RnoINT0123404 @ rn6
Intron Retention
Gene
ENSRNOG00000009402 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:RGD Symbol;Acc:1304691]
Coordinates
chr3:21804464-21805034:+
Coord C1 exon
chr3:21804464-21804556
Coord A exon
chr3:21804557-21804923
Coord C2 exon
chr3:21804924-21805034
Length
367 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
GCTTTTTTTCCTTCATGCAGCGG
3' ss Score
9.41
Exon sequences
Seq C1 exon
ATTAGCCAAAAGAAGCTGAAGAAGTTTGAAAAAGAGTACCATACCATGCGGGAGCAGCAGGCCCAACAGGAAGATCCCATCGAGCGGTTTGAG
Seq A exon
GTTTGTTTTATGGCCTTTTATATCATCAACTTATGCCCACAGCTAGCTTTATTGGCTCTTTTCAAAAATTCAGTTTCACTGTTTCAAGACTGGTTTTCCGAGTTTCCAAAACGTAAGTAAGAGCTGTTTTGCTGCAAACCAGCTACCAAGGTCGGATGCTCTCTCCTCAGTCAGTCAGAGACGGCTGCTTGATGAAAGTGTCAGTTAGACTCTGTGACGAGACAGAAAATTAGAAATTGCTTGTTTAGAAACATGATTGCATGGGCCATGTCTCTTTATTCCGTAGGACTTGAAGACTTAATTTGAACTATCATTTCCATTTGATTTGTTTTTTATGTCCAAAACTGGCTTTTTTTCCTTCATGCAG
Seq C2 exon
CGGGAAAATAGGCGGCTACAAGAAGCCAACATGAGGCTGGAACAGGAAAACGACGACTTAGCCCATGAGCTGGTCACCAGTAAAATCGCACTGCGGAAGGACCTGGATAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009402:ENSRNOT00000013378:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.324
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAAAAGAAGCTGAAGAAGT
R:
TTATCCAGGTCCTTCCGCAGT
Band lengths:
200-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]