HsaALTA0007125-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000131378 | RFTN1
Description
raftlin, lipid raft linker 1 [Source:HGNC Symbol;Acc:HGNC:30278]
Coordinates
chr3:16493725-16513706:-
Coord C1 exon
chr3:16513442-16513706
Coord A exon
chr3:16493878-16493880
Coord C2 exon
chr3:16493725-16493877
Length
3 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGC
5' ss Score
8.81
3' ss Seq
CGCCTTTTTCCTTTGGCCAGCAG
3' ss Score
4.8
Exon sequences
Seq C1 exon
CGTCGGGGCTGGAGCCGGAGCGCGCCGGGCGCTGGGCGCAGCGAGCGAGAGCGCGGCGGCCGCGGGCTCCGGCGAGGGACAGACGCACCGATCGCCGGAGGGACAGACACACGACCACGCGGCGCCACCGCCCACGCCTCCACCCACCGGCGCCCAAGTCCTCCCCGCGCCGCCTCCTCTGTATGGCACAAACTTTCCTCCCGGGACGGAACACGCTGCCTCAGGGAGCCCGCGACCGCGCCTTCTCCTCCGCCGGTCCCATACG
Seq A exon
CAG
Seq C2 exon
CTGCTGAAATGGGTTGCGGATTGAACAAGTTAGAGAAACGTGATGAAAAACGGCCTGGGAATATTTATTCAACTTTGAAGAGGCCTCAGGTGGAAACCAAGATAGATGTGTCCTATGAATACCGCTTCCTGGAGTTCACGACTCTGAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000131378-1-8,1-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.182
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF152501=Raftlin=PU(30.8=98.0)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAAACTTTCCTCCCGGGAC
R:
AATCCGCAACCCATTTCAGCA
Band lengths:
101-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development