HsaINT0140694 @ hg19
Intron Retention
Gene
ENSG00000080345 | RIF1
Description
RAP1 interacting factor homolog (yeast) [Source:HGNC Symbol;Acc:23207]
Coordinates
chr2:152313092-152314477:+
Coord C1 exon
chr2:152313092-152313134
Coord A exon
chr2:152313135-152314274
Coord C2 exon
chr2:152314275-152314477
Length
1140 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TATTTTTTCGTTTTTCCTAGTTA
3' ss Score
8.27
Exon sequences
Seq C1 exon
GCTTGATGAAGTTCCTAAAGTATATAGTTGTCTGAACAACAAG
Seq A exon
GTAAAAATAGACAATTCTCCATAAACCATACTTTCATGATGAGAAAATGATAGAGTTTAGATAATTTTCTTAAACATAATTCTGCTGATTTTTAAAGGGGTTATTCCTTCTTTCTTTCTTTTTTTCCTGGAGACAGCATTTTGCTCTTGTCACCCAAGCTGGAGTGCAGTGGCAGGATCTCGGCTCACTGCAACCTCCACCTCCTGGGATCAAGTGATTCTCCCACCTCAGCTTCCTGAGTAGCTGGGAGTACAGGCACATGCTACCACACCCAGCTGATTTTTTGTGTATTTAGTAGAGACAGGGTTTCACCATGTTGGGCAGGCTTGTCTCGAACTCCTGACCTCAAGTGATTCGCCTGCCTCGGCTTCCCGAAGTGCTAAGATTACAGGTGTGAGCCAACACGCTTGTCCTGTTCTTCATTTTTAATGGACATTTAATAACACCATATGAACACATTTATAGGGTTTTTTTTTTTTTAAGGATTTAATACTTTAAATTCATGTTAAGTAATGAACTTTTTTTTGGAGACAAAATCTCACCTAGCTGGGAGTGCAGTGGCACGATCACGGCTTACCACACCCCTGCCCTCCTGGGCTCAAGGTGATTCTCCCACCATAGCCTCCCAAGTAGCTAGGACTACAGGCATACACCACCACTCCTGGCTAATTTTTGTATTTTTTGTAGAGGCGGGGTTTTGCCATGTTGCTCAGGCTCGTCTCAAATTCCTGAGCTCAAGCAGTCTGCCCGCTTTGGCTTCCCAAAGTGCTGGGATTACAGGCGTGAACCACTGAGCCCAGCCTAGTTAATCAACTCTTAGCTCATCCCTTTGTATATGATGGCGATTGGACCCAAAGTTTTCTAGGTGAACGTATGTAGGTAACTATTTATCTTGTTATAATTATTACAAAAACATAATTTCTTTTGTTAATAGAAAATAAGTTCAAAATTGAACTGTAATATTAATAACCAAAGCAAATTCACCTGATAATTTGTCGAGTTATAAAGAGGGATATATATTTAAGGCAACAGTGGGGGTTAGTTTAAAATTGTCTTAATTTTAAAAATTGAAATAGCAACATATATTCTGTGAGTTAATATTTAGTATATGTTTTGCTTTTATTTTTTCGTTTTTCCTAG
Seq C2 exon
TTAGAAAAGCTACTGGGAGAAATTATTGCTTGTCTGCAATTCAGCTACACCGGAACTTATGATAGTGAACTTCTTGAACAACTCTCCCCACTATTATGCATAATATTTCTGCACAAGAATAAACAGATTCGAAAACAGAGTGCTCAGTTCTGGAATGCCACTTTTGCCAAAGTGATGATGTTGGTTTATCCTGAAGAGTTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080345-RIF1:NM_001177664:23
Average complexity
IR-S
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:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)