RnoINT0123398 @ rn6
Intron Retention
Gene
ENSRNOG00000009402 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:RGD Symbol;Acc:1304691]
Coordinates
chr3:21786511-21789722:+
Coord C1 exon
chr3:21786511-21786585
Coord A exon
chr3:21786586-21789596
Coord C2 exon
chr3:21789597-21789722
Length
3011 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CTTCACTGCCTCTGTTACAGATG
3' ss Score
9.15
Exon sequences
Seq C1 exon
GCATATTCTGTGTATGATGAAGAGATTGGTTATTGCCAGGGCCAGTCCTTCCTCGCGGCTGTGCTGCTTCTCCAC
Seq A exon
GTGAGTAGCTGGGTCTGTGTCACTGATCCATGTGCCTGACTTAAGCAAGGCTTAAGGTTGGGCTTAGCCACATTCTTAGACGGAATCTTTAGCTTGTGTGTTTACAAACTTACTTTAACCTTAATGGCACTATGAAAAGAGATAGAATGAGGATAAATAGCAGTGTTGAAGGCTAGTGGAAGCTTAGATTTTTCTCAGGAGATTTAGATTTCTGCATTGGTTGACCCTTGGGAACATTCTGTAGTCTGTAAAGTAGCCACTATCATTAATATCTGTTTGGAAATGTATGTGCTGGGAAGAGAGCATGAATTTCTTTAGTATCATTTTATTCTTGGATTCATTTAATAAAGACCTTTACTCTCCTTCTTTTCCTTTTTTTATCATTCATAGAAATGTCAGCTGAACAGACATATTAGTCTTCGTTTGACTTCCAGCTACTGATTTATCTCTTTGTCTTCATTTTTCATTTCAGCAAAAACAACTTAACTATCTTTTAAAAGAAAGTAGCAAACATTTGAGCTTGTGTCTTATAAGGACCAGGGCATTCTGCATCATAATTGTAATGTGATCACATCCCACACTGATGTCCTGCCTTGCACTCAGTCCACAGTCAGTGCCCCTCCTCCCAGTGGACATATACTTCATTAGCTATTGGTTATTCTGTTGCATCAAACATACTAAGTTGAGTGTTTTAGCAGCGAGCTATATCCCCTGTCTATATGTGGTTCCTTTACAGCCATTACTCTGACTGTGATCCAGCAACAAGTCAGGTGCTGTATTTGTTTGTCTTCTCTCCTTATACTTTTTCTAAATCACCCTAATATCTCTGTTTGTTTCAAGACATTCACTTTTTAAAAAGAATATTTTAACCCTATCGCCTCATAAAATGTGTCATATTCTTTTTTTTTTTTTTTCCTTTTTCTTTTTTTTGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGTGTCATATTCTTAATTTTCAGTGTCATTAACCTTCTTCTGTATAACGTTGCTTTGGAGGTACTTTAAAACCATGAAGATATAGTAGAACATTGCTGTTAGAGGGATTATATATTACATGGAAGCCGAAGATTTTCAAATGTATGGAGTTTAAAGAGACATAAGTGTGACTACAGTAGGAGGAGAGAAAGAGACAACGAGGGAGGAAAACAAGGGCTCACCTGAGAACAACCATGCTAGCCAAAATAAAGTCCACGTGTTTGCTCTGAGAGGGCAGGGACTCTTAGGATTTTAAGCCATTTTGTGAAGATGGCTTTTTTACATGTAAAAAAGAAAAACACTATTGTCTCTACTGTAAACTCTGCTTGGAGGTGTGTGTAGCAAGCACAGCAGAGTTAGGGAGAAGAGTGGGGTTAGTTCTGGGTGACTGGGAATATACTAACACTGTGACATTGATAAACAGGTCAGGTTCTTTCTTCTTTATCATTTGTTGTCTTTGCCAGACTTTATATCTGTCTTGCACACCTATGGGGTTTGTTTGTTTGTTTGTTTGTTTGTTAAAATGGCTTTCTCAAATTTCGCTCCTGTTTAGAACTCCTATTTGCCTTAGTTTTAAGTGTTTGTTTCCCTGTAAGGGAAATGGGCAACCCACCATCAGAAACGCCACACATATTGAGCCACTTTCCCTCACATGTGGAAAGGGGAACCACATTCCACAGCAAAGATATCAGAAAAGCTAGCATTTTGCCCCAAATACCCTGTCCTTTCCAGTAAGAATCTACTAGGCTTTGTCTTGTGTTGCTCTTCCACTGTGCTTGCTTCTCTCTTGAGTCCTGGGTTCCAGCCACCTCCAATGCCATAGTCCACAGAAGCACAGCCACCATCTTGATTTTTCTGAACCTTGCTACTGTCAAGTAAAACCTTAAAAACATTGCCAGTGCTTTCCTTCTATCTGAAACCTAGACATCTCTCCATATTCTTGGAAGAATGTTCCATAAAGCCATGGAAGATGCACTTACTCTTAGGTGGATGTTTGTAGACAGAACTGCAGGAGCGCCTTGGGTCATTCAACACCACTGCCACCACCGCTGTTGCTGCTGAGCAGTAGACTGAGAATGTGGTGGGGAGGGGGGCTCTTCCAGAACAAGCTAATTTTTGCCTTGTTTTCTGAGACAATCTACTTTTTAAGATTTATTTTTGATTTATGTGTATTTGTGTGTGTCTGTGTGTGCCTATATGCATGTAGGTGCTTACAGAACCTGGAAGAGTACAGTGGATCCCCAAGAACTAGAGATAAAGGTGTTTGTGAGCCACCATTTGAGTGGTAGGAGTCAAACCCAGATCTTCTGCCAAGAGTAATAAGTGTTCCTAACCACTGGACCATCTCTCCACCCTCACAGCAGTTTTACAATTATTTCCTATTATTTACAATAATAGGAAAAACAATTTGCCAGAATGATATTATGGCAAGGGAAAGAAAAATAATTGAACAAAGGCCTTATGAGTTCAGAAAGCTGAAACATAGCATGTACCAGACTGTACCCACCTCTAATCCTGTGTTCCCAGAGGGCCTGTTCTGTTTTGGTTTTGGTTTATATTGTTTTGTTTATATTGAGACAGGGTTTTTCTATGTAGTCTTGGCTGTCCTGCAACTTGTTCTTTAAACCAGGCTAAACTCGAACTCATAGAGATCTACCTGCCTCTGCCTATCAAGTGCTAGGGTTAAAGGAATGCGTCACCAGCAATCTGGTTGATGGGCCTATTCTTGACTCTGTGCAGGAGGCACAGGCTTTGCTGTCCTGGGCACTTCCAGTGGTTCATAATTCATCGCTACATTCCTGCTTTGGGAGAGGCAGTGGCAGAACAGGCGTTATTAAACATTCCTAGCCTGAGTCAATTAATGCTGGGTTTTTGTACACCACTCCATTTCCTGATAACACAATGGAGTACAAGCTGAAGATACTGAGATAATTGTTTTGTTTCCTACCCCTTCACTGCCTCTGTTACAG
Seq C2 exon
ATGCCTGAAGAACAGGCATTCAGTGTTCTGGTCAAGATCATGTTTGACTATGGTCTCAGGGAACTTTTCAAGCAAAATTTTGAAGATCTACATTGCAAGTTCTACCAGCTGGAGCGCCTCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009402:ENSRNOT00000013378:15
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(11.8=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(20.1=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]