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[176529_at]

Description Y69A2AR.DD /REP_DB=WormBase Gene ID /WP=CE26561 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 34      4grp_total > 38      6grp_cgc > 34      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 143
(3)
P 		97.7
(-0.6)
A 		83
(-1.8)
A 		67.8
(-3)
A 		75
B 121.1
(1)
P 		134.3
(3)
A 		94.6
(-3)
P 		119.8
(0.8)
A 		40
C 183.7
(3)
P 		114.6
(-2)
A 		100.9
(-3)
A 		181.7
(2.9)
M 		83
avr 149.3
(3) 		115.5
(-0.6) 		92.8
(-3) 		123.1
(0.2) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 81
1 2 3 4 5 6 range
A 80.2
(3)
A 		66.6
(1.4)
A 		40.7
(-1.5)
A 		27.6
(-3)
A 		49.6
(-0.5)
A 		52.3
(-0.2)
A 		53
B 70.8
(2.8)
A 		64.2
(1.1)
A 		71.5
(3)
A 		49.4
(-2.7)
A 		48.4
(-3)
A 		58.6
(-0.4)
A 		23
C 90.5
(1.5)
A 		70.2
(-0.3)
A 		108.7
(3)
A 		58.6
(-1.3)
A 		38.1
(-3)
A 		55.2
(-1.5)
A 		71
avr 80.5
(3) 		67
(0.7) 		73.6
(1.8) 		45.2
(-3) 		45.4
(-3) 		55.4
(-1.3) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 52.1
(3)
P 		21.2
(-1.4)
A 		21.7
(-1.3)
A 		9.9
(-3)
A 		42
B 38.6
(3)
P 		33.2
(1.1)
A 		21.9
(-3)
P 		25.5
(-1.7)
A 		17
C 60.8
(3)
P 		32.9
(-2.5)
A 		35.2
(-2.1)
A 		30.6
(-3)
M 		30
avr 50.5
(3) 		29.1
(-1.5) 		26.3
(-2.1) 		22
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 14.8
(-0.2)
A 		23.7
(3)
A 		8.9
(-2.3)
A 		7
(-3)
A 		15
(-0.1)
A 		12.7
(-1)
A 		17
B 24.6
(3)
A 		21.4
(1.3)
A 		17.4
(-0.8)
A 		13.1
(-3)
A 		19.7
(0.4)
A 		21.9
(1.6)
A 		12
C 33.6
(3)
A 		21.4
(-0.4)
A 		27.7
(1.4)
A 		11.8
(-3)
A 		12.3
(-2.9)
A 		18.5
(-1.2)
A 		22
avr 24.3
(3) 		22.2
(2.1) 		18
(0.2) 		10.6
(-3) 		15.7
(-0.8) 		17.7
(0.1) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176529_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19127
Sequence Type Exemplar sequence
Representative Public ID Y69A2AR.DD NCBI
Target Description Y69A2AR.DD /REP_DB=WormBase Gene ID /WP=CE26561 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster Evidence This cluster is supported by a 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_067834(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067834 NCBI Caenorhabditis elegans yeast SMF (divalent cation transporter) homolog family member (smf-3) (smf-3) mRNA, complete cds. 11/11 None
SNAP00000018821 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2614199:2625362:1 10/11 None
GENEFINDER00000018854 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2619888:2624965:1 10/11 None
Y69A2AR.4 ENSEMBL cdna:known chromosome:CEL140:IV:2618930:2625435:1 gene:Y69A2AR.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000018857 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2620646-2625368(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol smf-3
Ensembl Y69A2AR.4
Entrez Gene 177044 Entrez gene
SwissProt Q95XG8 EMBL-EBI
WormBase CE36370 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18109_S_AT NRAMP metal ion transporter 3 (NRAMP3) at
ATH1-121501:267266_AT NRAMP metal ion transporter 3 (NRAMP3) at
CANINE:1591749_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 cfa
CANINE_2:CFA.14639.1.S1_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 cfa
CANINE_2:CFAAFFX.22578.1.S1_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 cfa
CANINE_2:CFAAFFX.22578.1.S1_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 cfa
CHICKEN:GGA.477.1.S1_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 gga
HG-U133_PLUS_2:217473_X_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A_2:217473_X_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A:217473_X_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133_PLUS_2:210422_X_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A:210422_X_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A_2:210422_X_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133_PLUS_2:210423_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A:210423_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-FOCUS:210423_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A_2:210423_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HU35KSUBA:HUM_ALU_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HU35KSUBB:HUM_ALU_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HU35KSUBC:HUM_ALU_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HU35KSUBD:HUM_ALU_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HUGENEFL:HUM_ALU_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HC-G110:HUM_ALU_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HUGENEFL:L38593_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HUGENEFL:D50402_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
U133_X3P:G600219_3P_A_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
U133_X3P:1555116_3P_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133_PLUS_2:1555116_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U95AV2:38596_I_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U95AV2:38598_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HU35KSUBA:RC_AA281426_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
U133_X3P:HS.265982.0.A1_3P_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A_2:217507_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133_PLUS_2:217507_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133A:217507_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U95AV2:38597_F_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133_PLUS_2:230382_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U133B:230382_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
HG-U95E:76845_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
U133_X3P:HS.135163.0.A1_3P_AT Solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 hs
MOE430A:1420361_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 mm
MOUSE430_2:1420361_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 mm
MOUSE430A_2:1420361_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 mm
MG-U74AV2:96562_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 mm
MU11KSUBA:L13732_S_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 mm
RG-U34C:RC_AI104173_AT solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAL27264 Yeast smf (divalent cation transporter) homolog protein 3 [Caenorhabditis elegans] ref|NP_500235.3| yeast SMF (divalent cation transporter) homolog family member (smf-3) [Caenorhabditis elegans] 0.0
blast CAE68215 Hypothetical protein CBG13883 [Caenorhabditis briggsae] 0.0
blast AAL27265 Hypothetical protein Y69A2AR.5 [Caenorhabditis elegans] ref|NP_500234.3| Y69A2AR.5 [Caenorhabditis elegans] 0.0
blast CAE65780 Hypothetical protein CBG10875 [Caenorhabditis briggsae] 1.0E-150
Protein Domains
Database ID Description E-Value
Pfam IPR001046 EMBL-EBI Natural resistance-associated macrophage protein 1.0E-126
Pfam IPR001046 EMBL-EBI Natural resistance-associated macrophage protein 1.0E-126
Pfam IPR006076 EMBL-EBI FAD dependent oxidoreductase 2.2E-53
Pfam IPR001046 EMBL-EBI Natural resistance-associated macrophage protein 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500235.3 12 48-70,80-97,184-203,246-268,289-311,333-355,376-398,444-466,497-516,531-548,560-582,597-619
Y69A2AR.4 12 48-70,80-97,184-203,246-268,289-311,333-355,376-398,444-466,497-516,531-548,560-582,597-619
SNAP00000018821 11 355-374,387-409,429-451,458-480,504-526,547-569,615-637,668-687,702-719,735-757,762-784
GENEFINDER00000018854 10 78-97,140-162,183-205,227-249,270-292,338-360,391-410,425-442,454-476,491-513
Sequence
Target Sequence 
>C. ELEGANS:176529_AT
gctggacaatcttctacaatgaccggtacttatgctggacagtttgctatggagggcttt
atccaaatcaaacttccccaatggaagcgtatccttatcacccgatctttggcaatcctt
ccaactcttgctgtagtgatcttctccggcggaatcgataatatctcaagtttgaatgat
tttttgaattgcttgcagctgattcaacttccgttcgctttaattccagtgctgacattt
gtatcggatagaaatattatgcacgagtataagctagcaagtgtctccaaagtggtctcc
attgtgatttccttgataattttattcatcaacttttatttcttatactcttggattgga
tcaacatttggttataatgcagtttctattccaatcactattttttgcgcgattttctac
attattttcatcgcatatttgacgtattattgccttgtcgcaatggaattcatctcaccc
attcaaacaaaatggctcgcggagcccatctaccacgatttcgatgctccttggctggag
gactcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTGGACAATCTTCTACAATGACCG 190 293 934 Antisense
ATGACCGGTACTTATGCTGGACAGT 143 43 952 Antisense
GCTTTATCCAAATCAAACTTCCCCA 203 305 989 Antisense
CAATGGAAGCGTATCCTTATCACCC 7 183 1012 Antisense
AACTCTTGCTGTAGTGATCTTCTCC 444 141 1056 Antisense
TTGCTTGCAGCTGATTCAACTTCCG 68 705 1122 Antisense
CAACTTCCGTTCGCTTTAATTCCAG 418 175 1138 Antisense
AAGTGGTCTCCATTGTGATTTCCTT 447 159 1223 Antisense
CACTATTTTTTGCGCGATTTTCTAC 696 195 1329 Antisense
GTCGCAATGGAATTCATCTCACCCA 379 475 1390 Antisense
CGATGCTCCTTGGCTGGAGGACTCG 423 247 1455 Antisense
Sequence Source Affymetrix Proprietary Database