GgaINT0129064 @ galGal3
Intron Retention
Gene
ENSGALG00000007181 | PGPS1_CHICK
Description
NA
Coordinates
chr18:9779106-9780032:-
Coord C1 exon
chr18:9779933-9780032
Coord A exon
chr18:9779296-9779932
Coord C2 exon
chr18:9779106-9779295
Length
637 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGAT
5' ss Score
0.46
3' ss Seq
GAAAACCCCTTGTCTCCCAGGAA
3' ss Score
6.44
Exon sequences
Seq C1 exon
GTGAATTGCTTAGAAGAAACACTGGAGAAATCATTGCAAGCAAATGAATCACCAAACCTCAGAGTTTCCATTCTTCTTGACTACACCAGGGGATCTCGGG
Seq A exon
GTAGATATTATGATACCTTACTTTCTTCAAAAGCTTATTTTAGTCAGACTGAACATGTTGTCATTTTTGAGGGAGACTGTCTTGGCTGATAGGACCTACAGGCTTAAATCGCATACATTTCAAAACCTGTCCTGTTGTATACCAGTAACTGTGTATTCCCAGAAAATTTTTAAGCTGAGCAACTCTTTAGAAAGTAGTTGGTAGGAGCCAGAAGATCACAGGGTCAGATGCTATGCTCTGTGCAACTTGTGCTTTCTTGCTTGCCTAGTTCACTCGTCAGTACATTTGTCCTCATCCATTGTGCACTTTTATATTTTCCTTTTAAGGAAAAGTGTGGGAGTGTTGGAAGTAGCAGCACACTTAACCTTCTGCAGTGACTTTTTGTAGCCTGTGTTAGTGCTGGGTGTGGAATGGTGGCTGTTCCAAACCCATTCACCTACAGATGTACAATTCTAGATATTGATATTACTGCTGGTGTAAGTGCAAATTAAAGTGATTAAAAAGAAAAAATGCTAGTAGCTGCCTCGTGTGCTGGCACTGCACTCTGTAAGCAGCCTCTAGCTGAGGAGCTGGCGTGCCATGTCATTGTGTTCCTCACCCATGGTGAAGCAGTGTGTGAAAACCCCTTGTCTCCCAG
Seq C2 exon
GAAGGAAGAATTCTCGAACAATGCTAATTCCACTGCTGCAGAGATTCCCCGAACAAGTGCGTGTCTCCCTTTTCCACACCCCAAACCTGCGTGGGCTTCTCAAACTCCTGATTCCAGAGCGTTTTAATGAGACCATTGGCCTGCAGCACATCAAGGTCTATCTCTTTGATGATAATGTCATCCTGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007181:ENSGALT00000011630:4
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:
PF130911=PLDc_2=FE(20.4=100)
A:
NA
C2:
PF130911=PLDc_2=FE(38.9=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:
ATTGCTTAGAAGAAACACTGGAGA
R:
CCGCTCAGGATGACATTATCA
Band lengths:
286-923
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]