RnoINT0110326 @ rn6
Intron Retention
Gene
ENSRNOG00000009566 | Phf12
Description
PHD finger protein 12 [Source:RGD Symbol;Acc:1305731]
Coordinates
chr10:64860854-64862268:-
Coord C1 exon
chr10:64861669-64862268
Coord A exon
chr10:64861036-64861668
Coord C2 exon
chr10:64860854-64861035
Length
633 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CCGTCTGTATGTGTGTGCAGCAA
3' ss Score
7.28
Exon sequences
Seq C1 exon
GCGCGGGTGGCTTTGCGGGCGCTCGCGGTAAGTTTGCGCCAAGTGCGCGGCAGCCGGGACGCAGACGGCAGCGGCGGCGAGAGGCGGAGCCCGGGGACCACCCCCCATCATCCTCCCCAGAGTCACCTCACGAACCACAACCTCACCTAACCTCTCACCCCCCCTCCGGTCCCCCAACCCAGGGATGGCAGCGCCCGCTAGCCTTCCCGGCCGGACCAGCGGTCGCCAGAGCCAGCTTTAGCCTGTGGGCCTAGGCCCCGCCAAGGCCTGACCCCCGGAGCCGAGATCCACTGTGCAACCAGCCGCCGGGCCGGGGCTGAGGGGTTGCTCCCCTCTCACGGCCCGTGGAGAGGACGCTGCCGTCCCAGGGACTGGGGGCCGGGGGGTGGGGGGGAGCCAGGGCGAGGAAGTCGGAAACTGTGTTGGGAAGAGAGAAGGGGACCGGGGGTCAGAAGTGTCCTCTTCCCCTCCTCCCCCCTCCCCCCGGGGCTGGGGGGGCCGGAGCAGAGAGCGCCCAGCCCGGGAGGTGGATGAATGTGGGAGAAAATGGAGACCAAGACGATCGTGTACGACTTGGACACGTCGGGGGGGCTGATGGAG
Seq A exon
GTAAGAGTGGCCCTCATCCCCTTCTCCCAGTGCCAGGAGGGAACCTCCGCCCCACAAAGCCGGCCCTAAGCTCGAAGCGCCAGAGGGCCGGGAAAAGGGGGGGTTCTTCCTCACCTAGTCTTTCCCTCCCCTCTGCAATTTGGGGGACCGAGCTTAGCTTCTGAGGACGTTTGCAGCAGTTTCACCTACCCGCCGCCCTCGATTCGCTCCCTGAGGCTTCAGCCCACTCCATTTCATTGCACCGGCAGGCCTCCCCACCCCCTTCTTGTCGGCCCCTTTGTGCTTTCCCCCTGCACGTCCGGGTACCAAGCTTCGGGCCTCTCCCGAGCCGGGCTTTGGAGTCCCCCACTGTCCATACAAGGAAGTGGCGAGAAGAGAACCGCGCACCCTCTCCCCATCCCCCTACCCTGATCCTCCCCATTTGGAAGGAGCTTTTCTTGTTGTGCTGCAGGAACGCAGTTAGGGTGGGCTCCCCTTGATTCCGGGGACCGAGAGGTTCTGGAAGCAGCCTGGATGGGAGGAAGAAGGACAAAAGGGGGAAGAGGGGTGGGTGACGGAGGAGCGGCGCCGGTGGGACTACGGGCTGCCCGGGAGCTCCGAATGTGCACACACGCCGTCTGTATGTGTGTGCAG
Seq C2 exon
CAAATCCAGGCTCTGCTGGCTCCCCCCAAGACGGACGAGGCAGAAAAGCGGAGTCGGAAGCCGGAGAAGGAGTCCCGGAGAAGCGGCAGGGCCACCAACCACGACAGCTGCGATAGCTGCAAGGAAGGTGGAGATCTCTTGTGCTGTGATCACTGCCCTGCCGCCTTCCATCTCCAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009566:ENSRNOT00000056234:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.574
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062824=PHD=PU(52.1=41.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGAAGTCGGAAACTGTGT
R:
GGCAGTGATCACAGCACAAGA
Band lengths:
355-988
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]