DreINT0181020 @ danRer10
Intron Retention
Gene
ENSDARG00000027353 | zmym2
Description
zinc finger, MYM-type 2 [Source:ZFIN;Acc:ZDB-GENE-030131-2408]
Coordinates
chr9:21635054-21637240:-
Coord C1 exon
chr9:21637028-21637240
Coord A exon
chr9:21635202-21637027
Coord C2 exon
chr9:21635054-21635201
Length
1826 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TAATTTTTCTCTTTCCACAGACT
3' ss Score
10.49
Exon sequences
Seq C1 exon
ATTCGGCATGAGGTGAGCATCAAGAATGTGACTCACAAGATTTGCAGTGATGCGTGCTTTAATCGCTACCGTATGGCTAACGGGCTAGTCATGAACTGCTGCGAACAGTGTGGGAACTACCTGCCTAGTCGTGCCACGGCGAACCACGTTTTACTCATAGACGGCCAGCAGAAACGCTTTTGCTGTCAAAATTGCATCAGGGACTATAAACAG
Seq A exon
GTCAGTGTCGTATGTTGTTTTTTTTTCTTACTTTTAGCTCAGCCTCCTGTAGGTAGGGATGCCCTGATCAGTATTTTTGCAGCCGATGCCAAGTACCAATTCCTTGTCATGGTGATCGGCCGATACAGAGTACCAATAATAATGATTGGAGTTTAATAATGCATTAAGCACATTTCCCTCTGAGTATCATAGTTAAGTAGAGATCACTTCTTACCTAGGATAAATTAAGGATGTTGCATATAATCCCTTAAACGTGTCTCTTACAACCATTTAGGTGTGAACATGTCATTGATCAGAAACAGATTTACAGAAAATAACTGATTAAACACAAAATAAATTGGTAAGAAAATGACTAATAATGAAATTTAGAAACTTTGCAAATGATGGGAAAAGAATTCAACACGTCACCATAAAGAAGTTTGGAGCACATGTTTGATGTGTAAGAAGTTAAAATGAACACCTATAAATCCATTTATTAATACTAAACTTGGAAATGAGCCTATAAACTTCTGTTTATTGCTGTAGGTAGTTATATTATTAAATATTCATGTTAAAAATGTTTTATGTATGTTATATATCCCGCCAGGTTTTAGTAAACTTGCAATGATGTCAAAAATAGACAACTTTCAATTCTTATATGTAAAAAGGCCTAAATACATGCAAAGTCATTCAAGTATTTAGCTCATCTCCAACTAACACAAACACTTGCGATGAGTTCATAAGATCAGCCTGGTCAGCAAGTAACCATCGAGTAATTAAATGTGATTATCGGCCAATACCAATCTCTGGCCGATCGATCAGTGCATCCCCTAGTTGTTGGACATTCAAAACAACCAGCATTGAGCTGCTAGACTTTGTGCAAACAATTTCTACAGATGCTGCAACGTTTGTAATATTATGTCACACTCTTTAGGGTCTTTTACAAAACATTATTTTATATACATTATTATTAATTATTTATTTGACATGGGCATCACAATTACACTTGACAACCCAATGTATTTGTTTAAGTTGCAAAAATCAGTAGAAGGTACTCAAACTGTGGAAAAAACCTTAAAAGGCCCTTAGCCCATGGCTAATCCCTAAAACCCTAAGCAGAATTGCCTTCATCAGGGTAAAAGTGTTACTTGGTTAGGGTTTGGGTGAAATATAAAAATATTTTAAGTGCCGAATTATTTATTTATTTTTTGCTGTTTTTCTAATGAATTCTTTACCCAAAGATCACCGACACATTATTTAAGCTACCCCTGAGCACGTTTTGTTTGATTTTGCATTTAAGTGTTTTAGCATACTTGCTAATTCTCAATACCTGCCCACGGAGGCTTGACATAAAACCAAAATAGAATAGATACATTTAAACAACATTATAGTTCTTTATATAAAATTGCTATATGGCAAAAGCAAAGGTGGCATGATCGAACAAACTAATAATAGCCTATTTGTGTAAGCACTGCTGTTTTGTATTAAACCACTTTTTAAGTACACTAGTAAAAACATTTAAATTACTTTCTGATTTTAGGCTAACAGGTAAATCATTACACTTTAGAACAAAACATTCACCTTTAGCTGTTACTCTGTGAGAGGATTGAAGCCTACTGATTAGGTCAGAAAACAGTATTGATACATGAATATTAAAAATTATTTACTTTACTGCAAAGCTGCAATTCTGCAGTTGCTGTTTTTTTTTTTTTTTTTGTCCAAACTTGAGTTTTGAAATGAATTGAAATCTTTTTTGATTCATGAATTTGGGTTTTATTGCAATGAGCAGTGCACTCCTAGTTCTCATGTTTTTTTAATGATTGCTCTTAATTTTTCTCTTTCCACAG
Seq C2 exon
ACTCATGGAAAGATAGTGCAGTGTAGTGGGTGTAAGGTGATGTGCAGGTCATTTGATGCCACTCAGTGCATCGGGGCAAATGGAGCCATGGAGTCTTACTGCACCACAGCCTGTATGACCAAGAGCAAATTCACAGCTGCTGCACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027353:ENSDART00000133469:5
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:
PF064679=zf-FCS=PD(55.0=31.0),PF064679=zf-FCS=WD(100=62.0)
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:
ATTCGGCATGAGGTGAGCATC
R:
GCAGCAGCTGTGAATTTGCTC
Band lengths:
356-2182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]