GgaINT0126213 @ galGal3
Intron Retention
Gene
ENSGALG00000001225 | RABGAP1
Description
NA
Coordinates
chr17:9577019-9577866:+
Coord C1 exon
chr17:9577019-9577144
Coord A exon
chr17:9577145-9577722
Coord C2 exon
chr17:9577723-9577866
Length
578 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TTTTTCCATTACTATATTAGGAA
3' ss Score
6.88
Exon sequences
Seq C1 exon
ATGCCTGAAGAGCAAGCTTTCAGTGTTCTGGTCAAAATCATGTTTGATTATGGACTCAGGGAACTTTTCAAACAAAATTTTGAAGATTTGCACTGCAAGTTCTATCAGCTGGAGCGCCTCATGCAG
Seq A exon
GTAGGGGCTCAGACTTGTGAGGAGTCAATGGACTGGGGCCTGCAGTTCAAAACGGCAAAACAAGCTGTTTATCTTACACATTAATAGTGTTTGTAGCCTCTTAGTAAGGAGGAAGAGTGAGGACTATCCACACTGAAGGCTTTCTGAGAATAGAGGGTGCTGAGCAGGGACCTGTTTGCCACCATGGGCAGCACAGTGGGTTTGAGGGCCGACATGTCCGACCCCCTGGGGCAGCTCTCCTACTGACTGCCCCAGCAGGGGCCTCACTGCACACAGCTGCAGTGCCCTTGCAGGGTCAGCACAGTGCTGCCTGGGTTTCTCACTAGGATGTGTGAGCTCAGGAACTTGGCTCACTGTGCGTTTAATACAGTGTTCTGAGCATCCACACTGAGCCTTCAGCATCCTTGGAAGGTTCTTTAGTGTGTCAGGCAGCTGCTCTGTCAGGTATGGGTGGATGCATAAACCTGCCTTTCTGCACTCCCCAGCTCCTGTTATGCTTTCAGATTTCAACTGCTCCTCCACGAGAGTGTAAATTAATTTTCTTTCTTTCTTCCTTTCTTTTTCCATTACTATATTAG
Seq C2 exon
GAATACATTCCTGATCTGTATAACCACTTCCTGGACATCAGCCTTGAAGCACACATGTATGCTTCCCAGTGGTTCCTTACATTGTTCACGGCAAAATTCCCTCTCTACATGGTCTTCCATATTATTGACTTACTCTTATGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001225:ENSGALT00000001858:15
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(20.1=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(23.0=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGCCTGAAGAGCAAGCTTTCA
R:
TGGAAGACCATGTAGAGAGGGA
Band lengths:
244-822
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]