GgaALTA0006383-1/2 @ 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
NA
Coord C2 exon
chr5:5220745-5220842
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTAATG
5' ss Score
6.21
3' ss Seq
AGTTTCCTCTTTCACATCAGGTT
3' ss Score
7.37
Exon sequences
Seq C1 exon
GTGTGGTTTTCTAACAGAAGGGCCAAGTGGAGAAGGGAGGAGAAGCTGCGGAACCAGCGGAGACAAGCCAGCAACACTCCCAGCCACATCCCCATCAGCAGTAGTTTCAGCACAAGCGTTTACCAGCCGATCCCACAGCCGACCACCCCCG
Seq A exon
NA
Seq C2 exon
GTTCCATGTTGGGCAGGACAGACACAGCGCTCACGAACACGTACAGCGCACTGCCGCCCATGCCCAGCTTCACCATGGCCAACAACCTGCCTATGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123-21-16,21-15-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (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
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]