GgaINT0125918 @ galGal4
Intron Retention
Gene
ENSGALG00000000847 | GARNL3
Description
GTPase-activating Rap/Ran-GAP domain-like protein 3 [Source:RefSeq peptide;Acc:NP_001025847]
Coordinates
chr17:10439954-10440633:+
Coord C1 exon
chr17:10439954-10440072
Coord A exon
chr17:10440073-10440497
Coord C2 exon
chr17:10440498-10440633
Length
425 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TGAGTTCTTTGCCATTTCAGTCG
3' ss Score
5.69
Exon sequences
Seq C1 exon
TCTGTGCTTTCCCTTATATACTTGCCTTCACTACTGATTCCATTGAGATCCGTTTAGTGGTGAATGGAAACTTAGTCCACACAGCAGTTGTGCCTGAGCTTCAACTTGTCGCATCAAGG
Seq A exon
GTAAGACACAAGAAAAGCGTGTTTGACTATTTGTGAGATGTTGGGATCTATTTAATGTAAAAAGTTGTCTAAGCCAAGTGCAAACCAAACCTCACGTGTGCTTTCATTTGTGGTAAATATTCATCTGCATGCTCTTAGTTTGTATGATGTACAATGAGGATCAGAATTGATCTCACTGTCCTTTATTGCCTGCAGTAATGCATATTTGAGGTATTTGATTGTTTATGGGGCAAATGCTATTCTGAACATCACAGAAGTTTCCCCAAGATACAGTGAGATAGCCTTTCCCTGATCAGCCCTTATCAAATTAGCAGCAATGCAGCTGCAGTGACGATGAGATACAGTGGACAGACATTTGAGCTCTTACTCAGCAAATGATTAACAAAAGTCTTGTAGTACTAATGATGAGTTCTTTGCCATTTCAG
Seq C2 exon
TCGGATATTTATTTTAAAGCTACTGCTGCAGTAAGTGGATCATCTCATAGCAGTTCTAAGGAAATGAGTTCAAGGAGTTCACCTCAAACACCTACAGCTTATGACATGCTGGAATGTTCTCTTTCTTCTTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000847:ENSGALT00000001243:25
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=0.315
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(12.9=100)
A:
NA
C2:
PF0078017=CNH=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTGCTTTCCCTTATATACTTGCC
R:
TTCTGAAGAAGAAAGAGAACATTCCA
Band lengths:
254-679
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]