DreINT0069059 @ danRer10
Intron Retention
Gene
ENSDARG00000055713 | fmnl1a
Description
formin-like 1a [Source:ZFIN;Acc:ZDB-GENE-120215-83]
Coordinates
chr3:37071109-37072254:+
Coord C1 exon
chr3:37071109-37071192
Coord A exon
chr3:37071193-37072110
Coord C2 exon
chr3:37072111-37072254
Length
918 bp
Sequences
Splice sites
5' ss Seq
GCCGTATGT
5' ss Score
6.35
3' ss Seq
CATGCTGATGTTATTCTCAGGTT
3' ss Score
7.75
Exon sequences
Seq C1 exon
GTGGGCCCAGGAGTTTCTGAATGAGGAAAACCAAGGCTTGGATGTCCTGGTGGACTACTTGTCATATTCTCAAAGTGACGTGCC
Seq A exon
GTATGTTTATGCTGTCATTTCCTATATAAACCATTAATGTCACCTAATATTGCATTAAGAGTTTGCATGTTCTCCTTGCATTTGCATGGGTTTCCTCCGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACATGTGGTACAGGTGAATTGGGTAGGCTAAATTGTCCGTAGTGTATGAGTGTGTGTGAATGTGTGTGTGGATGTTTCCCAGAGATGGGTTGTGGCTGGAAGGGCATCCGCTGGATAAAAACTTGCTGGATAAGTTGGTGGTTCATTCCACTGTGATGACCCCAGATTAATAAAGGGACTAAACCGACAAGAAAATGAATGAATGAATGAATGTTTGCATTAAATGTGTCAGAAGATTTTATGACTAAAGAAAAGTTCACACTAAGAATGCTAACTAACTATTTGTTAACTGTCCACACCACATTCTGCTATACAAGAGTGTTCAGATCTGTCTTCTGCCACTTTAAAGATTCAAGCTCTTTATGGAAGAATTCATCATGATTGGTTGTCAGTGTTCACATTGTTCATCAATAGAATTCTGAACGTGATTCTACCAAAATTATCTATGCCATTATGGCTATAGGTGATGTTGACACTTCAAATTATATGTAAAGGGTTTTTAAACTACTTTATCATTGTGGTTATTGTTGTTAATGTGAACAATCCTTCCCACCATACTTTTTTTTTTTTAATGTTTAAAAGAAGTAATAGATGTCTAAAGATAGACGACTCGATTAAAACAAGGTGAAATTTGAGCAGTTAAAATCTTATAGACGTCTATTAGATGTCTATTGAACACATAATTACTTAGTCGTTTAAGTCTTTGATTCAGCCAAAAAGTGACTGGAAATCACTCACCACATTTATCATATAGCATATAAATAAGATCCCATGCTGATGTTATTCTCAG
Seq C2 exon
GTTTGAGGTGGAGTCTGTGGAAAATGGTGGCTCCATATCAGACAACAGGAGGATGTCAGAGAGATCGGTGGAGGATCTTGCCAAAAATGTCAACCATTCTGCCCCACACACGATGACCAGGGCAGCGCGTGCGCTCACTGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055713:ENSDART00000151144:5
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=0.551
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(20.6=100)
A:
NA
C2:
PF063718=Drf_GBD=PD(6.6=18.4),PF063718=Drf_GBD=PU(4.9=8.2)
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:
GGGCCCAGGAGTTTCTGAATG
R:
CTGCCCTGGTCATCGTGTG
Band lengths:
207-1125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]