HsaINT0037736 @ hg19
Intron Retention
Gene
ENSG00000100473 | COCH
Description
coagulation factor C homolog, cochlin (Limulus polyphemus) [Source:HGNC Symbol;Acc:2180]
Coordinates
chr14:31348629-31349702:+
Coord C1 exon
chr14:31348629-31348691
Coord A exon
chr14:31348692-31349657
Coord C2 exon
chr14:31349658-31349702
Length
966 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AAGTGCATCTTTTATTTCAGGTA
3' ss Score
7.46
Exon sequences
Seq C1 exon
AAGGCAAAAGTAGTACACAGGAGGCCACAGGACAAGCAGTGTCCACAGCACATCCACCAACAG
Seq A exon
GTATGAACTATGAAACCTATCTCCTAGTTGCCCGGCACAGCATTTGGAAGTTATGAATAAACGTGTTGTTGGTAGAAGCTTTTCTTAAAGAAATTTGATATTAAAGAGAAACAAAGCAAATACCTTAAGTTTACTGGTATATTACATATGGAAACATTCATTATGTGTATATTTTAAAGACAGGGTCTCACTCTGTTGCTCAGGCTGGAGTACAGTGGTGCAATCATAGCTCACTGCAGCCTTAACCTCCTAGGCTCAAGCAATCTTCTCACCTTGGCCTCCTGAGTAGGTGGTACTACAGGCACATGCCACCACACCCAGCCAATTTTTTTGATTTTTAATTTTTTTTATTTTTATTTTTTTAGACAGGTCTAGCTATGATGCCCAGGCTGGTTTTGAACTCCTGACCTCAGGCAGTCCTCCCACTTCAGCCTCCCAAAGTTCAGGGATTACAGGCATGAGCCACTGCACCCAGCCTAATAATTCTCTAAAAGTCCTATTTTCTCCCAGATTTGATAAACCACGCCTAAGAACTGGTCAAAGTACCATGAACTTCTAGTTCCATTTGCTTCATTAAATTCCTTTAATTACTGCACTGTCATGTGACTAAAAGGAATGTGTGTCTATTGTAAGAAATAGCCAGGGATCCCCTTTTGTATGACGATGGCAGTTTTAAAGTCAAAGATATTAAGAACATTAGGATTTAATGTTGAGTTCCTGCCTCACCTGTGGGTTTGGGGTATTAAAGTCCTGGATTAGGGCATATCAAATATGTAGGCCTACATACTGATTTGTTTATTTGTTGGGTCATTGCTTTCCCTAGTCCAGAAAATCCTGAGGAAATTAATTTTTTTAAAAAAGTCCTTTCAAGAATGGCACTCTGTTGTTATGAGCTTCTCCCCATGTGGGTTTCTTGCTATGTAACTGTCTTCCTTTTGTTAATGCCAAGTGCATCTTTTATTTCAG
Seq C2 exon
GTAAACGACTAAAGAAAACACCCGAGAAGAAAACTGGCAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100473-COCH:NM_004086:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.727 A=NA C2=0.750
Domain overlap (PFAM):
C1:
PF0381514=LCCL=PD(2.0=20.0)
A:
NA
C2:
PF0381514=LCCL=PD(0.1=0.0)
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)