DreINT0083903 @ danRer10
Intron Retention
Gene
ENSDARG00000033707 | jade1
Description
jade family PHD finger 1 [Source:ZFIN;Acc:ZDB-GENE-030131-5648]
Coordinates
chr17:26813415-26814354:+
Coord C1 exon
chr17:26813415-26813485
Coord A exon
chr17:26813486-26814196
Coord C2 exon
chr17:26814197-26814354
Length
711 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAC
5' ss Score
5.99
3' ss Seq
ATTTCTTTTCTTTTCCACAGGTG
3' ss Score
13.66
Exon sequences
Seq C1 exon
GTAATTCCACATCCTGGTCTCAGCACTCCAACTCCAAGCACAGGAAACAGAGTGGGAAAAGACCATCTGAG
Seq A exon
GTACACAAAACTCACTCGCACACACATACGACTAGGGCTGTGCGATTAATTACAATCATATTGATTTTGGACATGCACGATTTCTAAATCACGTTACAGCACGATTTTCCCGCAGTATTCTATTTGAACCAATGAACAGGAGACTGAGCTTTATGACAAATAACCTGCATGATGAGTTCAGCACAGGAGAAAGTCAACAACTGTGGTGTGGGATTACTTTGGAAGGCTGATGTATCACAGAACCAGGTAATTTGTAAGTCAGTCATAGGTTGCAGCCAAAAATCTGTGGACATGTAGAAAAGCACACGCAACTACTTTTGATTTGGGGTCAAGCAGAACATCGGAGCCTTACTCGCGTTTGACGGCGCGCGCACACACACACACACACAGTAGTCTTTATTTGTTTTGCCATAGGTCTGTTCTAGAGACGATTTATTACACCTCTACTGGGTGATTTTAATTCTCTTTGCCTTATGTTTGATTTAGAGACAAGTTACAGGTCTTTGATGAAGATCTAATTATTTTCCTTTGGAAATATCTCTCAGATTTACACTGTGTATCAAAATCATGATTAAAATCGAAATCGCATTATTGTTCAGGAAAATTGTGATGGGTTTCTTTTGCCCATATCGCACAGCCCTGCGTATGACTGTTGTAGATGTTTGTCATTTAGTACATATTCTTTTGCACAATTTCTTTTCTTTTCCACAG
Seq C2 exon
GTGTTCAGGACAGACCTGATCACAGCTATGAAGCTGCATGATTCACACCAGCTTAATCCTGAGGACTATTATGAGCTGGCCGATCCCTGGCGGCAGGAGTGGGAGAAAGGGGTTCAAGTTCCTGTCAGTCCAGAGTCTATACCGCAGTGTACAGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033707:ENSDART00000042060:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.396
Domain overlap (PFAM):
C1:
PF105134=EPL1=PU(8.2=50.0)
A:
NA
C2:
PF105134=EPL1=FE(35.4=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:
TTCCACATCCTGGTCTCAGCA
R:
CGCACTGTACACTGCGGTATA
Band lengths:
225-936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]