GgaINT0050184 @ galGal3
Intron Retention
Gene
ENSGALG00000012484 | RIF1
Description
NA
Coordinates
chr7:36774421-36775041:+
Coord C1 exon
chr7:36774421-36774551
Coord A exon
chr7:36774552-36774946
Coord C2 exon
chr7:36774947-36775041
Length
395 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GGTCTCTTGTGTTTCCTCAGGTA
3' ss Score
10.03
Exon sequences
Seq C1 exon
CATCTGAAGTAGAAGATTTGCTTTCCACATTGAACAGCATTGCTGTGAAGACTTCAGACAAAAACACTCGCACTCGGGCACTTTGGGTGATCTCTAAGCAGACGTTTCCTTCTGAAATTATTAAAAAGGAG
Seq A exon
GTATGTCTCGTAATGGTTTTGTAGCCCCATTTTGAGGGAGAGGAGACTGGCAATCTCTTGGTTACTGTCCTCTCAGTAGCTTTTGAATCTGATGGGAAACATAGGCCTTAAGCTCTTGGAAGAATTGTAAGGGTCTTCTGAAGGAGAGAAAAGAGCTGACAAATTCTTGCTGCTTTTGAGGGTGAAGCTGCAGTGTGGGAGGTTCTATGAGATACCAGCAAAGCAGCACAGGAGAGAAACGTTACGAACACTCGTGCTTGGTCAGAGCTCTGATCTTACAACCAGAGCTGTTATAATCCAGGCACAGAGCTCTGTAATGGGAAATGGAGTTGTGTGATGCCAGCTGCTCATGAAGTATTTATATTTCCATACCAAGGTCTCTTGTGTTTCCTCAG
Seq C2 exon
GTATCCAGTCTTATTTCTACACTGGAAACTATACTTACTAAAGGAGATGTACAGTCTATGATTGTGGAGTATGAAGCACTGAATGTTGTCATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012484:ENSGALT00000037786:4
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=0.000
Domain overlap (PFAM):
C1:
PF122313=Rif1_N=FE(12.0=100)
A:
NA
C2:
PF122313=Rif1_N=FE(8.6=100)
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:
TGAAGTAGAAGATTTGCTTTCCACA
R:
CGTATGACAACATTCAGTGCTTCA
Band lengths:
222-617
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]