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[173502_s_at] UDP-GlcNAc:a-6-D-mannoside b1,2-N-acetylglucosaminyltransferase II

Description g7960278 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C03E10.4 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C03E10.4 /WP=CE26613 /CHR=5 /FEA=Genomic Cluster /GEN=mgat2 /DEF=UDP-GlcNAc:a-6-D-mannosideb1,2-N-acetylglucosaminyltransferase II; UDP-GlcNAc:a-6-D-mannoside b1,2-N-acetylglucosaminyltransferase II
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 97      4grp_highest_8_8 > 60      4grp_high_8_8 > 26      6grp_highest_nonorm > 86      6grp_total > 85      4grp_total > 37      6grp_cgc > 68      6grp_high1_sub > In      6grp_cgc_sub > In      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 376
1 2 3 4 range
A 798.4
(2)
P 		696
(-0.7)
P 		611
(-3)
P 		834.5
(3)
P 		224
B 771.9
(3)
P 		678.9
(1.2)
P 		458.9
(-3)
P 		599.8
(-0.3)
P 		313
C 786
(3)
P 		730.6
(1.6)
P 		638.4
(-0.7)
P 		544.4
(-3)
P 		242
avr 785.4
(3) 		701.8
(0.7) 		569.4
(-3) 		659.6
(-0.5) 		216

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 510
1 2 3 4 5 6 range
A 949.2
(0.2)
P 		824.1
(-3)
P 		1010.4
(1.8)
P 		998
(1.5)
P 		1057.4
(3)
P 		1003.8
(1.6)
P 		233
B 1012.6
(-1)
P 		1060.1
(-0.4)
P 		850.2
(-3)
P 		1098.6
(0.1)
P 		1099.1
(0.1)
P 		1334.5
(3)
P 		484
C 899.2
(-1.7)
P 		1111.2
(3)
P 		839.2
(-3)
P 		1062.7
(1.9)
P 		913.3
(-1.4)
P 		931.5
(-1)
P 		272
avr 953.7
(-1.3) 		998.5
(0.1) 		899.9
(-3) 		1053.1
(1.8) 		1023.3
(0.9) 		1089.9
(3) 		190
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 199
1 2 3 4 range
A 290.7
(3)
P 		151.1
(-2)
P 		159.7
(-1.7)
P 		122.1
(-3)
P 		169
B 246.1
(3)
P 		167.7
(-0.4)
P 		106.3
(-3)
P 		127.8
(-2.1)
P 		140
C 260.2
(3)
P 		210.1
(1.2)
P 		222.5
(1.7)
P 		91.8
(-3)
P 		168
avr 265.7
(3) 		176.3
(-0.5) 		162.8
(-1.1) 		113.9
(-3) 		152

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 323
1 2 3 4 5 6 range
A 175
(-3)
P 		293.1
(1.9)
P 		220
(-1.1)
P 		253.1
(0.3)
P 		319.1
(3)
P 		244.4
(-0.1)
P 		144
B 352.3
(0)
P 		352.9
(0)
P 		206.5
(-3)
P 		291
(-1.3)
P 		446.6
(1.9)
P 		497.6
(3)
P 		291
C 333.3
(2.7)
P 		339.1
(3)
P 		213.6
(-3)
P 		213.7
(-3)
P 		295.5
(0.9)
P 		311.8
(1.7)
P 		126
avr 286.9
(0.1) 		328.4
(1.9) 		213.4
(-3) 		252.6
(-1.3) 		353.7
(3) 		351.3
(2.9) 		140
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173502_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25494
Sequence Type Exemplar sequence
Representative Public ID 7960278 NCBI
Target Description g7960278 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C03E10.4 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C03E10.4 /WP=CE26613 /CHR=5 /FEA=Genomic Cluster /GEN=mgat2 /DEF=UDP-GlcNAc:a-6-D-mannosideb1,2-N-acetylglucosaminyltransferase II; UDP-GlcNAc:a-6-D-mannoside b1,2-N-acetylglucosaminyltransferase II
Cluster Evidence This cluster is supported by a Genomic Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_073463(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073463 NCBI Caenorhabditis elegans GLYcosylation related family member (gly-20) (gly-20) mRNA, complete cds. 11/11 None
SNAP00000008150 ENSEMBL cdna:SNAP chromosome:CEL140:V:11285240:11288293:1 11/11 None
GENEFINDER00000008161 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11285869:11288293:1 11/11 None
C03E10.4 ENSEMBL cdna:known chromosome:CEL140:V:11285160:11288609:1 gene:C03E10.4 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:11285240-11288294(+) 100.0 100.0
Public Domain and Genome References
Gene Title UDP-GlcNAc:a-6-D-mannoside b1,2-N-acetylglucosaminyltransferase II
Gene Symbol gly-20
Ensembl C03E10.4
Entrez Gene 179562 Entrez gene
SwissProt O17560 EMBL-EBI
WormBase CE26613 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:263105_AT beta-1,2-N-acetylglucosaminyltransferase II at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9312 oligosaccharide biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5795 Golgi stack inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8455 alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03823 Hypothetical protein C03E10.4 [Caenorhabditis elegans] ref|NP_505864.1| GLYcosylation related family member (gly-20) [Caenorhabditis elegans] 0.0
blast AAF71273 UDP-GlcNAc:a-6-D-mannoside b1,2-N-acetylglucosaminyltransferase II; GnTII [Caenorhabditis elegans] 0.0
blast CAE75210 Hypothetical protein CBG23158 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR007754 EMBL-EBI N-acetylglucosaminyltransferase II 1.0E-126
Pfam IPR007754 EMBL-EBI N-acetylglucosaminyltransferase II 1.0E-126
Pfam IPR007754 EMBL-EBI N-acetylglucosaminyltransferase II 1.0E-126
Pfam IPR007754 EMBL-EBI N-acetylglucosaminyltransferase II 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505864.1 1 7-26
C03E10.4 1 7-26
SNAP00000008150 1 7-26
Sequence
Target Sequence 
>C. ELEGANS:173502_S_AT
gacatagctcatctcggagttcacccatggtacagtagcaagcataatatgggaatggct
cttcagaagaacacgtggcagaagatcaaaggatgctccgagatgttttgcaaatgggat
gactataactgggattggtcgttgatgcagatttcagcaaaatgtctacctcaaaggttt
cgggtcatattcacaaaaagtccacgagttatacatataggagactgtggagtccatacg
cacaggtgtgaagcacataaagctctccaatcgacacaagaactattccgtcagcataag
gatcttctgttcccgacaagtttatctgtgacagacacttcgagaagatctttgaagccg
tcgaaagaaaatggtggatggggtgacattagggaccgtcaactatgcgaaatcaacaaa
tctccattggttagagtttcttctcaatctgcatctgtactccataaattgctcaactca
aaaatccagttctcgtcatcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACATAGCTCATCTCGGAGTTCACC 439 369 945 Antisense
GGAGTTCACCCATGGTACAGTAGCA 7 519 960 Antisense
GGGATTGGTCGTTGATGCAGATTTC 685 495 1075 Antisense
GGAGACTGTGGAGTCCATACGCACA 93 519 1164 Antisense
GAAGCACATAAAGCTCTCCAATCGA 287 341 1194 Antisense
GACACAAGAACTATTCCGTCAGCAT 596 365 1217 Antisense
GCATAAGGATCTTCTGTTCCCGACA 187 307 1238 Antisense
GTTCCCGACAAGTTTATCTGTGACA 44 443 1253 Antisense
TTCTTCTCAATCTGCATCTGTACTC 120 691 1382 Antisense
TGTACTCCATAAATTGCTCAACTCA 397 559 1400 Antisense
TCAAAAATCCAGTTCTCGTCATCCA 639 629 1422 Antisense
Sequence Source GenBank