DreINT0113251 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24613789-24616295:+
Coord C1 exon
chr15:24613789-24614641
Coord A exon
chr15:24614642-24616116
Coord C2 exon
chr15:24616117-24616295
Length
1475 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TTTTTGCCAATCTGTTTCAGCAA
3' ss Score
7.43
Exon sequences
Seq C1 exon
TTGTTCTTCACAAAGCTTTATGATCCCTTTCTAAAATCCCCCACTGTGCTTCAAAGAGAAAACATGACCTGCAGGCTCGGAGATCTGCTGTTAATCTGGCAAACTAACGCTAGGTGGCAGCCTTCTCCTCTCCCTCTCTGCACGCATGCGCAGACTTCATTCCAACCCCGCTAGAGTCGAGTCAGAGGAGGGCAACGCCAGCAGTTAGCATAGCTACTAGCAATGGCTTTTCATAACAACACCTCTGCTCTTCGTCGCTGTCATCTGAACACCATCTATGAGTTTTTCCGCACATGAAGACATAACCGCCGACAATCAACCCAGCGGACGTGCTTTGCAACAGAGAGCGCTTTTTTCGCCAGTATGCGATGGGGACAGACAGCTGTGGATTTCTACACGCATCTTTGCTGGCGGCGGCTGCTGAAGCGGAGGATGCTGCTAGGCTAGCGAGCTAGGCCTTCACATCCCAACAGAAACCCTTCAAAACTGACCCAGACAGCAACTTGCATTCAAAAAACGGGAACTATATTTGCACTTAAATGAGAGTTTGATCATTTCTTCAGCTCTCGTTGTGTAGCGCAGCTTCGGCGACCTGTGCGCTTTTGTTTGTTGATAGCCGCTTGCTAGCCGAACATCGAGCAGCCGATCCGCTATCTTGCTTGATTATCGAGCAGTTTATTTTGTCCAGGACGGTTTTAAGGACAGCAGGTGAACTCCCCGAGTGGGTTCTGGGGAAAGCGAGGGGGACTGTAGGGTTGTGTGTTAATGATACAGTTCGGCAGTGTGAATGTGGGACAAAATGGAGACCCCGAAGATTCTGTACGATTTGGACACGTCTGGGGGCCTAATGGAG
Seq A exon
GTAAGCCTGTCTGCCCTTCAGCCGTGCCTCAAATCACTGCATTATGAGAGTTGCTTATTCCCGGACAAAAGATTAAATGGCTCGAGATGATAATAAGTTGTAGAATGGAAATAAGGCAGAAATAAGTGTGGACCTTGTTGAGTTTATGCAGAGCTGGCCTCTGGGCCTGTTGAAGAAATCTGGCTGACTGGATGAGTAGAAACAAGGACAGAACTACATATATGGATGCAACTATTAAATGAATAGAAATAATATGGAAGGAAATCCATATTATGCAAAGTTTAGAAACAGTAACGTTGGGTTGTCTGCTTGAAAGAAGATTTTTCTTTTACCCAAGCCTGTAAGTTATTTGTGTAATCAAAAATAATTTGTTTTTAAGTAACTATTTTCTATGGGAATTTATTTTTCAATGTTTTTAACTAGTTGGATTTAAAAGTTGCATTGTCATTCTCAATAGTAAATTTTTCAGTGTCCAAAAATCTTTTAGAAATAAATTTAGTATCCAGATCAAGAAACAAGTCCTATCTTTACTATATTTAATTGTGGGCTTAACATTATTGTGAGAACCATAACCTAGTGCCATCCAAATGTACTATTAAATCTCTTTATTTTAGTAATAGTTTTATTGTTTATATTTTCAATCTGTAAATGTGTTAGATTAATTTTTATTATTAAATACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTACATTTCAAATTCAGCTTTTAATCACAAGGAATACATTTTGATTTAAAATAAGGCTGACATTAAGAATATGCTATGTTGGGCCGGTATAGTATTGTGATACTGCTCTAATATATTCTTTTTAAATGTGTGGGTAAAATTTTTTTTTACCTATTTGAAGACAAGAAAAAAATTTTTTTTAAATTTTATTAGACTAGAAAGAAGCATTTAAAATATTTTGTAGCAGTAAACATGTCAGGCTAAATAATTCAAATAAATCATTAACTTTTGCCATCTTCATCAGTTTCAAAAACAGATTTCTTTACAGTTTAAAATGCCATGATTGGATATCTTTTCTGCTGCATATACTGTTGTCCTAAAATGCTTAAACACACACACACACACACACACACACACACACACACACACACACACACATATATATATATATATATATATATATATATATATTTTTTTTTTTTTTATTTATTTATTTATTTTATTTATTTATTTATTTTTTTTTACACACCTTCGGGAACAGTAAAGCAGAGAATTTTGTCAGTTTTAAAACTTTGACCTTTCCAAACCACCGTATACCTTGAAAACGGTTATCGTACATGCCTAGCTGTGTTATGATTCGAAATACCAGTTGAATGTGTGAAGGGACCCTTAGACTTTCTGTTTTCTGGTGTCTGTCTCATTTCAGGATTTATGTACATTAAGTACATTCATGCATGTTTTTGTAAATAAAAAATATTTTTGCCAATCTGTTTCAG
Seq C2 exon
CAAATTCAACAGCTCCTTGCACCTCCGCGCTCTGAGGATGGAGAAAAGAGACGCAAACCCGAGAGGGAAACTAGAAGAGGAGGCCGAGCCACGAATCACGACACCTGTGACAGCTGCCGTGAGGGAGGAGATCTGCTCTGCTGTGATCACTGTCCCGCTGCCTTTCACTTGCAATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.567
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062824=PHD=PU(52.1=41.7)
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:
CGACCTGTGCGCTTTTGTTTG
R:
GCTCGGCCTCCTCTTCTAGTT
Band lengths:
354-1829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]