RnoINT0167836 @ rn6
Intron Retention
Gene
ENSRNOG00000006972 | Zfp189
Description
zinc finger protein 189 [Source:RGD Symbol;Acc:1306510]
Coordinates
chr5:64789456-64790672:+
Coord C1 exon
chr5:64789456-64789838
Coord A exon
chr5:64789839-64790587
Coord C2 exon
chr5:64790588-64790672
Length
749 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CGGCTGTGTTTCTTACCCAGGAG
3' ss Score
8.13
Exon sequences
Seq C1 exon
GTAGTTAGACAGGTTCCGCGTAGGCTCCGGGTAACGCCTTCTGGTCCGGGGGTGGTCGGTAGTAGTGCAGCTTGACTTTGAGGCGGAGGACTTGGCAACAAGGAGGAGATATTACAGGGAGGCCCGAAGGGCTAGGCAGCGGGGCAGCGGGGCAGCGGACGGGGTTTGGGGCTGGAGAACAGCCAGACAGAATGTCTGATATGCCCCTGGGAACTTGACCGCTCCGAGACAGAGGCAGGACCTCACCAGACCCATCCAGTGAGCCCCTTCTCGCCGGGCCTTATTTCGAGCAACCATCTAGGCCTCATCAGAGCCCCAATGCTGTGTGGCTGCTATTCCTGAAGGAGGCGATGGCGTCCCCAAGCCCACCGCTGGAGTCAAAG
Seq A exon
GTGAGTTGCCCCTTAGAGAGATCTCCGTTATTTCGCGTCTCTGGGGATGGCAAGGCCGCGCCATCACCCCTTCCCCAGTTCCTGGCCATTTCTTCAACTCTAAGGAAGGACCCCAGCCAACGCCTGAGTACCCCTTGCTGCGGGGTGATTTTAGTTTACTTAGAAACTGCCCACAGTCGTCGTCCCTCCCTCCTTTTTTTTCCTTTTTTCTTTTTCTTTCCTTTTTTTCAAGAGCGACTTGATAAATCGGCTGGGGGAAATTAAGACTGCTCTAAATTAGTTTTCATTCATGAGTTTCTCAGGTGAAGCACTATTTTTTTTTAATCTCTGTCTATCTTCTGCAGCTGGCACAATGTCTGGACTCAAGGTGAGTGCTTAGAAAACCTAATGGAATTGAGTCAAATTGGGTCACAAGCTGCTGTGGGTAGAGCCTTGGGGCGGACAGCGGGGCCAGGGAAGGTTGGGCAGGTCTTGAGGCTGTTGTGTAATAACTAAAGCAGAGAAGACCTTCAGTTTGGAAGGCACGGATCCAGATCAGTTCTTTTCCAGTCTGAGGCGCCATGAATCGGGCACCTTTTGGTACTCGCTCACTTACCGTGTCCCTCCCAGTGAATGGGAGAGCATGGTAAGTAATAACTAATACCACTTTCAGTGGGAAAATGTCCTTGAGACAACTGGGACTGACTGCAGAAATAAAACTATTTGAGCAGTTGCTGACGTTTGGGGATACGGCTGTGTTTCTTACCCAG
Seq C2 exon
GAGGAGTGGGGTTATCTGGATGCAGCTCCGAGAAGCCTGTATAAAGATGTCGTGATGGACAGTTATGGAAAGCTGGTCTCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006972:ENSRNOT00000009584:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.052
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PU(3.2=9.1)
A:
NA
C2:
PF0135222=KRAB=FE(90.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGACTTTGAGGCGGAGGAC
R:
CGGAGCTGCATCCAGATAACC
Band lengths:
343-1092
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]