HsaINT0020315 @ hg19
Intron Retention
Gene
ENSG00000165899 | C12orf64
Description
otogelin-like [Source:HGNC Symbol;Acc:26901]
Coordinates
chr12:80770903-80772870:+
Coord C1 exon
chr12:80770903-80770982
Coord A exon
chr12:80770983-80771627
Coord C2 exon
chr12:80771628-80772870
Length
645 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CTCATTGTCACTTCTTACAGATA
3' ss Score
9.11
Exon sequences
Seq C1 exon
GCAAACGAGAAGAAAGAATATGCCAGAAAGTGATCATTAAATCGGTCATAAGGAAACAGGACTGTATGAGCCAAAGCCCT
Seq A exon
GTAAGTGGAAAAATGTCATTTGCTACATAAATGCACACATCTTTTTAGAAAGTATGTGTGTTACAGAAAGAAGTTTGTAAGCCAACAAACTGCCAACGCTTAACAATATTTAACTGAGATTATTCCTACATTCTAATGTTGCAATATTCTGTTTGTGAAGAAGTATGAATTATTCTTAGCATAATCAGCAGTTCTGAATGATGGTTGCAATCCAGAGGGATAGAAATTGAATCTAAATGTATTTGACTACATGTTGTCTTCACTATGCAATTTTACTCAGCAAAAAGAGTTCTGCTTCTAACTTTGTCCCTTTTAATATGACCTGCAGTGTGCTTGAGCCATGATATGACACAGGTTACAATAGATTAACTATATTGTGATTAACATATTCCATATAGATTTATGTTGAGTTATGTGTGCACATTTAATGCTTTGAATGCTATGTTGAGCATTGCCATGAAACGTCCCTTTGACTTATGTGACTGATGTTTCATTTATTGTTTTTTACGATCTTGCAACATGCAGAAGCTTGAGGGTTGGAGTGATGAGGAAGAAAGATTTTCATCAGATTTTCTTAGTGGAATCAAATAATAACCAGTACTTTTAAAAGTTTAAGACTTTTTTTCTCATTGTCACTTCTTACAG
Seq C2 exon
ATAAATGTTGCATCTTGTGACGGCAAATGCCCATCAGCTACCATATATAACATCAATATTGAAAGTCACCTAAGATTCTGCAAGTGTTGTCGTGAAAATGGAGTACGAAACTTGTCTGTGCCTCTGTATTGCTCAGGAAATGGCACTGAAATTATGTACACTCTCCAGGAACCCATAGACTGTACGTGCCAGTGGAATTAAACCCTTGGGTTCCAAGAGCTCTATACAACATCATAACGTCAGATAGAATTAACTTTTATTGCTATTACTTAGGCATGTGGCAGATTTATGCTGTTTAACAATACTGTATTTTTCAGACTTGGAATGTGGAAATTTAGCAATTTGTACAAAATATATACAGTTTCAATAGCAAAATTAAATTTATTGCTTTACTCTATTTTAGAAAATCAAATGACTGTAAGTTGTTCAGCTGAAATGCTGTTATGTATTTAATTACAACTTGGTGCAGATACAGTATATTCTCATCAACTGGAAGGTTATTTTGCAAAATTCCTTCAATTTCACTCAGTAGCTCTTTTTTTCTTAATTTGCAAAGTCTGCTATAGCTATCCAAATTAAGGTACCCTTTAATATGTACTCCTTAATCTGGTAAATGTGATCAGTTAAAATTGTCATCTAGATAGCAATAAAGAGTGATATGCTTAGAGATAGATAATGGATTATTTAAAACCTGAATGGTTTATAGAGAAGTCATTATAAATTCCCCTCATTTTGCAGGTGTAACAGATAACCAGAGAAGCTGTGTGACTCGTACAAATTTATTCAGTGTAATAATATAGTAAATTCATGTTAACAGTTGGATTAAATCCTAGCTCTCTCTTATTCCAGTACTATATCACTTTTAAAATCCTGAGCAGTATGTAGTAAGAGTATATCACAGAATCTTTCATTCTTAAAGAGTTTGCATTGGATAGAATTAAGTATTTTAAGTTTAACATATTTGAAAAATGCCCCCCATACATTGTTATTCCAATAGTAAGGAGCAGGGAAATATAGCATCATTTGCTAAATAGAGGAGATAGATCTTGAACTGTTATTTTTTATATAATTAAAACTGCTATTAAATGTGTTGTCAGTATTTAACATTTAGTTACTGTCTCATTAATATTTAATTTTGAGGATGTACTTGCATACTGTTGAAGTTGAGTGCTGTTTTGCTGTTAATGCTGCTGCTTTGCCAATGAAGAATGAAATAAATTTATCTGAATGTATCAATAACTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165899-C12orf64:NM_173591:57
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:
NO
A:
NA
C2:
NO
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:
TGCCAGAAAGTGATCATTAAATCGG
R:
AGCATAAATCTGCCACATGCCT
Band lengths:
353-998
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)