GgaINT0035407 @ galGal3
Intron Retention
Gene
ENSGALG00000004578 | RABGAP1L
Description
NA
Coordinates
chr8:7604450-7605486:-
Coord C1 exon
chr8:7605312-7605486
Coord A exon
chr8:7604611-7605311
Coord C2 exon
chr8:7604450-7604610
Length
701 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CTACTTTTGCTTTTCTGCAGGTC
3' ss Score
11.64
Exon sequences
Seq C1 exon
AATAATAGATCAGTCAAGCAATGTGGAGATAGCCTCTTTCCCAATCTATAAAGTGTTGTTTTGTGTGCGTGGACAGAATGGGACTTCAGAAAGTGACTGTTTTGCGTTTACTGAAAGCAGTTGTGGAACAGAAGAGTTCCAGATTCATGTTTTCTCCTGTGAAATTAAAGAGGCA
Seq A exon
GTAAGTATTAAATATGGTATAATGGCTCATGTAAAGGGTGCAGAGCATATCTGGGAAAGTTATTCCAGATGTAGGAATGGTATGTTTTTGAAAAATATATTAACACATGTTTAATGGATTTTACAGAATGTGCAGATAGTCAAGTGTGACTATTAATACAATATTAATACAAGAATATTAATACAAGTTAAAAGTTACAGTATTTTAATAAGATGGCAAAGTGCACTGTAATGGGAATATTGTAGAAATCCTTCTGTTTTTCAGGCCTCGTTTGAGTAGGTTCCAGGTTAGTGTTGCAGTGTAGATCTTGGGAGATCGCTTTATAGTGCTGTGATTGCACTTGATATTTTGGGAAGAACTGCTGATACTTTGAGATAGGAGGATTTTTTTAGACTGGAAGAGTAAGGGGTGGAAAAGTTCACAAAACAAGAATTCTACTTGAGCAATCTGTAAGCTGTGTTATTAAATGCACAACTTGAAAAATGCATTATTAGGGTCTCCTAATGAGCTGCATTCCCAGTCTTGTAATATATTAACTTACTGAGAAAACACTGTTGGGTGGTTATGAAACGCATGATCTAAAAGCTTTGTGTTTTAAATGAAGTTTAAAAAAAATGAAAAAGGAAAAGGAAGAGCAAACATGGGAGTTTTTTTCATGTGTTAATTTTTATAACACCGCTGCTACTTTTGCTTTTCTGCAG
Seq C2 exon
GTCAGCCGAATTTTATATAGCTTCTCCACAGCGTTCAAACGTTCTTCCAAACAAGCATCTGATCACGTTAAGGACTTTGTTCTTCATACTCCAGACAGTGATGTGTACACTTTCAGTGTTTCCTTAGAAGTCAAAGAAGATGATGGAAAAGGAAATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004578:ENSGALT00000007286:6
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=0.056
Domain overlap (PFAM):
C1:
PF0064018=PID=FE(45.3=100)
A:
NA
C2:
PF0064018=PID=PD(15.6=37.0),PF124733=DUF3694=PU(1.5=3.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAATAGATCAGTCAAGCAATGTGGA
R:
CTGAAATTTCCTTTTCCATCATCTTC
Band lengths:
334-1035
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]