HsaINT0020265 @ hg19
Intron Retention
Gene
ENSG00000165899 | C12orf64
Description
otogelin-like [Source:HGNC Symbol;Acc:26901]
Coordinates
chr12:80645473-80645981:+
Coord C1 exon
chr12:80645473-80645579
Coord A exon
chr12:80645580-80645855
Coord C2 exon
chr12:80645856-80645981
Length
276 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
CCCCTGTTTGTCTGTTTTAGCTG
3' ss Score
12.03
Exon sequences
Seq C1 exon
AACTGATGATGATGAAACCTATTGCCGAGCAGCCACTGAGTATGCTAGAGCCTGCTCTCATGCTGGCTACCCTATTCAAGACTGGAGAGATGACTTTCCAGCATGCA
Seq A exon
GTATGTTTTTTTATTTTCCAAGCCCTGTGTACTTTTGCCAATTTTGGGTTAAACCTAGAACTCAAAACTTACTGTACTACTCAATACTAATGAATTGCAAGGATTTGTTATTGAGATATCCATGAACTTGCATACTTTTTGAAACAAGTATGCAATTTTTTTGCAATTAAAAGTTATTTTTTGCAAATTATTTTTTGTAAAAAATAAAATTATAATTTTAAAAAAGAAATAGAGGCTAATAAAATTGACTTAAGCTCCCCTGTTTGTCTGTTTTAG
Seq C2 exon
CTGATAAATGTGATGATAGCTTTGTCCATCGGGACTGTATCAGTTGTTGTCCACCAACCTGCACATTTGAGAAGCAATGTCTTGGGAGCAATCTCCATTGTCTTGATGGATGTTACTGCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165899-C12orf64:NM_173591:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF087426=C8=FE(49.3=100)
A:
NA
C2:
PF087426=C8=PD(4.1=7.0),PF0182612=TIL=PU(72.2=90.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGATGATGAAACCTATTGCCGA
R:
TCTGGGCAGTAACATCCATCA
Band lengths:
228-504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)