GgaINT0125240 @ galGal4
Intron Retention
Gene
ENSGALG00000008736 | PNPLA7
Description
patatin-like phospholipase domain-containing protein 7 [Source:RefSeq peptide;Acc:NP_001124214]
Coordinates
chr17:1680190-1682276:+
Coord C1 exon
chr17:1680190-1680259
Coord A exon
chr17:1680260-1682159
Coord C2 exon
chr17:1682160-1682276
Length
1900 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GCTTCGTTTCTCTCTTGCAGGCT
3' ss Score
11.75
Exon sequences
Seq C1 exon
GATCTGTGGATTCCTTACTTCACAATCACAACTGACATCACTGCCTCAGCAATGAGGGTCCACACCGATG
Seq A exon
GTAAGTGTGCAGGCAGCTGCTCCTGCTGCAGTGTGTGGGAGTGATGTGGCACTTCAGATCACCCCTCGCCCCTGCAACTCTCTGCCCCTTTACATTTTTCTTTCCTTTTGTTTCTCCCTCCTCTGTTATTTGCTGAGCACCAAACCGTGGTTGTACACATAACGAGGAGCAGAGCTGTGGGGAAGAAATTAACTGAGATGCTGAATTCACTGTTTAGAGAGCAAATGGGTCCACTGGTGCCATTGTGTGTCCTTAAAACATCCTGCGAAGTGCAGGTGTATTAACAATAAATCAGAATTAATGCAACCAAAGCAATTGAAGATTCAAATTCTCCATAAATGAAGATGTATTCCCAATAAAGAGACTCCGGTGCCTGAAGCAGAAGCTGGGTTAGGCTGTCATTTGTGTCCAGTCCTCTTTATTTCTCTGGTGGAAAATTAATTCAGTTTGCAGTGACTAAACAGAGGAGAAAGATCTGAGCTGTCTGCCCTGCTGTCGAGATGTGGTGGCAGCCCTGTGGGATATTTGCTTTAGCTTTTGTCTGGCTATTTAGGGTAATGGTGCAGTGAATCAGGCACCAGTGAAGATGCTCCAAGCCTTCCAGGTGCCCCAGATATTTCTGTGGGTAGAGGAGAGGCCTCTGCTGCCAAGTCTGTGGTGTTCTGTCTTTTGCACTGGCTGTCCTTCATTAGGGCTGTCCCTTCCTGCAGCCCAGGTGTGGGCTACAGAGCCATGAAACCACACTGACCCCAGGTTGGCAGCGTAGGACAGCCAAGGGGGGGTTAAGGAGGGCGAACCCAAGGGGGCTGAGGCACACAGGAGGGGATTTACCTTTCATAGAGGTGGTTTTCCAGTTCCACAGCAGGTTAGGCCAATGAAGTTCCAACTCACCTAAAGCTGCTGCTAATAAAACACAAGGCTGACAGTATTGACCTGTGCTAAGCAGTAGGAGTGCTTAGGTTATAATTAGAGCAAGAAGCATTATATATTTTAAAAAAGAATAAAGTCAATTGCTGGTTTGCTGGGAAGAGTTGTTTGTTTGAAACACGGAGCAGTTAATTACTGAGAAGTGAGCCAACAGTGCAGCTCTTGTTTATTTTTGATATTCTAAAGATTCGGTTCTCAGGCACGACTGAAGCATCTTTGGAAATGCAGCATCATCCAAATTCAGCTGTTGCAAATGTTACGAAGAGAAATCGGTAAATAAGAGCCTCAAAGCAGAATGTCTTACAGGAAACAGAGCCAATCAATTTCTACTTGATTAAGCTTTGTTTATAACAGCTTAAAAGATGACAACTTTCTTCTTTACAGCACTGTTAACAGAAATGTGCTCAGCAAAGGTGAGATCTGAACCTGGTGCCAACGCGTGGTGGTGAAGCGGAGATGTTTGCTTCTTGCAGAGCAGGGGAAGCAGAATTCTTGGGCTTCTGCAATCGTATTTCTCATGTTCAGCTCCTGCTGAAAGCCTGTTTTCTGTGTATCTTTGTGGAACATAATGGCTTTAGCTGCACTTCAATCTGCTTATTCTTCCTATTCCTTTCTCCCCAGGAGAAGCCTTTTCCTTTCCTTATCAGTGTAAGCTCAACAAAGCACTAAAGATGATCCCCGCAGTCAGGCATATGCTGACATCTCCTTACAGGCCATGAACACAAGACGTGTCCTTAAAGCCCTGTTTCCTAAGGCTTTTGCCTGACTGTGGGTCTGAATGGCCTTTTTGATTTATTTTTTTTTTCCCCTATCCAGTATTATGGTATAGAAAATAATAAACTGCTTTAATCACTTCCTAATAGTATTCTCAGGAGCACCTCCATCTCCTGGTCCTTTTGGTGAGTGTGAATGCCTGCCCCAGCTCTGCCAGCCGTGACATTAATGCTGTTGCTGCTTCGTTTCTCTCTTGCAG
Seq C2 exon
GCTCTCTGTGGAGGTACATCCGTGCCAGCATGTCTCTCTCTGGGTACATGCCCCCGCTCTGCGACCCAAAGGATGGGCACCTCCTGATGGATGGAGGTTACGTCAACAACCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008736:ENSGALT00000040268:28
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:
PF0173417=Patatin=FE(13.8=100)
A:
NA
C2:
PF0173417=Patatin=FE(23.4=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:
TGTGGATTCCTTACTTCACAATCACA
R:
CAGGAAGGTTGTTGACGTAACC
Band lengths:
183-2083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]