HsaINT0136382 @ hg38
Intron Retention
Gene
ENSG00000011454 | RABGAP1
Description
RAB GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:17155]
Coordinates
chr9:123073552-123074428:+
Coord C1 exon
chr9:123073552-123073677
Coord A exon
chr9:123073678-123074284
Coord C2 exon
chr9:123074285-123074428
Length
607 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TAATTGGTTTGCTATTTCAGGAA
3' ss Score
7.11
Exon sequences
Seq C1 exon
ATGCCTGAAGAACAGGCATTCAGTGTTCTGGTCAAGATCATGTTTGACTATGGGCTCAGGGAACTTTTCAAGCAAAACTTCGAAGATTTGCATTGCAAATTTTACCAGTTGGAGCGCCTCATGCAG
Seq A exon
GTAAAAAGAGAAACCAGCTTGTGTTTGACAAAAAGAGTACAGGACTAAGGAGCACCAAATTGAGGAAATGGTGCCAGGGAGCATTGGTAATTGCCTTAGCGATCCGTGGCTAAGGATGGGTTTCATTTTTATCCTTTATCACTATGTGATTATGATGCAAAGATTAACAAAGTGTTAAACTTTCACACCTCATGGATGTGAGCTGATAAACTCCCAAAAGATCAGATGACTTTGTTAGGGGTCTTTTCCACAGCTAACTCAGTCAAGAAGTACTCCCCAAGGCTCTGAAGCTGACTGGTTAGGAATCTCATAACAAAAGTGAAACAAACTTTCCCAAATGTTTTTTACTTTGGAGAGAAAAACAGGCTTTCCAAATACTTGTCACCATTTTGGGGATTCCTCTTTCTTTAGAACAAGTTTGTGGTCTGGAAAAAAGAGTTGAGTGCCAGCTTAATACCAGATGATAAGTGTTCTAAGCACTTTGGAGATTTTTAGAAAAACACAAGTATTTTACTTTTTTGGCCTATTCCTGGTAGATTTATGAGCCTCCTTAGTGGGAATTGGACAGATGCATATGTGCCCAGAACTAATTGGTTTGCTATTTCAG
Seq C2 exon
GAATACATTCCTGACCTGTACAACCACTTCCTGGATATAAGCCTTGAAGCACACATGTATGCCTCCCAGTGGTTTCTTACTCTTTTCACTGCAAAATTCCCTCTCTACATGGTCTTCCATATCATCGACCTGCTTTTATGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000011454:ENST00000373647:16
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
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACAGGCATTCAGTGTTCTGG
R:
CTCACATAAAAGCAGGTCGATGA
Band lengths:
262-869
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development