DreINT0083909 @ danRer10
Intron Retention
Gene
ENSDARG00000033707 | jade1
Description
jade family PHD finger 1 [Source:ZFIN;Acc:ZDB-GENE-030131-5648]
Coordinates
chr17:26823841-26826210:+
Coord C1 exon
chr17:26823841-26824374
Coord A exon
chr17:26824375-26826092
Coord C2 exon
chr17:26826093-26826210
Length
1718 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CCACATATATGTGTGTTCAGGTG
3' ss Score
7.14
Exon sequences
Seq C1 exon
TGTTCTGCCAAAAGTTGCCGTGTGGCGTTCCACGTGACCTGTGGTCTGCATTGTGGGCTGAAGATGAACACGATCCTCACAGAGGCGGATGAAGTCAAGTTCAAGTCATTTTGTCCCAAGCACTCTGGCCTGGATTGGAACGAGGAAGAGGGCGATGATGACAGACCTGTGAAGGTCCCAACCAGGGAAGACAGAAGCAGAAATAGAGGAATAGATTTCTCTGCTTCTTCCCAAACCAGACTCTCGCAGAACCCAGAGGAGACCAGACTCAGTGAGCGAAAGCTTCGAGTACAGCAGCTGGAGGACGAGTTCTATCGCTTCGTCGCTGCTGATGAGGTTGCCGAACATCTGCAGCTTCCTCTTGAGATGGTGGACTTCTTGTTTCAATACTGGAAGTTGAAAAGAAAGGTGAACTTTAACCAGCCCCTCATCATGCCGAAGAAAGAGGAGGAAGACAGTCTTGCCCGACGAGAACAGGAAGTGCTTTTAAGGCGACTACGACTCTTTACGCATTTGCGACAGGATCTGGAGAGG
Seq A exon
GTAAGTTTGCCAGAACCCTTCTATTGTCACATTAGCTCACACGATGGCTTTTTTATCACTCTAAATTAAGGGTGCACGATACTTTGGTACCAGTTGATACTGGAATTTTAAAAACGTCAGTTTTTATTCCTGCTAACATTTGAGCGTTATTGAGCACGTACTTAAACACAGCTTATTTGCCATTGTGTTCACATGCTCAACTGAAATGACTGATTGGCTGTGAAGGTCATCAGTTCACCGAACTCACCGCTGTTTACTGAGTGTAACCACAGATACAGGGACACATTGCAGCATTTTAAAGCTGTGTTTCATCAGCAGATTGCTCCTTTGTCGGCTTATAGACAAACCAGCTGATCGGCGTGACTTTGAAACGCTCCAGTGCCCCTGTATTTGTGGTTACACTCAGTAAACATTGTGTTTAAGTCAAGAACGTGCCCAACAGCGCTCAAATGTTATAGGGAAGTGAATGTTTTTACAACTTCAGTATTAATTGGTACTGAATTCCAGTATCCTGACAACATTAACTCTGAATGTAACAGTCACAGCTCAGGATTAGCATGTTTTCAGTTATCCAATCATAAGTGATAGGCCGAGATGCATTACTGTTTTTATTAGATACTACTAACATGCATCTCCTTTGAAAACTTGTGTTGGGGTTTCACCGAGACCCTTAAGTCGTGCTTTGCATCACTTTCATAGCATTCAGTGCCACACACACATGCTACTGAATGAACTGATGCAACATGACATGCAAATGAATAAAAAGAATGAGGGTGATGACTACAATTTCACTTATAATGTGTGTGTTTTGGTACAGTGAAAAAGTATGAACACCTTTTATTTGTTTTAGTGCAGCACATCTCATAATGATCATATTTGAGTGAGTGGGCACATGGTATGTGGTCTTTTGTGGCTGTTTGAATGCATCTGACCACATGAGCATTCATGTTATTAAAGCAACTGAGTCCTGAATTTTGACTGATTCCCCAAGATTCCCAAATTCACTCATTATTCACTTGCTATTCTATATGTAAAACTTCAATATGTAAAACTTCAAACTCTAAACTCTAATTTTATAACTTTTATAAATGTTTACACTACAAAGCGTATAGTGCATCATTGGGGTCTTTTTTTACTCAGTATCGTTGGTTAGTCAGTGAATGATGTAAGTGTTATTAGTAACATTTAAATTTCTTTCCCTGTTTCATTCTGTCGTGCCACAGTCATTATCACATCAGTGTTTTGCCATTGGACCATTAAATTTGTTGTTAGGCCAAAACCTAAAACACACACCTGTACAAATGTATGATACACAAATGTTTAATTTACTGATCTAAATTACTTGTGTGAAGCACACACATTTACTCGCCATCATGTTGATCCAAACCCTTCCACTACAAACACAAAAGATCCTTTATTCTTCTCATTCTCAAATCATTGTTTTTTCATTGAATGTAAGTCTGTGCATGTTTGACACATTAGAATCCTCTAAAATACATAACAAAAGGAATCTATTTGAAGCAAGTGATTAATTTAGATTGTTGTTTGTATGTAGAAAAGAGTTAGAAAATCAACTTATTTACCTTGCTTGATTTGCAAGAACATCTCATTGGTTCTCACATGCCAAACAGAATGATATATTAACTATTATATATAATGCTTTTTTAAAGCTTCTTTGTAGATTATTGTATGTCTCATCCACATATATGTGTGTTCAG
Seq C2 exon
GTGCGTAATTTGACGTATATGGTCAGCCGACGGGAGAGGATTAAACGGACCTTGTGCCGAGTGCAGGAGCAGATCTTTCATCACCACGTCAGGCTGCTGGAGCAGGGCCGCGTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033707:ENSDART00000042060:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138321=zf-HC5HC2H_2=PD(35.4=22.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCCAAACCAGACTCTCGC
R:
TTTAATCCTCTCCCGTCGGCT
Band lengths:
353-2071
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]