DreINT0017630 @ danRer10
Intron Retention
Gene
ENSDARG00000098967 | RABGAP1
Description
RAB GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:17155]
Coordinates
chr10:8739165-8740389:-
Coord C1 exon
chr10:8740315-8740389
Coord A exon
chr10:8739291-8740314
Coord C2 exon
chr10:8739165-8739290
Length
1024 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TCTGTGTTGTTCATGTGCAGATG
3' ss Score
10.09
Exon sequences
Seq C1 exon
GCGTATTCTGTTTATGATGAAGAAATCGGTTACTGTCAAGGGCAGTCCTTTCTTGCTGCTGTGCTGCTATTACAC
Seq A exon
GTGAGTATCAACGCAGATTAATGCAAAGTTGTTTATAAAAGCTGACATTTAATGTAATGATATACAGTGGGGGAAAAAAGTATTGAACACATCACCATTTTTCTCAGGTAATATATTTATAAAGGTGTTGCTGACTAAAAATGTTGGCTTGGATGTTATTAACAATCAATAGAAATATATATAAGCAAAGAAAACAAAACTGAATAGTTTACAAATTAAGTTATGTGCAATAAAATGAAATGACTCAGTGACAAAGTATTGAAAGGCAGTGAAAGCCCAGACAGCAACTGAAATCTCGCAGTGGTTTTTCAGCAACCTTCTGCCCTTTCTCATTGTAAATTAATATTTTCTGCTTCAGTCCAACATCTGCATTATCAGGATGATAAAGATGAAACTTGGGTGGACAATTTAGTAAAACAATGATTTAAAACAAAGCCAAGGAAATTATCATATGCTATCAGAGAAAGAAAATAAAGCTGTAGAATGGCCCGGCCAATCCCCTGACTTAAATCCAATAAAAAATACAAATTAAAGATCAGATTTTATAGTTTTTTACACTGTTAAAGTCTGTGAAAAATCACACCTAAGCAACTTCATTCTCCATTTAAGAGGCATCTTTAAACTGCCATGACGAAAAAGCCTTTTATATTAAATATGTTTCAGTAGTTCAGTGCTTACTCCATGTCACATTCCAGTATTAATACTCAGAACTATTTTTTCAGATGTGTATTTTGTTTTCTTTTATTTTTATACTTATATTGTTTGAGGTTTTACCAAAATCTGGTTCGATTCCATGTCATCAGCTACTTAGAAATATTATTCTCAGGCGTGTTCAATACTTCATTTCCGCCACTGAATTTGTGTGTTGTCACTCGCACAGTATATCATGCTTGAGCTGTATGTCATTTTGTACTTTAAAAGGTGAGGCAGTGCCATCTGGTGGATGTGTGTTTTGGTATTTTGTCAACATGTTGTGGTTGTATTATCGAGCTAGGTGATGAGTTTCTGTGTTGTTCATGTGCAG
Seq C2 exon
ATGCCAGAAGAGCAGGCGTTCAGCGTGCTGGTCAAGATCATGTTTGAATACGGTCTCAGGGAGCTCTTTAAGCAGAACTTTGAAGACCTGCACTGCAAGTTCTTCCAGCTGGAGAGACTCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098967:ENSDART00000167821:13
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:
TCTGTTTATGATGAAGAAATCGGTT
R:
CTGCATGAGTCTCTCCAGCTG
Band lengths:
195-1219
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]