BtaALTD0021038-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000044129 | ST6GALNAC6
Description
Bos taurus ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1, 3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 (ST6GALNAC6), mRNA. [Source:RefSeq mRNA;Acc:NM_001001151]
Coordinates
chr11:98569604-98572650:-
Coord C1 exon
chr11:98572254-98572650
Coord A exon
chr11:98572244-98572253
Coord C2 exon
chr11:98569604-98569711
Length
10 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TGACACCTCTCTGCCCCCAGGGA
3' ss Score
11.01
Exon sequences
Seq C1 exon
ACGCTGCCCTCCAGGTGCGGCCAGTGTGTGATTGTCACCAGCTCCAGCCACCTGCTGGGCACCAAGCTGGGTCCTGAGATCGAACGGGCCGAGTGCACAATCCGCATGAACGACGCACCCACTACGGGCTACTCGGCCGATGTGGGCAACAAGACCACCTTCCGCGTGGTGGCCCATTCCAGCGTATTCCATGTGCTGCGGAGGCCTCAGGAGTTTGTCAACCGGACCCCTGAAACTGTGTTCATCTTCTGGGGCCCCCCAAACAAGATGCAGAAGCCCCAGGGAAGCCTGGTGCGCGTCATCCAGCGGGCAGGCCTGGTGTTCCCCAACATGGAGGCCTATGCCATCTCCCTCAGCCGCATGCGCCAGTTTGACGACCTCTTCCGGAGTGAGACAG
Seq A exon
GCAAGGACAG
Seq C2 exon
GGAAAAGTCCCACTCGTGGTTGAGCACAGGCTGGTTCACCATGGTGATTGCAGTGGAGTTGTGTGACCATGTGCACGTCTATGGCATGGTGCCCCCCGACTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044129-14-11,15-11-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(50.2=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(13.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
CAGTTTGACGACCTCTTCCGG
R:
GGTCACACAACTCCACTGCAA
Band lengths:
99-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development