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[186340_at]

Description Y38H6C.18 /REP_DB=WormBase Gene ID /WP=CE19112 /TR=Q9XX43 /GB=CAA20996.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 70      4grp_total > 01      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 0.8
(-3)
A 		1.7
(-1.7)
A 		1.1
(-2.6)
A 		4.9
(3)
A 		4
B 2.4
(0.4)
A 		1.1
(-3)
A 		2.1
(-0.4)
A 		3.4
(3)
A 		2
C 1.1
(-3)
A 		1
(-3)
A 		2.4
(-2.5)
A 		17.8
(3)
A 		17
avr 1.4
(-2.9) 		1.3
(-3) 		1.9
(-2.5) 		8.7
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 3
(-0.9)
A 		1.4
(-2.4)
A 		7.4
(3)
A 		1.5
(-2.3)
A 		0.7
(-3)
A 		2.6
(-1.3)
A 		7
B 0.8
(-3)
A 		0.8
(-3)
A 		1.7
(1.2)
A 		1.4
(-0.2)
A 		1.7
(1.2)
A 		2.1
(3)
A 		1
C 1.1
(-2.8)
A 		0.8
(-2.9)
A 		6.1
(-1.4)
A 		21
(3)
A 		0.9
(-2.9)
A 		0.5
(-3)
A 		21
avr 1.6
(-2.5) 		1
(-3) 		5.1
(0.5) 		8
(3) 		1.1
(-2.9) 		1.7
(-2.4) 		7
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 0.3
(-3)
A 		0.4
(-1.5)
A 		0.3
(-3)
A 		0.7
(3)
A 		0
B 0.8
(3)
A 		0.3
(-3)
A 		0.5
(-0.6)
A 		0.7
(1.8)
A 		1
C 0.4
(-2.8)
A 		0.3
(-3)
A 		0.8
(-1.9)
A 		3
(3)
A 		3
avr 0.5
(-2) 		0.3
(-3) 		0.5
(-2) 		1.5
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 0.5
(-1.7)
A 		0.5
(-1.7)
A 		1.6
(3)
A 		0.4
(-2.1)
A 		0.2
(-3)
A 		0.6
(-1.3)
A 		1
B 0.3
(-3)
A 		0.3
(-3)
A 		0.4
(-1.8)
A 		0.4
(-1.8)
A 		0.7
(1.8)
A 		0.8
(3)
A 		1
C 0.4
(-2.7)
A 		0.3
(-2.9)
A 		1.6
(-0.9)
A 		4.2
(3)
A 		0.3
(-2.9)
A 		0.2
(-3)
A 		4
avr 0.4
(-3) 		0.4
(-3) 		1.2
(0.7) 		1.7
(3) 		0.4
(-3) 		0.5
(-2.5) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186340_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14204
Sequence Type Exemplar sequence
Representative Public ID Y38H6C.18 NCBI
Target Description Y38H6C.18 /REP_DB=WormBase Gene ID /WP=CE19112 /TR=Q9XX43 /GB=CAA20996.1 /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_075560(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075560 NCBI Caenorhabditis elegans Y38H6C.18 (Y38H6C.18) mRNA, complete cds. 11/11 None
SNAP00000041330 ENSEMBL cdna:SNAP chromosome:CEL140:V:20544677:20545199:-1 11/11 None
GENEFINDER00000041347 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20534559:20545199:-1 9/11 None
Y38H6C.18 ENSEMBL cdna:known chromosome:CEL140:V:20544677:20545199:-1 gene:Y38H6C.18 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:20544676-20545199(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38H6C.18
Entrez Gene 189699 Entrez gene
SwissProt Q9XX43 EMBL-EBI
WormBase CE19112 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 CAA20996 Hypothetical protein Y38H6C.18 [Caenorhabditis elegans] ref|NP_507961.1| Y38H6C.18 [Caenorhabditis elegans] 1.0E-66
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
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:186340_AT
ggaaattccacgtgtgccatttagaaatcaagtacaaccggacccaaagttgaatgaact
tgctcagaaaagagctgcagcggaggcgaaaaaaatccgtctggaagcggccaaggctcg
aatgcgagaggctcgtagaatccgtcaaagagaaaaacttcgtctgaagcaaatagctcg
atctgaaaaggagagaatgcagattttgtgcaaaaaccgaatagcccattaccgagcgag
agccagaatgcagctttcgatagaagtttctaaaaagatgcaggaaattacaaaagaaaa
aagaatcaggaagatggcgaaaaaggatatgcgttcaagaatgaaacattcggatttcgt
ggatgttgtcgagcctagtgacgtattgttgaagaaaaattttgcagaaggatttaggga
acccgaagatgagctgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAATTCCACGTGTGCCATTTAGA 164 527 15 Antisense
TAGAAATCAAGTACAACCGGACCCA 83 651 36 Antisense
GAAAAGAGCTGCAGCGGAGGCGAAA 499 353 81 Antisense
AAATCCGTCTGGAAGCGGCCAAGGC 10 73 107 Antisense
GAAGCGGCCAAGGCTCGAATGCGAG 46 343 118 Antisense
GCGAGAGGCTCGTAGAATCCGTCAA 528 289 138 Antisense
GAATAGCCCATTACCGAGCGAGAGC 248 327 233 Antisense
GCGAGAGCCAGAATGCAGCTTTCGA 28 291 250 Antisense
GGATTTCGTGGATGTTGTCGAGCCT 1 511 366 Antisense
TCGAGCCTAGTGACGTATTGTTGAA 18 603 383 Antisense
TTAGGGAACCCGAAGATGAGCTGAA 37 669 428 Antisense
Sequence Source Affymetrix Proprietary Database