GgaINT0125227 @ galGal3
Intron Retention
Gene
ENSGALG00000008736 | PNPLA7
Description
NA
Coordinates
chr17:2012572-2013691:+
Coord C1 exon
chr17:2012572-2012649
Coord A exon
chr17:2012650-2013485
Coord C2 exon
chr17:2013486-2013691
Length
836 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GTTGTCTCCATTTTCTCCAGGAT
3' ss Score
9.39
Exon sequences
Seq C1 exon
GATCCTTCCCTGCTGAATGACAGAGTGACACTGCATCAGGTTACTGCTGGGACTGTGCTGTCAAGGCAGGGAGATCAG
Seq A exon
GTGGGTGAGCGCCCTCTGGGAGTGGGGGGAGACAGAACAGGAAGGTCTGGTTTGGTCTTTTGTTCCCACTGTAAGAGAGGAAAAGACAAACACCCTGAACAAAAATGCTCCCTCACCTTGGCCCATCCCAAGCCTTCTCATTGCCAGGCAATCCCAGCTCTCAGCCTCTCCTCACATGCAGGGTAACAGTGTGGCCAGAGCTTCCGTGGAAATCTTGTATGCCCCTCTTTACTTTTTTTTATGCCCCTTCATGAAAAGGTGTGGTGGCCAAACAGCTTTTTATTCTTTTTTTCTTCTCCTCATATTTTTTTTCCAGGCTCTGCACTGCAGGCCTTGGTGTCATTGCTCCATGCTATTTGTTTTTAGCAAAGTACGTTCAGGATATAATGTATTTATAATAATATATACGTTCAGGATATAATGTATTTATAATAATACAATGGAAATAGGCTTATGCAAAGCAAATGAGGGGCAGCTACAACTAGAATGCTGCTATGTTCTGTTTTGCTGAACTGCAATATCCCTCAGCGTGCTGCAGTGATTACCCCACTATCTTCATTCCCAATCCTGTTTTTATTTCTTGAGATCTTACAGATGCAGATTCAATTTTTCATAACCATGCAAGGAGAAACACATTTTTCAATATTGTGGCCATTTAGTTTTAAATATTCATAACCTCTTAATAATTCACTGTCGTATTTTACTTTATCGCCTAACGGTTTAAAAGCTGTAGAGGGCTTTCTGGAAAACAGATTGGCCATGATAGTGCTGTCGTTGTGATAATTGCTTTTAAAGTCTTTGGGGATTTCATTGAGCGTTGTCTCCATTTTCTCCAG
Seq C2 exon
GATGTTAATGTTTGCTTTGTGGTCTCCGGGATGCTTCACGTGTACCAACAGAAGGTCGACTCCGAGGAGGACACCTGCCTGTTCATTACTCACCCAGGAGAACTCGTGGGCCAGCTTGCTGTTCTCACTGGGGAACCACTGATTTTCACCATCAAGGCCAATCGAGACTGTAGCTTCCTGTCTATTTCCAAGTCCCACTTCTACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008736:ENSGALT00000014216:18
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:
PF0002724=cNMP_binding=PU(16.3=57.7)
A:
NA
C2:
PF0002724=cNMP_binding=FE(73.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCCTTCCCTGCTGAATGACA
R:
TCGTAGAAGTGGGACTTGGAA
Band lengths:
284-1120
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]