GgaINT0126217 @ galGal3
Intron Retention
Gene
ENSGALG00000001225 | RABGAP1
Description
NA
Coordinates
chr17:9582353-9583138:+
Coord C1 exon
chr17:9582353-9582445
Coord A exon
chr17:9582446-9583027
Coord C2 exon
chr17:9583028-9583138
Length
582 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
ACCTTTTTGTCCACCCACAGCGT
3' ss Score
10.43
Exon sequences
Seq C1 exon
ATTAGCCAGAAGAAGCTGAAGAAATATGAAAAGGAGTATCATACCATGAGAGAGCAGCAAGCTCAGCAGGAGGATCCAATAGAAAGATTCGAG
Seq A exon
GTAATGCTTACCTACTGTAATCTGATTTATCATGCAGCACCTGCAGGAAATTCCTACTTAGATTTTTTTTTTTCTTTAAGCCGTTTTGTCTTCTGAGAAGTACATGTACACATCCATCCACTTACATGTTTTAAGCTGAAAAGTTTTATGTAAACTTTAACATTTGTCTGTGTGATGGGAATTGTAGGAGAATATAGAGTGGCTTTCCCGGTACCATCCACTCGCATGCTTTTCCAGCATGAAAATTTTATTTTCAGCCATTAGGAAATGAGCCATTAGGAAATCAACACCTTGGCAAGGTGTTGACGGCAGTGACACTCCTACCACTCAAAAACATTTCACTAGCTCAACAAGTAATAGATGAGTTATTAACATGTGGTTTCTTCTCAAGGCTAATATTTAATTTGCTTTATTTTATATCTACTACATGATTAGCAGCTCTTGTCCTCGCTGAATTTCGTGCAGGTGGAATTGTCTTTCAGTGTTCGAGATGTAAGCTGGAAATTTGCATTCAGGCACAGAGCGCTGTGTTTCATAAACACCTAGCAAAACCTTTTTCTTGACCTTTTTGTCCACCCACAG
Seq C2 exon
CGTGAGAACCGGCGTCTACAAGAAGCAAACATGAGGCTTGAGCAAGAAAATGATGACCTTGCACACGAACTGGTGACCAGCAAGATTGCTCTGCGGAAAGATTTAGACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001225:ENSGALT00000001858:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.565 A=NA C2=0.297
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAGAAGAAGCTGAAGAAA
R:
TGTCTAAATCTTTCCGCAGAGCA
Band lengths:
199-781
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]