RnoALTD0027211-3/4 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000021143 | Setdb1
Description
SET domain, bifurcated 1 [Source:RGD Symbol;Acc:1308370]
Coordinates
chr2:196496623-196497130:-
Coord C1 exon
chr2:196497068-196497130
Coord A exon
chr2:196496919-196497067
Coord C2 exon
chr2:196496623-196496711
Length
149 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGA
5' ss Score
3.37
3' ss Seq
TGTCATCTTTAAACTTACAGCAC
3' ss Score
7.68
Exon sequences
Seq C1 exon
GACCAACAAAGCGTCAGGTGGCAGTAAAATCAACCCGAGGCTTTGCTCTTAAATCAACCCATG
Seq A exon
GTATTGCCATTAAATCAACCAACATGGCTTCCGTGGACAAGGGGGAGAGTGCACCAGTTCGTAAGAACACACGCCAGTTCTATGATGGTGAAGAGTCTTGCTACATCATTGATGCCAAACTTGAAGGCAACCTAGGCCGCTACCTCAAT
Seq C2 exon
CACAGTTGCAGCCCCAACCTGTTTGTCCAGAACGTTTTTGTGGATACCCATGATCTTCGCTTCCCTTGGGTGGCCTTTTTTGCCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021143-47-27,48-27,49-27,50-27-3/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.282 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(15.5=100)
A:
NA
C2:
PF0085623=SET=FE(6.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCAACAAAGCGTCAGGTGG
R:
AAAAAGGCCACCCAAGGGAAG
Band lengths:
143-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]