HsaINT1026492 @ hg38
Intron Retention
Gene
ENSG00000132915 | PDE6A
Description
phosphodiesterase 6A [Source:HGNC Symbol;Acc:HGNC:8785]
Coordinates
chr5:149898363-149899524:-
Coord C1 exon
chr5:149899375-149899524
Coord A exon
chr5:149898507-149899374
Coord C2 exon
chr5:149898363-149898506
Length
868 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
CTCCTTTCTTTCTTTTTCAGTCT
3' ss Score
11.46
Exon sequences
Seq C1 exon
AAAGAACCTCTGGATGAGTCTGGATGGATGATTAAAAATGTGCTTTCAATGCCGATTGTGAACAAGAAGGAAGAAATTGTTGGAGTGGCCACATTTTACAATCGTAAAGATGGGAAGCCCTTTGATGAAATGGATGAGACGCTCATGGAG
Seq A exon
GTATGGCTTGCTAGGAGGCCTTTTGCTGTTGGGATTCAGAGTCAGCTTGCTGGGGGAGGCTGGGTGTCACTGCGCTATCACATGGGGCAGCAACCTGGTTGCTATAACCCTGACTCTGCCTCATCAACCACTTTCTTCACTCTCACTGCTGTACTGCACTGATGTGCTGTCAGAGAAATCCACATTTCCTTTTTAAAAAATGTAATTAAGCTGAGCATGGTGGCTCTCACCTGTAATCCCAGCACTTTGAGAGGTTGAGGCAGATGAATCACTTGAGCCCAGGAACTCAAGACCAGCCTGGCCAACAGGGCAATATCCTATTTCTACAAAAAGTTAAAAAAAGATTAGCCAGGCATGGTAGCGCATATCTGTGGTCCTAGTTACTCAGGAGACTGAAGCAAGAGGATCACTTGAGCCCAAGAGGTCAAAGCTGCAGTGAGCCATGATTGTGCCATTGCAATCCATCCTGGGTGACAGAGCAAGACCCTGTCTCAAAAAAATAAAAAATAAAAAATAATTAACAAACTTTACTTTTTAGAGTAGTTTTAGGTTCTTAGCAAAATTGAGCAAAAAGTACAGCGTTCCTAGATATCCCCTATCCCCACATAGGCAAAAACACATTCTCTTTTTGTGAAGTTATTACACATAAGAATGGTACTTTCTGTATGTTAGTGCTTTATGTACAGTGTGGTCACATCCATTCCTTTATCTTAGCCTTATAAGAACTCCGCAAGGTGGGCAGCACACAGCTTATCAAACCCATTTTATAGCTGAGAAAACAGAGGCCTAGAGACTCTTGCTATGAGTTTTAGAGTCAAGATTAAACTTAGGTGTTCTGTCTCTGATTCCTCCTTTCTTTCTTTTTCAG
Seq C2 exon
TCTTTGACTCAATTTCTGGGCTGGTCTGTCTTAAATCCTGACACCTATGAGTCAATGAATAAACTTGAAAATAGGAAGGATATTTTCCAGGACATAGTAAAATATCATGTGAAGTGTGACAATGAAGAAATTCAGAAAATCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132915:ENST00000255266:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACCTCTGGATGAGTCTGGA
R:
TTTCTGAATTTCTTCATTGTCACACT
Band lengths:
286-1154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains