GgaINT0002702 @ galGal3
Intron Retention
Gene
ENSGALG00000013433 | FAM125A
Description
NA
Coordinates
chrUn_random:30296028-30296327:-
Coord C1 exon
chrUn_random:30296231-30296327
Coord A exon
chrUn_random:30296155-30296230
Coord C2 exon
chrUn_random:30296028-30296154
Length
76 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
CTCCTCCTTCACCCCCGCAGGTT
3' ss Score
11.01
Exon sequences
Seq C1 exon
GGCTCGGCCGGGCCTGTGGTGACCGATGTCCAGGTGCTGAGCGATCGAAATCCGCAACCCGCGGGCTACAGCCGTGCCCCCGAGTTCCCAGAGCCTC
Seq A exon
GTAAGTGCCGTTGGGAAGGAGCTGCGGGGCTGGCAGAGCTCGGTCCCCGCTTCTGGCTCCTCCTTCACCCCCGCAG
Seq C2 exon
GTTCGGGTGTGTCCCGTAAGAAGCGGCTCTATGTGAGGCTGCAGCCCCGTGGGGCTGCTGAGACGGCCGTGTTTGACATCAAACTGAGTGGGAAGAGCAGAGCTGTGCCTCAGTACATGAAGATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013433:ENSGALT00000029792:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.788 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF102404=DUF2464=FE(12.9=100)
A:
NA
C2:
PF102404=DUF2464=FE(16.9=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:
CAGGTGCTGAGCGATCGAAAT
R:
AGCTCTGCTCTTCCCACTCAG
Band lengths:
171-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]