RnoALTA0000009-2/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000005935 | A3galt2
Description
alpha 1,3-galactosyltransferase 2 [Source:RGD Symbol;Acc:727913]
Coordinates
chr5:146940888-146945880:+
Coord C1 exon
chr5:146940888-146941025
Coord A exon
chr5:146943946-146944380
Coord C2 exon
chr5:146944381-146945880
Length
435 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGAAGTTTTCTCTTCCCAGATA
3' ss Score
7.24
Exon sequences
Seq C1 exon
GGCCCGGCCTGAAGTCCTGACCTGTACCTCTTGGGGAGCCCCAATTATCTGGGATGAGACCTTCGACCCACACGTAGCTGAGCGAGAGGCGAGACGGCAGAACCTTACCATTGGACTGACTGTCTTTGCGGTAGGCAG
Seq A exon
ATAACCCTGACTTGGCAAAAAACGAAACGAAACGAACCCCCCAAAACAACTAAACAGCACAGGCTTGCTTACATCGTAGCAGCCTCTGGTCCTGGGACCCCCTTCCACAAGGCTCAGAGTACTTCAAATACCTCCTGTCCTTCAAGGGTGTTCCAGCTCAGTACTGCCTGGGTCAGAGGAATCAGGAGTCCATATTTAAGGGGAACAGGGCAGGGCAATACATCCAGGCAGACGGCAACAGCTTTCAGTCTTTTTTTTTTTTTTCTCGGAGCCTTGCGCTTGCTAGGCAAGTGTTCTACCGCTGAGCTAAATCCCCAACCCCGCGCTTTCAGTCTTTTAATCCACCACCTCAAAGCTGGAGATCTGGGATTGCATGGCCTGGTATGGGCAGGGTTGGAGGGTATCAGGACTGACTCTGGCCTGACTGCCTGGCAG
Seq C2 exon
GTACCTGGAGAAGTACCTGGAGCACTTCCTGGTATCGGCAGAGCAGTACTTCATGGTCGGCCAGAACGTGGTGTATTATGTGTTTACCGACCGACCGGAAGCAGTGCCCCACGTGGCTCTAGGCCAGGGTCGCCTGCTGCGGGTGAAACCAGTGAGAAGAGAGAAGCGCTGGCAGGACGTGTCAATGGCTCGCATGCTCACGCTACACGAGGCTCTGGGAGGGCAGCTGGGCCGAGAAGCTGACTATGTGTTCTGCCTGGACGTGGACCAGTACTTCAGCGGTAACTTCGGACCCGAGGTGCTGGCAGATTTGGTGGCACAGCTGCACGCCTGGCACTTCCGCTGGCCTCGGTGGATGCTGCCCTACGAGAGGGACAAGCGGTCGGCTGCCGCGCTGTCGTTAAGCGAAGGCGATTTCTACTACCACGCCGCGGTGTTCGGGGGCAGTGTGGCGGCTCTGCTCAAGCTGACGGCTCACTGTGCGACTGGCCAACAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005935-3-6,3-5,3-4-2/3
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:
PF034148=Glyco_transf_6=FE(15.9=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(78.9=99.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGGATGAGACCTTCGACC
R:
CACGTCCAGGCAGAACACATA
Band lengths:
356-791
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]