GgaINT1026443 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:411386-411766:+
Coord C1 exon
chr2:411386-411512
Coord A exon
chr2:411513-411593
Coord C2 exon
chr2:411594-411766
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
CTTTCCTGCACCCCACACAGGAG
3' ss Score
7.35
Exon sequences
Seq C1 exon
GACTTTGTGGAGGGGACGCTGCGGATCACGGTGGAGCAGGAGGCATGCGGTGGCCACCAGCCCCTCAGCTGTCTCCGGGCGCTCTCCATCACAGTGCCGGGAACCTCAGCCCGGCTGCACAGCACAG
Seq A exon
GTGACCCCCAGGTTGGGTCAGGGCAGAGGGCACCAAGCAGGGTTCGCACTCCCCTTACACCCTTTCCTGCACCCCACACAG
Seq C2 exon
GAGAGGTGGTGGTGGATGGGCGCGTGGTGCCGCTGCCCTTTGCCAGTGCTGCGCTGACTGTACGCCGAGCCTCCTCCTCCTTCCTGCTGCTCCAGACCTTTGGGGCCCACCTGCTGTGGGGACTGGAGACCCCTGCAGCATACATCACCCTGCAGCCTGCCTTCGCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:14
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:
PF0009420=VWD=FE(27.8=100)
A:
NA
C2:
PF0009420=VWD=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCCCTCAGCTGTCTCC
R:
AAAGGTCTGGAGCAGCAGGAA
Band lengths:
170-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]