HsaINT0020275 @ hg19
Intron Retention
Gene
ENSG00000165899 | C12orf64
Description
otogelin-like [Source:HGNC Symbol;Acc:26901]
Coordinates
chr12:80660231-80661107:+
Coord C1 exon
chr12:80660231-80660396
Coord A exon
chr12:80660397-80661032
Coord C2 exon
chr12:80661033-80661107
Length
636 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TTTACTTTTTCTTCGTATAGATT
3' ss Score
8.05
Exon sequences
Seq C1 exon
CTGTGGTGTGCCAGAAGGGCATGCTGTACCATCACTGTTCCTCGTTCTGCCTCCATTCCTGCATTTCTCTCTCTTCCCCGGAGCAGTGCAGTGATGACTGTGCTGAAGGCTGTAATTGTCCGGAAGGCAAATTCTATGAAGACACTCTTAACTTTTGTGTACCCAT
Seq A exon
GTAAGTCGTAGAAACAGGTTGGCAGCATCCTGTTTTAATCTCTTTTTCTCCTTACGGGCTAAATGAGCTTTCATGGAAGTTTTTGAAAAAAATATTTCTTATTGTCTTTACTTTTTTTTTTAAAAAACCCTGCAAATGTTCATCAACAGTTACAGAAATAGCTAAGGAATCTCTGATGGTTGATCTTGAAGTGTATTCCTGCTTGCTTTTACCATAGTCAAATCAATAACAAGGTTTGTGCTTCACTGTCACATGGCAAACTTTAGTAGCAGGACTTTAATATCTCAGCACTCACAAATTTCTCAATTTACACACGAAGTAAAGCCCTTTGTCTTATATATAGTGTTAAATGATATATCAGTTATGTTTCTCTGAATTGCATTCAGTGATTTTTCTTGTGACTAAAACAACACAGTTTGTGAGTTGTATTTTAGAAAACAAAATTTGGAGCTATGCAAAACTTCATGTCTAAGCAGCTTTTGCCATTTGTGTAATAGGATTGCATGCAGTCTTGTAGAATAATGCAGACCTTAGAGTGTACCTTACAATGACCAATGGAGAGCACAAGGTCAGCTTGAATTTTAGTGGTTTTTGAAAAAAATTGTATCCTATTTACTTTACTTTTTCTTCGTATAG
Seq C2 exon
ATTCCACTGCCGTTGTCATTATAGGGGCAGTGTTTATCAACCTGGAGAGCTCATCCCCACACCCTCGGGCTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165899-C12orf64:NM_173591:20
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=PD(0.1=0.0),PF0182612=TIL=PU(92.9=92.9)
A:
NA
C2:
PF0182612=TIL=PD(5.4=11.5)
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:
CAGAAGGGCATGCTGTACCAT
R:
CATAAGCCCGAGGGTGTGGG
Band lengths:
230-866
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)