HsaINT1026514 @ hg38
Intron Retention
Gene
ENSG00000095464 | PDE6C
Description
phosphodiesterase 6C [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr10:93634758-93635640:+
Coord C1 exon
chr10:93634758-93634907
Coord A exon
chr10:93634908-93635496
Coord C2 exon
chr10:93635497-93635640
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:ENST00000371447:9
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=0.021
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
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]
SPECIAL DATASETS
- Autistic and control brains