DreINT0069040 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37074493-37074764:+
Coord C1 exon
chr3:37074493-37074567
Coord A exon
chr3:37074568-37074653
Coord C2 exon
chr3:37074654-37074764
Length
86 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTTGATCTTTCTCTTTACAGGTG
3' ss Score
13.06
Exon sequences
Seq C1 exon
GCTAGTGGAGAGAAGAACCGCTTTGAGAAGCTCATGGAGTACTTCATGCATGACGACAGCAACGTGGACTTCATG
Seq A exon
GTGAGTTCTGCCACTAATCTAATATGACAATAAGATGACAAATATCCTGCTTTTTAAAAATGTTAATTTGATCTTTCTCTTTACAG
Seq C2 exon
GTGGCTTGCATGCAGTTCATAAACATTGTGGTTCACTCAGTGGAGAACATGAACTTCCGTGTACATCTCCAATATCAGTTCTCTCAACTAGGACTTGACCAGTACTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:10
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:
PF0636711=Drf_FH3=FE(12.2=100)
A:
NA
C2:
PF0636711=Drf_FH3=FE(18.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTAGTGGAGAGAAGAACCGC
R:
ACTGGTCAAGTCCTAGTTGAGAGA
Band lengths:
178-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]