GgaINT1023199 @ galGal4
Intron Retention
Gene
ENSGALG00000001002 | RABEPK
Description
Rab9 effector protein with kelch motifs [Source:HGNC Symbol;Acc:HGNC:16896]
Coordinates
chr17:9589166-9589602:+
Coord C1 exon
chr17:9589166-9589307
Coord A exon
chr17:9589308-9589440
Coord C2 exon
chr17:9589441-9589602
Length
133 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TAATTTAATGTCTTAATTAGAAA
3' ss Score
4.02
Exon sequences
Seq C1 exon
CTGGGCCCGGCTGCCTGGAGCGGACTGCGGCCGCGCTACGAGCACGCCACGTTCCTGTCCGCCTGCCGTCCCCCGCGCCTCTGGGTGTTCGGTGGCGCGCACCGGGCCGGGAACCGGAGCTGCGTCCAAGTGCTGGACCCCG
Seq A exon
GTGAGTGCCGAGCCCCCGTCGGATGCCGGAGCTCGGCAGAGCGGGTGTGGGTCCGGGACAGTGGCACGGAGTGGCCCCGCGGATCTCATGCGTGGCTGCCGTGTTTGCTTTCTTAATTTAATGTCTTAATTAG
Seq C2 exon
AAATAGGAACCTGGGAGAGTCCCGAGGTGACGGGCATTCCGCCACTGCCCAGGACATTCCACACCTCCTCGGCAGCTATAGGGGACTGTCTGTATGTCTTCGGAGGGGGAGACAAAGGAGCGGAGCCGGTTAAAGACCAACAGCTTCATGTCTTTGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001002:ENSGALT00000001479:4
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=0.091
Domain overlap (PFAM):
C1:
PF134151=Kelch_3=PU(46.9=47.9)
A:
NA
C2:
PF134151=Kelch_3=PD(51.0=45.5),PF134151=Kelch_3=PU(50.9=49.1)
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:
CTACGAGCACGCCACGTTC
R:
GTCTTTAACCGGCTCCGCTC
Band lengths:
244-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]