HsaINT0122647 @ hg19
Intron Retention
Gene
ENSG00000090857 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:30264]
Coordinates
chr16:70165205-70166203:+
Coord C1 exon
chr16:70165205-70165322
Coord A exon
chr16:70165323-70166053
Coord C2 exon
chr16:70166054-70166203
Length
731 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
ATGTCATTTCTCCACCTCAGCTA
3' ss Score
6.43
Exon sequences
Seq C1 exon
TGGGCATACGAGCTGGGTCTGTCCAACGAGGAGCCGGTTAGTATCCCGCTACATGCCTGCGAACACTTCTACCTCCTGACTCGCCCCTTGGAGACCCCTCTGCAGAGCAGCACACCAA
Seq A exon
GTGAGGACTTGCACTTTTTTAAAAAATCTTGTTTCTTTGCCAGTATCCTGTCCTCTGAAAAGGAAAACTTTCTGCTAAGGACAGCCTGTGTCTGAAAGAGTCTTTCATTTCTAGAGCATGTTACAGGGAGGTGGACCCAATTCTGACTTTTCTTTATTAACTCTTTATGAAAGGATGGCCAAAATTTCCATTAATACATTTTTTTGTTTTTGTTTGTTTTGCAAGCTAATTTTAGTCCTAAACAGAGGTCATTGAGAATATTTGGACTGTCTTGTTGACTTTTTAACTTGAATGCTATGGATAGTAGAAATGTCATAGGTAAACAATAGACTTAGGTGGGTTCGTGGTTCCAAGCACTGTAGGAGAGGGTTCTCACATCCTTTTGACGGTCTTCATGCCTAGAATGGGCTCTGCAACCCCCCTCTCTGTTAAACTTTCGCTTGGCACAGTGGGAGTTACGTGGTTTGCTTGTGGGGACTAGTCAAAGCTTCTAGGTAAGGGATAATCAGAGAAACAGTCTCCACTGAAAGGCTAAATGGGAGGATCTTCCCCCGTGACCTCAAAAGGTATTTTAAAGCTAATGAATGCCTGTGTTCATTGAATGTTCTTTCATTAATAAAGCCATTAATGGGTGTTTTTGTTTGGTTGTTCTGTCCATTTAGAAAGCTGACTTGCCTCTAAACCCTTGTTTTTTCTTCCACTCCCCACTCCATGTCATTTCTCCACCTCAG
Seq C2 exon
CTATTGTGGATGCTGATGGAAGAATTTATATTCGGAACTGGCAGGGTGGCATCCTGTCTGGGGGCTTTGAGAAGAACCCGAAACCAATTTTCACTGAGGGCAAGAACCAGCTGGAGATTCAGAATCTACAGGAAGACTGGGATCACTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090857-PDPR:NM_017990:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(10.9=100)
A:
NA
C2:
PF0126619=DAO=FE(13.9=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:
ATACGAGCTGGGTCTGTCCAA
R:
CAAAGTGATCCCAGTCTTCCTGT
Band lengths:
263-994
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)