HsaINT0122206 @ hg19
Intron Retention
Gene
ENSG00000095464 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:8787]
Coordinates
chr10:95394515-95395397:+
Coord C1 exon
chr10:95394515-95394664
Coord A exon
chr10:95394665-95395253
Coord C2 exon
chr10:95395254-95395397
Length
589 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
TCACCTTTTATCCATTTCAGACT
3' ss Score
9.83
Exon sequences
Seq C1 exon
AAAGGACCTGTAGACGAAACTGGTTGGGTCATTAAGAATGTTTTGTCCCTGCCTATTGTCAACAAGAAAGAAGATATTGTGGGAGTGGCTACATTTTACAACAGGAAGGATGGAAAACCTTTCGATGAGCATGATGAATACATTACCGAG
Seq A exon
GCAAGTGCAATAATAAGATAATGGAAGTCAATGCAATTCACAAAATAAGAGAGGGCACGTAATTATTTGTTATTCTGGAATGATATTTTGAAGGGCCATTAAGACATGAGTCACACATAGCTGTAACCAATATGTTGTTATTTTGTCGTTTCTATTTCCTGACTTCTATAAACTGCAACATTTTCTACCAAAGTATAAAATTTTAGCTTAACCAAAATTTGTAATAATACTCGGAAAACAGGAAAGAGGATTTTCTTCTTCTTTCTCCCACTCCTCCTTCCTGTTCCCTCTCATTCTTATTCTTATTCTTACGCCCAGCCCCCTGCCTAATTTTTAGGTCCTGCTTGACTATACTGGTGTTGGTAACACCTCTCTCTTCTATTCATGGTGCATGGTACACTTTAAAAAGCAATAATTCAGCCAGTTTTATTGTCTGAAGCTGATTATTAGTATGTTTTTCTTAAATTAAAAGAAGGAATGGGGTGGTTGATGATGGAAGGGAGATGGATAGAAAAGCGTGCAGATTGTTGCCTCCAAACCAATTTTTCTTTCACTGAAGAGAATTAGAATCACCTTTTATCCATTTCAG
Seq C2 exon
ACTCTCACACAATTTCTTGGATGGTCTCTTTTAAATACTGACACCTACGATAAGATGAATAAGCTAGAAAACAGAAAGGACATTGCTCAGGAAATGCTCATGAACCAAACCAAAGCCACTCCTGAAGAAATTAAGTCCATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095464-PDE6C:NM_006204:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0159021=GAF=FE(27.5=100)
A:
NA
C2:
PF0159021=GAF=PD(5.1=18.8)
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:
AAAGGACCTGTAGACGAAACTGG
R:
CAAAATGGACTTAATTTCTTCAGGAG
Band lengths:
294-883
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)