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[186502_at]

Description Y38H6C.16 /REP_DB=WormBase Gene ID /WP=CE19110 /TR=Q9XX45 /GB=CAA20994.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 0      6grp_total > 09      4grp_total > 50      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1296
1 2 3 4 range
A 118
(-2.7)
P 		1339
(3)
P 		822.2
(0.6)
P 		42.6
(-3)
A 		1296
B 137.8
(-2.6)
P 		1030.1
(3)
P 		866.9
(2)
P 		72.3
(-3)
A 		958
C 162.5
(-2.9)
P 		1011.6
(3)
P 		687.5
(0.8)
P 		143.2
(-3)
A 		868
avr 139.4
(-2.7) 		1126.9
(3) 		792.2
(1.1) 		86
(-3) 		1041

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1471
1 2 3 4 5 6 range
A 1621
(3)
P 		742.1
(-0.6)
P 		849.3
(-0.1)
P 		989.2
(0.4)
P 		493.1
(-1.6)
P 		149.7
(-3)
M 		1471
B 1341.8
(3)
P 		824.9
(0.2)
P 		772.6
(-0.1)
P 		1152.7
(2)
P 		544.6
(-1.4)
P 		250
(-3)
P 		1092
C 1427.6
(3)
P 		801.4
(-0.2)
P 		589.8
(-1.2)
P 		976.1
(0.7)
P 		585.4
(-1.3)
P 		242.3
(-3)
P 		1185
avr 1463.5
(3) 		789.5
(-0.2) 		737.2
(-0.5) 		1039.3
(1) 		541
(-1.4) 		214
(-3) 		1250
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 285
1 2 3 4 range
A 42.9
(-2.2)
P 		290.7
(3)
P 		214.9
(1.4)
P 		6.2
(-3)
A 		285
B 43.9
(-2.3)
P 		254.4
(3)
P 		200.9
(1.7)
P 		15.4
(-3)
A 		239
C 53.8
(-2.3)
P 		290.9
(3)
P 		239.6
(1.8)
P 		24.1
(-3)
A 		267
avr 46.9
(-2.3) 		278.7
(3) 		218.5
(1.6) 		15.2
(-3) 		264

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 493
1 2 3 4 5 6 range
A 298.8
(3)
P 		263.9
(2.2)
P 		185
(0.4)
P 		250.9
(1.9)
P 		148.8
(-0.4)
P 		36.4
(-3)
M 		262
B 466.9
(3)
P 		274.6
(-0.1)
P 		187.6
(-1.5)
P 		305.3
(0.4)
P 		221.3
(-0.9)
P 		93.2
(-3)
P 		374
C 529.2
(3)
P 		244.5
(-0.8)
P 		150.1
(-2.1)
P 		196.3
(-1.5)
P 		189.4
(-1.5)
P 		81.1
(-3)
P 		448
avr 431.6
(3) 		261
(0.2) 		174.2
(-1.3) 		250.8
(-0) 		186.5
(-1.1) 		70.2
(-3) 		361
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186502_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13988
Sequence Type Exemplar sequence
Representative Public ID Y38H6C.16 NCBI
Target Description Y38H6C.16 /REP_DB=WormBase Gene ID /WP=CE19110 /TR=Q9XX45 /GB=CAA20994.1 /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_075558(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075558 NCBI Caenorhabditis elegans Y38H6C.16 (Y38H6C.16) mRNA, complete cds. 11/11 None
GENEFINDER00000041347 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20534559:20545199:-1 11/11 None
Y38H6C.16 ENSEMBL cdna:known chromosome:CEL140:V:20534536:20536523:-1 gene:Y38H6C.16 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000041328 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:20534558-20536523(-) 97.28 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38H6C.16
Entrez Gene 189697 Entrez gene
SwissProt Q9XX45 EMBL-EBI
WormBase CE19110 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA20995 Hypothetical protein Y38H6C.17 [Caenorhabditis elegans] ref|NP_507960.1| Y38H6C.17 [Caenorhabditis elegans] 0.0
blast CAB10025 Hypothetical protein H32K16.1 [Caenorhabditis elegans] ref|NP_492453.1| H32K16.1 [Caenorhabditis elegans] 1.0E-156
blast CAE67048 Hypothetical protein CBG12455 [Caenorhabditis briggsae] 1.0E-153
blast CAA20994 Hypothetical protein Y38H6C.16 [Caenorhabditis elegans] ref|NP_507959.1| Y38H6C.16 [Caenorhabditis elegans] 1.0E-116
blast CAE61667 Hypothetical protein CBG05606 [Caenorhabditis briggsae] 1.0E-94
blast AAC48205 Hypothetical protein ZK84.2 [Caenorhabditis elegans] ref|NP_495200.1| ZK84.2 [Caenorhabditis elegans] 2.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.8E-110
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_507959.1 4 33-55,60-82,151-173,188-210
Y38H6C.16 4 33-55,60-82,151-173,188-210
GENEFINDER00000041347 16 221-240,245-264,310-332,352-369,376-398,408-427,448-470,498-520,533-555,570-592,605-624,629-646,653-675,717-736,743-765,780-802
Sequence
Target Sequence 
>C. ELEGANS:186502_AT
attggcaagcagtatgccccgaccaccagttttgccgccatgggttgccacgtggctatt
ggtatccggagtcatctgcctagttgacgtcatctacacaatgttccgcccgtacacaaa
tgctccggatggttttgtgtcaaataccttgttctatggatggaagctctactcatctgt
ggatattcgatatgctgataccaaggatgtggtcacttgctccacgggaagagttatgct
cattgaaattactctgaactttttagctgtatatttggctctgaaacgttcccgtcacgc
cttgctcctggctttcacaacaagtgcattcgtattctggaagacattctggtaccttgt
aatgtacataaacccaccaccaggaaccccatcattcttcactgataactacggatattt
gggtattacactgattttctggattccaaacggcgtttgggttgtcatgccatttttggc
aatgtgctcactgtggaataaactcgcgttgcccgtcgagtat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGGCAAGCAGTATGCCCCGACCA 309 3 162 Antisense
GTTGCCACGTGGCTATTGGTATCCG 117 441 205 Antisense
TATTGGTATCCGGAGTCATCTGCCT 322 665 218 Antisense
TCATCTGCCTAGTTGACGTCATCTA 281 621 233 Antisense
TCCGCCCGTACACAAATGCTCCGGA 293 597 266 Antisense
GGAAGCTCTACTCATCTGTGGATAT 440 531 323 Antisense
ATATTTGGCTCTGAAACGTTCCCGT 100 1 432 Antisense
TGCTCCTGGCTTTCACAACAAGTGC 201 581 464 Antisense
GTAATGTACATAAACCCACCACCAG 346 461 520 Antisense
ACGGCGTTTGGGTTGTCATGCCATT 388 95 611 Antisense
TAAACTCGCGTTGCCCGTCGAGTAT 58 641 660 Antisense
Sequence Source Affymetrix Proprietary Database