GgaINT0050202 @ galGal4
Intron Retention
Gene
ENSGALG00000012484 | RIF1
Description
replication timing regulatory factor 1 [Source:HGNC Symbol;Acc:HGNC:23207]
Coordinates
chr7:34661215-34661753:+
Coord C1 exon
chr7:34661215-34661257
Coord A exon
chr7:34661258-34661550
Coord C2 exon
chr7:34661551-34661753
Length
293 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTGCTTCTTCCTTTCCTCAGCTT
3' ss Score
9.17
Exon sequences
Seq C1 exon
GCTTGCTGACGTACCTAAAGCATACAGTAACCTTAACAGCAAG
Seq A exon
GTGAGTTTGGTAGAGAAGTATTGGGGCTGGGGAGATGGAAGGACTATGTTGAGGTTTTTCTGTTCATCCTGGATTCTGAACAAACTTATAGTGAAGGTAGAGATTTAACTTATAAACCATGCTGAACTAGAGCAATAACTGAGACAAGGGAACGTAAGCTTTAGGGAGACTTGTTCTCTGGTGTGGTTTCTAAACTGGTTTATTCTTAAATCACAAGTTTTAAATGGAGAATATGTGCAGTGTTGGAATGAGAACCTAAAAAACATGTAAATATTGCTTCTTCCTTTCCTCAG
Seq C2 exon
CTTGAAAAACTCCTGGCTGAGATTATCCTGTGTTTGCAGTCCCACTGCATGGGCTGCTATGACAGTGAGCTCCTGGAGCAGCTTTCTCCATTGCTCTGTGTAATATTTCAGCATAAGAGCAAACAGATGCGCAAGCAGTGCGCCAACTTCTGGAACACAACATTTGCTAAGGCTGCATCGTTGACCTACCCTGAAGAATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012484:ENSGALT00000037786:22
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTGCTGACGTACCTAAAGCA
R:
TAATTCTTCAGGGTAGGTCAACGA
Band lengths:
244-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]