RnoINT0123399 @ rn6
Intron Retention
Gene
ENSRNOG00000009402 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:RGD Symbol;Acc:1304691]
Coordinates
chr3:21789597-21790326:+
Coord C1 exon
chr3:21789597-21789722
Coord A exon
chr3:21789723-21790182
Coord C2 exon
chr3:21790183-21790326
Length
460 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TAATAAGTTTGATGTTTCAGGAA
3' ss Score
5.78
Exon sequences
Seq C1 exon
ATGCCTGAAGAACAGGCATTCAGTGTTCTGGTCAAGATCATGTTTGACTATGGTCTCAGGGAACTTTTCAAGCAAAATTTTGAAGATCTACATTGCAAGTTCTACCAGCTGGAGCGCCTCATGCAG
Seq A exon
GTAAAGGGAACTCAGACTGGATTGGATGAATAGGTGCAAACTAGTAACAGAAGGACTGGGAAACACGGGCTTTTATTCCTGTTTTTTCTCACTGTGTAATGAGGATAGGAATCTTATGTGTTTAAGTCAGTCTTAGATGGAAAGAAGTGTTCACCAAGGCTACAAAGGTATCTGTTTAAGAGTCCCCTACCAAAGTCAAACAAGCTTTCCAAAAACATTTCACCACTTGGAAATGAACACTGGCTTTCCAAATCTTTGTCATTATTCTGGGGGAATTCCTCTTTCTTTCGACTAGTTTGTAGGCTGAAAAGAACTGATAAGTGCTATGAACACTTAAGAGATACTTAGAAAAACAGACGTATATGGTTTTTCTAGGCTACTGCTGGCAGATTTATGAACCTCCTGAAAAATAATAGCATAATTGCATATGTGCCCAGCACTAATAAGTTTGATGTTTCAG
Seq C2 exon
GAATATATTCCTGATCTGTACAACCACTTCCTGGATATCAGCCTTGAAGCACACATGTATGCCTCCCAGTGGTTCCTTACACTGTTCACTGCAAAATTCCCTCTCTACATGGTCTTCCATATCATCGACCTGCTCTTATGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009402:ENSRNOT00000013378:16
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=0.000
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=FE(20.1=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(23.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACAGGCATTCAGTGTTCTGG
R:
CTCACATAAGAGCAGGTCGATGA
Band lengths:
262-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]