DreINT0069108 @ danRer10
Intron Retention
Gene
ENSDARG00000004372 | fmnl3
Description
formin-like 3 [Source:ZFIN;Acc:ZDB-GENE-030131-1571]
Coordinates
chr23:25505066-25505366:+
Coord C1 exon
chr23:25505066-25505146
Coord A exon
chr23:25505147-25505236
Coord C2 exon
chr23:25505237-25505366
Length
90 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TTGTTTCTGTCCTCTCTCAGCTG
3' ss Score
10.14
Exon sequences
Seq C1 exon
ATCATTCTGGCCTTGGGCAACTACATGAACAGCAGTAAAAGAGGTTCAGTGTATGGTTTCAAACTTCAGAGTCTGGATCTG
Seq A exon
GTGAGCTGAGAGGGAGAAAAGGTTTCAGTGAAGGTGTTGTTCAATTATAGTGCTGATTTTACTCATGATGTTGTTTCTGTCCTCTCTCAG
Seq C2 exon
CTGCTAGATACTAAGTCTACTGACCGGAAGATGACACTGCTCCACTACATTGCTCTGGTCGTCAAAGAGAAATATCCTGAACTGGCTAACTTCTACAATGAACTGCACTTTGTGGATAAGGCCGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004372:ENSDART00000144554:6
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:
PF0218118=FH2=FE(7.1=100)
A:
NA
C2:
PF0218118=FH2=FE(11.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCAGTAAAAGAGGTTCAGTGT
R:
CTGCGGCCTTATCCACAAAGT
Band lengths:
180-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]