Special

RnoINT0110339 @ rn6

Intron Retention

Gene
Description
PHD finger protein 12 [Source:RGD Symbol;Acc:1305731]
Coordinates
chr10:64820653-64822637:-
Coord C1 exon
chr10:64821842-64822637
Coord A exon
chr10:64820779-64821841
Coord C2 exon
chr10:64820653-64820778
Length
1063 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTTCCTGCTCCGTCCCCAGATG
3' ss Score
12.16
Exon sequences
Seq C1 exon
TGGCTCTGTAGTGTTGTTGCCCTCCAGTGCAGCATATTGAAACATTTATCTGCTAAGCAGATGCCTTCGCATTGGGACTCTGAACAGACAGAGAAGGCTGATATTAAGCCTGTTATTGTGACTGACAGCTCAATCACCACCTCCCTGCAAACAGCTGACAAGGCACCTCTACCTTCCCACTACCCTTTGTCCTGCCCCTCAGCAATGAGCACCCAGAATTCCCTGGGCTGCTCTCCACCCCACCAACCCCCAACCCTAGAGGATATCAGCTGCAGTTCTTGTGTGGAAAAGTCCAAGAAAGCCCCTTGTGGGACTGCCAATGGGCCAGTGAACACAGAGGTAAAAGCCAATGGCCCACACCTCTACAGCAGCCCCACTGATTCCTCGGATCCCCGGCGACTCCCTGGCGCCAACACCCCTTTACCGGGCCTCACTCACCGGCAAGGCTGGCCCCGGCCCCTCACACCACCATCGGCTGGGGGTCTTCAGAACCACGCCGTCGGCATCATTGTGAAGACAGAAAATGCCACTGGCCCCAGCTCTTGTCCCCAGAGGAGTTTGGTACCTGTCCCAAGCCTGCCCCCTTCCATTCCCAGCTCTTGTGCCAGCATCGAGAACACCAGCACTTTGCATAGAAAGACTGTCCAATCACAGATAGGACCTTCGTTGACAGAATCGAGGCCTCTGGGCTCACCCCCAAATGCCACCCGGGTGCTCACTCCCCCCCAAGCTGCAGGAGACAGTATCTTGGCCACAGGCGCCAACCAACGATTCTGCTCACCAGCGCCATCATCAG
Seq A exon
GTGAGTTTCAGTATTCCAGTATTGTCTGGAACAATCCTGTGCTAATACAGACTTAAGAGTCCAAAACATTATGTCCCTGTGAATACTTGAGGCCTTTAATCTCTGTGTCAGTGATCCATCTTCCCTGTATTAAGTCACTTCCTTAGGATGGCCTGCCAGGTCAGTGGCAATACTGGAACTGCAGTTGGTTCACTAGCCCCTCTCACCTTCTGGACCTAGTCTTCCTGTTTGTTCCATCACCTCTAAAGGCACATGCTTTCTGGAACCACTTGGGTCAGCTGGAGGCTCAGTGTATGCATTCACATAGCAGTCTAAGTCTACATCTGATGCAGATTCTCAGAGGCAGCTCATTGGAGGAATGCTCATGTTCAAGGAGCAGGGACAGAGCAGTGTTGCCGTTCATGTAGTTATAAAGTGGGATGCCCGCAGAGGTTGGTCTGGCCCAGAAGCTTGCCCTTGGCCATATGCCTAAGAAGAATCCTGTAGGTCTGTCCGTGGCCCAGTATAGACTTGTTCTCTAGCTGCCCCAGGCAGCATTGGGACCTCGAGCTTGCTGCTCCCAGCATCTGAACCAGGTTTCATATGCTGCTTTCCCACATGACTGACGCCATCCTCACAGTCAGCAACCAGGTGCCTGTGGTTTCCTTGCATGGGAGCCCCTGGTCCTATTTCCAACTCTGTTCTGCGAGTGTGAATGAATTTTGCCAACTGTCGGTTGTGCTTCAGCAGAGAGGAATTGCAGGTGCCACTTCTGTAAGAGTAGAGGAGCAGAGAGGTGGGTGCTCATGAGCCAAGAATGAAGCAACCTCAGCACTTGCCCCAAAATAGTAGATTGCAGCAGTTCTCAGTGCTCTGGAAACCCTGCGTGCCCGTATGTTATTGTTCCATCTGCCCTTCCTCACCACACGTTTTTAGCTCTAGGAGTTCCAGAGCCTGTGGGTTGAGAATCAAGAAGGGAACATCACCTTGGGTCCGAAATCCAGAACTGTCTCAACAATGGGGGATTGGACCGGTGGGTTTCCCTCAGGCGACGTAAGTAACAGTCTTCCTGCTCCGTCCCCAG
Seq C2 exon
ATGGCAAGGTCAGCCCCGGCACGTTATCCATAGGAAGCGCTTTAACCGTACCCTCTTTCCCAGCCAACTCTACTGCCATGGTGGACCTCACCAACTCACTTCGAGCATTTATGGATGTCAGCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009566:ENSRNOT00000056234:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.816 A=NA C2=0.267
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTCGGCATCATTGTGAAGA
R:
GGTACGGTTAAAGCGCTTCCT
Band lengths:
352-1415
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]