DreALTA0015631-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000067851 | lcn15
Description
lipocalin 15 [Source:ZFIN;Acc:ZDB-GENE-060825-349]
Coordinates
chr5:65317128-65321641:+
Coord C1 exon
chr5:65317128-65317152
Coord A exon
chr5:65321392-65321540
Coord C2 exon
chr5:65321541-65321641
Length
149 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CACTGTTCACTCGCCTGCAGGAG
3' ss Score
8.68
Exon sequences
Seq C1 exon
ATCCCTGCCCTAATCTAGAACCAAG
Seq A exon
GAGTTCAGCAGAATTCAAAGAGGACAAAACTGCACAAACTGCTAATCAATCAATCTATCAGCCTCCCAAAGTGTGATTGGACAGATGTTTTTAATGGATAACGCGCTTCATAACGGTATATCTAACTCTATACTTTCACCATCTTGCAG
Seq C2 exon
CCTGCTGTGGAGTGAGACCTTGGGTTACATATATTCACTTTTGTTACGCGTTTGGGGAACAGTGTTTGTTTTTACACAAACTGTCATTGGAGAAATGCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067851-7-10,7-9-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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:
TCCCTGCCCTAATCTAGAACCA
R:
GCATTTCTCCAATGACAGTTTGTGT
Band lengths:
122-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]