HsaINT0122198 @ hg19
Intron Retention
Gene
ENSG00000095464 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:8787]
Coordinates
chr10:95422317-95422935:+
Coord C1 exon
chr10:95422317-95422400
Coord A exon
chr10:95422401-95422784
Coord C2 exon
chr10:95422785-95422935
Length
384 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGACCTAAAATTCCTTTTAGGAG
3' ss Score
7.2
Exon sequences
Seq C1 exon
CCTATGATGGACAGAAACAAAAGAGATGAATTACCTAAACTTCAAGTTGGATTTATTGATTTTGTTTGTACTTTTGTATATAAG
Seq A exon
GTAAGTAAGCAAATTATTTGAATTAAATACATAAACATTTGGATGAGAAATTTTCTTTCAAACTGTCACCAAAATTTAGAAGTCACCCATACGGAAAGCCATTGGGGTATCACTGTTTCTCCAAAGCAGTTTGAGGTTTTACCCTAATCTCATTCAGGGCTGGAATAAAAGGAGGGAACTCAGATGTGAGCGAACTGAACACTTCCTTAGGCAGGCAGTAAAGACAGCACGTGTCTCTTTCCCAAACTTCATAGGCCCGTGGTTAAACTTATCCTAGCAGCTCTGAGTGCTGTAACAATTCCTTACAGCTCACTCTCTGCATATGAAAGATCCTGAAAATTAACTGTATGATTTATGTAGTTTCTGACCTAAAATTCCTTTTAG
Seq C2 exon
GAGTTCTCACGGTTTCACAAAGAAATCACACCTATGCTGAGTGGTCTTCAGAATAACAGAGTAGAATGGAAATCACTAGCTGATGAGTATGATGCAAAGATGAAGGTCATTGAAGAGGAGGCAAAAAAGCAAGAAGGAGGAGCCGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095464-PDE6C:NM_006204:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.275
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(10.8=100)
A:
NA
C2:
PF0023314=PDEase_I=PD(7.6=37.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTATGATGGACAGAAACAAAAGAGA
R:
TTTTCGGCTCCTCCTTCTTGC
Band lengths:
233-617
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)