HsaINT0037733 @ hg38
Intron Retention
Gene
ENSG00000100473 | COCH
Description
cochlin [Source:HGNC Symbol;Acc:HGNC:2180]
Coordinates
chr14:30874764-30877728:+
Coord C1 exon
chr14:30874764-30875055
Coord A exon
chr14:30875056-30877571
Coord C2 exon
chr14:30877572-30877728
Length
2516 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
ATTATCTCCTTTTTCTTCAGCTC
3' ss Score
9.37
Exon sequences
Seq C1 exon
GACCTAGAGGGGCGCTGGCCTGGAGCAGCGGGTCGTCTGTGTCCTCTCTCCTCTGCGCCGCGCCCGGGGATCCGAAGGGTGCGGGGCTCTGAGGAGGTGACGCGCGGGGCCTCCCGCACCCTGGCCTTGCCCGCATTCTCCCTCTCTCCCAGGTGTGAGCAGCCTATCAGTCACCATGTCCGCAGCCTGGATCCCGGCTCTCGGCCTCGGTGGGTGCGCGCCCCTCACGACCCCGGCCCCTTGCTCCGCTGGGTGGAGGCTGGAGCCAGCCCTCACGCTTCTCTCTTCGCAG
Seq A exon
GTGTGTGTCTGCTGCTGCTGCCGGGGCCCGCGGGCAGCGAGGGAGCCGGTGAGTGGGGGAGCTGGGGTGCGTCCAGGCGGTCGCAGGGGCTGAGCACCAGCGGGTACAAGCGGGACTCAGATCCAGCCCCTTGGGCTTCAGCCCTACCGCCTGAGGAGGAAGGCGCGAAGGTTGAGCCGCCGCGTGGCGCGCCCGCGTTAACCCCTGCAGCCGATCTGCTCCTGCTCACCTGTTTCTCCCATGGTAGGGGGCCCCTGGGGTCCAGTGGGGGGACGTTCTCCAAGAGCACTAGGAAGAAGGCCTCCTCCAGGCCCACCCACAGCCCCAGACCCCGGGCCCGCTGAGCGCCGGCAGCAGGAGGTCGAGGAAGGAGGACTCCTTGAGCCTCACCGAGGAGCGCACCAGTCCTGGGCTCTGCTGCGTTTGGGGGTGGAGGAGAAGCCGCCCAGACCCGACTTCAGGTTGCCGTAGCCGAGAGAGAGGGAGGCGAACGTCGCTGTCCCACCTTGTTTGACTCGCTAGCTATGTTTCTAGGTGTAACCCCTATAATCAGAAGCACTCGCGGTCTCACTCTACACGCTAGAGAGTTTAAAAAGTTTGTACCACGTGTAGAGGTCCGGGTATGGGTGTGTGGTTTGGTGTATTTTCCAGTGTAAAAGGCAACGCTTTCCTAAGAGCTACCGTTTGTTTTCCTTGAAAGTAGGAATGAGGGTTAAGTATCCCTCATGGCTGTATTTCTCCCGCTCTACTTAACAAAAGTCAGTGTTCGCAACTAAAGGCGGTCGGTCTTGGCACCGGATTCCGATGCCGCCCCCATCTCAGCGGAAAATGGGAGGAAGGATTAAGGCTGTTTGATGATAGGTATGAGGCTGTTTAGGGGTAAGGATTTTAACCTCTCAGCTCTCTAGACTGCTTCAGAGCTAAGAAATGGGCATTGCGCCTGCATCCTTCCTTCTCTTCCATGGAATGTAAGGTACCTGTCACCACAAAGGGCACAGAGGAGGGTGCTTGTCACAGGCAAGGTACTCAGTTGGACAGTATGGCCAGAAAGTATTCCTCTGCCTTGGAAAAAAAAGGTTTTTAAAATTAATATATGTTTTAAAAAGGTTTGGATAACTACAACTTCCCATGTTTGAAAAATAGCATTTAATAACATTAATCTCAATTTAGTATCGACAGTAAATTCACAAATTAACATGTTGTATTATGTTATCTTGTTACTTGTTGCCAAGAGCTTGTCTCTTCCTAGCATCATTTATAGTAAAAACTGATTCTTTGTTAGGTTGACAGTGTAAAACTTGAGAATATTAACAGTGCTTTCTAAAAATGCATCCGCTGCTTGATAAATCTCACTGGACAGATCTGGAGCAGAAATAATCAGGTTCAATTAAGATAAAAATGCTGTATTCTGAAGGGATTCACTTTTCTGTTTTCTGTCCTTCGGGAGTTGTAGAATGTTGTTTGGGCAAATTAACCCCACGGCTTTAATTTTCTCATCTATAAAATGAACAATCAAGTTAGATAACTTTCTGTGAATCTAAGCATCTTTTTGTTGGCTTCCTTAATGTGTGAGTTTAAGGATCTGCATTTGTAGGCTAACTAGGATAAATGGTCCTATGAAGGAAAGGATGGCTTTGATTTGTGCACATGTCTATGAAAATGTTCCACAAAGGCTCAATCCAGATTTACTATCTTTACCTCAAGCAACTGTGTACATAGCGTCATCAAAGTTGAGATTTAAAAATTTTTTTTTTTCTTCTGGAGACAAGATCTTATTCTGTAACCCAGGATGGAGTGCAGTGATGCAATCATAGCTCATTGCAAGCTTGAACTCCCGGGCTCAAGCAATCCTCCCACCTCAGCCTCTCCAGTGGCGGAGAGTACAGGCATGCACCACCACGTGTGGCCATTTAAAAAAAATTTTTTTTTTTTAGAAGAGATGAGGTCTTGCTATGTTGTCCAGACTGGTCTTGACCTCCTGGACTCAAGCAAATCCTCTTGTCTTGGCCTGCTAAAGTGCTGGGATTATAGGCATGAGTCACCACGCCCAGCCAAGATTTTTTATATTTCTATAATTAATATTAAATGACTTTTATTTTCTAGTTCAGATATAGTTCCAATTATGTATTTCCAACCTGGTTAAGAACTGAGAAGCCAGGCACAGTGGCACACCTGTAATCCCAGCTACTAGGGAGTTGGAGGTGGATCACTTGAGCTCGGGAATTTGAGCCTAGCTTGGGCAACTTGGCGAGTCCCCATTTCAAAAACAAAAACGAAATAAAAACCCAGAACTTTCACATTAGAGTTTTATAGTGGCTGGGGACTATATTAAATTGGAAAACAACCTTGTGGCTTGCCAAAATCTGGAATGGTATGGAAGGGTATATAAGTCAATAGTCATAACTAGAAGTGTAGAAATTAGGGAAGTAAAACTTAAATCTCACACTGTAGTCTCCCCACCACTATGCCCCAAGAAGTCCTAAGAATGCTTACAATATTATCTCCTTTTTCTTCAG
Seq C2 exon
CTCCCATTGCTATCACATGTTTTACCAGAGGCTTGGACATCAGGAAAGAGAAAGCAGATGTCCTCTGCCCAGGGGGCTGCCCTCTTGAGGAATTCTCTGTGTATGGGAACATAGTATATGCTTCTGTATCGAGCATATGTGGGGCTGCTGTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100473:ENST00000460581:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.015 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0381514=LCCL=PU(53.3=90.6)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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