DreINT0083928 @ danRer10
Intron Retention
Gene
ENSDARG00000019614 | jade3
Description
jade family PHD finger 3 [Source:ZFIN;Acc:ZDB-GENE-030131-928]
Coordinates
chr6:37510142-37511221:-
Coord C1 exon
chr6:37511054-37511221
Coord A exon
chr6:37510259-37511053
Coord C2 exon
chr6:37510142-37510258
Length
795 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GAGATTATGTTTGTCTTTAGGTG
3' ss Score
8.53
Exon sequences
Seq C1 exon
GCCTGCTATGGCATTGTGAAGGTGCCAGATGGGAACTGGCTGTGCAGAACGTGTGTGCTTGGCATCACTCCTCAGTGCCTTCTGTGTCCTAAAACGGGAGGCGCAATGAAAGCCACCAGAGCTGGCACTAAATGGGCTCATGTTAGCTGTGCCCTCTGGATACCTGAG
Seq A exon
GTAAGCTGTGCAACAAGGATGGAATTACACCGCCATTATTATTAACCAAGTTTCTTTTCTATATCGGCCTGCTCTTATTTGTGAATTTTATTGAAGTGTATCACAAGATCAGCCAGTATGAAGAGCCTAGCTTCCTCCACTTTTTATTTTATAGGGCAGTGGTTCTCAAACTTTGGTATGTGTACCACTAGTGGTACTCGGAGGAATGTGTCTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACACATGCAAAATAATAATAAAATAAATATTAAAAGATTTATCACTAATGTTTTATATATGAATATGATGACTATATTTATAAAGTCCAAGCAACATTTCCAGGTTTTGATGAGTACGCTACTATATGTTGCTTTACATTTAAGTCCTGGAGTTTTTTTCACTTTTAGAACAGTAGTTTTTAATTTTACTTTTCAAAGCTCATTTTTATTAAAACATTGACATTTTATTTGTTTTTTTTACCTGTAAGCACAGTACAGTCTTAATCTTGCGACTATTTATAAGTTTAAAGTGGCTGACAAGAATAAATATTCTTAATAATAGGGATTAATCTGCCTGGTTTTTGAACTGTGCAGAGCTGTAGCTGCTTAATTGAGCTTCCTACGCTACTGTATTTCAATACTGTTCATTATGGTGGTAAGCCACCTAAAACCGCTGTTATAGGTTTTTTTTAGGGTATAGGTATATTTAATACAACATGTATGAAGAGAGATTATGTTTGTCTTTAG
Seq C2 exon
GTGAGCATTGCGTGCCCGGAGCGCATGGAGCCCATCACCAAAGTGTCTCACATTCCACCCAGCCGCTGGTCACTCATCTGCAGTCTCTGTAAACTCAAGACTGGAGCCTGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019614:ENSDART00000147826:8
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=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(15.6=17.9),PF138311=PHD_2=PD(51.4=32.1),PF138321=zf-HC5HC2H_2=PU(28.3=57.1)
A:
NA
C2:
PF138321=zf-HC5HC2H_2=FE(33.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATGGCATTGTGAAGGTGC
R:
TGTATGCAGGCTCCAGTCTTG
Band lengths:
280-1075
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]