HsaINT0122202 @ hg19
Intron Retention
Gene
ENSG00000095464 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:8787]
Coordinates
chr10:95385332-95386461:+
Coord C1 exon
chr10:95385332-95385406
Coord A exon
chr10:95385407-95386396
Coord C2 exon
chr10:95386397-95386461
Length
990 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGT
5' ss Score
9.15
3' ss Seq
ATATCCTCTTTCTTTCTTAGGAA
3' ss Score
11.51
Exon sequences
Seq C1 exon
GAATTCTACGATGAATGGCCAATCAAGCTTGGAGAAGTAGAGCCTTATAAAGGTCCAAAGACACCTGATGGCAGG
Seq A exon
GTACGTGCAAATGTCTTCCTTGATGCCATCTGTGCATGGTGTCAGGTGCTAAAATTAAGAGGCCACAGTGCATAGAGCACTGGCCTGGGAAGACCTGGAGTAGTAGAAACAGCACTAGACAAGGAGTTTGAGGTTCTAGTCCCAGCTATGCCCCAAGCTAGAGCTGATTGGCCCCTGCCTTAACTCCTTGTTGAACCTCTCCGTTTCCTTTTCTATAAAGCCAGGGCTTGGTAGACCAGTGGTTCTCAACTGGAAGGGATGCATCAGAGCCACCTGCACAACATTTTAAAGAAGTACCTGGGCCCTTCTTCAGATATGTGGGATTAGAATCTCTAAGGAAGGGTTGGGTTAGGTTTACTTTCCCCCTTGACTGCAAGCTTCATGAAGGCAGAAACCCCTGTGTCCATAGCACACAGGAAAGAGAAGGGGATGGATTGTGTCCAGGCCTCAGATTCATCATCTGCCCCATGAAACAGAGAGAATAATTCTCTAGTCCCTTTCAGCTTTGGCAGTGAAACCTCCTGTTTCTGAGGCACCTGTTCAGATAAGTCACTGATGAAAGGAGGGTACGGGTCACTATATATAATGTAAAACTGACTACAGTTAAGAAATTACATGATTTGTTCTAGTGAAGTTATTAATGTCAGGTATTTCTGGACAACAAAAGGGATCACTTGAAAATAAAAACAGACTCTCTGATGATTTGGTAGCCAAAGATCCCCCCCACCCCAAAAGCTGTTTGGGGGCAATTCAACTTTTTAAAAACAAAATTTATTTTAGCCTGTGCATGTAGATAAACAGCCAATAATATTTCTGGTTTTATTATAAGTTTGTAGTCAGGATATAAGTAGTTTGATAATTTATGTTATAATATAATGTGGTTGGGAAATAAGGTTCTATTTGTAAGAGTTTTAAAGTACAAGTTCCCCAATGAAAAATGATTTCTTTGGGAAATAACATTATTCCCATAATATCCTCTTTCTTTCTTAG
Seq C2 exon
GAAGTCAACTTTTATAAAATCATTGATTACATTTTACATGGAAAAGAAGAGATCAAAGTGATTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095464-PDE6C:NM_006204:5
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:
PF0159021=GAF=FE(13.5=100)
A:
NA
C2:
PF0159021=GAF=FE(11.8=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)