GgaINT0125970 @ galGal4
Intron Retention
Gene
ENSGALG00000001002 | RABEPK
Description
Rab9 effector protein with kelch motifs [Source:HGNC Symbol;Acc:HGNC:16896]
Coordinates
chr17:9589441-9590101:+
Coord C1 exon
chr17:9589441-9589602
Coord A exon
chr17:9589603-9589951
Coord C2 exon
chr17:9589952-9590101
Length
349 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
CACACGTTCCCATTTTTCAGTTG
3' ss Score
8.73
Exon sequences
Seq C1 exon
AAATAGGAACCTGGGAGAGTCCCGAGGTGACGGGCATTCCGCCACTGCCCAGGACATTCCACACCTCCTCGGCAGCTATAGGGGACTGTCTGTATGTCTTCGGAGGGGGAGACAAAGGAGCGGAGCCGGTTAAAGACCAACAGCTTCATGTCTTTGACACAG
Seq A exon
GTACCTCTGGGTGTGTCACGGGCTGTGCCAGCAGTGGAAATAACCGCCCACTGTACTGGAGGTCTGCCTCCCAGATTTTGTCAACCTTGGCCGCAAGTTTAAATGGAGGGATGAAGGTTCCTGCTGATGAGTGCTCACCTCTGAATTGTAATGGGGAATTTGGGCCAAAGTGGCAGTGTAAAGATTTGTGATGGGAAATGCTGTGGGACTTCTCATGAACTGTTGATATTTTTCTGTTCATTCCTATGGCCCTGCATGCACCAGAAGGGAACCCCGGCGAGACTCAGGGGCCACTGGTTTGCAGAGCTGTCCGTTTTCCTCCTCATACACACACGTTCCCATTTTTCAG
Seq C2 exon
TTGCTTTGGCATGGACCCAGCCTGACACCCATGGTGATCCGCCTTCTCCTCGGCATGGACATGTTGTAGTTGCAGTTGGGACCAAGCTTTTCATACATGGAGGTTTAGCTGGTGATATTTTTTACAATGACCTGTTCTGCATTGATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001002:ENSGALT00000001479:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.235
Domain overlap (PFAM):
C1:
PF134151=Kelch_3=PD(51.0=45.5),PF134151=Kelch_3=PU(50.9=49.1)
A:
NA
C2:
PF134151=Kelch_3=PD(47.2=49.0),PF134151=Kelch_3=PU(48.0=47.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATAGGAACCTGGGAGAGTCC
R:
TGTATCAATGCAGAACAGGTCA
Band lengths:
310-659
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]