DreINT0083901 @ danRer10
Intron Retention
Gene
ENSDARG00000033707 | jade1
Description
jade family PHD finger 1 [Source:ZFIN;Acc:ZDB-GENE-030131-5648]
Coordinates
chr17:26826093-26829627:+
Coord C1 exon
chr17:26826093-26826210
Coord A exon
chr17:26826211-26827534
Coord C2 exon
chr17:26827535-26829627
Length
1324 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAGT
5' ss Score
6.32
3' ss Seq
CTGTTTTCTCTCCTGGTCAGGTA
3' ss Score
10.3
Exon sequences
Seq C1 exon
GTGCGTAATTTGACGTATATGGTCAGCCGACGGGAGAGGATTAAACGGACCTTGTGCCGAGTGCAGGAGCAGATCTTTCATCACCACGTCAGGCTGCTGGAGCAGGGCCGCGTCACTG
Seq A exon
GTTAGTATGATGCTCACTTAAAGAGTACTGAAGCCAGGGGTGTCAAACTCGAAATCTATAGACCTCCAACTCACACCTACTTAAAGACCCCGTAAAGTGCTTTGAAAAATGCATTTTTATTCAATCTTTGATGTAATCTTAAACCGAAACATAAAGAAAGGGTGGGAGAGCTTAACTCCTCCCCTTAAAGAACAAGAACAAAAACAAAAAATCAAACAGCCAAAAGTGTTTGTTTTTCCTCAGCTCTGCCAGTGAGAAGTGGTTGAGCTCTAGTGCATCAAATGAAAAGTGTCTTTAAGGGGGTGGGGCATGTCAGACATGAGAGGTTATGATTAGGGATTTTCCAATTGATCGGCTAGAGATCTGTGTCAGCTGATATTCACATTTCATGACTCAATCGGTACTCGCCAATCTGGCCGATTTCATGAACCGATTGCAAGAGTTTGTTGTTGAGTTTACACGTAGAGGAAGTGGTAATAAGACTGAGTGAACGTGAACAGATTGAGAGAAACACAGTGATGTTCTAAGTATTACATCGGTAAGGTTAACTTCTTATGCATCAATTATGCGCTCCAAACTTTTTCTTCATTGAAACATGTTGAATTCTTCTTCCATCATTTGCAATGTTTCCAAATTGCATTGTTAATCATTTCTTACCGATTTTTAAAATGTTTTTTCTATTATTTTCTGTAAAACTCCCTTTGACCATGACATTTCCGAACTAAATGGTTTTAATAGACGTTTTAAGGGATTACATGCAGCAAAAGTGATGATCTCGCCTCACCTAAGAAAATAAATAAAGTATCATACTTAAAGGGAAAATGAACTATTTTGCATTATAAAGCTTGAAGCATCAGAATCTGTACTTGGAATCTGACGATCACCATGACAAAGAATTTGTACTCTGTTTCAGCTGCAAAAATCCTGATCAGAGCATCCCTGGTTATGATGTAATGAGAAACTGAAGTATGAGGTGACATGAATAAATCTATTGATCCATTTAGGGAGAAGTGACAAATTACAAGCTTTACATGTTTATATCAGTTTTGTATCTTCTAAACGCCAATTTTGTCACTTTTTTGGGGTGCGCTAGCTTATAGATATCCTAAAAACTAATAATACTGATACTGACATCTAAAAAACTTCATTTTAATTTCATAGGACCTTTTATAGTTTCTAGTAGTCTTGAACACCTTGATTAGTTGGATAATTTGTGTTTGCTTAGAGTTGGAACAAAACCCTGCACAGCTGCGGCCCTGCAGGAATTGAGTTTAATACCTGTGATTCAAACCATTTGACCTCTTCTGTTTTCTCTCCTGGTCAG
Seq C2 exon
GTATATCCTCTACTAGACGTTTGGAGGAGGCTATGTTTTATTTCCGTACGACGCCACCTGTGCCAGCATCTCCTCAGCCTCTGAAGGGCCACTGTGGGCAGAACAGCACACTGAGCTCCAGCGAGAAGGGAAGCAACTCTTACAGATCCTCAAAGCATATTGAAGCAGACAAGCCTGCAAAGATGCTCATGGACGGCGTTCCCAGTTCTGGAGACTCTGTGAGAAGCGAGACAGTGATGTCTGCTTCATCTAGACGTTCTGAGGGCAGGACGAGGAGCGGTGAGTCTCACAGAAAAGAGGAGGAAAGTGAGCGTCCTCTGGAGGACAGGAGGAGAAAGAGCAAGCTATGGGACCAGGTGTCTATTAAAGACAAACTGAGGCATGCAAAGTCTATGGAGGACACGCTGAGCAGTGAGACAGAGCTCGACACAATGGATGACAGATTGCTGCTGTCTCACACTAACGCTAATTCTGTAGCCACTGCTCCAAACATGTACAGCGGATCGCCGAGGAAGACAAACGCAAGCCATCAGGGAAAACTAGTGCCAAATGGAACATCCGGGCGGCATCTGAAAAACTGGGGCAGTTTCCGAATCCCCAAACGCAGTGAGAGAACGTCAGCAGGGAGACAGACCGAGAGGCAGGAGGCAGACAACACCGCAGACCAAAACTCTTCCTTAAAAACGTTTAGCACAAGCCCCTCCTCTCCTCAAATCAGGACCCGGCTGCGGACGGGAAGTGAGAATCGACGCCATCTGGAAGAGTCTGATCTCGGCCAATCGGAGCAGGGTAAGAGGTGTCACACCCAGAGACTTCCGAGCCCTATGACTAGACGATACGGTTCAGACGTGATCCAACGTGGAGTTCTCGCATCTTGAAATGTCCAAATATATTATCATTATTATTTTCCCTCTTCATTTGCTCTTCAACGAAAGGTGAACAGGTGGAACGATATTTATTTTTCTAGTCTGTAATTTTCTGCTGAAAGTATTTTTTTGTGTGTATGTTAAAACAAATGTGGAGAGGTTTCAAAGACCAAACGATTGGCTGACGAAGACGAATATCTTCCTAATAATCGATGAATGAAACTATAAATCAGGTGAAAATGAACTGGCGGAGTTTCGAGATGAGTTATGAGCACTTCTGAGGGTGTTACCAGCGTGAAATGAAGCCAGTGCAGCCCAGCTGTCTTAAGTCCCACACAAAAACTGCACTTAACTGAGCACTTAAAAAGAAAAACATATTTGACCACAACAGTCGAAGCAGTTTCCAAAATTTAGGAAAGACTTTTAATTTATTTTTCAGTATTCTGCTAACTTAAAAGGCCATCATGTGTTGTGTGTATGTGACATGTGCCATTACTTCTGCTGTGGCACCTTTTCCTTCTCAGGTAAAATCTGCTTATATTTGTACTTAATTTATAGTGTTATGTCTTTTTTTTCCCTCTCCAAACTGAGTGTGTAACAGGTTAATGCCTTATATGTACTCTCTTTGGTCTTGAAGAAATTCCTTTCCATATAAATACAAATAAATAATAAAAAACTGTTCATTTAACCATATTCTTCAGCAATAGATGGACACTGTAGATCTGGACAGATTCACACTCGGTATGATGAAATTATGACGCATACGATGTATATCATTTGCAGCTCTGTTCAGGAAGGCTTTTAACAATCATTTACTTCCAGTATCCATTACTTTGCACTTGATATTAAACAATAACAGAAGACACTATCATAGCTCTAATGAAAACACTGTTGTGTTGAAAGGACTGATCTTCTTGACATGGTTGCCTTGGAGTAGTACGCAGAATATGTGTTCTTGCATCTTTTTCTTTATCGCTGTAAATGTCTCCTCATGCAAAATGTGAGTTGATCTCCTTCAGAAAAAAAAGTTTATCTTGTGCCTGTTTTTGTTGAGATGTTGCACTAGAACATTAGCCAGAGAGCTTGGTATAACTGTGTTCACAGACAAAAAAACTTTCTACATGTTTATATAATCAAGCGCTGCTGTAATTTTCTTCTTTCTTTTCTTTTATTCTTATGCAATACTTTAGTTTTGTTGCAGATTGTGAATAAATTTTCTTGAGGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000033707:ENSDART00000042060:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.959
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTAAACGGACCTTGTGCCGAG
R:
CCTGCCCTCAGAACGTCTAGA
Band lengths:
347-1671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]