DreINT0100075 @ danRer10
Intron Retention
Gene
ENSDARG00000035438 | myhc4
Description
myosin heavy chain 4 [Source:ZFIN;Acc:ZDB-GENE-030131-6206]
Coordinates
chr5:31632137-31632550:+
Coord C1 exon
chr5:31632137-31632340
Coord A exon
chr5:31632341-31632424
Coord C2 exon
chr5:31632425-31632550
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TTGTTGCTTCTATGTTGTAGAAC
3' ss Score
8.09
Exon sequences
Seq C1 exon
GATGCCCAGCTGCACCTTGATGATGCCGTGAGAGGACAGGAAGACATGAAGGAGCAGGTGGCCATGGTGGAGCGCAGAAACACTCTGATGCAGTCTGAGATTGAAGAGCTGAGAGCTGCTCTGGAGCAGACAGAGAGAGGACGCAAAGTGGCTGAACAAGAGCTGGTGGACGCCAGTGAGCGTGTTGGACTGCTGCACTCTCAG
Seq A exon
GTAAAAGCTCATTATGTTTACATTGAAAGTAAGGTAATTTTGAGCTTCCTTATACACATTCATATTGTTGCTTCTATGTTGTAG
Seq C2 exon
AACACAAGTCTTTTAAACACCAAGAAGAAGCTTGAGAGTGACCTTGTTCAGATCCAGGGTGAAGTTGAAGACACTGTACAGGAAGCCAGAAATGCAGAGGAGAAGGCCAAGAAGGCCATCACTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035438:ENSDART00000125917:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.838 A=NA C2=0.786
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(7.8=100),PF104734=CENP-F_leu_zip=FE(47.2=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(4.8=100),PF104734=CENP-F_leu_zip=PD(25.4=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCAAAGTGGCTGAACAAGA
R:
TCTTGGCCTTCTCCTCTGCAT
Band lengths:
176-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]