HsaINT0122643 @ hg19
Intron Retention
Gene
ENSG00000090857 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:30264]
Coordinates
chr16:70161163-70162768:+
Coord C1 exon
chr16:70161163-70161296
Coord A exon
chr16:70161297-70162686
Coord C2 exon
chr16:70162687-70162768
Length
1390 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGGGCTCATTTTTCTTACAGGTT
3' ss Score
10.19
Exon sequences
Seq C1 exon
GCTGGCTGCTGGCTCTACCAGGTTCTGTGCTGGCATCCTGAGCACTGCCAGGCACTTGACCATTGAGCAGAAGATGGCAGACTACTCAAACAAACTCTACTATCAGTTAGAGCAAGAAACAGGGATCCAAACAG
Seq A exon
GTAAGCAAGTGTCTTCCATTTATTGCTTTGCCTGTCCCTGAGATTGTTATATTCATTTCTGTATTTGGTCCTCTGCCAGGTGTGCCTGCTGCTTTGGTAATTAAAACTTGGGTTGGCCGGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCCGTCTCTACTAAGAAATTAAGAAAATATGTAAATTATCCTTACTGTACTTCTTTTGAAAATAAGATACCAAATTGCTTCAACTCTTTCTTCATAAGAATTAAGAGTCATTGCATTTTAGGAGAATTGTCATTGGCCCAAGTGTAATTATGGTTCTATATCAGGTGTGTTGATTACAGACAACAGGAATTGGCTCTGGCCAACTTGGAGCTTGTTGGGAGGAGCTTGGGCCTGTGGAGTTGGCAGGAGGCTGCCAGCTGGAGGCAGCCTGGAAGCCAGGATGTGGGGACTGCACCGCAGGCAGTCCCTCAGCGAGAACAGGAGCAGCCTGGCGTGGCTGATGCTGCCCTTGAGATGGTGACCTCTAGTCATTCACCTACGTGCTCAAGACTGACTCTTCCAGGAGGGTCTGATTGGATAAGCTTAGGTCACATGCCCACTGTTTGGCTATACTGGGGAAGAAGAAGGGAGAATCCGACCCTTGGTAGCTGATGTTATTGTGAGTGGCCTTTGCCAGGGATTACACTCCCCCAAGACTAGGAGGAGAAAGGGTGAAACTGCCTAAAAGGTGGGAAGAATAGGGATGGTCGAATCCCTGCCCAAAACTGTCTTTTTTTTTTTTCTTTTTTTTAAAGACAAAGTCTCACTCTGTTACCCAGGCTAGAGTGCAGTGGTGCAATTTTGACCCACTGCAACCTCCACCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTTCCCGGTAGCTGGGATTACAGGCGTGCACCACCACACCTGGCTAATTTTTATATTTTTAGTAGAGACAGGGTTTCACCATGCTGGCCAGGCTGGTCTCAAACTACTGACCTCAGATGATCCGCCCCCCTCAGCCTCCCAAAGTGCTGCGATTACAAGCATGAGCCACTACACCTGGCCTAGAATCTCATTTGATCCTCACAACCTCACAAAACTGTGAGCTGAGAATGTTTGGTCAGGGCATGGAGCCTTAGTGCATCTGAAGTTCTTAAAATTTTGCATAGAAGCTCAGAGAAGCTGATTTACCTGCCCAAGGATATTGAGTGGCAGTCCCAGGATTCATCACAGGTCTTCTAACCTATAATCTAGTGGATTTTCCACTCTCCTGTCCTACATTTGGTCTGATCTGTCTCATTTGGGCTCATTTTTCTTACAG
Seq C2 exon
GTTACACAAGGACAGGCTCAATCTTTCTGGCCCAAACTCAGGACCGACTGATCTCCCTGAAGCGCATCAACGCAGGGCTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090857-PDPR:NM_017990:4
Average complexity
IR-C
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:
PF0126619=DAO=FE(12.5=100)
A:
NA
C2:
PF0126619=DAO=FE(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGCTGCTGGCTCTAC
R:
TTCAGCCCTGCGTTGATGC
Band lengths:
216-1606
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)