GgaINT0038195 @ galGal4
Intron Retention
Gene
ENSGALG00000005073 | PDC
Description
phosducin [Source:HGNC Symbol;Acc:HGNC:8759]
Coordinates
chr8:9907984-9909982:+
Coord C1 exon
chr8:9907984-9908074
Coord A exon
chr8:9908075-9909821
Coord C2 exon
chr8:9909822-9909982
Length
1747 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGA
5' ss Score
3.01
3' ss Seq
TCTAACAACTTCTCTCTTAGGGC
3' ss Score
7.97
Exon sequences
Seq C1 exon
TCTGCAGCATCTCCTACTCCAGTCACCAAAATGGAAGAAAATGCAAACACCAGCTTGGAAGAAGATTTCGAAGGACAAGCTACACACACAG
Seq A exon
GCAAGAAAACTGACTATACTTGTTTTCTAAAAATAAGCAAAATTTCCTCTGATCACTAAGAAAGCCTAGAATCCATCTACACTAACTGGGATGCCAAACTCCTTGAACAGAAATGTAGGCTCCAAATCCAATGGGAATATATTTTAGATTAATTGATGGCCCTCACTGAAAGGCAGGTAATACCAAACCAATTTTTGTGACAGTCCTCCTCATACCTCAAACAAATGACAAATGCAAACACTTGAAGAAGCCACCAACAGCAACTGCCCAATGCAGATCTTGTTGGTTTACTGTTTCAGTCACAAACAAACTGCCATTCTTCTCTTAGGGAAAAAAAAAAAAAAAAAGGAAGAAGAAAAACAAGAATCATACTAAAAATAGAATTAGGTTACAAGGTTCCACAGTAAAGGCTGACTTATTTTTTCCTTCTTTTGGAAGGAACATTCAGTGCTAAAATTGCATCTATACATCCTTTTGGCAAACACAGCATAGTATTTAAAAGCTTTAAAAGCGTTCTTGTTTGGAATCACAATTCTTTTTAATCCAGCCCTCAATCACTAAACCTTTTCATGAGTACTGACACTGCACTCAATTCTACAGACAGGTATTACTGCATCCTATCTCCCTAACAGGTAACTATATGCTTTAAGACAAGCATTCCTCTCTGTGCTCTGAAGGCTTCTTTTGTCATGCTGTAATAACTCTTGTAGTTCTTGTAATAACTGTTTTTTAGGGTTCTTTCCCAAGAAGCCTTGCTGCTGTTGGCTAAGCTGGTATTTTTCAGAGACCCAAATGTAGGACACTATATCTACACTTAGGCTTCTAAATAATTTTAAAAATATCAAGTCACTGTACACTTAAATCCTTATCGTTATGCCAAGACTTACAAGTTAATTCTTATCTTGGAATCTTGTTTGCAAAAGATAGTTCACCTTCCCTTTCCATCTAGGGGGTGTACTGCTTTTACCTGCCTTTCAAGATGTCAAAATCTAATCCAAAACAGACTCTTAGTAACTGGCAACACTACTCTCTCTCGTGAGTGGGAGAGCTTCTTAACTAGCCACTCCTGAATTTACATAGAAGTAAACTTGATCTGTGAAAACATTCAAATATTCCTTGGTTTTACCTTATGGAGCAAATTTAAGTGTTTTGACACAGACAACATACAAATTTTGAACTGAACATCTTCCTCTCCCTCCTCTACAACAAAATTTAACAAATTCAATCAACTAGTTCCTAAAAGCAAGATCTGCATTACAATCAGAGTTACTAGACCACTTGCCTTACAGGTTATGCTTCCACTGGAACATATATGGATTTAAAAATAAATAAAATCTTGAGGGCTCCAGAATCTTAGTTTTACAATGGACATCAACTCCTTAGGCCTGGTATGCATTCAGACCTTGTCCATAAGGACAGGTAAACGTATATTTATGAAACACTGGCTTTGGCCAAGATATTAGTTTTAATAGGTTTCCACATCCTCATCCTTGTGTAGATCACTAAAATAGTTTTTATGATAATTATATAAACTAGATCACCAAAATGATCCAGGTTACAAATAAACTCTCTTCTGGAGGCTAATGAATACACTGATTATAAAGCTCTGGTTCTCAGCCCTCCTGGAGAGTACTCTGAACGGAAAAGGGGTGGATAAACTGCAGCATAGTTAAGCAAGCCAATAAAGGGCAAACTTAAGGAAGCTTCTTGTTGCCACTAGTTTCTCATCTAACAACTTCTCTCTTAG
Seq C2 exon
GGCCCAAAGGTGTGATCAATGACTGGAGAAAGTTTAAATTAGAAAGTGAAGATAAAGACTCCTTACCCTTGAGCAAGAAAGAAATTCTTAGACAAATGTCTTCACCACACAGGTCCTTCAGTAAAGATGATAAAGATACCAGAGAGAGATTCTGCCGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005073:ENSGALT00000008131:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=PU(8.0=95.2)
A:
NA
C2:
PF0211411=Phosducin=FE(21.3=100)
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:
TGCAGCATCTCCTACTCCAGT
R:
ACGGCAGAATCTCTCTCTGGT
Band lengths:
247-1994
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]