DreALTA0022479-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000044255 | rbm18
Description
RNA binding motif protein 18 [Source:ZFIN;Acc:ZDB-GENE-040426-1764]
Coordinates
chr10:9528300-9536183:+
Coord C1 exon
chr10:9528300-9528380
Coord A exon
chr10:9535840-9536094
Coord C2 exon
chr10:9536095-9536183
Length
255 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTTGTTTTTATTTTCCACAGATT
3' ss Score
11.05
Exon sequences
Seq C1 exon
GAGGCTGAGCGGGCTATTCAGTGTCTGAACGGGAAGTTGGCACTTTCTAAGAAGTTAGTGGTACGGTGGGCTCATGCACAG
Seq A exon
ATTCCCACAAGTTATCATCATCCTCACGATCACAAGAGTTGTTGGAGGGACATTTTTGAGTGAAATAAATGTTTATGACATGGCGTAGCCTGGCTTTTCCCACACATTTCCAAGGGAGCATATGACTAATAAGCAGCCAGCTCTTGTTTTTTCTGATCTCTAAAGCAACCATATGAGTTACTAAAAGCCCAGTTGTCCATACTGTCTCCCAGACTGTCTTGTATTCATCCCGTGTGTGTGTTTGTTGTCATTCAG
Seq C2 exon
AGATTTGAACCCTTCCGAGGAGAAAAAAATATGCCAGCCAGTTTAGAGCCTTCATCCAGTGAAGCTGAGGATCTGCCAACCTCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044255-7-6,7-5-2/2
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=0.400
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(25.7=70.4)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGCGGGCTATTCAGTGTC
R:
TCAGTGAGGTTGGCAGATCCT
Band lengths:
165-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]