DreINT0017631 @ danRer10
Intron Retention
Gene
ENSDARG00000098967 | RABGAP1
Description
RAB GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:17155]
Coordinates
chr10:8737685-8739290:-
Coord C1 exon
chr10:8739165-8739290
Coord A exon
chr10:8737829-8739164
Coord C2 exon
chr10:8737685-8737828
Length
1336 bp
Sequences
Splice sites
5' ss Seq
CAGGTTACA
5' ss Score
-1.25
3' ss Seq
TCTGCCTCTCTGTATTGTAGGAA
3' ss Score
11.07
Exon sequences
Seq C1 exon
ATGCCAGAAGAGCAGGCGTTCAGCGTGCTGGTCAAGATCATGTTTGAATACGGTCTCAGGGAGCTCTTTAAGCAGAACTTTGAAGACCTGCACTGCAAGTTCTTCCAGCTGGAGAGACTCATGCAG
Seq A exon
GTTACAACCATTGCTGATTTGCTTATTGTGATACAAATAATGACATTATACTAAGGCAGAAATCACTGCATAGTAATATTTTGTCATCATTTGGGAAATATTTTAAAAAGACAAAACATTCAAAGGGGGTTTAATCATTTTGATTTCAACTCTATATGATGCACTAAAACTGATTTGTGATTTAACATTTGTTCTAAAAGTTTAATTAACTCATGTTTGAGAAATAGAGAACTGCAAAATATAAGTTCAGACTTATGTATTTCTGTATTTCATTTTATGAAACAGGCCCCATTCTAAGAAAAATTGCAAAATAATAAGTTCAGTAAAAAATAACAGTGAATAGTAATATATACTTGCAACTGTGGGAAAAAATATCTGATTTATACAGTTAAAGTCAGAATTATTAGCCCCGTTTTGAATTTGTTTTCCTGTTTTAAATATTTCCCAAATGATGTTTAACAAAGCAAGGAAGTTTTCAGTATGTCTGATAATATTTTTTTCCTTCTGGAGAAAGTCTTTGTTTGTTTTATTTCAGCTAGAATAAAAGCACTTTTTTATTTAAAAAAAATATATTAGCTCCTTTAAGCTATATATTTTTCTGATAGTCTACAGAACAAACCATTGTCATACAATAACTTGCCTAATTACCCTAACCTGCCTAGTTAACCTAATTAACCTAGTTAAGCCTTTAAATGTCACTGTATAGAAGCTGTATAGAAGTGTCTTAAAAATATCTAGTTAAATATTATTTACTGTCATCATGGCAAAGATAAAATCAATCAGTTATTAAAAATGAGTTATTAAACCTATTATGTTTAGAAATGTGTTGAAAACATCTCTTTGTCAAACAGAAATTAGAGGGGGAAATGTAGATGTATCAGTTATGAGAAAAACTTCAGAACTAGAATTATCAGAAACAAAATGAAATATTTGCTTAGAATTGTAATAAACAAAAGTCAGAATTGTGACAATTTTTTTTCTCTATTCCATTTACATCTTGTGTTGTGAATAGTGGCTATTTTTGTGAATGCTGCTTTGTCTTGTAAATCTAAACTTTTTCTTACAATTCAGAGTTTTCAGCACTGTTACTTCATTTTTAAGCTTAGATAAACCCTAAGTAATTATTTTAATATTTATAGATTCTTAAAAAAAAAAAATCTTGAAGCACATGGACATACTGTTTATGTATTTGTTTATTAATTTGCTTTCCTGATGAGCATGACTTAAACAGAAATTAACTCTTTTTCTCACTATTTTTAACTTTTTTACCATTATATTTCAAATAGACTCACGCGGGTCCAGTACTATGAGTTTTTTCTGCCTCTCTGTATTGTAG
Seq C2 exon
GAATGCATTCCAGACCTGTACACACACTTCCTGAACTTGGGTTTGGAGGCGCACATGTACGCCTCCCAGTGGTTCCTCACACTCTTCACAGCCAAATTCCCTCTTTACATGGTCTTTCACATCATAGATCTTCTGCTGTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098967:ENSDART00000167821:14
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAAGAGCAGGCGTTCAG
R:
CACACAGCAGAAGATCTATGATGTGA
Band lengths:
265-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]