HsaINT0044647 @ hg19
Intron Retention
Gene
ENSG00000115165 | CYTIP
Description
cytohesin 1 interacting protein [Source:HGNC Symbol;Acc:9506]
Coordinates
chr2:158287071-158287474:-
Coord C1 exon
chr2:158287372-158287474
Coord A exon
chr2:158287165-158287371
Coord C2 exon
chr2:158287071-158287164
Length
207 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
TTTTTCTTGGCATCTCCCAGGTG
3' ss Score
8.46
Exon sequences
Seq C1 exon
TCTTACAGGCCCCAGAATCAGAATGCCTGCTCCTCGGAAATGTTCACTTTGATATGCAAAATACAGGAGGACAGCCCAGCTCACTGTGCTGGCCTGCAAGCTG
Seq A exon
GTAACTTAAATTTTTGCTCATGTTAGGAATCATTTAAATGGAAAGAAAATAAAATGTTTTGAGAGTGAAGGTCAGGATGTATTTGTTGCTTTGAGTTTTCTTGGCTCCTTTATGTTTTTAAGACTTGGAGCTGCTTGTTTCATTTGCATGTCAGGAGGGATTATTTAACTAACCAACATAACACTCATTTTTCTTGGCATCTCCCAG
Seq C2 exon
GTGATGTCCTTGCAAATATCAATGGTGTGAGCACAGAAGGTTTTACCTACAAACAAGTCGTTGACCTGATCAGATCGTCCGGAAACCTGCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115165-CYTIP:NM_004288:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0059519=PDZ=PU(36.8=95.5)
A:
NA
C2:
PF0059519=PDZ=FE(35.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTACAGGCCCCAGAATCAGA
R:
GTTAGCAGGTTTCCGGACGAT
Band lengths:
197-404
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)