Special

RnoINT0110328 @ rn6

Intron Retention

Gene
Description
PHD finger protein 12 [Source:RGD Symbol;Acc:1305731]
Coordinates
chr10:64818566-64820075:-
Coord C1 exon
chr10:64819932-64820075
Coord A exon
chr10:64818665-64819931
Coord C2 exon
chr10:64818566-64818664
Length
1267 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGC
5' ss Score
9.05
3' ss Seq
TCCCTGTGTTTGTCTTATAGTGC
3' ss Score
9.96
Exon sequences
Seq C1 exon
AAATCGAGATAAATATGTTGGACGAGAAGCTGATCAAGTTTCTGGCCTTGCAGAGAATACATCAGCTTTTCCCTTCCCGGGGTCAAGCTTCACCGGGCAGTGTTGGGACACATCCGCTGTCTTCTGGAGGGCACCACACAGAAG
Seq A exon
GTGCGCGTGCACATACCTGCCACCACACCATCAGCTCTCCTGTCTGATGTGTGTGAATGACCACCTTGCTCCACGGAGACTCTCTGCTTTCAGTAGCTCACACTCTTTGTACCTCTGGGTTTAATAAAGCATGGTGATTTCTTTTTTTTTCCTCAGCACAAACAAGATAAACAATTTTTGGTCAGACTTGGGGAGTTTGCCATAACTTTTTTTCACAGAAGTCCACTTTGATTCATAACAAAACAGCTACCAATACTTTGGGGTATATGTTGTATTCTTTCTGTTCAATTACTCCGTAATATTTGAACTAGGTTTTCCCAAGGTTTAAAGTGAGAAATAGAAAAATAGTAGGAAATTCTTCTCCAGGGTTAACTCTGTTACCTCTAAGCTCAGCTCAGCCCTTCAGAACCTTGTGCTTCAGAAACTTAAAGTACCATGCCAGCAACATCGGAGCTCAAGCCTTCACTAGAAACAGATTCTAGACTGCTCTGTCACCAAAGAGGCCTGAGTTCTATCCCTAGAGCCCACATAGCAAAAGCTAGGTATGGTGATGCTTGCTTACAATCCCTGAGGTGAGCGAGTAGAGGTAGACAGACTGGCCCCTTGGACTCACAGGCTGCCCAGCCTAAACCTCTTCTTGAATTCTAGGCCAGTGAGAGACCTTATCTCCCCCCAAAAATAGAATATGAGGAACAACACCAGAAGTTGTTTGTATATATGTGAACACAAATGTGTGTGAACTCTCACAAGTGTGTGTGAACTAGCATACAGGAAATTAAAATTCACAAATAGCCAACTAAATCTAGGTCAGGTTTCTGGTGGGAGTGGTGGTAGTTCTAGGAATCAAACCCATTGACTTAGTGAACAGGTACTGTAGAACTAAATTATAATTATGGACTCCATAGGCAGTGACGTGCTCATTAAAGCCTGAGAAACAGAGCTGTACCTTATGTTTTCCATGTTCTCTTTATTACCAGTTGGAATGTCCTTGTTAAGCTCACCAGGTACCCAGGAACTTAAAAGTACTCATGTCCTCATTCTGTAACCATCTTCAATGAAGATCCTTCCTAACCCGTATTGAAAATGCTATGGTTGTGGGAAAGCATTTCCCTGAAGCAGCTCTGGGGCAGGCATGAGTTTTGAGCATGAGCCACCCAGTAGGAGTTTTTTTTCAAGGCCACCAACCATAGATTCAGGATTTGTTGGTTTGTGTTTGGGTCACAGGTTCTGGGTTCTGAATGATCCTATCCCTGTGTTTGTCTTATAG
Seq C2 exon
TGCAAAGGAAGGAGGTACAAGCCCGAGCTGTGTTCTACCCCCTCTTAGGGTTGGGAGGAGCTGTGAACATGTGCTATCGAACCCTCTACATCGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009566:ENSRNOT00000056234:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.442 A=NA C2=0.029
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
PF0049821=FHA=PU(7.7=14.7)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCGAGATAAATATGTTGGACGAGA
R:
CCCGATGTAGAGGGTTCGATAG
Band lengths:
238-1505
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]