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[188437_s_at]

Description Y116F11B.12 /REP_DB=WormBase Gene ID /WP=CE26046 /GEN=gly-4 /TR=O61390 /GB=CAC14394.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 31      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 61      6grp_total > 44      4grp_total > 60      6grp_highest_sub > 01_02_03      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 352
1 2 3 4 range
A 466.2
(2)
P 		453.6
(1.7)
P 		514.9
(3)
P 		229.4
(-3)
P 		286
B 426.2
(0.3)
P 		436.5
(0.4)
P 		578.2
(3)
P 		245.5
(-3)
P 		333
C 513.8
(2.3)
P 		523.9
(2.5)
P 		551.3
(3)
P 		226.4
(-3)
P 		325
avr 468.7
(1.5) 		471.3
(1.5) 		548.1
(3) 		233.8
(-3) 		314

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 265
1 2 3 4 5 6 range
A 440.5
(-1)
P 		555.9
(2.7)
P 		566.3
(3)
P 		477.8
(0.2)
P 		375.3
(-3)
P 		507.5
(1.2)
P 		191
B 383.1
(-1.7)
P 		442.9
(2.8)
P 		446.2
(3)
P 		365.1
(-3)
P 		368.8
(-2.7)
P 		372.6
(-2.4)
P 		81
C 629.8
(3)
P 		488.1
(-0.6)
P 		595.7
(2.1)
P 		412.6
(-2.5)
P 		528.2
(0.4)
P 		392.1
(-3)
P 		238
avr 484.5
(0.4) 		495.6
(0.9) 		536.1
(3) 		418.5
(-3) 		424.1
(-2.7) 		424.1
(-2.7) 		118
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 169.7
(3)
P 		98.5
(-0.1)
P 		134.6
(1.5)
P 		33.6
(-3)
P 		136
B 135.9
(3)
P 		107.8
(1)
P 		134
(2.9)
P 		52.3
(-3)
P 		84
C 170.1
(2.1)
P 		150.6
(1.4)
P 		192.1
(3)
P 		38.2
(-3)
P 		154
avr 158.6
(3) 		119
(1) 		153.6
(2.7) 		41.4
(-3) 		117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 81.2
(-3)
P 		197.7
(3)
P 		123.3
(-0.8)
P 		121.2
(-0.9)
P 		113.3
(-1.3)
P 		123.6
(-0.8)
P 		117
B 133.3
(1.1)
P 		147.4
(2.7)
P 		108.4
(-1.7)
P 		96.7
(-3)
P 		149.8
(3)
P 		139
(1.8)
P 		53
C 233.4
(3)
P 		148.9
(-0.4)
P 		151.6
(-0.3)
P 		83
(-3)
P 		170.9
(0.5)
P 		131.2
(-1.1)
P 		150
avr 149.3
(1.6) 		164.7
(3) 		127.8
(-0.4) 		100.3
(-3) 		144.7
(1.1) 		131.3
(-0.1) 		64
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188437_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12526
Sequence Type Exemplar sequence
Representative Public ID Y116F11B.12 NCBI
Target Description Y116F11B.12 /REP_DB=WormBase Gene ID /WP=CE26046 /GEN=gly-4 /TR=O61390 /GB=CAC14394.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
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_001029045(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029045 NCBI Caenorhabditis elegans GLYcosylation related family member (gly-4) (gly-4) mRNA, complete cds. 11/11 None
SNAP00000031768 ENSEMBL cdna:SNAP chromosome:CEL140:V:19879653:19900650:-1 11/11 None
Y116F11B.12a ENSEMBL cdna:known chromosome:CEL140:V:19879370:19893347:-1 gene:Y116F11B.12 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_075449 3/11 Cross Hyb Matching Probes None
GENEFINDER00000031771 3/11 Cross Hyb Matching Probes None
GENEFINDER00000031785 7/11 Cross Hyb Matching Probes None
Y116F11B.12b.1 3/11 Cross Hyb Matching Probes None
Y116F11B.12b.2 3/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
180302 2 1 NM_001029045 188437_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:19879652-19890659(-) 99.72 100.0
Public Domain and Genome References
Ensembl Y116F11B.12
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC14394 Hypothetical protein Y116F11B.12a [Caenorhabditis elegans] ref|NP_001024216.1| GLYcosylation related family member (gly-4) [Caenorhabditis elegans] sp|Q8I136|GALT4_CAEEL Polypeptide N-acetylgalactosaminyltransferase 4 (Protein-UDP acetylgalactosaminyltransferase 4) (UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase 4) (pp-GaNTase 4) gb|AAC13670.1| GLY4; ppGaNTase [Caenorhabditis elegans] 0.0
blast CAB81985 Hypothetical protein Y116F11B.12b [Caenorhabditis elegans] ref|NP_507850.2| GLYcosylation related family member (gly-4) [Caenorhabditis elegans] 0.0
blast CAE56731 Hypothetical protein CBG24518 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000772 EMBL-EBI Ricin B lectin domain 6.6E-8
Pfam IPR000772 EMBL-EBI Ricin B lectin domain 1.5E-6
Pfam IPR001173 EMBL-EBI Glycosyl transferase, family 2 7.0E-32
Pfam IPR000772 EMBL-EBI Ricin B lectin domain 6.6E-8
Pfam IPR000772 EMBL-EBI Ricin B lectin domain 1.5E-6
Pfam IPR001173 EMBL-EBI Glycosyl transferase, family 2 7.0E-32
Pfam IPR005121 EMBL-EBI Ferredoxin-fold anticodon binding domain 2.3E-14
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024216.1 1 12-31
Y116F11B.12a 1 12-31
Sequence
Target Sequence 
>C. ELEGANS:188437_S_AT
tgtaccttcggccagatttgtcaattttggagacataaccgaccgcctggccattcgaga
ccgcctacagtgtaaatcgttcaaatggtacctggaaaatgtgtacccacagttggaaat
cccgcgaaaaacgcctggaaaatcgttccaaatgaaaatcggcaacctctgcttggattc
gatggctcgaaaagaatcagaagctccggggctcttcggttgtcatggtaccggtggaaa
tcaggaatgggtctttgatcagctcaccaagacatttaaaaatgcgatttctcagttgtg
cctcgatttttcgtcaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTACCTTCGGCCAGATTTGTCAAT 122 561 1254 Antisense
ATTTTGGAGACATAACCGACCGCCT 284 13 1277 Antisense
ATTCGAGACCGCCTACAGTGTAAAT 152 9 1306 Antisense
GTACCCACAGTTGGAAATCCCGCGA 477 457 1356 Antisense
GAAAATCGGCAACCTCTGCTTGGAT 387 353 1407 Antisense
CCTCTGCTTGGATTCGATGGCTCGA 35 267 1419 Antisense
AGAATCAGAAGCTCCGGGGCTCTTC 586 75 1446 Antisense
GGGCTCTTCGGTTGTCATGGTACCG 474 493 1462 Antisense
GAATGGGTCTTTGATCAGCTCACCA 262 333 1498 Antisense
AAATGCGATTTCTCAGTTGTGCCTC 650 119 1533 Antisense
GTTGTGCCTCGATTTTTCGTCAAAC 457 437 1548 Antisense
Sequence Source Affymetrix Proprietary Database