DreINT0181027 @ danRer10
Intron Retention
Gene
ENSDARG00000035823 | zmym4
Description
zinc finger, MYM-type 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5459]
Coordinates
chr19:40498612-40499683:+
Coord C1 exon
chr19:40498612-40498815
Coord A exon
chr19:40498816-40499532
Coord C2 exon
chr19:40499533-40499683
Length
717 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TCTTTTTCCTGACCTTTCAGAGG
3' ss Score
9.87
Exon sequences
Seq C1 exon
GAGTCATTTGGTAAGAAACCAAACTACCAGGTGAACACTGTAACCTCTACGACGAATGCATCAACGCCAAAACCTGCCTCTTCAGAGTCCAGCTCCTCAACCAAGACAAGCACTTCCAAGAGTCAAGTTCAGAACGTCACAAAGATCCCCTGCTCACAGTGTCTCAACTCATTCTTCCACAAACCAGAACTGCTGGATTTTAAG
Seq A exon
GTAAAGATATCATGTATTCTTATTTATATTTGTAAAGTTGATTTATAAACTAATTATGAGAGGATCATGTGCTTATGATTGTCCACGGCTGGTCCCACGTTAGTTTACGATTGATTCACCAATCAGATGATTTTTTGCTATTAGTAACCAGAGTTTATTATCTCAATATCTTTATCTTGAAAAATCCCCCCTACTCCCCCTCTCTTTTCTAGATGGGCAACACGATGGCTCAGTGATTAGCACTGTTGCCTCACAGCAAGAATGTCTCTGGTTAAAGTCCTTACTAAACCAGTAGACATTTCTGTTTAGAGTTGCTCGTTCTCTCCGTGCTCACATGGGTTTTCTCTGGGTTTCTCCAACTCTTTATAAACACCCAACCTAAGTAAATTGAACACCAAATTGGCATCATCGTCAAGCTCTTAGCAAGCCGTATATCTCTCCTTAGCCATCCCTATATCTCTCATTAACCAGAAATAAGTCTGGAAAGTTCATCGAGATCTACCTGAGCTCAAACTCCTCTCTTGCCCAGCTCGAGGATCTGATAAGCTCAGGGCTCTCTCCTGGGACGGCATGCCAAACAAGCTTATTACCAATCATCAACTAATTATTATTATTAACTATCATTAAGTTTAGCAGTTAATGGTTTGTTTTTGTTCATAATTTGTATTTGGCAAAATGGTTGACACTAATTGGTTGCTCTTTTTCCTGACCTTTCAG
Seq C2 exon
AGGAAAATGTACGCTTTCTGCGGTACGGCTTGTGTTGAGGAGTTCAAGCAGATCAACAACGTCATGGCTCGCTGCGAATACTGCAAGATTGACAAAATTATCAAGGAGGTGAAAAGGATCAACAAAATTGACCGATCTTTCTGCAGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035823:ENSDART00000140926:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.371 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PU(60.0=35.3)
A:
NA
C2:
PF064679=zf-FCS=PD(35.0=27.5),PF064679=zf-FCS=PU(85.0=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAACCAAACTACCAGGTGAACA
R:
CCTCACTGCAGAAAGATCGGT
Band lengths:
342-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]