RnoINT0110331 @ rn6
Intron Retention
Gene
ENSRNOG00000009566 | Phf12
Description
PHD finger protein 12 [Source:RGD Symbol;Acc:1305731]
Coordinates
chr10:64815628-64817160:-
Coord C1 exon
chr10:64817022-64817160
Coord A exon
chr10:64816689-64817021
Coord C2 exon
chr10:64815628-64816688
Length
333 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ATCATGCCCCTTTTTCCCAGGGC
3' ss Score
8.2
Exon sequences
Seq C1 exon
AATACCAAACATTATGAGCTGTTAAACTACAGTGAGCACGGGACAACGGTGGACAATGTGCTGTATTCATGTGACTTCTCTGAGAAGACCCCGCCAACCCCCCCAAGCAGTATTGTTGCCAAAGTACAGAGTGTCATCA
Seq A exon
GTAAGTTGGAGCAGAGGCCTGTGGCCACACAGCTAAGGCCCCAGTCACCTTGATTCTACCATGCTGTCAGTGACCTACAGTTCCTTCCTTCCCAGCCCCATTGGCCAAGCTCACTGTTGGTGGGCCTGGGAAAGCCACCAAGAATCAAGTGCTGAACACCCACATATGTGTCAGACCCTTCTGGGGACTTGAGACTCCAGCCCCATCTGAGCATCCCTCAGCCCTGATCATGTAGCATAGAATGGGGAGATGCAGGGGGCCAGTACTGCCAGTCATCCCAGACAGGTCAGCCGTTCACTGTTCCCCTCCTATGATCATGCCCCTTTTTCCCAG
Seq C2 exon
GGCGCCGCCGACACCAGAAACAGGATGAAGAGCCAAGTGAGGAGGCAGCCATGATGAGTTCCCAGGCCCAGGGGCCACAGCGGAGACCTTGCAATTGCAAAGCCAGCAGCTCAAGCTTGATCGGGGGCAGTGGGGCCGGCTGGGAGGGCACAGCCTTACTACACCATGGCAGCTACATCAAGCTGGGCTGCCTGCAGTTTGTCTTCAGCATCACTGAGTTTGCGACCAAACAGCCCAAAGGCGATGCCAACCTGCTGCAGGATGGGGTCTTGGCTGAGAAGCTCTCTCTCAAGCCCCATCAGGGCCCTGTGCTGCGCTCCAACTCCGTTCCCTAGGCCATTGGCCTGGACACCCATCCAAGACTCCTGCAATGCAAAAATGTATACGAACCAAGCCCGGGTGTTTTCTATACCAGAAACCCTTCAACTACAATCTTTGCATGAAATGAAGAAAACCTTTTGACTGTTTTTTAAGACTTTTTTTCTTTTCTCAAGTTCTAGGGGGCATTTGCACATATATTTGTACTCAACATTTCATGGGAAAGCGGCAGATCGAGCTGAGGACCAGCATGGGCAGGGAGGGGAGAGCCTGGTCTGGACACTTCTTCCAGCACAATCCCTTCCCCCGCCTCCTGCTCCTTCCCCTCGGCCGCCTGCCCGCTGTTGTAAAATAATCAGAAACTTGTTCTATTTTGTGGCAGTGACAATAGTTTTATATTAAAAGAAAAAAATACAGTTTTCATACAGCAAAATCTATACAATATCATTGTTTTATTTAATATAAAGATCGCTACCCACTCCTCTCCGTGGTTCCCACCCTACAAGGATCCCCTTTCTGCAGCGGTTGCACTACTGGTAGCTACTGTGTATACGGACAAATGAGAAATGAATTCTTTTTCTGGCTGTTCATCTATTTTATTTCAAATAAGGAAAAGTGTATTTGGATTTTGTGTAAATACATCTAGTGATGGCATTTTTTCAATGTTTTTAAGAACTGTGTACAGTACATGTGGTAGAGTGTTTTTCTCAAATTGTCTATTGTAGCGAAGGCGTTTTTGTCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009566:ENSRNOT00000056234:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.378
Domain overlap (PFAM):
C1:
PF0049821=FHA=PD(47.7=66.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAAGCAGTATTGTTGCCA
R:
CCTGATGGGGCTTGAGAGAGA
Band lengths:
342-675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]