DreALTA0025514-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000016464 | si:ch211-89p3.3
Description
si:ch211-89p3.3 [Source:ZFIN;Acc:ZDB-GENE-041014-372]
Coordinates
chr20:35292578-35295271:+
Coord C1 exon
chr20:35292578-35292695
Coord A exon
chr20:35295154-35295168
Coord C2 exon
chr20:35295169-35295271
Length
15 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
TTTCTTTGTATAACCGGTAGAAT
3' ss Score
4.31
Exon sequences
Seq C1 exon
AGAAATGTTGAAAGATCCTGAGAGGAGGAACAAGCTGATCTCAAATCCTACAAATTTTAACCATGTGGCTCATATGGGACCTGGAGATGGCATGCAGATACTCAGAGACCTGCCAATG
Seq A exon
AATGTACGTGCTCAG
Seq C2 exon
GACAACCGTGCTGGATTCAGCGGCTCCGTCAGCATCCCCTCCATTACAAAAAACAGAGCAGAACCAGGGCGATCCATGAGCGCAAGCAGTGGCCTAGGAATGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016464-40-42,40-41-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0078623=PBD=WD(100=52.5)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
TATGGGACCTGGAGATGGCAT
R:
GCCCTGGTTCTGCTCTGTTTT
Band lengths:
116-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]