GgaINT0002700 @ galGal3
Intron Retention
Gene
ENSGALG00000013433 | FAM125A
Description
NA
Coordinates
chrUn_random:30296431-30296727:-
Coord C1 exon
chrUn_random:30296629-30296727
Coord A exon
chrUn_random:30296521-30296628
Coord C2 exon
chrUn_random:30296431-30296520
Length
108 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGA
5' ss Score
5.27
3' ss Seq
ACCCTCTGCGCACCCCACAGATC
3' ss Score
8.74
Exon sequences
Seq C1 exon
GGGGAGGTGGCCGTCATGGCGGCGGAGGAGGAAGCGGCTCCGCTGAGCGGTGTGGGCTGGGCGGCGGGGCCCGAGTCGGCTCCAGCGGGCTGGAGCGTG
Seq A exon
GTATGAGGGGAAGCTGCGGCCCGACGGGAGGCTGCAAGACGAGGATGAGGCTGCAGTTCGAGGGGAGGCTCCGGTGCGGCCCGGCCTCACCCTCTGCGCACCCCACAG
Seq C2 exon
ATCACCACCAGCGTTGAGGGCAGCGCGGCCAACCTGGGCAAAGGCTTCGGACACAAGGGCGGGTACCTGTGTGTGAGCACCGCAGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013433:ENSGALT00000029792:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF102404=DUF2464=PU(8.1=71.4)
A:
NA
C2:
PF102404=DUF2464=FE(11.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGGTGGCCGTCATGG
R:
GTGCTCACACACAGGTACCC
Band lengths:
178-286
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]