DreINT0113257 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24616117-24618183:+
Coord C1 exon
chr15:24616117-24616295
Coord A exon
chr15:24616296-24618110
Coord C2 exon
chr15:24618111-24618183
Length
1815 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
ATGTATTTGATTCTTCTTAGTAA
3' ss Score
5.11
Exon sequences
Seq C1 exon
CAAATTCAACAGCTCCTTGCACCTCCGCGCTCTGAGGATGGAGAAAAGAGACGCAAACCCGAGAGGGAAACTAGAAGAGGAGGCCGAGCCACGAATCACGACACCTGTGACAGCTGCCGTGAGGGAGGAGATCTGCTCTGCTGTGATCACTGTCCCGCTGCCTTTCACTTGCAATGCTG
Seq A exon
GTAGGTTTGCAGTGTGTTTTAATAGCATTTAGACTTAACAGCTATGGTCCAGGCCAGATGACTAAACTAAATGGCAAATATAAACACATAAAAATACATTTATGTATGTGTATTTATGCTGCTGGTTCTTAAAGGGATAGTTCACCCAAAACATTTTCACAAAAGATGATGTTTAAAAAAATTCCAAAAACCTGTAACTATTGACACTAGAGCATTTGATTTCCCTATTATAAAAGGCAATGTTTACAAGTTTTCAGCTTTTTTTTTCAACATGTCTTTTTTTAAAGAAAGAAACCCCTACATGTTTAAAACAAGTAAAAGGTGAGAAAATTATGACAGAATTAAAAACAAATTGGAGAACTATTTATTTAAAGATGAAAATGATAGTTATCTATTTGGCTGAAATGGATTAAGAGAGTGTCCTGAAAGCAATAATTGTACTGTTTGGTAATGATTTTATGCTGCAGTAGTTTTGTAGCAATTTATAGTTGTCAATTTGTAACGCAACTTTAAATTTGAAAGTTTTAAAATTATTTTTAAAAGTCTTCTTTCATATTTGGCTGTATTTATTTTTTTATGTCTTGTATTATAAATAGACATTTCTGCAACACTTTAGAAATTTTAATTGTTATTTTAATTAGTGAAATGTGTCCTTACTGTAATTATTATTTATTATAAGTCTTTCTCAATTACATAATTTTTTTTTACTTGGATTTATTTATTAATATTTTTTGATAATGTGGGTGCCAATGAAAATATTCTAGTCAATAGAGACTATAGACCCCTAGGTGGTGCTATTGAAGATGTTTAGAGAAAAATTACAATAAAAAAATAATTCTGCATAGTTTAATGAAATGGATTACAATTAGCAATCAACCAACATTGTTGCTGATTATTTTTAATGTTACATTTTTTGAGTATATATTAAGCCTTCATGCCAGAAACCAAATATAGGCGTCTTACATTTTAGGACGGTGGTCTATTTAGGGTTCTGAGGCGTCTAGAAGATTTAAAACCACAGATTTAAAGAACAGCACTATCAAAAAATAGTTGCACATATTTGCTGTAAATTTTATGACTCCTATTTGTACGTATTGTTTTATCCACATCGCCACCCACTTGTTCAAGAAAAGAGTGAAAATGTTTTCTTTCTACTGCTTGACACTGGCCGCTTGAGCTGAAGTATTAACAAACATTTACTCTTCTAATGGAGATTTTGTTTGATGGAATCACTCCTGCCTCATTTCATTTGATAGCTGTTTAATGATTGTTTTCTGCCGTCTCCTACTAAGCAGACTTTTACTGCTGTTGTCCTGTGTTTATCACTAAAGGGAATGTATATGTATTGTTATTCAACAACTCTGTCCTGAGGGGAGATTTGTTCAGTTGTGCTTCGCATTAAATTGATCCAGCCTTTCTCTCGTCTGATGCAATATAGAGCTAGTCTACAGTGAAACAAAAAAGGATCGCTGTTGCTTCTTTTGTGGCAAATCAGTAGCATTGCATCATTTGTGCCATGCAACCTAAATATTGCAATAAGTTCTTTTGGTTCAGCCTGTTTTAACTGGTAAATTTGCTATATTATGATTGACAAGGCAATTATAGTTTCTTTGTGATTGCACCATTGTGGTTTTCTTTGCATGTGGCACATAAAGTGAAATATCTAAGCTTTCACTGTTTTGCATGTATAAATTGTTTAATTCAGAAGTATTGCTTAATTTGCAGCAATCTTATAATGTCTGTTTCTTAACATTAGAGGTGTGAACCTAGTGACATCAAGTTTGAAGTCTGAAAAATGTATTTGATTCTTCTTAG
Seq C2 exon
TAATCCACCTTTGAGCAGAGAGATGTTGCCCCCTGGTGACTGGATGTGTCATCGCTGCAGTGTGCGCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.567 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062824=PHD=PU(52.1=41.7)
A:
NA
C2:
PF0062824=PHD=PD(45.8=88.0)
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:
TTCAACAGCTCCTTGCACCTC
R:
CTTCTTGCGCACACTGCAG
Band lengths:
248-2063
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]