RnoINT0114696 @ rn6
Intron Retention
Gene
ENSRNOG00000053599 | Pogz
Description
pogo transposable element derived with ZNF domain [Source:RGD Symbol;Acc:1309980]
Coordinates
chr2:196013802-196015976:+
Coord C1 exon
chr2:196013802-196013926
Coord A exon
chr2:196013927-196015817
Coord C2 exon
chr2:196015818-196015976
Length
1891 bp
Sequences
Splice sites
5' ss Seq
CCGGTAACT
5' ss Score
6.39
3' ss Seq
GTGCCTTCCCTTCCCCACAGTTT
3' ss Score
11.6
Exon sequences
Seq C1 exon
TATGGCGGACACCGACCTTTTTATGGAATGTGAGGAGGAAGAACTGGAGCCATGGCAGAAAATCAGTGATGTCATTGAGGACTCTGTAGTTGAAGATTACAATTCAGTGGATAAAACTACTCCCG
Seq A exon
GTAACTAAAGCTCCTTTGTTCTTAGCTTGTTTATACTAATTATATTGCATTATGAAGAATGTGTGGTATAAAGAGCTTACGACTCCAGAGAGAGGGATGGGGTGTTGTTCAGTTATGTAGTGTTTGCCTAGGCTCTGTCTCCAGCGCCACACAAGCTAGGGATGGTGGGACATACCTGGAATCTAAGCAGTGGAGGTGGAGGCAGGGGAATCACAAACACAAGGTCATTTTTGTTGTACAACAGGGTTTGAAACTAGCCTGTGATGCATGAGACCTTGTATCAAAAAAAGAAACCAGAGAGAGCCATCGTGGTTCACACCTATAATTCCAACTCTTAGGAGGCTTGACACAGAGTGCCTCAGGCTTGCAGGTACATGAGTTCCAGGCCAACTAGGGGTTATAGAGTGAGACCCTGTGCGAGTGCGCACGCACTTCCGCTCTCACTTGCGTGCTGTGTGTGTGTGTGTGTGTGTGTGTGTTAGGGAGGGAGGGAGGCAGGGAGGGAAGATGAATATATAGGGCTGTCTTTTTATGGCGTTGGTATTACCCTCGTTTCCATGCTGTAACATGTATCTGCTGCTTCGTGACATTTGTAAAATACTGTTGAATTTGCTGAAGCATTGAGAGATTGGATTAACTGATGCTAAGCAGGGTGTGTCAGAGCTGGTCTGTGTCCCTGGTCAGTGCACTTTTTGTCTTCCTTGAATTTGGTGTCCTTTATGAGCTGAGAAAACATTGTTTTGTGTCTTTCTTAGTGGCTGGTTTATAATTAAGATTTGTTTCACTTTATTTTGTCAGTGATACGGGGTAAAATTCTATTGCCCTGAATTTACAAAGTGGGTGTTTTCTACTAAGTTGTACCAGTTGCTGTTTGCTTTGTTTTGCTTTTGTTTTTTTGTCTTTCCTTGAGACCCAAAGACAGCTTTGCTTTAGGTTAAAGAAGGACACAGTATAGGTGGCTTATTATGAAGGACTATAAATCCTAGTAGTGGTAATAGTAAATCTGGGAGACCTAAAAATACACGAGTGCTATAGAAAGCAAAACATTCAAGTCCTGCCTCAGAGGTTGGTGACCTAACTGTTGAGATTTAAACAAACAAACATATGGGTACCACATGCGTACATGGTGTGCACAGTGCCCCAAAGATGGCACTGCATCCTCTAGAATGAAGTTACAGAGAGCTGTAGCTGTCATGTATGAGCTGGGAATTAAACCTGGGTCCTCTGGAAGCCAGTATTCTCTGTTGATTCATCAACAAAGATGGATCCAGCCACTAATCCATCTCTCAGCCCTGCAGTGACTTGACTTAATTAACCAGGAAATATAAGGCAAAGATTGTGGGCTGAATAATTTTACTTGTCAAATTGTCACAAGCTAGAGTCACCAGAGACTAGATTAGGATGGCCTTGGACATGACTGTGTCCAAGAGGATTATCTTAGTTATATTCCACTGATGTCAGAAGTCTTAACCTCTTGTGGGTAGCACCATTCCCTCGGAAGAAGATTCTGAACTGTTTAGGAGTGGAGTAAGCCGAGTGCTAGCATGCGTGCGAGCATGCATTCATGTTCTTTGTCCTTGGCTTGGTATAATGTGATGAGTAGCTTCAAGCCCTTGCAACCTTGAGTTCCCCATAATGAGGGACTGTAATCTGAAATTGTGACCCATGTCAGGGTAGTTAACAGAGCAACAGGAGAAGACACAAAGACCAAAGAGATTGCAACTAAGTGATAGTAGTCTGAGGGACATTAGGAGGAGAAATCAACAGTTGGAATTTTGAATGAAGTAAGAAACTTTTTTGGCTGTTGAAACACAAAGGAATCAGTTAAAGCAGAATCCTTTAGCGTCACCTGTCCCTGTCTCCAAGTGACTGTGCCTTCCCTTCCCCACAG
Seq C2 exon
TTTCTGTGAGCCAGCAGCCAGTCTCAGCTCCAGTGCCCATTGCTGCCCATGCTTCTGTGGCTGGGCACCTCTCTACATCCACTACTGTTAGTAGCAGTGGGGCACAGAACAGCGACAGTACAAAGAAGACTCTTGTTACACTAATTGCCAACAACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053599:ENSRNOT00000082849:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.698 A=NA C2=0.759
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACACCGACCTTTTTATGGA
R:
CATTGTTGTTGGCAATTAGTGTAACA
Band lengths:
278-2169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]