RnoINT0123405 @ rn6
Intron Retention
Gene
ENSRNOG00000009402 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:RGD Symbol;Acc:1304691]
Coordinates
chr3:21804924-21809999:+
Coord C1 exon
chr3:21804924-21805034
Coord A exon
chr3:21805035-21809894
Coord C2 exon
chr3:21809895-21809999
Length
4860 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
GCATCTTCTTGGTGTCTCAGGCA
3' ss Score
6.2
Exon sequences
Seq C1 exon
CGGGAAAATAGGCGGCTACAAGAAGCCAACATGAGGCTGGAACAGGAAAACGACGACTTAGCCCATGAGCTGGTCACCAGTAAAATCGCACTGCGGAAGGACCTGGATAAT
Seq A exon
GTAAGTGTGACAGAGCTCAAGAGAAAGCTCACGCCAAGGACATCTGAGTCCTCCCTTGAAGTTCAGTGTTGACTGCTGTAGATGCTTATCAGCCCTTCCCTTAGAATCCAGCTCTTTTGTCAGCCTTTCTTTCAGAAATACTTCCAGTGTGCCGTCCTCCATGTGTTCACTTCCTGCCTTCCCAAACACTGAGAAGGTGTGCTGGGCTCTGTGGGGAAGAAGGCATCTTTCACCAGTTCCCATGCTATTGACTAGCAGCAGCAGTTGTTCAAGCTTCCTGGATTCCACAGGAAGAGGTGCAGAGGTTTCTTTTATTTCTCTTCCTGTTGTGAGCCTTCTGGGTTTCTGCTCATGGGGATTCCATTCAGTGCTGAGCAACCTATTACATTTTGTTTGTATTCCTGATCCTGACAGAATGACTGTCTGCTTTGTGTACTGCAAGTTTCTGAAACTTCAGAGGAACTAGTCTCATTCATGACTTAGGATTGACAAACTTATTCTGTGGCAACATAGGTTTTGAGGGCCTGTATTCTCTATTGCTACTATGTGATTCTAATGGTGATAAACAAAAGCAGTTCACAGATAAATGAGTGAATGGCTGTTTTTTTAATAAAAATTCACTTATATAAAAATTGGACTGGATATTGTCCCTGAACTACAGTTTTTGCAAGCCCTGGGATTTAACCTCTCAGTATCTTGAGATGACGTCTTCGTTGGTTTGCCAGGATGCAAGCAATATACTTAGGCTTCGAAGACCTTATAAGCTTCTCGCATTCCTATATGCATTATATCTCTAGAAAGAATATGAACTTCAGAAAGTCCTTGACATCCACCCAAGTATTTAAATCTGTGCATATTATATTTCCTTGGAAAACATGTTCTCTTATTGATTGCTCAGGGTTGTTAAAGCATTAAAGAAAAATATGGCTGTATCTACTGGTTCTTTACATTATCTCAGAAATTAAAATTTTCAGACAAACCTAGTTTGTAAACCTAGTTTGCTTTCCTAGCCAACTGGATACTGAGATCTAGGCGGGAGTAGAAATAATGGCTATGGCACAGGTATAGTTCAAATTGCATAATTTGGCATGCTGTACCAAGAAAGCACCCCTGCTTATCAGACATGACTGAGAAGGCTTCTGTCTCCAGCCATCGTGCAAGGCCATTAGCTCTCCGTGACTAACACCTGGGCTCTCACTGCCCTTCTAACTAACATACGCTGACTTGTCAGGGTTAAGCTTCTTCTCCCTGTTTAGAAACCTTGAAACCTTGTTCGCACTGCTCAGGCATTTCTGCCTGGAGCATAGGGAAGCTTGTATAAATAGAGCAGAGCCTGTTTGAATAGAGCTCCAGAGTTCATCTCACAGTCCCCTCCCGGCTGTGGATGGTAAGGAAAGGCAGTCAGTGTTTAACAATGTCCTCAGTGTGCAGCAGCAGCAGGTTGGCCATTGCACTCGCTGGGTGCTCAGCTTAAGAAATTGTATTTTCTCATTTGTAAGAACATGTGGTAGAAGTCATCAGTAGTTTGAGGTAGTCTTGCATTGTTGTTGTTTGGTGTGGGAGAGTGGGGGTCTTTTTTTTGGGGATTGTTTGTTTGTTTTAAAACAGGGTTTCTCTTTGTAGCTGTGGCTGGCCTTGGACTCTGTAAACCAGTCTGGCCTCGAACTCAAAAGATCCTTCTGCCTATGCCTCCCCAGTACTATGATTAAGATGTGGGCCACTGCTGCCCATCTTAGACTTTTGATTCATGAAACCTGTCCCTGAGCAGTGTCAACCTTTTTTTCATGTTGGCTCATCTAAAACTGTAATCATAAAAATAGGTTACATTCCTGGGCCCTGAAGTAGAAAAAAATGCAAACTGTAGCAGTCTGTCCTGGTCCTGGTCCTGTGGCACCAGGCAGATTACAAGTATTTCCCAACTCAGTTAATCCTCATTCCCTCCTTACCAGGCAGAGGTAAGAATAGCTTACTTTTTTTTTCCTTTTGAGACAGGATCTTACTATGGAGCTCCCACAGACTTAGAATTTTCTATATAGACCAGGGCGGCTCAAATGCACCACTACACCAGGCTAAGAATTTTGTTTTTATTTTAATAAGTATGAGGTACTGAGGTGAGGAGTGAAAATACCCAGAAAGCTAGACACATCTGGACCTCACTGGATTGTCTGAAATCCTTTCTGTGATACTATACAGTTGCCATTATAGACAAGAACCAGTCAAGGAGATATGATTTGATGTTTTAACTACATGGCAAGCACAAGCGAAGGAAGGTTAGTGAGTCTGACCTGTGAGAACTAGCATGTTTTTAGCACTGTTGGGTGCTAGGCACTGTTCCAAGCACTCTATAACACCATCTTTGTGAACCTTCAGAACAGGATCATGACTCCCTTTCACAGATCACAAAATGGGAGCAAAGCAGGTTGACCGTCTTAAAGAGATAGGTTGTCCAGCTAGTCATTGAGCAAACCCATCACAGTGAAAACCCAGATGGCCTAAGTCCAATGCTTACACTCTCCAATCAAGAACACTGCCAAATAAGACTCAGGAGCACCTGGCCACCTCCCACAGTTCTGAGTAGACTCTTCCAAACCATTACTGAAGACGATAGAAAAAGAAGGTGGGGTGCTCTCATATTCTTTTAACTTTCAAAGGCTCAGTTTTTAAAAGAAGTTCATTCTTTTTATTATTTCCTCACATCTGAACCCTCTCTATCACTTTTGTTGTCTTCTGCCTCTCTGTGCTATTGTTTACACAGCTGTAGAGAAATTTCCAGTCACTTAACTCCTTGGTGACCCCAGAAAAGCTTTCTCCTCTGTGCGTAGGGTAACAACTGGAAGTAACATTGGGGCTATAAGGAGAAGCAGCATATAGAAGGTATCAGTCCCCTGTAGCTTGGTTGCTCCTCTGCCTTGAGACTGTTTGTCATTACAACAAAAAACAGCACAGCTATTTGATGGGTCCAGCAAGTTGCTAGACTTCTTTGCACTACAGTTATTAAGTCTCTTTGCCAAACATCAGCTGACTCTGCATGGGTTGGCCTAATTGACATTCTAGGTGCTCCATCTTTATGCCAAGACATACGGATGTACAGTGTCTTCATTACAGGAGCTTTATAATGAATCTTAAAAGTCATTTAAGGCAACTGGCTCTGTTGTTTTTAAAACTCACTTGGCTGCTTTGATGGGGACTTTTACAGAAATACAAAGGACTTCTTCTCAGAACAGCCTCTGAGCCCCCTGCCCGTGGCATGTCCTTTGTGTTAACATGTCCTCAGCACCATTAGTGGTTTCAGTTGGCAAGGCTGGCCCCTGTTTAGTCTCCTAGAAAACGGTGTATTCTAAGTTGCACATTCCAGTTGATTACTAATCACTGAAAAGGGGTTTTGTGCAAAACTCTGTTGCCTCTGACCTTGTCAAAATCTTTGATTAATCTAGCTGGGGTGCATTTGTTTTCAAGGTCTTTAGACCAGACTTAGACAGTGATGGCATCATTGTTAGTTCCTCAGGCCACTACAGTAGTGAGGATGAAACCCAAGGCTTCACACATGCCAGGCTGGCCCTCCCCTAGTGAACTGCAGCTGAGCTTTCATTTTTTGGTTTTGAAATAGGGGTTCTTACTAAATTGTTCAGGCAGGCCTTGAACTTATGATCTAATGATCTTAGTCATGAGGCTTACAACCTAATTTTCAGGATATTAGGAGTTGACTTCCTGGATAATGGAACTATACAAATTAGAGAATGTCTCTAATTTTTCACATGACAACTGCTAGAACTTGTTTGGATTTGTTTTTAAGACAGTCTCAATGTGATTGGTTAGGTTGAACCTGGCTAATCTGGAGTTTAAGGTGGTCCCCAGGGGTCTGTTACCCCAAATGCTGGGATTACAGGTGTACACCACCTAGCTGTTCTTTTTTAGGAAATTGTCTTTCCCCACCTTGTCCTTGATGACCAAGTATGTATCTGAAGCTGCTTGGGCTTCTTTGCTGGTGTCTACATATCTAGCAATGTCCCCTTTGCATTCCTGGTACTGGGTTATGCCCACCTCAACCCTACCCTTGTCACCTAAGTAGATGTTTTCCAGTAAAATTCATCTTTCCACAGCCAGTGGTTTTTTGTTTTGTTTTTTTTAACTTATTTTTCTGTAGTATTTGTTCTGTTAATGTTTTAAGTTATTTCTTCCTACTTTGGGAGAAATTTAGTGTGTACTTTTTTTTTTACTATCTTAAAAATTCTTATAATTTATTGCAAAGCTTTTTAAAAATCAGTATCTGAAATTCTGGGTAAGCACTGTTTTTATAACAGTCCTGTTTGCTACTTCTCTAATTTACTTCCAACTTTATGAAGTTTGGTTTCACATCATGGGAGCATCCACATGTATTTCTATATGTGTTTCCTTCCTTGTGAGATAGCCCTAGAAGTCACATCTCTACTGACCAGACATTTGTGTGTGCTAGAAAAGACTATGGCCACTTAAATTTCAAAGAAAGTGGTTCTTCAATGGAGATTAAATAACTAACAGAACACATACAAGACTAATCAGATGCATGTAAGAAATACAAATCATTTATTTGGAAGAGAAAACAATGACTAATACAATTCAGCTACCAGGCCATGGTTCATGCTAGCATAGGCACTGCACTGGATGGAAAGGGGCTCTGTAATTTATTCAAGTAGCACAAGTCACTCAAATAATGGCGACTGCCCTGTACTGCACACACTGTGAGTAACTAGCCTAGGGGTGACCTTAAGCGTGCCATTCCTCTGTCTGGACTGGCTCACTCTGCCATCTTACAATAGGATCCTGACCTTTCAAGGTCTGAGCTCATGTATGCTTAGTAATGGCATCTTCTTGGTGTCTCAG
Seq C2 exon
GCAGAGGAAAAGGCAGATGCATTGAATAAGGAGCTGCTAATGACCAAGCAGAAGCTGATTGATGCAGAAGATGAGAAGAGAAGGTTAGAAGAGGAGTCTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009402:ENSRNOT00000013378:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.457
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:
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]