GgaINT0050210 @ galGal3
Intron Retention
Gene
ENSGALG00000012484 | RIF1
Description
NA
Coordinates
chr7:36796853-36797336:+
Coord C1 exon
chr7:36796853-36796990
Coord A exon
chr7:36796991-36797258
Coord C2 exon
chr7:36797259-36797336
Length
268 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTTCCTCTTTTTCTATCCAGCAT
3' ss Score
9.33
Exon sequences
Seq C1 exon
ATTCGTCGGGTCTCTTTTGCCAATCCCATCTATCAGGAAGGACTGGCTGACGACATAGACAGGAGAAGTCCTGTCATTAGATCCCATTCTTCACCGTCTTCACGAAGTCTTAAAATCTTATCTAATATTCAGACTAAG
Seq A exon
GTAACTTTTTAGATATTCTTTTGCATGTCATAAGTCTCCAGTTCCTCAGTGACATAGCTGTGTCATGTGCCTGTAGCTCCTTGCAAACAGCTGTAAGAGCAAAGAGTAGAAAATGGGTGAGTTTAAGAACTAGCTGGAACTGGTTTATTCTGTGGCTCGTTCTGTTGCTCTGCAGGCCAACGTGCTGTAAGCTAGGTAGCTAAAAAGATGAAATGAATTGAATTCTTACAGTGCTGAGAGATTTTTTTTTTCCTCTTTTTCTATCCAG
Seq C2 exon
CATATTACAACTCCAACCAAAGGATTTCTGTCCCCAGGATCTCGTAACCCTAAATTTAAGAGCTCAAAGAAGTGTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012484:ENSGALT00000037786:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.457 A=NA C2=0.615
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATTCGTCGGGTCTCTTTTGCC
R:
TGAGCTCTTAAATTTAGGGTTACGA
Band lengths:
204-472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]