DreINT0069042 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37075823-37076202:+
Coord C1 exon
chr3:37075823-37075972
Coord A exon
chr3:37075973-37076100
Coord C2 exon
chr3:37076101-37076202
Length
128 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAA
5' ss Score
2.54
3' ss Seq
TATGTATTCTTGTGCTGTAGCTG
3' ss Score
7.1
Exon sequences
Seq C1 exon
TCGCTTAAGGATATGGAAAGCGAGAAGCTGCAAGTGCAGATCCAGGCCTATTTGGATAACGTGTTTGATGTTGGAGCTCTGCTAGAGGATGCAGAGAATAAAGGAGATATAGTGGACCTTGTAGCAGATCTGCAGGAGAACAATGCACAG
Seq A exon
GTTAAATATGCTGTTCAAAATGCACATAATCATCCACTGCATGACATACTGTATGTGCTTCATAATGTAGACAATGTAGGCTGCACTGTCACTCAGAAGTCTTTAATGTATGTATTCTTGTGCTGTAG
Seq C2 exon
CTGACCGCCAGACTGCAGGAATGTGAGAATGGAGCACTGGACAAAATAGCAGAACTAGAGCAACAGCTATTGCAGGCAACTAAAGAATCAGCATTGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:12
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(25.0=100)
A:
NA
C2:
PF0636711=Drf_FH3=FE(16.8=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:
TCGCTTAAGGATATGGAAAGCGA
R:
TGCTGATTCTTTAGTTGCCTGCA
Band lengths:
243-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]