GgaINT0098080 @ galGal4
Intron Retention
Gene
ENSGALG00000007559 | PDSS1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:HGNC Symbol;Acc:HGNC:17759]
Coordinates
chr2:15977931-15978904:-
Coord C1 exon
chr2:15978824-15978904
Coord A exon
chr2:15978072-15978823
Coord C2 exon
chr2:15977931-15978071
Length
752 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TAATTTTCTCCCTACATAAGAGT
3' ss Score
1.24
Exon sequences
Seq C1 exon
TTTCCAGAAATGAATGCCATGATAATGAGACGATTCAGTAAGCCAGGAGATGTTGAACGTGCTCGGAAGTACGTGTTGCAG
Seq A exon
GTAGGAACGGTGTCAGATATTTCCTTCCTGAAGGGCTGAAGTCAGTCTGAATTTCACTGTGTCTGAAGCAGAACAGCAGTTGCATTATTTGAATAGATGTTCAGAAGCATGTGAGGTATGTGTTGGTGCCATGTTGGTGCCCCACAGCTGCCGTACTGGCACGGTGTTTTAACAGAAATGTGAGTTACTGGGTTGAATAGATTGACGGGTTTTTTTAATCCTCAAATAGCATAAAATCTCCCTAATAAAAACGGAAAGCTCGTGCATTAACTCAGCTCCTTCAGTTGAAGAGTCGCTGTGTGCAGTGACTGATTTAAGCAGCAGTAATGACTGCAACTGAAGTGCTCACTCCCGTTTTAGTTGACTGATGTGAAAAAGAGTGAATAGTTGTGCAGAATTAATACATATCTACTCAGCACAGCGTGAGGGTTTTTTTTTATGCTTCTTTTTTTGGACAGGAGAGAAGGGGTAAAGCAATTAGTTTCTAGTCCTACTGAATAATATCTTGCTGATACAAGTGTTGTTTTATGAGCATCATTAATTTTAGTGCTGGTAAGTTTTGGTGTTTTAAGATTGAATGGAAGATTGAATGGATACAGAATGAATCCTCTTCCTTATATCTTCAGCACATAGCTTAGTGTTCAGGGTACTGACTTTAAAACTTGTAGAACTACTCACTGTAATTATAAGGGGCAAAAGACAGGAAGGGGCTGCTCAGTTATCCATTGTGTTTAATTTTCTCCCTACATAAG
Seq C2 exon
AGTGACGGTGTGCAGCAAACAACCTACCTCGCCCAGCGCTACTGCCACGAAGCGACGAGAGAGATCAGTAAACTGCGCCCATCCCCTGAAAGAGAAGCCCTCATTCAACTGACAGAAATGGTACTCATGCGAGACAAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007559:ENSGALT00000012224:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=FE(9.9=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=PD(4.2=23.4)
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:
TTTCCAGAAATGAATGCCATGAT
R:
TCACTTGTCTCGCATGAGTACC
Band lengths:
222-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]