HsaINT0140710 @ hg19
Intron Retention
Gene
ENSG00000080345 | RIF1
Description
RAP1 interacting factor homolog (yeast) [Source:HGNC Symbol;Acc:23207]
Coordinates
chr2:152276704-152279556:+
Coord C1 exon
chr2:152276704-152276893
Coord A exon
chr2:152276894-152279463
Coord C2 exon
chr2:152279464-152279556
Length
2570 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TTAATTGCTTTTGTTTGCAGAAA
3' ss Score
9.42
Exon sequences
Seq C1 exon
GCTAATTGAACAAGCCCCAATTCAAATGGGAGAAGAGGCAGTGAGGTGGGCAAAACTGGTCATACCTTTAGTGGTTCATTCAGCACAAAAGGTACATTTGCGGGGAGCAACTGCTCTGGAGATGGGAATGCCATTATTGCTTCAGAAACAGCAAGAAATAGCATCTATTACGGAGCAGCTTATGACTACT
Seq A exon
GTGAGTGTTCTTTTATGTAAGAATTTTCTGGATACTGCATCGGAAGGTTCTGCACTAAGCTTAAAATTCAGTCTGGTGGCCAGGTACGGTGGCTCTCACCTGTAGTCCCAAAGCGGGAGGCTGAGGTGGGAGGATTGCTTGAGGCCAGGAGTTCCAGACCCATCTGGGCAACATAGTGAAGACCCATCTCTACAAAATATCTTAAAAATTAGCTGGGCGTGGTGGCATGCGCCTGTAGTCTCAGATGCTTGGGAGACTAAGGCGGGAGGGTTGCTTGACCAGAAATTTGAGGCTGCAGTGAGCTATGATCTCACCACTGCATTCTAGCCTGGGTGACAGAATGAGACCCTGTCTCAAAAAAAAAAAAAAAAAAAAATCTGTCTGGGCATATTGGTATAGTTGCACTATGATATAGGATTTTAGCTTTGAATCAAAACCTTAAGAGTTGCATAAGTTAGCAAAGGCACATTGCTCATTACATAGTAGTAAGGAAGGGAGCTATCTATTGTTGCTAAAATCCAGACATTTTACTTCATTCCCAATAAATAGGAAATAGGAATTGTATTTCTGAAAGAGGGAGAGCATTAACTGATTGACTCATGTTTGGGTTGTTACTGTATAATCCCAGTAGATACAAATTTAATGTACATAAACTTACCTAGTCTCTATAGTTTTCTAGTTATTACTTGCCACAGGTTTTAGGTTTTCTAACCATTGTTGTTCTAACATATTTACTGGGCATCTGATATGTGCAGTGCATTGTTGCAGGCGCTGTGAATATAGCAGTGAACAAAAGAGGCTTGATGGAGCTTATTTTCTTGTGGGAGAGATAATTAAGTACATAGTGTAGTAAGTGAAGACCACTAAGGAGAAGAGCAAGGACCGGAGAGTGCTGTGAGAAAGGAATGTAAGGTGGTCAGAGAAGGCAAAGGAAAGGACATTTGAACAGTGATTTGAAGGCAGAGTAGGAGTTACCCATGTAGATAAAGAACCAGACAAGAGAACTATGAGGGCAAAAGGCCCTGCTCTAATGGTTGTGTACCTGGTTGGTGTTCTGGGAACTCTGGGCAGTATGACAGTAGTGGAGTGAATGAGAGTGAGAGGAAAAGAGGGCCCAATCACATAGGACTATGGCAGGGACCATTGTAAGGATGGATTTTTACTCTAGATTACATGGAAAGCCATATTTGAAGGTCTTGTTTTGTTTTTTGTTTGAGACAAGGTCTCACTATATTACCCAAGCTGGTCTCGAACTCCTGGGCTCAAGCAATCCTCCCACTTCACTCTCCCAAAGTGTTGGGATGACAGGCGTGAGCCACCACACCCAGCCCCTAAAACCTGGGATTTTACTTGCTTAAAATGCAGAAGACTTCGTGGTAATGTTCAGTATGACACAGTAACTCGAGTGTCTCATAAATAGCTTTATTCTGATGAATTCAATTTTAGTGACATATATAATTTTTTTTTTTTTTTCGAGACAGTTTCGCAATTGTTGCCCAGGCTGGAGTGCAGTGGCGCAGTCTCAGCTCACTGCAGCTTCCACCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCAGGAGTAGCTGGGATTACAGGCACCTGCAACCATGCCCGACCGATATTTGTATTTTTAGTAGAGATGGGGTTTCACCATATTGGCCAGGCTGGTCTCGAACTCCTGACCTTGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGAGATTGCAGGCATGAGCCACTGCGCCTGACCATAAAATTCTTTCTTTAACCCATTTATCAAGCTTGCAACAAAGCATATATGAAATTCTTTATATAAATTTGAGCTAAAAATTATTTCACGTGTCTGTTGATTATGAAGCTATTAATGTATTTTTTCATTATTGTGAAAAAATACAGTGTCATTTAAACTAGTTAATGATATGCATGCTGACATTTTTAGGGTAAAGTATATTGGTAGAAAAAAAAAGTTGGATTGATGGATGGTAGGATGGCCAGATAGGTGATAAGACCAACATAGTAAAGTGTTAATGGTAGAATCTGAGTGTTTGTATTAGAGCATTTACTGTAAAAACTCACTCGGATTTGCTATATGCTTCAGTTTTCCTTTTGGAGTCTTTTGGGAAAATTTTTTTTTTTTTTTGAGACAGTCTTGCTCTGTCGCCCAGGCTGGAGGACAGTGGCACGATTTCTGCTCTCTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCATGCCTCAGCCTCCCGAGTAGCAGGAATTATGGGCGTCTGCCACCATGCCCAGCTAATTTTTGTGTTTTTAGTAGAGACAGGGTTTCACCATATTGGCCAGGCCAGTCTTGAACTCCTGACTTCAAGAGTGAGGCCGAGGCAGGTGATTCTCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCTTGACCCACCGCACCTGGCCTTGGGTGGGGTAATATTTTTATTATGGAGAAAACTATTTGGTTGAATCAGTTTTTGAAAATTATTCCTAGACTTTGGTATTGGATTTTTTTTTCTAAGAGTCTGTTTGGTAAATTAATTGCTTTTGTTTGCAG
Seq C2 exon
AAATTAATCTCAGAACTTCAGAAGCTATTTATGAGTAAAAATGAGACTTACGTGTTAAAATTATGGCCTTTGTTTGTCAAACTACTTGGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080345-RIF1:NM_001177664:7
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:
PF122313=Rif1_N=FE(28.6=100),PF122313=Rif1_N=PU(2.8=4.7)
A:
NA
C2:
PF122313=Rif1_N=FE(10.0=100)
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
- Genotype-Tissue Expression Project (GTEx)
- 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)