord A exon
chr2:415827-415935
Coord C2 exon
chr2:415936-416063
Length
109 bp
Sequences
Splice sites
5' ss Seq
ACCGTACGG
5' ss Score
4.64
3' ss Seq
TGGTGACATCTCCCCACCAGGAC
3' ss Score
6.97
Exon sequences
Seq C1 exon
GCACGCGGGTGTACATCCGGCTGCAGCCGCAGCACCGGGGCCGCGTGGTGGGGCTCTGCGGGAACTTCGATCGTGACGCGGAGAACGACCTGGCCAGCCAGCAAGGTGTGCTGGAACCCACGGCCGAGCTCTTCGGCAACTCCTGGAGAGTCAGCCTGCTCTGCCCTGAGGTGGACGGCACGACCGTGCAGCACCCCTGCACC
Seq A exon
GTACGGATGGGCACTGAGTGGGGGACCCACGGGGCTGGCTGCTGTGGGGACAACAGCATGGGGTAATGCAGGGGGGCTTCCAATGGTGATGGTGACATCTCCCCACCAG
Seq C2 exon
GACAACCCACACCGGGCAACGTGGGCCCGCAAGCGCTGCAGCATCCTGACACAGCGGCTCTTTGCGCCCTGCCACGACGAGGTGCCGTGCCAGCACTTCTATGACTGGTGCATCTTCGATGCCTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:23
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:
PF0009420=VWD=PD(24.0=52.9)
A:
NA
C2:
PF087426=C8=PU(49.3=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAACTTCGATCGTGACG
R:
CCAGTCATAGAAGTGCTGGCA
Band lengths:
253-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]