HsaINT0140714 @ hg19
Intron Retention
Gene
ENSG00000080345 | RIF1
Description
RAP1 interacting factor homolog (yeast) [Source:HGNC Symbol;Acc:23207]
Coordinates
chr2:152324988-152325270:+
Coord C1 exon
chr2:152324988-152325065
Coord A exon
chr2:152325066-152325154
Coord C2 exon
chr2:152325155-152325270
Length
89 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGA
5' ss Score
3.78
3' ss Seq
CTTCTGAAATTTATTCTAAGATT
3' ss Score
4.47
Exon sequences
Seq C1 exon
CATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACGTAGCCCTAAATTTAAGAGCTCAAAGAAGTGTTTA
Seq A exon
GTAAGAAGTGCTTTAGTTTTCATGTCACTTTATATTTTCATGTTCAGTCAGTTGACCTCTGTGTAACAGCTTCTGAAATTTATTCTAAG
Seq C2 exon
ATTTCAGAAATGGCCAAAGAATCCATACCATGCCCAACAGAAAGTGTTTACCCACCATTGGTGAACTGTGTGGCACCAGTTGACATCATTTTACCTCAGATTACATCAAACATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080345-RIF1:NM_018151:32
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.503 A=NA C2=0.058
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACTTCAGCCAAAGGATTTCT
R:
GGTAAAATGATGTCAACTGGTGCC
Band lengths:
167-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)