HsaINT0037733 @ hg19
Intron Retention
Gene
ENSG00000100473 | COCH
Description
coagulation factor C homolog, cochlin (Limulus polyphemus) [Source:HGNC Symbol;Acc:2180]
Coordinates
chr14:31344262-31346934:+
Coord C1 exon
chr14:31344262-31344309
Coord A exon
chr14:31344310-31346777
Coord C2 exon
chr14:31346778-31346934
Length
2468 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
ATTATCTCCTTTTTCTTCAGCTC
3' ss Score
9.37
Exon sequences
Seq C1 exon
GTGTGTGTCTGCTGCTGCTGCCGGGGCCCGCGGGCAGCGAGGGAGCCG
Seq A exon
GTGAGTGGGGGAGCTGGGGTGCGTCCAGGCGGTCGCAGGGGCTGAGCACCAGCGGGTACAAGCGGGACTCAGATCCAGCCCCTTGGGCTTCAGCCCTACCGCCTGAGGAGGAAGGCGCGAAGGTTGAGCCGCCGCGTGGCGCGCCCGCGTTAACCCCTGCAGCCGATCTGCTCCTGCTCACCTGTTTCTCCCATGGTAGGGGGCCCCTGGGGTCCAGTGGGGGGACGTTCTCCAAGAGCACTAGGAAGAAGGCCTCCTCCAGGCCCACCCACAGCCCCAGACCCCGGGCCCGCTGAGCGCCGGCAGCAGGAGGTCGAGGAAGGAGGACTCCTTGAGCCTCACCGAGGAGCGCACCAGTCCTGGGCTCTGCTGCGTTTGGGGGTGGAGGAGAAGCCGCCCAGACCCGACTTCAGGTTGCCGTAGCCGAGAGAGAGGGAGGCGAACGTCGCTGTCCCACCTTGTTTGACTCGCTAGCTATGTTTCTAGGTGTAACCCCTATAATCAGAAGCACTCGCGGTCTCACTCTACACGCTAGAGAGTTTAAAAAGTTTGTACCACGTGTAGAGGTCCGGGTATGGGTGTGTGGTTTGGTGTATTTTCCAGTGTAAAAGGCAACGCTTTCCTAAGAGCTACCGTTTGTTTTCCTTGAAAGTAGGAATGAGGGTTAAGTATCCCTCATGGCTGTATTTCTCCCGCTCTACTTAACAAAAGTCAGTGTTCGCAACTAAAGGCGGTCGGTCTTGGCACCGGATTCCGATGCCGCCCCCATCTCAGCGGAAAATGGGAGGAAGGATTAAGGCTGTTTGATGATAGGTATGAGGCTGTTTAGGGGTAAGGATTTTAACCTCTCAGCTCTCTAGACTGCTTCAGAGCTAAGAAATGGGCATTGCGCCTGCATCCTTCCTTCTCTTCCATGGAATGTAAGGTACCTGTCACCACAAAGGGCACAGAGGAGGGTGCTTGTCACAGGCAAGGTACTCAGTTGGACAGTATGGCCAGAAAGTATTCCTCTGCCTTGGAAAAAAAAGGTTTTTAAAATTAATATATGTTTTAAAAAGGTTTGGATAACTACAACTTCCCATGTTTGAAAAATAGCATTTAATAACATTAATCTCAATTTAGTATCGACAGTAAATTCACAAATTAACATGTTGTATTATGTTATCTTGTTACTTGTTGCCAAGAGCTTGTCTCTTCCTAGCATCATTTATAGTAAAAACTGATTCTTTGTTAGGTTGACAGTGTAAAACTTGAGAATATTAACAGTGCTTTCTAAAAATGCATCCGCTGCTTGATAAATCTCACTGGACAGATCTGGAGCAGAAATAATCAGGTTCAATTAAGATAAAAATGCTGTATTCTGAAGGGATTCACTTTTCTGTTTTCTGTCCTTCGGGAGTTGTAGAATGTTGTTTGGGCAAATTAACCCCACGGCTTTAATTTTCTCATCTATAAAATGAACAATCAAGTTAGATAACTTTCTGTGAATCTAAGCATCTTTTTGTTGGCTTCCTTAATGTGTGAGTTTAAGGATCTGCATTTGTAGGCTAACTAGGATAAATGGTCCTATGAAGGAAAGGATGGCTTTGATTTGTGCACATGTCTATGAAAATGTTCCACAAAGGCTCAATCCAGATTTACTATCTTTACCTCAAGCAACTGTGTACATAGCGTCATCAAAGTTGAGATTTAAAAATTTTTTTTTTTCTTCTGGAGACAAGATCTTATTCTGTAACCCAGGATGGAGTGCAGTGATGCAATCATAGCTCATTGCAAGCTTGAACTCCCGGGCTCAAGCAATCCTCCCACCTCAGCCTCTCCAGTGGCGGAGAGTACAGGCATGCACCACCACGTGTGGCCATTTAAAAAAAATTTTTTTTTTTTAGAAGAGATGAGGTCTTGCTATGTTGTCCAGACTGGTCTTGACCTCCTGGACTCAAGCAAATCCTCTTGTCTTGGCCTGCTAAAGTGCTGGGATTATAGGCATGAGTCACCACGCCCAGCCAAGATTTTTTATATTTCTATAATTAATATTAAATGACTTTTATTTTCTAGTTCAGATATAGTTCCAATTATGTATTTCCAACCTGGTTAAGAACTGAGAAGCCAGGCACAGTGGCACACCTGTAATCCCAGCTACTAGGGAGTTGGAGGTGGATCACTTGAGCTCGGGAATTTGAGCCTAGCTTGGGCAACTTGGCGAGTCCCCATTTCAAAAACAAAAACGAAATAAAAACCCAGAACTTTCACATTAGAGTTTTATAGTGGCTGGGGACTATATTAAATTGGAAAACAACCTTGTGGCTTGCCAAAATCTGGAATGGTATGGAAGGGTATATAAGTCAATAGTCATAACTAGAAGTGTAGAAATTAGGGAAGTAAAACTTAAATCTCACACTGTAGTCTCCCCACCACTATGCCCCAAGAAGTCCTAAGAATGCTTACAATATTATCTCCTTTTTCTTCAG
Seq C2 exon
CTCCCATTGCTATCACATGTTTTACCAGAGGCTTGGACATCAGGAAAGAGAAAGCAGATGTCCTCTGCCCAGGGGGCTGCCCTCTTGAGGAATTCTCTGTGTATGGGAACATAGTATATGCTTCTGTATCGAGCATATGTGGGGCTGCTGTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100473-COCH:NM_004086:3
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:
NO
A:
NA
C2:
PF0381514=LCCL=PU(53.3=90.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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)