GgaINT0139833 @ galGal4
Intron Retention
Gene
ENSGALG00000024479 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr25:2074448-2075439:+
Coord C1 exon
chr25:2074448-2074556
Coord A exon
chr25:2074557-2075142
Coord C2 exon
chr25:2075143-2075439
Length
586 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCTTTATTCGTTTCTGTTTGAAG
3' ss Score
-3.28
Exon sequences
Seq C1 exon
GGATTTCCCGTGCGGAACGTGCGGCCTGTGCAAAACACGATGAATCAAGTGGGAATTGTCCTGAATGTACAGCAGGGTCAGACAGTCAGACCCATCACCCTTGTCCCAG
Seq A exon
GTAAGGACTGAAACAAATCCAAGCCATGCTTCTGTCATCTTTCTTTACAGAGTACCAAGGACAAATATTATATATTTGAAATACGCAGCTGTAATACAAACCTTTGAGCTCTAGAGAAGGGGATTTTTCAGTTCTGTAGCTGAAGAAGTGTGTGTATTAGTGGCTCCAGTGCTGCCAGTTGTGTCCAGCTGAGAGTGGGCCTTTTGACAATAGTAATAAACTACTTGGTAGACAGGGGTCTTCCAAGTGGAAGGAATGCCTGCCTTGCAGAACTCCATGACTTCTTCCAAAGTCACATGCAGAGTCTTGAGAGATGTGACACGTGGGGATGTGGTTTAGTGGAGATGAGTTGGGGTTGGACTTGATTGTCTTGCAGGTGTTTTCCAGCTGTAATGATTCTATGATTTTGTGATTCGTGTTCAATTTCAGGCTGGTTGGGAAAGAAAACTAAGGGGCTGAACTTGTAAAACTTTCACTGAAATGAGTGGGAATTTTGGGAGCTTGGCAGTGGTAGAAAATAGATTGTACTCTGGGCAAGGGACGGAATTCATTTATTTGATCTCCCTTCTTTATTCGTTTCTGTTTG
Seq C2 exon
AAGCCCCAGGTACACAGTTTGTCAAGCCAGCAGTTGGCGTTCCTCAGGTGTTCTCCCAGGTGGCCCAGGTGAGACCAGGTACGACCATGCCGGTCCGACCCACCACCAACACTTTCACTACGGTCATTCCGGCCACGCTCACCATCAGGAGCACAGTGCCGCAGTCCCAGTCACAACAGCAAAGTAAGTCCACTCCCAGCACCTCCACAACTCCTACTGCAACGCAGCCAACACCACTGGGACAGTTAACTGTGCAGCAGCCAGGGCAGTCCAGTCAAGCTACTAACCCCAAATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024479:ENSGALT00000041392:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.378 A=NA C2=0.810
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
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGAATGTACAGCAGGGTCA
R:
TGGGGTTAGTAGCTTGACTGGA
Band lengths:
342-928
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]