GgaALTA0006383-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000012123 | Pax-6
Description
Paired box protein Pax-6 [Source:UniProtKB/Swiss-Prot;Acc:P47237]
Coordinates
chr5:5220745-5221128:-
Coord C1 exon
chr5:5220978-5221128
Coord A exon
chr5:5220843-5220860
Coord C2 exon
chr5:5220745-5220842
Length
18 bp
Sequences
Splice sites
5' ss Seq
CCGGTAATG
5' ss Score
6.21
3' ss Seq
ATCTGTCTATTCTATTATAGTTT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GTGTGGTTTTCTAACAGAAGGGCCAAGTGGAGAAGGGAGGAGAAGCTGCGGAACCAGCGGAGACAAGCCAGCAACACTCCCAGCCACATCCCCATCAGCAGTAGTTTCAGCACAAGCGTTTACCAGCCGATCCCACAGCCGACCACCCCCG
Seq A exon
TTTCCTCTTTCACATCAG
Seq C2 exon
GTTCCATGTTGGGCAGGACAGACACAGCGCTCACGAACACGTACAGCGCACTGCCGCCCATGCCCAGCTTCACCATGGCCAACAACCTGCCTATGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123-21-16,21-15-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.967 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(19.3=21.6)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACAAGCCAGCAACACTCC
R:
GTGTCTGTCCTGCCCAACATG
Band lengths:
117-135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]