DreINT0069053 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37087552-37087912:+
Coord C1 exon
chr3:37087552-37087715
Coord A exon
chr3:37087716-37087810
Coord C2 exon
chr3:37087811-37087912
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTTTTTTTTCTCACAACAAGGAG
3' ss Score
5.58
Exon sequences
Seq C1 exon
TGTCTCTGGACGGTGTTCTGCAGGATGTAAGATCTCTGGAAAGAGGCATGGAAGGCACCAAGAAGGAGTTTATGGTGCAGGACGACATCCCGGCACTCAAAGAGTTTGTCAAAGCCAACAGTGATGTATTAGACTCCCTCGTTAAAGATGGCAAAACAGCACAG
Seq A exon
GTGAGACCCCAGGAACACACTCAGAAACACACACACTGTACTATAAATGAATTTTTTGGTCATTTTTTTCTTCTTCTTTTTTTTCTCACAACAAG
Seq C2 exon
GAGGCATATGCGGCTGTGGTGGAGTATTACGGAGAAAACCCCAAGACGACACAGCCTTCCATGTTCTTCCCAATCTTTGCAAGGTTCATCAAAGCTTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:22
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=0.029
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(14.8=100)
A:
NA
C2:
PF0218118=FH2=FE(9.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGGCACCAAGAAGGAGT
R:
AACATGGAAGGCTGTGTCGTC
Band lengths:
181-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]