GgaINT1022198 @ galGal4
Intron Retention
Gene
ENSGALG00000024479 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr25:2077379-2078397:+
Coord C1 exon
chr25:2077379-2077713
Coord A exon
chr25:2077714-2078242
Coord C2 exon
chr25:2078243-2078397
Length
529 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
ACACCCTTTCTGTTCATAAGATT
3' ss Score
4.32
Exon sequences
Seq C1 exon
TACTGCTGCCCTGAAATGGTTGAATTCCTCAAGAAAAGAAAATCTCTCGATTCTGAACCAAATATCCAATCTGCAAAGCCTCCATCTCCAGAAAAAACCACAGCTGTTGCTTCCCCGCCCTCTTCTACTCCTATCCCTGCACTGTCCCCACCTGCTAAAGCTCCAGAGCCAAATGAAGGCATGGTTGACTCGTCCCAAAGTAAGCTCATCATGTTGGTGGATGACTTCTACTACGGCAGAGATGGTGGCAAAGTGAGCCAGCTGCTGAACTTCCCCAAGGTTCCGACTTCCTTCCGCTGTCCGCACTGCACCAAGAGGCTAAAGAACAACATACG
Seq A exon
GTAAGGGATGCAACGTGCCACAAAAAGGCTGCGGTGTTCTGGGTGCCTCAGATCTGCAGGAGTGAAAATGAGGTGGGAGCAGCAATCTCCCAGGTGTCCCATTGTGTGGATATGCTTAGAGCTGAAGCAGAAAAGTGAGGCGGTTCGTCTGTCATCACACATTTGGGTCAGGGAAAGAATGGATAAGAAGAACGGAAAGCTGGAGGAGAGGAATGGAAAAAGAGAATGGTGGTTGGGGTTAGAAGTGCTCCACAGCGCTGAACTACATCTCCTCTGTAACGTCTGGAGTTGCAGAACAGGGGGTTGCTGGATAGGGGACCGTGTGTGCTGGTGTTGGGAAGAGCGAGAAGGAGTCACTTCAGTGCTCTTTTGGGTCAAAGTTACTTTGGTTTTATCATTCAATCTTTTGGGCCCTTAAAAGTAATGATAAAATGGGTTAAAAAAAACTCCTGGTGTAGCATTCCTAGTGCTGCCAGGACTACAGGTGCAAAATGTGTGGATTTCTGCTCACACCCTTTCTGTTCATAAG
Seq C2 exon
ATTTATGAACCACATGAAGCACCACGTGGAACTGGACCAGCAGAACGGAGAGGTGGACGTGCACACCATCTGCCAGCACTGCTACAGGCAGTTCTCCACTCCGTTTCAGCTCCAGTGCCACTTAGAGAACGTCCACAGTCCCTATGAGTCAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024479:ENSGALT00000041392:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.464 A=NA C2=0.075
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAAAGCCTCCATCTCCAG
R:
CTGTAGCAGTGCTGGCAGATG
Band lengths:
352-881
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]