HsaINT0020277 @ hg19
Intron Retention
Gene
ENSG00000165899 | C12orf64
Description
otogelin-like [Source:HGNC Symbol;Acc:26901]
Coordinates
chr12:80663882-80665590:+
Coord C1 exon
chr12:80663882-80663934
Coord A exon
chr12:80663935-80665427
Coord C2 exon
chr12:80665428-80665590
Length
1493 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTCTGTGCTTATATCTGAAGTTC
3' ss Score
4.29
Exon sequences
Seq C1 exon
CCAGTGTTCAAATGGGACTGTGAAATGTGATGAATTAGCAACGCCCTCTGCTG
Seq A exon
GTAAGATCTTAAAAGATGTTTTCCTGAATGAGGGTTCAGCTCTGATACCACCTCCACTCCTGGCAGAAGTCATCAATCACCTCTTCTTCCCAATGTGCATGGCTATAGCCTTGGGAATGTTCTTCAACATGGTGTTCCAGTGCTTCTTAACTTTTTCCACATTGAAAATTATAATATTTTTAGGACAGTCTGGGTTGAACATATAAGTCAGCTCAGGGGCGGAGCAGGTCAACCCAGGGATGCTGCCTAGATGCTGCCTACCACAGGACCACCTCAGGCATCCCAAGGACTTTAGGGATATGTATCTAGGCAAGTGTTGTAACCCATTTGTGGGACAGAAATTGGGAAAATCTATTTTAGACCTTCACTTCTCAGATTTTAGTGTGCACATATGGGGATCTTGTTAAAATGCAGATTCTGATTCATTAGGTCAGGGGTGATACCTGAAATTCTACATTTCTATCAGTGACCAAGATAACATTAATACTTCTGGTTCCTGGGCTGCATTATGAGTAGCATGGCTCTGGGACTAGTAGCAATAAATTTAACAATGCATGTAAAATGACATCCACTGTTATCCCTTCAGAATGTCATTTTAAATACCTTTCCTAAGATCTTATGTATTAGGACCATATATATTATTTATTTTCATCATATAAAGAGCCTCAAATTCTCAGTTACTATGGGCAAATTCTAGGCACATAATAAACAATACTTGCTTTCATAGATTTTAATGGGCAGGAAGAGTGTAGGCTAATAAAAGTAATTGTAAGCTATTATTGCTTTGTTATGTATTTGAATGGCCTGGTATATATTATTATTAAAGAGCTTTGAATTACATGCCCTGAATTTACTTTACAAGGATTCAGACAAGCCTAGGGCTTCTTTACAAGACATGTTTATGGACCACACACATTCGGTAGCTACAGGGCCATCCTGACTCTGCCCCATTTCTTTCAGGGTGACTCGCCCCCATTTGATTCAATGAAGGGAAGCCCAGGTGGCTAGCCTTCTCACAGAGGAACCCACGGGATTTTATCCCTTTGGCCCCACTTGAGGCAATTTATTTGATCTCTAAGAGCCCAAAAGCTTTCTGGAAGAATATGGAGCCCCTGTCCTGACTATAGTTATGTCTACTTCTGCACTTCTGTGGTATAGTGAGAACTGATATAAACAATGACTTGAGGTGAAGCAAGATTTAGAATAATCGTGTGTTCATTGTAGCTTTGTAAAAGCCACAATGCTTTTACATTATGCTTAAAAATTGATAACATATGCTGAAAAATTGATAATATATGTATGAATTAATAAAAATATCTTGTTTTTTGACTTCAGAAAATTATATTCTAGTTAGTTACTGTCTTATGGAAGGCAGCTAACATTCTCAAACTCAAAATAGGTTTAGAATAAACCTATTTTATGAATTTTGGTGTTCATATCTCCCATGCCATGACAAAAAGTTAAGGACATTTTGTCTGTGCTTATATCTGAAG
Seq C2 exon
TTCACATCTGCCCAGAGGGAAAAGAGTATTTCGACTGCAGGTTTCCTGACCCTGAATTACCAGCTGGTGGTGTTAATTGTGAGACTACATGTGCAAACCTAGCCATGAACTTCACCTGCACCCCATCCTCACCCTGTATAAGTGGCTGTGTTTGTGCTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165899-C12orf64:NM_173591:22
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:
NO
A:
NA
C2:
PF0182612=TIL=PU(77.3=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGTTCAAATGGGACTGTGA
R:
CTGGAGCACAAACACAGCCA
Band lengths:
215-1708
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)