RnoINT0114703 @ rn6
Intron Retention
Gene
ENSRNOG00000053599 | Pogz
Description
pogo transposable element derived with ZNF domain [Source:RGD Symbol;Acc:1309980]
Coordinates
chr2:196029780-196031214:+
Coord C1 exon
chr2:196029780-196030117
Coord A exon
chr2:196030118-196031059
Coord C2 exon
chr2:196031060-196031214
Length
942 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGC
5' ss Score
9.86
3' ss Seq
CTCTTTGTGCTGTGCTACAGATT
3' ss Score
9.29
Exon sequences
Seq C1 exon
TACTGCTGCCCTGAAATGGTTGAGTACCAAAAGAAAGGCAAGTCCCTCGATGCGGAGCCCAGTGTCCCATCAGCAGCAAAGCCTGCATCCCCTGAGAAGACAGCCCCAGTTACTTCCACACCCTCCTCTACACCAATTCCTGCTCTCTCACCTCCTACCAAAGTGCCAGAGCCAAGTGAGAGTGCGGGAGACACTGTCCAGACCAAGCTTATTATGCTTGTCGATGACTTTTACTACGGACGGGATGGGGGCAAAGCAGCCCAGCTAACTAGCTTCCCTAAAGTTGCCACGTCTTTCCGATGCCCTCATTGTACTAAGAGGCTAAAGAACAACATTCG
Seq A exon
GTAAGCCTGAAACAGCCTTAGAAATGGTTACCTGCACAGAAGTACACAAGTGTTCTTACACAGTTAAGGTTTTCTTTTACTATGATGCAGTCTTTCTTTTTTTATGGTTTTTTGAAATGGGGTTTCTCTGTGACCCTGGCTGTCCTAGAATTCACTCTGTGGACCAGGCTGGCTTCGAACTCAGAGATCTGTCTTCTCCTCCTGAATGCTGGGACTAAAGGCATTTGCCACCACTACCCAACTTGAGACAGTCTTGTTAGAATTTATAGTGGAAAATATTGTTAAAATACAGTAATAGGAGACACCTTTAAGTTTGAATAAGGAACACCAGTCTTCTTGAACAGAACATTCTTTTAGTTTGAAGAACTTGTTATCTGGGGTCTGGACAGATAAATCAATAGTTAAGAGCACTGACTGTTCTTCCAGAGGATCCAAGTTCAGTTCCCAGCACCCACATGGCAGCTCAGAACTGTCTGTAACTCCCAGATCTGACACCTTCACATGTATAGAGATGGGTGGATGGAGAGAGATATGTATGTAAGCAAAACTCAAATGCATATAAAGTAAAAATAAATTATTTTTAAGAAGAAGAAAGTACCTATTAATAGGGAGCTGGAGAGAGAGTACCAAAGTTAAAAGTGCATTCTGCTCATATAGAGGACCTGAGTTCAAGTCCCAGCATCCACATTAGGTGATTCACAATTGTCTATGACTTCAGCTGTGGCCTCCTTCAGCACTTGTATGTATGAGCATGTACCCTACATGCAGACACACATACATGCACAGAATTTGTAAAGAACTATCATTCTGGGCTCAGAAAAAGACTCTCCCAAATGGAGGAAGTTGGAGGAAAGGAGCAAGTCACATTTGTTCATAACTGTGTTATATCTCTCGTAGACGCTGACTTAGTTTTCTGTGCTTTCTCTTTGTGCTGTGCTACAG
Seq C2 exon
ATTCATGAACCACATGAAGCACCACGTAGAACTTGATCAGCAGAATGGCGAGGTGGATGGTCATACTATCTGCCAACACTGTTACCGCCAGTTCTCCACCCCTTTCCAGCTCCAGTGCCACTTGGAAAATGTTCATAGTCCCTATGAATCAACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053599:ENSRNOT00000082849:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.469 A=NA C2=0.113
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGTCCCATCAGCAGCAAAG
R:
TATGACCATCCACCTCGCCAT
Band lengths:
343-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]