DreINT0181019 @ danRer10
Intron Retention
Gene
ENSDARG00000027353 | zmym2
Description
zinc finger, MYM-type 2 [Source:ZFIN;Acc:ZDB-GENE-030131-2408]
Coordinates
chr9:21637028-21638668:-
Coord C1 exon
chr9:21638503-21638668
Coord A exon
chr9:21637241-21638502
Coord C2 exon
chr9:21637028-21637240
Length
1262 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGA
5' ss Score
5.24
3' ss Seq
GTATGTGTGTTTGTATCCAGATT
3' ss Score
7.76
Exon sequences
Seq C1 exon
AGACATAACCAATATGAAAGGAGGCACCATAGTGGCCCAGGTGGACTCCAGTGAATCATTTCAGGAGTTCTGTAGCACAGGCTGCCTGGCAGCTTATGAAAACAAACAAAATCCTCAGAAGAACCAGATTAAAACAAAGTGCACCGTCTGTGGAAAACTCACTGAG
Seq A exon
GTCAGACTGTTCATATTCTGATATACTTTTCATTTGCATTGAATGTATTATACCCTGTTTATAAACAGCTACAGCCACGAATGTTGTCAGCATGTTACTCCCATGAATCAGGCAAACTTTTCTTTATGGAGTGTTGCTGTGCCTGGTTAGGCTACAGTGTTACTCAGAATTTGAACTCAGGGCTCTGTTCATTCTTGTTTGCAATGTACAGGCAAACATTTGAGAAACAGGTTAAAGAGCTATTATTTGATGTAAAACATATGCTGATTGTTTTCTTTATGAATCTTTTTAGTTTGTATTGACAATTGCATTCAGGGTGTCTGCAGGCTCTTTAAAATCTTAAAATATTGTGACTAACAATGCATCTCAATAAAACCTTTTTTTAGATGCAAATTTTTTTTATTGCAAAGAGATACAATTTACAACAGCTCTTAGACATTTTACATCAAATCCTTCATCCTCAATTTTATTCTTGATCTTAAAATGGTCGTACAAAGTCTTAAATCTTACTTGATGAAACCTAGCAGAAACCCTGGTACTACTTTTTGCAGAAATGAAGGTAAATATCTAGTGCTATGATTGGCTAACTCTAATACAGTCAACACTAAAAAAGAGCATGAAGTAAATAACGCAGCCACAATGTTTTTGCACTGCAATTGCTTTTGTTTGCTTAATTTTTTAAATGGTTCTGATGTAGGACTTTGTGTACTTTACCAATGTCATCCCAGAAAGCATTATTGTATACGGTTATCATGATCAGTCCAGTCATTGTGAACTAGTTGATGCTGGTGAACTAATGAATCCTGCAATGGGGAAAGCTGAAAATATGAATGTTAATTAATGAAGACCAGCATGAAATGATAGAGTGAGTTTATTACCATCACACTCAGCAAGGCTTTTTTAATTTCTAAAGAGATGGGATGGTTAGAATTAGCTCCCCTTATTTCTTTTTCGTTCTTCTGTAATATGAGTTCATTGCAACTGAATGGAAAACCCAAGTACTGTCATTTTCACACACTTTCCGTTGTTGTCCATTGTCAAATATAATTTTTGAACACAGTCAAGCCTCCAACCTTGTAGCCATGGTTACTGCTATCCTTGATTGTATTTGGTGATGCCATAGCAATCACCTTGGGAACAAAAGAAAAGACCATTACACCAATTTATTAGTCGTTTCGGTTATTTATAACATGCTAATCTTGAACCTGTAACCTCTACATTAAATACTGTTCATCATTGTGTGTATGTGTGTTTGTATCCAG
Seq C2 exon
ATTCGGCATGAGGTGAGCATCAAGAATGTGACTCACAAGATTTGCAGTGATGCGTGCTTTAATCGCTACCGTATGGCTAACGGGCTAGTCATGAACTGCTGCGAACAGTGTGGGAACTACCTGCCTAGTCGTGCCACGGCGAACCACGTTTTACTCATAGACGGCCAGCAGAAACGCTTTTGCTGTCAAAATTGCATCAGGGACTATAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027353:ENSDART00000133469:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PD(69.6=57.1),PF064679=zf-FCS=PU(40.0=28.6)
A:
NA
C2:
PF064679=zf-FCS=PD(55.0=31.0),PF064679=zf-FCS=WD(100=62.0)
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:
ACCAATATGAAAGGAGGCACCA
R:
CAGCAAAAGCGTTTCTGCTGG
Band lengths:
344-1606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]