DreINT0181049 @ danRer10
Intron Retention
Gene
ENSDARG00000035823 | zmym4
Description
zinc finger, MYM-type 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5459]
Coordinates
chr19:40493596-40494637:+
Coord C1 exon
chr19:40493596-40493725
Coord A exon
chr19:40493726-40494421
Coord C2 exon
chr19:40494422-40494637
Length
696 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
GCCATTTGTGTTTCTCATAGACT
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGATATTACTGATTCTAAGGATGTGATCAGTGCACCGGTGGATATGGCAGGGAATCTGAAGGAGTTTTGCAGTCAGAAATGCATCAGTTTATTAAACTTCAAGTGCAGTGTGTGTCAGAAGGCGGGAACA
Seq A exon
GTAAGTTGCTATTTCTGTCTGCTGGCGTTTTGTGTGTTGAAACTCTGCTACTGAATTGTTCACCTACAAAATGAGGCCGCATTCACACACCAATGGATTTAGGTCGATCCGCAACAGTGTATTATTGTTTTGCCCTTTTGTCCACACCACACCAGCATAGCCAGTGCCATGAAATTAACTTTTAATATAATGGGTTACAGAGTGGGAAAATCCCATGGCCGTGTGGATTGAAAAATTGTGATTTTTTTTTAAACGATGACATTACCATAACACAAATTACAGAGCTGTGTAAGTGCTAATAAACTTAGCAGCACAACTACAATAAAACCTCATATTGCTATATCAACTTGATCCTACACTTTTCAAAGGACTTTCTGAGGTTTTTAGATACTCACAGAGAGTCAGGACCTCGGCCCCATCCGATAGATGGTGCTCACTGACCAACTAAAAGCTGGTCTAAAGTCCAGCAGATTGCGTTAATTATGTGCCTATGCAGCTAAAAAATCCTTACACATTGCCAAATACACAGAGGATGTACAGCAATGGTGTCAAAAATAATAAATGCAACAATAATGAAAATTATTTCCCAACTTATGTCTTTTTTTGTCTTGTCTCTGACGTTACATGGCTACTAGTATGATGTACAAACAAATAAAATCCAGAGGTTTGAGATGTTGCCATTTGTGTTTCTCATAG
Seq C2 exon
ACTTTTACTCACAAAGTGAACTTGATGGACTCCGTCCATATTCTGTGCAGCGACGACTGCTTCAACCAGTTTCGCACCTCCAATAAGCTGAACGGGAACAGCTGTATGAACTGTGGGGGAATCTGCTACGGCACAGACGCTCCATGTCAATCTCTGCAGATAGAGGGCATCGTTATGAAGTTCTGCAAGCCGAGCTGCCTCACAGCCTTCAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035823:ENSDART00000140926:7
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(73.8=70.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTAAGGATGTGATCAGTGCACC
R:
CTTTTTGAAGGCTGTGAGGCA
Band lengths:
334-1030
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]