DreINT0123704 @ danRer10
Intron Retention
Gene
ENSDARG00000103899 | rabepk
Description
Rab9 effector protein with kelch motifs [Source:ZFIN;Acc:ZDB-GENE-040704-52]
Coordinates
chr5:2452694-2453884:-
Coord C1 exon
chr5:2453735-2453884
Coord A exon
chr5:2452938-2453734
Coord C2 exon
chr5:2452694-2452937
Length
797 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGA
5' ss Score
8
3' ss Seq
GCTTGTTGTTTCTTCCTCAGATA
3' ss Score
9.52
Exon sequences
Seq C1 exon
AGTCTCTGAAATGGCAGAAGGTGAAGGCTAAAGGTGATCTCCCACCCGGAGTCGCAGCTCATTCATCTGTAACATTCAACAAAAACATCTTCATCTTTGGAGGAATGACGGCAGACGGAGCCACAAACTCCATGTTTAAGTTTCAATGCG
Seq A exon
GTACGATAGCATCACAATATGACCAGCTTTTCTTTAAAGGGGATTTATTATGCCCCTTTTGTAAAATAAGATGCCAAATAATGTCTCTAAAGTGTGTGTAGAGAAGTTTGAGCTCAAAATATTACACAGATGATGTTCTCCAGCTCTCTGAAACTGACCCTTTCAGGCTTCGATACTAATCGTGGTGTTTTGGTGACTGTCGCTTTAAATGCAAATGAGATTCTGCTCTTTTCAGAAGAGAGTGGAGCTACAGATGCATATGCATGAGCATAGTGACAGATGTAAACAGCAGTGTGTGTGTTATGTGTGCTTCAGTGTGAGTGTGTGCTTGATGCTTCTGTCAGTCTATGTGGCTCCTCTATCTAAAACTCCACATCTATAATCCTCTTAGTCTATGCTGACATTATCTTCAGCAGCTCAAACACTCTAATGGCTAATGGACAGACGGCTGCTTCTCACTCAGGGCTGCTGGAGATGCTAATGAGATGGAGAGATGGGCACTAGTGGGCGGGGCTTTCCCCCTCTGATGACACGTACAAAGGGAGAATGTCAATCACAGTGTTTCACTCATCAAGTCTGATTAGAACAAACTCAATTAATTACTGTTGAGCATTAGATGCTGCTGGAGATATTCACACACAACTGTGTTTAAACCCCTCATTAAGTGAATTTTGCATAATAGGTGCCCTTTTAAATGTATGGAGTCTTAAAAAAAGGTCTTAAAAGGTATTATTATTTACTAATCAACAGCCTATCATCAATTTTCCCTCATGTTCTGCTTGTTGTTTCTTCCTCAG
Seq C2 exon
ATAAACAGCGCTGGACTCTGCTGAAGTTTGAGGGGGATCTTCCTCCGGGTCGGCTGGATCACTCCATGTGTTTACTGCCGTGGAGAGTAAAGATGGAGGACAGCGAACATGCAGACGTTCAGCATCTGTGCTTTGTCTTTGGAGGAATGGACACTCAGGGCGTCATATTCAACGACTGCCTTGTTACTGTGCTGACGTGACCAGTGTGCTTTAATATTCAATAAATAAATCCTCAAACCGCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103899:ENSDART00000158694:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134181=Kelch_4=PD(30.6=29.4),PF134151=Kelch_3=PU(48.0=47.1)
A:
NA
C2:
PF134151=Kelch_3=PD(50.0=37.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATGGCAGAAGGTGAAGGCT
R:
AAAGCACACTGGTCACGTCAG
Band lengths:
354-1151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]