HsaINT0037737 @ hg19
Intron Retention
Gene
ENSG00000100473 | COCH
Description
coagulation factor C homolog, cochlin (Limulus polyphemus) [Source:HGNC Symbol;Acc:2180]
Coordinates
chr14:31349658-31349940:+
Coord C1 exon
chr14:31349658-31349702
Coord A exon
chr14:31349703-31349792
Coord C2 exon
chr14:31349793-31349940
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ACTGGTTTGGTTGTTCGCAGATT
3' ss Score
9.13
Exon sequences
Seq C1 exon
GTAAACGACTAAAGAAAACACCCGAGAAGAAAACTGGCAATAAAG
Seq A exon
GTAAGAATCAAGATCTCCATTTGGGAAGGTAGCATTTTCCCTCCCTCCTCTTGAGACTGCTAATGAGGGGACTGGTTTGGTTGTTCGCAG
Seq C2 exon
ATTGTAAAGCAGACATTGCATTTCTGATTGATGGAAGCTTTAATATTGGGCAGCGCCGATTTAATTTACAGAAGAATTTTGTTGGAAAAGTGGCTCTAATGTTGGGAATTGGAACAGAAGGACCACATGTGGGCCTTGTTCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100473-COCH:NM_004086:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0381514=LCCL=PD(0.1=0.0)
A:
NA
C2:
PF0009223=VWA=PU(27.6=90.0)
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:
ACACCCGAGAAGAAAACTGGC
R:
GCTTGAACAAGGCCCACATGT
Band lengths:
173-263
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)