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[183196_at]

Description C54F6.4 /REP_DB=WormBase Gene ID /WP=CE08976 /TR=O16448 /GB=AAG24009.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 61      4grp_total > 12      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 33.3
(-1.6)
A 		41.3
(-1.2)
A 		3.2
(-3)
A 		133.3
(3)
A 		130
B 40
(-0.8)
A 		1.8
(-3)
A 		2
(-3)
A 		105.8
(3)
M 		104
C 47.8
(-1.4)
A 		32.9
(-2)
A 		5.2
(-3)
A 		169.6
(3)
P 		164
avr 40.4
(-1.3) 		25.3
(-2) 		3.5
(-3) 		136.2
(3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 75.5
(-1.2)
A 		60.6
(-1.6)
A 		183.4
(1.9)
P 		221
(3)
P 		101.8
(-0.5)
P 		13.9
(-3)
A 		207
B 78.8
(-0.6)
A 		61.4
(-1.8)
A 		120.9
(2.3)
P 		130.8
(3)
P 		73.5
(-1)
A 		43.8
(-3)
A 		87
C 50.5
(-2.6)
A 		74.7
(-1.7)
A 		141.3
(0.7)
M 		203.5
(3)
P 		39.8
(-3)
A 		60.2
(-2.3)
M 		164
avr 68.3
(-1.8) 		65.6
(-1.9) 		148.5
(1.5) 		185.1
(3) 		71.7
(-1.7) 		39.3
(-3) 		146
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 12.1
(0.6)
A 		9
(-0.4)
A 		0.8
(-3)
A 		19.5
(3)
A 		19
B 12.8
(0.4)
A 		0.4
(-3)
A 		0.5
(-3)
A 		22.5
(3)
M 		22
C 15.8
(0.1)
A 		9.5
(-1.3)
A 		1.8
(-3)
A 		28.6
(3)
P 		27
avr 13.6
(0.4) 		6.3
(-1.6) 		1
(-3) 		23.5
(3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 53
1 2 3 4 5 6 range
A 13.9
(-1.8)
A 		21.6
(-0.9)
A 		39.9
(1.2)
P 		56.1
(3)
P 		30.7
(0.1)
P 		3.4
(-3)
A 		53
B 27.4
(0.6)
A 		20.5
(-1.6)
A 		29.3
(1.2)
P 		34.7
(3)
P 		29.9
(1.4)
A 		16.3
(-3)
A 		18
C 18.7
(-1.8)
A 		22.8
(-0.9)
A 		36
(2)
M 		40.9
(3)
P 		12.9
(-3)
A 		20.1
(-1.5)
M 		28
avr 20
(-1.7) 		21.6
(-1.4) 		35.1
(1.3) 		43.9
(3) 		24.5
(-0.8) 		13.3
(-3) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183196_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11721
Sequence Type Exemplar sequence
Representative Public ID C54F6.4 NCBI
Target Description C54F6.4 /REP_DB=WormBase Gene ID /WP=CE08976 /TR=O16448 /GB=AAG24009.1 /SUBMIT=ST.LOUIS /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_072538(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072538 NCBI Caenorhabditis elegans C54F6.4 (C54F6.4) mRNA, complete cds. 11/11 None
SNAP00000031623 ENSEMBL cdna:SNAP chromosome:CEL140:V:7533111:7534055:1 10/11 None
GENEFINDER00000031630 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7532732:7537566:1 10/11 None
C54F6.4 ENSEMBL cdna:known chromosome:CEL140:V:7532853:7534055:1 gene:C54F6.4 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:7532853-7534056(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C54F6.4
Entrez Gene 183804 Entrez gene
SwissProt O16448 EMBL-EBI
WormBase CE08976 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_504940 C54F6.3 [Caenorhabditis elegans] gb|AAG24008.1| Hypothetical protein C54F6.3 [Caenorhabditis elegans] 1.0E-174
blast CAE57791 Hypothetical protein CBG00814 [Caenorhabditis briggsae] 1.0E-131
blast NP_504939 C54F6.4 [Caenorhabditis elegans] gb|AAG24009.1| Hypothetical protein C54F6.4 [Caenorhabditis elegans] 1.0E-115
blast AAB96709 Hypothetical protein F49D11.3 [Caenorhabditis elegans] ref|NP_492846.1| F49D11.3 [Caenorhabditis elegans] 1.0E-102
blast NP_504939 C54F6.4 [Caenorhabditis elegans] gb|AAG24009.1| Hypothetical protein C54F6.4 [Caenorhabditis elegans] 2.0E-93
blast CAE67903 Hypothetical protein CBG13500 [Caenorhabditis briggsae] 6.0E-47
blast AAC02609 Hypothetical protein K02D7.5 [Caenorhabditis elegans] ref|NP_499901.1| K02D7.5 [Caenorhabditis elegans] 3.0E-44
Protein Domains
Database ID Description E-Value
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 3.0E-25
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 6.6E-36
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 4.2E-15
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 6.6E-36
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 1.8
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 2.5E-25
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 6.6E-36
Pfam IPR007669 EMBL-EBI Protein of unknown function DUF595 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504939.1 6 24-46,56-78,85-104,109-131,143-165,169-191
C54F6.4 6 24-46,56-78,85-104,109-131,143-165,169-191
SNAP00000031623 5 20-42,49-68,73-95,107-129,133-155
GENEFINDER00000031630 8 7-29,87-107,114-136,141-163,170-192,197-219,226-248,263-285
Sequence
Target Sequence 
>C. ELEGANS:183196_AT
gtgacatttccggatttccattccttatgggtactttggtattgccattctggcttcgat
atggttttctccgaaatgatgtaatgttgatttcaatcaactgtgccggaatacccattg
cggttttcaatgcgatgtttttcctgtacttttcaaaaccgaaaaaatactacatgacac
aactatctatcgtgacaattataatcttgacaatgcttatgttaattcattttaatccaa
acgtgcagtttcttggattcgtttgcattgttctcaacctcatcactttcggctccccgt
tagctggactaagagtagtgctcagagatcgggaagtgatcactcttccctttgttttat
gtcttgtgcagttgatagtgcaatgtctatggaatttgtatggaattctgatacaggact
tttttcttgtgattccgacggctgttggaataatgattagtcttgttcaactttcattat
tcctcatttttccaagaaaaagagacggatatagtccaatggcaaaagtggcacggtgtg
ttttcggaagttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGACATTTCCGGATTTCCATTCCT 76 481 95 Antisense
GGTACTTTGGTATTGCCATTCTGGC 262 505 124 Antisense
CTGGCTTCGATATGGTTTTCTCCGA 560 241 144 Antisense
TCAACTGTGCCGGAATACCCATTGC 240 631 191 Antisense
ATGCGATGTTTTTCCTGTACTTTTC 192 41 224 Antisense
CGTGCAGTTTCTTGGATTCGTTTGC 572 245 336 Antisense
TTCGTTTGCATTGTTCTCAACCTCA 129 697 352 Antisense
GGAAGTGATCACTCTTCCCTTTGTT 673 529 426 Antisense
GACTTTTTTCTTGTGATTCCGACGG 283 371 511 Antisense
GTTCAACTTTCATTATTCCTCATTT 608 445 559 Antisense
GGCACGGTGTGTTTTCGGAAGTTCA 238 533 624 Antisense
Sequence Source Affymetrix Proprietary Database