RnoALTA0015430-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000027230 | Fhod3
Description
formin homology 2 domain containing 3 [Source:RGD Symbol;Acc:2322319]
Coordinates
chr18:17085323-17125209:+
Coord C1 exon
chr18:17085323-17085390
Coord A exon
chr18:17118100-17118339
Coord C2 exon
chr18:17118340-17125209
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGAGTAAGGAGGATATTGAGCGC
3' ss Score
-28.41
Exon sequences
Seq C1 exon
AAAAGCTGTACAACTCCACCGGCCGAGATCTAAGAAGGGCCCTTTTCTCGCTGAAGCAGATATTTCAG
Seq A exon
CGCATGGTCCAAGAAGCTGAGAAGTACAAAGCTGAGGATGAGAAACAGAGAGATAAGGTTTCCTCTAAGAACTCGCTGGAGTCTTATGCTTTCAACATGAAAGCAACTGTTGAGGATGAGAAACTTCAAGGCAAGATCAATGATGAAGACAAACAGAAGATTCTTGACAAGTGCAATGAAATCATCAGCTGGCTGGATAAGAACCAGACTGCGGAGAAGGAAGAATTTGAGCATCAGCAG
Seq C2 exon
AAAGAACTGGAGAAGGTCTGCAACCCTATCATCACCAAGCTGTACCAGAGTGCTGGTGGCATGCCTGGAGGAATGCCTGGTGGCTTCCCTGGTGGAGGAGCTCCTCCATCTGGTGGTGCTTCTTCAGGCCCCCCATTGAAGAGGTCGATTAAGTCAAAGTAGAGGGTATAGCATTGTTCCACAGGGACCCAAAACAAGTAACATGGAATAATAAAACTATTTAAATTGGCAAAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAGATTTGGGAGCAATCTGCTTTAGGTGATTTATACCTGTGACAGAAAGGTCTGGTGGAAAATTCATGTTTTTCCTTAGTTTTTTTTTTTCATTGAAAAACTAAAGAGACAAGATGTTCAAGAATAGTTTTACCTCATACCATATCTGTGTTTTAAAATTACAAGGAGGTTGAGGTGACCTCAGGCTTGAAAGAGCCACATTGAGATCCATAGAATGTTGGTTAGCGGCATCTGGATCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027230-21-16,21-15,21-14-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(15.7=100)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCGCTGAAGCAGATATTTCA
R:
GCAGATTGCTCCCAAATCTTT
Band lengths:
304-544
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]