GgaINT0098073 @ galGal4
Intron Retention
Gene
ENSGALG00000007559 | PDSS1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:HGNC Symbol;Acc:HGNC:17759]
Coordinates
chr2:15997345-15997962:-
Coord C1 exon
chr2:15997839-15997962
Coord A exon
chr2:15997476-15997838
Coord C2 exon
chr2:15997345-15997475
Length
363 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCATCTTTTCCTTTCTGTAGGAG
3' ss Score
10.6
Exon sequences
Seq C1 exon
GTTCCATCATACAAGTACAGCCCTCATGTGCAGCTGCAGTAAGACAGTTAGTGATGAAAAATACCAAGACCCTTTTCAACTTGGCAGAAAAGACTTGAAGAATCTCTATGAGGATATTAAAAAG
Seq A exon
GTAAGGGGTTTTGGTGACTGTTCTGGGATATTGTAATGATTCTGACTCTAATTGCAACCATTATTGTGGTGGGTAGTTACTTAGGCACTGTTCTTCATGTTTATGAAAAGCTGTTTGTAAACTGCTCTGGAAGTAAAGAGAGCATTTTAACATACTGTGTGGAACCTGAATGCAGTTTTTGTTTTATCCTGATTTGCAGTGCTTGAATACATCAGTTATATTTCAGATTACAATGAAAAGTAAAAAACATCAGCTTACGTTGTGTGGAGTGAATACTGGCAATAACCTTTTATGTGCATACTGCTTAAACTGTAAGATTGGCATTGTGACTTTAATGCTGGTCCCATCTTTTCCTTTCTGTAG
Seq C2 exon
GAGTTACTTGTATCTACTGCTGAACTTAGGGAAATGTGTGAATATTACTTTGATGGGAAAGGAAAGGCCTTTCGACCAATGATTGTGGTGCTAATGGCGAGGGCTTGCAACATTCACCATAGCAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007559:ENSGALT00000012224:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0034812=polyprenyl_synt=PU(13.7=81.8),PF073076=HEPPP_synt_1=PU(5.3=15.9)
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:
GTTCCATCATACAAGTACAGCCCT
R:
TGGAATTGCTATGGTGAATGTTGC
Band lengths:
254-617
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]