HsaINT0037731 @ hg19
Intron Retention
Gene
ENSG00000100473 | COCH
Description
coagulation factor C homolog, cochlin (Limulus polyphemus) [Source:HGNC Symbol;Acc:2180]
Coordinates
chr14:31355002-31359822:+
Coord C1 exon
chr14:31355002-31355518
Coord A exon
chr14:31355519-31358821
Coord C2 exon
chr14:31358822-31359822
Length
3303 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TTAAAATGTTTTCATTGTAGGAA
3' ss Score
9.65
Exon sequences
Seq C1 exon
GCTGTCTGTCGGAATAATGGCTTCTTCTCTTACCACATGCCCAACTGGTTTGGCACCACAAAATACGTAAAGCCTCTGGTACAGAAGCTGTGCACTCATGAACAAATGATGTGCAGCAAGACCTGTTATAACTCAGTGAACATTGCCTTTCTAATTGATGGCTCCAGCAGTGTTGGAGATAGCAATTTCCGCCTCATGCTTGAATTTGTTTCCAACATAGCCAAGACTTTTGAAATCTCGGACATTGGTGCCAAGATAGCTGCTGTACAGTTTACTTATGATCAGCGCACGGAGTTCAGTTTCACTGACTATAGCACCAAAGAGAATGTCCTAGCTGTCATCAGAAACATCCGCTATATGAGTGGTGGAACAGCTACTGGTGATGCCATTTCCTTCACTGTTAGAAATGTGTTTGGCCCTATAAGGGAGAGCCCCAACAAGAACTTCCTAGTAATTGTCACAGATGGGCAGTCCTATGATGATGTCCAAGGCCCTGCAGCTGCTGCACATGATGCAG
Seq A exon
GTAAGGTCCTTGTTCTTTATAGGAGAAGGGAACAGAAAAAACGGTTCAGTGAATTTAGGAGTAAATAAAAATTTAAGCATTTATTTCATTAAACAAACACCTGTGGCTTTACCCAATATTAACTGTTAAAGCAGCCCTACTCATCTCATTCTACAGATAAGGAAGCAAACTTCCTGGAAATGACATTTCTAGTAAGTGGCAAGGCCAAGATCCAAACCCAGGCATTCTGGCTCCAGAGTGCACATTCCTAACCACTGTATTGTTGGGAGAATTGCCATGAGAACCATGTCACATTAAGGAAATATGCTTATACATATACAATTAAGGTGCTCATATTTAGCTCAAACTTGGACTATATCTCCAAATAGCCAGCTTATAACCTACCATGAATCTGCCATTCAGTAATTTATCCTAACTTTCTTGTGTATGAAACAGGTAATTGCTCTGTCACCAGGCTGGAGTGCAGTGGCATGTAGTGAGCTACAACCTCCAACTATTGGGCTCAAGCAATCCTCCTGTGTCAGCCTTCCAAATAGCTAGGACGACAGGCACATGCCACTGCCCCTGGCTAATTTTTAAATTTTTTTGGGGAGAGACGGGGGTCTCACTTTGTTGCCCAGGCTGATCTCAAACTCCTGGGCTCAAGCAATCCTCACACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATAAGCCACCACACCCAACCCTAACTTTTATTTTAGTCAAGTTTTGTCTGGCATGAGTTTCCTAAGATAAGGTCTCCCATAGACTTTACCTATCCCATCAAAATTTCCTTGGCCAGGTGCAGTGGCTCACATCTGTAATTCAGCACTTTGGGAGGCTGAGGTGGGCGGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCGGGCCAACATGGTAAAACCCAGTCTCTATTAAAAATACAAAAATTAGCTGGGTGTGGTAACATACACCTGTAATCCCAGCTACTCAGGAGGCTGAGGCACGAGAATCACTTGAACCCAGGAGGCAGAGGTTGCAATGAACTGAGATCGTGCCATTGTACTCCAGCCTGGGCGACAGAGTGAGACTCTGTCTCAAAAAGAAAAAAAAAAAAAAAAAAAAACTTTTTCCCCCCCGCTTAAGATAATAAAAACACACTCTGGTGTTATAAAAGGGTATAAGAAGGGTTTCTTTCTTCCTCACCCCAGCCTTAATATTACTTTTGGCACAGGCCTCGTTCCTGAAGACATTAACGTAATGTGTTAGAGATCAAATAGGCCAACAAAAAGCTAAGATTCCCTTTCTGAGGATATAACTGAGTGACAGGAGGGAAGAATCAATGGACTTGTTTTTTTTAACACTCTTCTGTACCTCATTTTCCCTACTTAATTCCTAATGACATAACCTTTTTCCTTTCTACACATTAGTACCTCTGCCAATGTACTCACATATTTTTACAGATACTGATGAAAGATTATTCTTAAAACAGAGAACACATGCAATTTAAGTTCCACATCTAGCTTGTAAAAAGTATTTTTTATACATCAGCAACTAGCCTGTGAAGTAAAGACCTGTTTACTATCATATTCCTTAATACTTAGCTTACTGAACTTATAGTTAACAGGATTGTATTCAGGCTATAAAGTGATTAGGTTGATTAAAGTTCAGGAGGCTGGACTACACCAATATTGATTCGTGAAAATTATCCCTTAGTGATATTGAAAGTTGCAAAAGCCAGAAAATAGGGTAGGATTTTAGGGGTAGATCACAACAGTTTTTATTTATTTTCAGGGTCTTGCTCTGTCACCCAGGCTGGAGTACAGTGGTGTGATTATTTTTTTTTTTAACTGTAATTATATGCTGGGCTTGAGCTAAACAATCTGAACTAGAATGTAGAACTGAAAAGAAGTGAGGAAAACTGAGGGGGAGGAAAAAAATATTTTGACTTTTTTTTTTTTTAACCAGGGAGTGAGAGTCAGGAAAAGGAGACTGGAACAATTGGACATTGTTCCAAGTAGCTTTTACATCATCTAAACCTGCTGCATATCTTAGGTATTTACCACTCTGAGCACTGTATACCACTAGAAGGGGAATGAAACCTTAGATCTGTAGAGGAAAACTATTACAGAAACTCCAAAAGTTATAGAAAATTGCACCCAGCATTAGATAGATGGTACTCTACACTAAGAATCTGCTAAATGAGGCCAGGTGTGGTGGCTTATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGATGGATCGCTTGAGCCCTGGAGTTCGAGATGAGACCAGCCTGAACAACATGGTGAAACCCCATCTCTACAAAGAAATTTAAAAATTAGCTGGGCTTAGTGGCATGCGCTTGTAGTCCCAGCTATTTGAGGATGGGGGTGCTGAGGAGGATAGTTTGAGCCCAGGAAGTTGAGGCTGCAGTGAGCCTTGATTGTACCACTGCACTCCAGCATGGGCAAAAGAGCCAGACCCTGTCTGAGAAAAAAAAAAAAAAAAGATTAAATGAAAACTTCTACAATTGGGATTGGGGTGAATCCAACTAATGTATTATTACCCTAAATGTACAGTTGTACTAAAAGCCTTCTAGTAACTAAAGTGAATGGAAATAGAATACCTCAATGAAACTGGAAGAAATTACTCCAGTTTCATAAGATCCCTCTTGGGCAGTACTTTTTAGTCACTAGTTTTGCTTTGGGATTATAGGCTGACATTTTCTGATTATTAGACAGTTTGCCAATATAAAGATTGAAATGGAAGAGGATTTTTCATTATCAGAGGACTAGTCACCATTCCTCAAACAATGCAACCTTTGAACACTTTTGCTATTTACTTATCCCATCTCTTGTGCCATTCTTCCTTGCTTTAATGGATTGTGACTCTGACTCCAGTATACTGTTTGATGCAGGCCAACCTCATACGGAAAATTTTCACCATCCGCATTTACTGTAGGATTTTAAAAAAGATACTGTGGATCAGGTTAAAAGTCTTCTTCTATTCCTAGTTTATAGGTGTGTTCTGTCATTAATGGATATTGAACTTTATCAAATTATTTCTTATCAGTGATGACTTACCTGTTAATGTGGCGAATTACAGATATAGCAGAGTTTCTGGTTTGGACCACTCTTTTGCCACTCTCGTCACAATGACTGTGAAAACTTAATTTGTTCAGGGGATTTAATTGTCCAGAAATTAGTAAGCAGTTTTCGCTGCAACTATGTAACAGTGTATGGAAAACATATAGACATAATTCCATATATTAGCTAGACCTGATTTTCAATTCACTTTAAAATGTTTTCATTGTAG
Seq C2 exon
GAATCACTATCTTCTCTGTTGGTGTGGCTTGGGCACCTCTGGATGACCTGAAAGATATGGCTTCTAAACCGAAGGAGTCTCATGCTTTCTTCACAAGAGAGTTCACAGGATTAGAACCAATTGTTTCTGATGTCATCAGAGGCATTTGTAGAGATTTCTTAGAATCCCAGCAATAATGGTAACATTTTGACAACTGAAAGAAAAAGTACAAGGGGATCCAGTGTGTAAATTGTATTCTCATAATACTGAAATGCTTTAGCATACTAGAATCAGATACAAAACTATTAAGTATGTCAACAGCCATTTAGGCAAATAAGCACTCCTTTAAAGCCGCTGCCTTCTGGTTACAATTTACAGTGTACTTTGTTAAAAACACTGCTGAGGCTTCATAATCATGGCTCTTAGAAACTCAGGAAAGAGGAGATAATGTGGATTAAAACCTTAAGAGTTCTAACCATGCCTACTAAATGTACAGATATGCAAATTCCATAGCTCAATAAAAGAATCTGATACTTAGACCAAAAGCAACATTCGTTCTCTAACCATTCTGTATTGATTATATAAGCAAAATGAAAAGAGAAACTTAAATGAACACAGCTCTTTAACATGGTTCAGGTACACATATTTTGACCCAAGTGGATATTTTCTTAAAACCAATCAATAATAGCTAGCTATTACTGCAGACTATAAAATCTGGATATAGAAAGGAGACCTGTATCAAACTGCTTTTGTAGTGTGTTTTCATAACAACTTATGACTAAAAATATCACACTGAATAAGAGAGCAGGATTGCCAGGTATTTTTCTATTTCTCTCCTTAATTTTATATGTATATAGATATATTTGGCTTATATTCTAAGTCACCTAAGTACTTAAAAGTTAAGTTGGTAAAGTATTTACTGACTGCTTATAAACATTTAAAGACAAAGACATTTCAAATAACTGCAGAAAAAATATTGTAGTTTGAATATTTAAGCAATAAAACTGCTAGTGAGTTATTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100473-COCH:NM_004086:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=PD(3.7=3.5),PF0009223=VWA=PU(72.8=72.8)
A:
NA
C2:
PF0009223=VWA=PD(26.6=78.0)
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)