GgaINT0139832 @ galGal4
Intron Retention
Gene
ENSGALG00000024479 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr25:2073684-2074556:+
Coord C1 exon
chr25:2073684-2073859
Coord A exon
chr25:2073860-2074447
Coord C2 exon
chr25:2074448-2074556
Length
588 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGATTACTGTTTGAATGCAGGGA
3' ss Score
5.72
Exon sequences
Seq C1 exon
CCGGCAACCCTCTTGTTCAGCAAGGCGGACAGCCCCTGATCCTCACCCAGAACCCAACCTCGGGTCTGGGCACCATGGTGACCCAGCCAGTGTTAAGACCTGTGCAGATCATGCAGAATGCCAACCATGTCACAAACTCCCCGGTGACCAGCCAGCCCATCTTCATCACTACCCAG
Seq A exon
GTGGGTGCCCTCGCATCCCCACTCCTACGTACAGGCTGGGAAGGAAGGTCTGATGTACTCATCCCTACAGATTTCAGCCAACAAGGACAGTCAGGGTTGGGCTGGACCAGGCTCTGAGCACCTGATGGAGCTGTGGGTGTCCCTGTTCATTGCAGAGGAGTTGGACAAGGTGACCTTTAAAGGGTCTTTTCCAAGTCAAATGATTCTGTGATTCAACAAAGCAGAGTATTTACCTATCTCAGGAAAAAAAAAAAAAACTACTGCTGCAAATACAGCTTTGCAAATTGTTTAAGAGCTGGGAGAAGACTTCAGTGGGTGCTTATGGAAGGAGAGGTCAGAGTGGAGGCTGTAAATCAGTAGGAAGGTGGCCCTGCTGTTGGGTAAGGTGCTGCCTGCAAACAGTACAGCCTCGATTCGGTTGATCCCATAGATGGTAGTGCTGGGGGGTGCTCTTTGGAGTGGTGGGATTTTTTTTGTTTCATTTGTGGTTTTGATTATTTTTGTTTGGTTGTTTTTGTAGGGTAGAAACCTCAAATTGAATGTGCTTGGTGTGTTTTTGGTATGTCAGTGATTACTGTTTGAATGCAG
Seq C2 exon
GGATTTCCCGTGCGGAACGTGCGGCCTGTGCAAAACACGATGAATCAAGTGGGAATTGTCCTGAATGTACAGCAGGGTCAGACAGTCAGACCCATCACCCTTGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024479:ENSGALT00000041392:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.644 A=NA C2=0.378
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGCAACCCTCTTGTTCAGCAA
R:
ACAAGGGTGATGGGTCTGACT
Band lengths:
278-866
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]