DreINT0116956 @ danRer10
Intron Retention
Gene
ENSDARG00000076542 | pogzb
Description
pogo transposable element with ZNF domain b [Source:ZFIN;Acc:ZDB-GENE-100609-3]
Coordinates
chr16:38171613-38172040:+
Coord C1 exon
chr16:38171613-38171712
Coord A exon
chr16:38171713-38171794
Coord C2 exon
chr16:38171795-38172040
Length
82 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
TTCTTTATGTCTTTTTTAAGCAC
3' ss Score
8.19
Exon sequences
Seq C1 exon
GGTCTTCCTGTCCAGAATATCCAGCCTGGCCAGGGTCCAATGAGTTTAGTGCTGAATGTCCAACAAGGCCAAACTGTTCGACCGATTACTCTACTCCAGG
Seq A exon
GTATGTCAGTGTGCTCTTGTTATGGTCTTACGCTATAGTTCTGTGCATTAATTAACAGTGTTTTCTTTATGTCTTTTTTAAG
Seq C2 exon
CACCTGGCACACAAATTTTCAAACCAGCCATCGGAGCAACCCAAATAATTACCCAGCCTGCTCAAATAAGGGCTGGAGCTCCGGTTGTAAACAGAGCCCAAACGCCTAGTACTTTCAGCACAGTGCAGATCCCTGCTACTCTCACTTTTCGAACCACAAACGCGGTCACCCCAACAGCTGCCAGTTCTCTACCCATCGTATCTTCTACAACCATTACTCAGCCTACCAGGACCACTACTAAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076542:ENSDART00000132087:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.224
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAATATCCAGCCTGGCCAG
R:
CGGAGCTCCAGCCCTTATTTG
Band lengths:
171-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]