DreINT0181039 @ danRer10
Intron Retention
Gene
ENSDARG00000035823 | zmym4
Description
zinc finger, MYM-type 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5459]
Coordinates
chr19:40517712-40519925:+
Coord C1 exon
chr19:40517712-40518353
Coord A exon
chr19:40518354-40519771
Coord C2 exon
chr19:40519772-40519925
Length
1418 bp
Sequences
Splice sites
5' ss Seq
ACGGTTGGC
5' ss Score
2.85
3' ss Seq
TGTGTTTTGTTGACATATAGGCT
3' ss Score
6.56
Exon sequences
Seq C1 exon
GCTGTTTCATCCGCATGCACATTTATGTCAGTGAAGTCAAGTCTTGATGTCGGCAGTGCTGGTCTGCAGGCACAGAAAACGCCGGGATCCTCAAGTCATAGGCTGATAAGACGAGACGCAGTGATTACTGGACTGAGGAGGGAGCTGCACCACTGCAAGGAGGTTTATGAGACCACCAAAGCAGCTCTGACCGATCTGAAAAGCTCTCATAAGGGGCTCGTGGAGGCACACATGGCTGTGGTTCTGCAACTGAGAGATGCACTGGACAAAAAACAACCACTACGGACCCAGCGTCATAGTTCATGCAGTCAAGATGATATGATGCAAACAAAGTCCTGCCATCCCAATTTCGACTTTCATCCTCCCTCAAAGCAGCAGTTGAACGCCCTGTTTAATCAGAGTCAGAAGCGTGCGGATCGTTACGGATGCCTGCTATTTCGTGTCATTGTACCTCAAACCAAGTATAAAGAATGGGCGTCCAATACCAACTGGGATGGCTCAAGGGGTAAATGCGCATTGCCGGTAAACCTGCGGAGCTTCATCATTGATACGGTTTCTCAGAGATTCCCCGGCTTGAGTGATGTTGACCGGAAATGCATTAAAGACAGAATCAATGAGTTCTTGCGCTCGCCAAGAAACACG
Seq A exon
GTTGGCTACAGGCGTTGTGAACAGTAGACGACATGTTTTTATTTTACAGTGGGGATTTTGAGAAACTTGTGTATCTTTCATTTACACCTCTTTAAGGAGACCATTACTCACGCTTTTACTAATGTATGCATGGTGTGTGTGTGTATATATATGAATGTTTTTATGTAACTAAATAAAGCTGTTTTATGAAACAAGACTTGGTCATGTGATTATTTTAAAACACGTTTATCTTGTACTGACCAAAACAGACAAAAGGTCAAGGTCAACTTTATTTATAAAGCACCTTAAAACAACATGAATGTTGACCAAAGTGCTTCACAAACGTGGCAAAAATAATAAACAATTAAAAAGACAGGACAATATATGCTACAATAAAATTAACTAAAAATAAATTTTAAAAATCTGTATAATCAATGAGTTCTAAAAAAGAAAAAATAATAAAAAAAAAAATAAAAATAAAATATATATATATATATATATATATATATATATATATATATATATATATATGTGTGTGTGTGTGTATATATATATATATATATATGTGTGTGTGTATATATATATATTTGCTCTGCTCAGTATGACAGTCTGATGGTTGCCAATCTCCGAAATAATGTATATTTAAAATAGGCACTATCCTTATAAACCTCATAGTTGCAATCTAAACAACTACATTCTCACCTAAAAAAAGTTTCAAAGTACATGTTGTTCAGCTGCTGCAATATTTGTCGAACTGTAGTAAGTTTATTAATTTGCAGTCACTATGTGGGCGGAGTAATACACAACAGTGAAGAGGCTGTAAGAGTGCTGTTATTGGAGAATATCGCACGGCTATCAGCCAATCAGACTGAGAACCAGACAGAACTGTTGTGTATATTAATATGTTAATTATTCCTCTGCAGACACCTGTACTTTCGTCTATCTTATGTTCTGTTTTTGGTAAGGGCTGTGGGGTTTGTAGATGTGTGTGCCCTTAAAAAATTAATACAAATATTATACCATTATGGATTTGATGAATTTTGATTATATAAAGTTTTATTTTTAGAAAACATTTTCATTCCTAACATTACAAATATTACCATTGGTTCAAACATATGAACAGCAGAATGCAATGTACATTTACATTTCATCAGCTCACATTGTTTTTAAAGCTAGTCCAATATCTGTAACCATCCACTGCACTGACTGTAATGCGTTTTAAAATAATAAATTACAACAGCTGATAATAATATACTATGGTAAATGAAATGGAAAAATGCTTATTTTATTTTAATGTAAGGAAAAGCCAAAGTTGATGTATGCTTTTGAACATAATACTATCTACTAACAAATATTAGATTATTTTCTCTTTTTTTAAATTAGGAGTTAATTTAATATCACGTTATAACATTTGATTATTGTGTTTTGTTGACATATAG
Seq C2 exon
GCTCGTAAGACTGCAGCAGAGCTTCCAGCCAAATCAGCTCCAGAAAACCTCTCTAACATCTCTAAACTACAACACGAGTACGGAGTCACCGCCTGGAGGGACTGGGTGCGCTGGAGGAACGCTCAGCCCAACATGGAGACTCCCAAATTTGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035823:ENSDART00000140926:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.262 A=NA C2=0.269
Domain overlap (PFAM):
C1:
PF105234=BEN=PU(97.4=35.0)
A:
NA
C2:
PF105234=BEN=PD(0.1=0.0)
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:
CCTGCCATCCCAATTTCGACT
R:
GATTTGGCTGGAAGCTCTGCT
Band lengths:
343-1761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]