DreINT0113258 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24618111-24619896:+
Coord C1 exon
chr15:24618111-24618183
Coord A exon
chr15:24618184-24619478
Coord C2 exon
chr15:24619479-24619896
Length
1295 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
ATAATTTTCATCTTTTCTAGAAG
3' ss Score
8.27
Exon sequences
Seq C1 exon
TAATCCACCTTTGAGCAGAGAGATGTTGCCCCCTGGTGACTGGATGTGTCATCGCTGCAGTGTGCGCAAGAAG
Seq A exon
GTTGGTCAAGTTTGCCCTGGATGGATTTTTATTTGAAGTTTTACTATTCTGTCGGCAGTTTAAATGTGTGCATTTTATAGGGTATTTCAGTGAATTAGTCAATATTCTATCATCAGTTAAGCACCCTCATGTCAACCAACTCCCAATAGCAATTGAATAAAACCTGAAAGATTTCTGTGAGGTAAACAAAACTGACAATTACTACCAAAAAGGTCAAAGGGTTGTCATAAAATCAATTCACATCAATCAAGCTGTTTTTTAAGTTTCAACAACCCTAAAATTAACCAGAGAGTATAAAAAAAAATAACTAAACTCAATTCCCATAAAACCCTACCCACCTTGGGGACCATGACACATTAAAGGGATTGTCAATGCCACAAACTTAAATTATGCAATTAAGATAATGACCATGGGGAAACCAAATCTTGTCAAAATGATCCGGTGTCCTGAGCTTTTAATCCGCCTCTGTAGTTGTCCTACCATGACTTCCCATCCATTTCGGAATCGCACCATTTTTGTCATTCTGAACAACACCTATAATTGTTTACTTCTTGCTCAACAAACTCTATATTGGCATTTTTATAGGTATAATGTCATTTGAATTCCGCTTAGTTTAACAACAACAATACATTTTTTTTTAGTAAAGTATCCATTAACTGTTGGTTCTACAACTGCTTATTTTCCAGATGTTTAGTATTAGTATTTTTTTTTTTGCAACAAAACACTATTGGACTATTACTATCGTTGACTATTTTTCATTCTTCATTTGTGTGTCCAAAGTTATTTTGGTTTTATTACAACATAAACATTTGTAAATGAGCAAATAAAATATTTATCCATACATACTCTTCTTGCAAAGACACCAGATGCATGCCTTTTGTGCAGATATTGCATGTTCAGTCTTTAGGTATGTGCTAGTACTTGTCAATCAAAATGGAATGTAGAAGTGATACAAACTATTGGCCTGGCATGCATAAAATATTAAAAGTAGCTGTTTTTAGCTAGTCATTTTCTCTGATCTGTATGAACTAAGATAATTTTGACATTCTTTTTGTGAAGTGTAATATTTGTCGGGCTCGTATATTATGATAAATATTAAGATAAATTCAGGACGTTCTGTGTACTGCTAGTTTAAATTTTGCATTAAACAAATAGGTTTATACTTGGCATATATACAATATATGATAAATGTTGTTTATAGTGAATACTACTGTTATGTTGTTGATTTTTTAAAATTTTTTTATTAAAAAAGTTTAAAGAGCAGAACTATAATTCATAATTTTCATCTTTTCTAG
Seq C2 exon
AAGCGTGAGCAGAAGGCGGAGCAGGTAAATGGAGCATTGGAGCGGCAGCTATCCAAACGGTCCTCTTCTCCTGCAGCAGAGCTGGAGCTTGGAACCCTGCGTCTGGACGGCCTGCCCTCGGCTGCATCAGGAGGTCTCCGACTAGCTGTTGCACAGGTCCGTCTTCTGGAGCGTCGCACAAGCAGCCGCCCTGGAACACCCACTTCCAATGCATCCACTGATACACCTACTCCCTCAGAACACAACGACGTTGATGAGGACCTGATGGATGTTGAAGAGGATGTGCAGGGCTCTGAATCTGAGAACGCAACACCTCGTCTGAAAAAACCCTTTCAGATGCTGATTGCTGCCGCAATGGAGAGAAACCCTACACAGTTTCAGCTGCCCAGTGAGCTTACATGCACCACTTCACTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.807
Domain overlap (PFAM):
C1:
PF0062824=PHD=PD(45.8=88.0)
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:
GATGTGTCATCGCTGCAGTGT
R:
TTCAGACGAGGTGTTGCGTTC
Band lengths:
354-1649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]