GgaINT0025835 @ galGal4
Intron Retention
Gene
ENSGALG00000002690 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr11:1775734-1777071:-
Coord C1 exon
chr11:1776889-1777071
Coord A exon
chr11:1776139-1776888
Coord C2 exon
chr11:1775734-1776138
Length
750 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
CTTTCTTTTTTTTCCCCCAGGGG
3' ss Score
13.09
Exon sequences
Seq C1 exon
TACGCCCTCCACGTGTACAACGAGGTGATGAACATGGGGCAGAAGTATGGGATCCGCAACGCCGGTTACTACGCGCTCCGCAGCCTGCGGATCGAGAAGTTTTTTGCCTTCTGGGGCCAGGATCTGGATGCCTTTACCACTCCTATGGAGTGTGGCCGTGAGTTCCAGGTCAAGCTGGAAAAG
Seq A exon
GTACGGTGGAAAACTGGAATTGTGGCAGGGCCCAGCATTTCTGTGATGCCACCCAATTGGGTAGATGGGTCATTTTTTGATGGAGCTCTAAGAGCGTGACTGTAACCTGTTCTTATGCTTCGTAAAGGTGCTAAAAAGGTTAAAAAAAAAAAAAATTCCACGTTCCTCTCTGCTGGGCAGCATTCCCAGTGATCTGTGTAGCATCCTGTGTAGTTCAGTGTAGTGGAGGGAGCTGCATACCTTACAGCGCTTGTGATTCTCCCAGCTCCTTTCCCAGTCTGATGAAGCAGAAGCCAGCCTGTGCCCCACGTGGCTTTGTCATGAAGCTGAAAGCATACCAGGATAGACACCAGGAGCAGGAGCTCTCTGCTTTTACTGAAACATAAACCAGTGTGGAGCTGTACCCCACTGTGCAGACATGTGCCATCTCTATCGCTTGCTTGCTATCTGTCTTTCTCACATCTTTGCATGAGCCAAAACAAATGCTTGTATAAACTCAGAAAGCACACACTGATCACGGCTACAAATTTCAGATGGTTTCCTTCCAGTTTGTAAAATCATAGAACACCTCCAGCATCTGAAACAGTGAACATGACAGCTTCTGTCTGAGCTGGGTGCGGAAGCAGCCTGTTCTGATGGAGCATAACTTCCAAGCCCAGGCTGACCTCACGTTGGTAGTTTGTTAAAACTCCAGCAGTGCCACAGTTCCCATTCCTTCCATCAGCCGAGGCTTTCTTTTTTTTCCCCCAG
Seq C2 exon
GGGATGGACTTCATTGGCCAGGAAGCTCTGTTGGAGCAGAAGCAGAACGGGGTGTACAAACGCTTCACCATGTTCATTCTCGAGGACCACGACACAGATATGGACCTCTGGCCCTGGTGGGGAGAACCCATCTTCCGCAACGGCCGCTACGTGGGCAAAACCACCAGCAGTGCCTACAGCTACACTCTGGAGCGCCACGTCTGCCTTGGCTTCGTGCAGCACTTCGACGAGAAGACAGGGGAGGAGCTGGTGGTGACAACTGACTTCATCAACCAGGGCGAGTACGAGATCGACATCGCCGGGCAGCGCTTCCAGGCCAAAGCCAAACTCTACCCCTTCAGCTCCCTCTTTGCTCAGCGTCGCCGCAAGGATGAGGTGGAACTGAGTGGCTACCAGAGGGAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002690:ENSGALT00000004241:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=PD(24.9=88.5)
A:
NA
C2:
PF086696=GCV_T_C=WD(100=80.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTGATGAACATGGGGCAG
R:
GAGTGTAGCTGTAGGCACTGC
Band lengths:
349-1099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]