DreINT0083904 @ danRer10
Intron Retention
Gene
ENSDARG00000033707 | jade1
Description
jade family PHD finger 1 [Source:ZFIN;Acc:ZDB-GENE-030131-5648]
Coordinates
chr17:26814197-26814625:+
Coord C1 exon
chr17:26814197-26814354
Coord A exon
chr17:26814355-26814440
Coord C2 exon
chr17:26814441-26814625
Length
86 bp
Sequences
Splice sites
5' ss Seq
GCGGTATAA
5' ss Score
2.94
3' ss Seq
TCTTTTTCTTTTTTTTGCAGCAC
3' ss Score
11.22
Exon sequences
Seq C1 exon
GTGTTCAGGACAGACCTGATCACAGCTATGAAGCTGCATGATTCACACCAGCTTAATCCTGAGGACTATTATGAGCTGGCCGATCCCTGGCGGCAGGAGTGGGAGAAAGGGGTTCAAGTTCCTGTCAGTCCAGAGTCTATACCGCAGTGTACAGTGCG
Seq A exon
GTATAATATGTTTTTCCTCTTCCCTATCAAACTATTCTCCTTAAGTAGTTCCCATTGATTCATTGTTCTTTTTCTTTTTTTTGCAG
Seq C2 exon
CACTGTAGCTGAGAAAAGCACCGCTCCTCTGTTCATCAAGCCCAAGAAGCTGATTCGCTCATCTGAGTCATCGATGCTTGGGTACGTGGGTATTCAGACACTGGCTGATGGCATGTGTCGCTATGACCTGAATGAGGAGGACGTAGCTTGGCTGCAGATCACTAATGAAGAGTTCAGTAAAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033707:ENSDART00000042060:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.396 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF105134=EPL1=FE(35.4=100)
A:
NA
C2:
PF105134=EPL1=FE(42.2=100)
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:
AGGAGTGGGAGAAAGGGGTTC
R:
GCCAGTGTCTGAATACCCACG
Band lengths:
169-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]