RnoINT0123400 @ rn6
Intron Retention
Gene
ENSRNOG00000009402 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:RGD Symbol;Acc:1304691]
Coordinates
chr3:21790183-21791743:+
Coord C1 exon
chr3:21790183-21790326
Coord A exon
chr3:21790327-21791701
Coord C2 exon
chr3:21791702-21791743
Length
1375 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GTCTTGTTCTTCTCTTTCAGGGA
3' ss Score
12.88
Exon sequences
Seq C1 exon
GAATATATTCCTGATCTGTACAACCACTTCCTGGATATCAGCCTTGAAGCACACATGTATGCCTCCCAGTGGTTCCTTACACTGTTCACTGCAAAATTCCCTCTCTACATGGTCTTCCATATCATCGACCTGCTCTTATGTGAG
Seq A exon
GTATGTATCAGAGGCACAGGACCTAGACTTGGGTATTGAGTACACTTTAAGTACTATCAAGTCTCCTGTCCTCTGTTTTGTTTTGGTATTTCCAAGTCTGGGTTGAGGTGGTTATTCCTGAGGCTAGTGTTCTGCTCACCTTTGTCACAGAGGCTTTCTGCTAAAAAGACACACGTCCCACATGGAGATGAGATAGTATTTGGTTTGGCTCTGAGACACTGAGTAAGTGAAACAAGAGGTTTCTTTCTTGTGTATAGGAAGACAGATTGACAGTACCCTGCTTTCTTACAGTCTTAGCATTAGAACTAAGCCACAACTCTCAAACCTGCATTTGCATCGGGAGCTGGTACTGTATGTGTATGTTGGTTTGTTTAGGGTTGTCTGGATGCAGAGAGTGCCGGTGTGTGCCACATCTCCTGCCCTGAGACTTTGCTGGAGGTCTCATCCACCATTTCCATGGATAGGGGTGGGCTGAGTTACATGACCATGCTAGCTAAAAGAGAGATGTTTTGAGGCTGGGTAGGAATTTGCTAAAAGTAGAGCACTGTCACTAAAAGGAAGAAGGCAGTGTGAAAATGCCCTTAGCCATGACATAGCTTGAGATTTGAGGGGTCTATATGTTTAAGAAAGGAAAAAACAACTAATTATAAATAACGTGCTTATGGCAGAAGCTTTAGAAAATGTGATTAAAAACTATTGAAAATAATTTAGTCACACTGTCTCTACAGTTTACTTATAAAATTTTGGCATATATTCTTTCACCATTTTTGCTTTACAGAGCTGGACCTAAAGGAACATTTCAGAAGAAAATGAATTTAAATGTATCACAGATCTATTTTTATAATTTGAAACAAATCTGTAATTCCATCACTTAGAAGGCAGAGACTTCAAGTAGAGCTCTTTGAGTTCAAGGACAGCCTGGTCTACCGCGAGAGCTCGAGGACAGCCAGGCTTACACAGAGAAACCCTGCTCAAAAAGAAACAAAGAGAAAGAAAAACATACTAGTTATAGGAACCAAGGCCCAGACACTGTTAGCTTGAGTTTAGTTTTAAGACAGTTGTTAACATCTTCCCTCACCTGTTCTTTACCCCACTATTGCCATTTTGTTCAGATAAGGAAGACAGATTAAGAGACCTGTAGGGAAATTCAGTTCTGGGGTACATGGGGTTGCCATATTTGTAGGCTACTATTTGGTGTCATGGACTATTTCGGAAAAGCATTCATTCTTCTGAAGTGTGAGGATAGGGCTGGTAAAGGTCTTCTCTGAGGAAAATTGTAGATTGGGTCTCCTTTAAGCACCTTTCCTTGAAGGCCCTGAAGCTAATTGAACAGAGCAGGTACAGAGAATAAAGCTGTCTTGTTCTTCTCTTTCAG
Seq C2 exon
GGAATAAGTGTCATCTTTAATGTTGCCCTTGGATTACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009402:ENSRNOT00000013378:17
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(23.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(6.4=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:
ATATTCCTGATCTGTACAACCACT
R:
CTTTAGTAATCCAAGGGCAACATT
Band lengths:
182-1557
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]