HsaINT0122634 @ hg19
Intron Retention
Gene
ENSG00000090857 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:30264]
Coordinates
chr16:70176137-70176589:+
Coord C1 exon
chr16:70176137-70176292
Coord A exon
chr16:70176293-70176455
Coord C2 exon
chr16:70176456-70176589
Length
163 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GTGATTTTTCCATTCCGTAGACC
3' ss Score
9.07
Exon sequences
Seq C1 exon
CTTTGATGTATGATCTGAAGGTTCCCCGCTGGGACTTCCAGACCGGTAGGCAGTTACGCACCTCTCCTCTCTACGACCGGCTGGATGCACAGGGAGCCAGGTGGATGGAGAAACATGGATTTGAGAGGCCAAAGTACTTTGTTCCCCCCGACAAGG
Seq A exon
GTAAGAAGTCACATTCTCATTTTTGCTTCTTTTTTTTTTTTTTGTCCTGGGAATTAATAAAACATATTTTCAAATGCATAGGCTAGAATGTGTTCACAGAAGAAAAAGAACCACGTGGACTACACTAAACTCTACAGGGCCTTGTGATTTTTCCATTCCGTAG
Seq C2 exon
ACCTCCTGGCATTGGAGCAGAGCAAGACTTTCTATAAGCCAGATTGGTTTGACATCGTGGAGTCTGAAGTCAAGTGCTGTAAGGAAGCTGTGTGTGTCATTGACATGTCCTCTTTCACAAAGTTTGAGATAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090857-PDPR:NM_017990:12
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:
NO
A:
NA
C2:
PF0157116=GCV_T=PU(5.5=26.7)
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:
ATGATCTGAAGGTTCCCCGCT
R:
CACACACAGCTTCCTTACAGCA
Band lengths:
243-406
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)