HsaINT0122144 @ hg19
Intron Retention
Gene
ENSG00000132915 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:8785]
Coordinates
chr5:149276274-149278069:-
Coord C1 exon
chr5:149277926-149278069
Coord A exon
chr5:149276340-149277925
Coord C2 exon
chr5:149276274-149276339
Length
1586 bp
Sequences
Splice sites
5' ss Seq
TTGGTGTGT
5' ss Score
3.29
3' ss Seq
GCCATTTTGGGTCCTGGCAGAAA
3' ss Score
6.56
Exon sequences
Seq C1 exon
TCTTTGACTCAATTTCTGGGCTGGTCTGTCTTAAATCCTGACACCTATGAGTCAATGAATAAACTTGAAAATAGGAAGGATATTTTCCAGGACATAGTAAAATATCATGTGAAGTGTGACAATGAAGAAATTCAGAAAATCTTG
Seq A exon
GTGTGTAATGTTCTTTACTTGTTTCTACTCTAATACAGACTGCGTCTCAGAGATGTGGCCAGATTAAGGCAAAACTTGCAACTCCATGAGGGCACAGCCTGGGCATGGGTTTGTGCACTGTTGTGTTCCTTCCTGCCTAGCACAGGGATGCAGCAGCCCTCAACATTTAATGAATGAATGAATGAATGAGTGCATGAGCAGATGAGTGCCTGAGAGTGGTACATAACGACTGCACTGTGTGGCCTGGGGACAGCTATTGCTTGCAGAAACACCTCATTCTTGGGGTCAGATGTTGGCTTGACAGCTCTAGAAACTCCATTTTTCACAGTGCTCAGGGATGACTTGCTACTGGAGACAGAGTCAACCAGCCATAGCCCCTACTCTGAGAGGAAGCTTTATCTGGAAGACCAGTAGACAATTATCAGTTTCTCAGAGCCTCCCTCCTGTGGGGTCAGCTCACTTAAAAGACCCTATTAAGTTGGGTGCAGTGGCTTACACCTATAATCTCAGCACTTTGGGAGGCCAAGGTGGTCAGATCGCTTGAGCCCAGGAGTTTGAGACCAGCCTGGGCAACACAGCGAGACCCTGTCTCTACCAAAAAAAACCCCACAAAAATTAGTCAGGCATGGTGGCGTGTGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGTGGGAGGATCACCTGAGCCCATGGAGGTCAAAGGCTGCAGTGAGCCGTGATTGCCACACCATGCTTCAGCCTGGCTGACAGAGTGAGACCAGAAAAAAAGAAAAAATAAAGACAGGCTAATGTTTTTAGAGGGCATTTCTTAAGCTGGGAAGATACCACAACAAATTTGATCATTTCATTCCAATAACTGTTAAATTCAGAAGAGAAAACATCCCGTTTAAATAAATTGCCTCATGGTTTGCTTGACTCAGTCCACAGTTTCAGCCAAAGAATGGGTATGTGCAACCTATCGGGGCACAGCCTCGGTGAACCAGTTACAAGTTAACAAATTTTGCTCTGGGTCAAGAAATCAGGAGCAAGTAACTGGGTCCAGTTCCCCCTCCTCTGGCACATGGGGACACAGGCCCAGAGAGAGAAGGAACTTGCCTCAAGTTACACAGTAAATGAGAGGAAGAACTAGGACTATGTCCAAGGCCTCCTTACTCCCAGTCAGTAATAGTAACAATGAAACTATCAACAACAACATTAATTTATGTTAGTGCTTACTATGCGCCAAGCACTGTGCTAAGTGCTTTATATGGATTATTTAATTTTACATATGTTACTTGAGAATGACTTTTCACAATTAAATTTTAATTCACCAGTTAAGTATGTTTATTATCCTCAACTTACAGATGAGGAAACTGAAGATCAGAAGCATTAATAACACGGCTAGTAAGTGGTAGAGCTTGAATTTGAATGCAGGTCTCTATGGCTCTAAAGCCCAGGACCTTGTGCATCAATGGATGTTAAATGGAATCCTCTTTGAGCTGGTGGTTCTGTTGCAAGGACTTTGGAGGAAGGAGATAAATGGGAATGGAAACGCGGAGGCATGTTGTAACCTATTTTTTTTCCCCTGCCATTTTGGGTCCTGGCAG
Seq C2 exon
AAAACCAGAGAGGTGTATGGGAAGGAGCCATGGGAGTGTGAGGAAGAGGAGCTGGCTGAGATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132915-PDE6A:NM_000440:10
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=PD(5.1=18.8)
A:
NA
C2:
NO
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:
TGACTCAATTTCTGGGCTGGT
R:
CAGGATCTCAGCCAGCTCCTC
Band lengths:
206-1792
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)