GgaINT0139835 @ galGal4
Intron Retention
Gene
ENSGALG00000024479 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr25:2076128-2077032:+
Coord C1 exon
chr25:2076128-2076346
Coord A exon
chr25:2076347-2076922
Coord C2 exon
chr25:2076923-2077032
Length
576 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGG
5' ss Score
5.28
3' ss Seq
TTTTCTCCCTTCTGTTACAGTCA
3' ss Score
10.73
Exon sequences
Seq C1 exon
TTATCCTCCCTTTGGCAGTGAGCATCGCGAGCTTTGTGACCGTAAAGAGACCCGGAGTGACTGGTGAGAACAGCAATGAGGTTGCCAAGCTGGTGAACACCCTGAATACTGTTCCCTCGTTGGGGCAGAGCCCCGGACCAATGGTGGTGTCCAACAGCAGCCCTGTGCACGGCTCCCAGAGATCCAGCACGTCGGAGTCATCATCATCGTCGTTGAAAG
Seq A exon
GTGTGGTGATGTACTGCCCTGAAACTGCTGAGATCTCATCGTTTGCATGGGCACTGAAAAGCATTCCCATTAATTCCTGCATTTTTGTCATCTGTACGTTACTTTTTACCCAGTTGGCTGCATTTTGTTTGTGGATATTGCTTCCATACATTATTTTGCATTCAAATTTACTGATGTGCATCTTGAAAACGCACACACCCATAATACTCTGCATGAGGAGGGGGAAGAATCAAATCCTGGCTTCTGTTCCATCACCTTAAGGAGTCTCAGAGTCCTGTAGCTCTCTTAAGGCACATTTTGTGTCATCTGTACTGTTTCTGTGTGCAGGTAGGGGTGAAGGTGATGGAGAGGAACAGGATTTTAAACTGAAGGATAGGAAACCAATGAAATGGCTGAAGAAGGAAAGATTAGTTGAGCTTTTTATTTTTAGTTAGTGTGATGTTGAGATACTCCATATTAAAGATAGGAGGGTATGTTTCAGCATACAGATTGCGGGGAGTTTGCAGCCTGGACCTGAGACATGTAACAATTATCTCTTTATTTTGTGTTGTGGTGTTTTTCTCCCTTCTGTTACAG
Seq C2 exon
TCAGTTCATCTCCAATTCCCACCTTTGATTTGCAAGATGGTGGCAGGAAGGTCTGCCCACGGTGTGATGCTCAGTTCCGAGTCACCGAAGCTTTAAGAGGACATATGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024479:ENSGALT00000041392:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.770 A=NA C2=0.324
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
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTCCCTTTGGCAGTGAGC
R:
CACATATGTCCTCTTAAAGCTTCGGT
Band lengths:
326-902
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]