DreINT0069060 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37072111-37072491:+
Coord C1 exon
chr3:37072111-37072254
Coord A exon
chr3:37072255-37072379
Coord C2 exon
chr3:37072380-37072491
Length
125 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGT
5' ss Score
7.53
3' ss Seq
TCTCTGCATTTCCTAATTAGAAT
3' ss Score
7.36
Exon sequences
Seq C1 exon
GTTTGAGGTGGAGTCTGTGGAAAATGGTGGCTCCATATCAGACAACAGGAGGATGTCAGAGAGATCGGTGGAGGATCTTGCCAAAAATGTCAACCATTCTGCCCCACACACGATGACCAGGGCAGCGCGTGCGCTCACTGTCCG
Seq A exon
GTCAGTCATCATTACAACAAAACATAGGGATTACAGGACTCAAATGAAAAACTGATATTAAACAGACGTGCATTTTCTCAAACTCAGTGTTGATCTTTTTCTTATTCTCTGCATTTCCTAATTAG
Seq C2 exon
AATAACGTCACTGGCACACAGCAGAAAAACTCTGCGAATTGCCCGACTGGCCACCCAGAGAGATGATGTTCACCTCTGCATTATGTGTCTACGTGCTATTATGAACTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.551 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=PD(6.6=18.4),PF063718=Drf_GBD=PU(4.9=8.2)
A:
NA
C2:
PF063718=Drf_GBD=FE(45.1=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:
GTTTGAGGTGGAGTCTGTGGA
R:
TAGCACGTAGACACATAATGCAGA
Band lengths:
242-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]