BtaINT0114987 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021289 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr3:19405723-19406398:+
Coord C1 exon
chr3:19405723-19405863
Coord A exon
chr3:19405864-19406341
Coord C2 exon
chr3:19406342-19406398
Length
478 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTTCTCTTTGTCTTTCTCAGCAA
3' ss Score
9.97
Exon sequences
Seq C1 exon
GAGTGTCATGGGCCGGCAGACGTGTCTGGAGTGCAGCTTTGAGATCCCAGACTTCCCCAATCATTTCCCTACTTACGTTCATTGCTCTCTGTGTCGCTATAGTACCTGCTGTTCTCGAGCTTACGCCAACCATATGATCAA
Seq A exon
GTGAGTCAGGATTAAACCAATGTTCTTCTCTGGGATTTCAGATTCTTCAGAACTCATTTCATTCCCTTCCCTGCTTCTGGTGATTCCCCCTTCAACTTTTAGAGCTGTTTGTGCACCTTTGCTAGCAGAGTCAGAGGCCAGACCTGGCTTTATTTGGCTTTCATTGGTCTGTAATCGTTTTGTACAACCTTGCTACTCAGAATGTGGTCCAAGGGCCAGGGTGCTTCTTAGAAATATGGCCTCTGACCCTGGTCACCACCCCTCTACCCTCAACCACAATATGCCTTTTAATAGATTTCCCCCCACCTCCAGGATCTATTTGCATATTAATAGGAAATATTAATGTGATAGGCTTGGGTTGAGGTTAGGATTGATTAAAGAGGCATTTCTTTTGTTCAGGCCTTGTCAATGGCTGGTGATCTCTAGTTTAGTGAGCTGAACCATGTAACTCATACAACTTTCTCTTTGTCTTTCTCAG
Seq C2 exon
CAATCATGTTCCACGGAAGAGCCCCAAGTATTTGGCTTTGTTTAAAAATTCTGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021289:ENSBTAT00000033883:13
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGTCATGGGCCGGCA
R:
CTCACAGAATTTTTAAACAAAGCCA
Band lengths:
198-676
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]