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[186634_at]

Description Y55F3BL.2 /REP_DB=WormBase Gene ID /WP=CE25496 /TR=Q9N354 /GB=AAF60809.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 55      4grp_total > 11      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 11.7
(-2.3)
A 		25.7
(-1.2)
A 		3.6
(-3)
A 		76.2
(3)
A 		73
B 5.8
(-2.7)
A 		4.2
(-2.8)
A 		2.7
(-3)
A 		57.9
(3)
A 		55
C 14
(-2)
A 		5.6
(-2.9)
A 		5
(-3)
A 		59
(3)
P 		54
avr 10.5
(-2.3) 		11.8
(-2.2) 		3.8
(-3) 		64.4
(3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 2.5
(-2.8)
A 		4.5
(-2.3)
A 		23.2
(3)
A 		1.9
(-3)
A 		4.1
(-2.4)
A 		3
(-2.7)
A 		21
B 7.5
(3)
A 		3
(-2.2)
A 		3
(-2.2)
A 		2.6
(-2.7)
A 		2.3
(-3)
A 		2.4
(-2.9)
A 		5
C 2.1
(-2.9)
A 		4.5
(-2.4)
A 		4.1
(-2.5)
A 		2.9
(-2.7)
A 		1.6
(-3)
A 		32.6
(3)
A 		31
avr 4
(-2.1) 		4
(-2.1) 		10.1
(1.5) 		2.5
(-3) 		2.7
(-2.9) 		12.7
(3) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 4.3
(-1)
A 		5.6
(-0.3)
A 		0.9
(-3)
A 		11.2
(3)
A 		10
B 1.9
(-2.3)
A 		1
(-2.8)
A 		0.6
(-3)
A 		12.3
(3)
A 		12
C 4.6
(-0.8)
A 		1.6
(-3)
A 		1.7
(-2.9)
A 		9.9
(3)
P 		8
avr 3.6
(-1.5) 		2.7
(-2) 		1.1
(-3) 		11.1
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 0.5
(-3)
A 		1.6
(-1.6)
A 		5.1
(3)
A 		0.5
(-3)
A 		1.2
(-2.1)
A 		0.7
(-2.7)
A 		5
B 2.6
(3)
A 		1
(-2.1)
A 		0.7
(-3)
A 		0.7
(-3)
A 		0.9
(-2.4)
A 		0.9
(-2.4)
A 		2
C 0.8
(-2.8)
A 		1.4
(-2.5)
A 		1
(-2.7)
A 		0.6
(-2.9)
A 		0.5
(-3)
A 		10.9
(3)
A 		10
avr 1.3
(-1.8) 		1.3
(-1.8) 		2.3
(-0.2) 		0.6
(-3) 		0.9
(-2.5) 		4.2
(3) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186634_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10956
Sequence Type Exemplar sequence
Representative Public ID Y55F3BL.2 NCBI
Target Description Y55F3BL.2 /REP_DB=WormBase Gene ID /WP=CE25496 /TR=Q9N354 /GB=AAF60809.1 /SUBMIT=ST.LOUIS /CHR=4 /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_067594(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067594 NCBI Caenorhabditis elegans Y55F3BL.2 (Y55F3BL.2) mRNA, complete cds. 11/11 None
SNAP00000006746 ENSEMBL cdna:SNAP chromosome:CEL140:IV:800753:817373:-1 9/11 None
GENEFINDER00000006752 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:808153:817373:-1 11/11 None
Y55F3BL.2 ENSEMBL cdna:known chromosome:CEL140:IV:807439:824204:-1 gene:Y55F3BL.2 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
chrIV:808679-811667(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y55F3BL.2
Entrez Gene 190312 Entrez gene
SwissProt Q65XW9 EMBL-EBI
WormBase CE37575 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1597599_AT similar to solute carrier family 39 (zinc transporter), member 8 cfa
CANINE_2:CFA.12906.1.A1_AT similar to solute carrier family 39 (zinc transporter), member 8 cfa
CANINE_2:CFA.12906.1.A1_S_AT similar to solute carrier family 39 (zinc transporter), member 8 cfa
CANINE_2:CFA.12906.1.A1_X_AT similar to solute carrier family 39 (zinc transporter), member 8 cfa
CANINE_2:CFAAFFX.16711.1.S1_AT similar to solute carrier family 39 (zinc transporter), member 8 cfa
CHICKEN:GGAAFFX.7796.1.S1_AT similar to solute carrier family 39 (zinc transporter), member 8; up-regulated by BCG-CWS; solute carrier family 39 (metal ion transporter), member 8 gga
CHICKEN:GGAAFFX.7796.1.S1_S_AT similar to solute carrier family 39 (zinc transporter), member 8; up-regulated by BCG-CWS; solute carrier family 39 (metal ion transporter), member 8 gga
HG-U133_PLUS_2:219869_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A:219869_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A_2:219869_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133_PLUS_2:209267_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A:209267_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-FOCUS:209267_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A_2:209267_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HU35KSUBA:RC_AA233763_AT solute carrier family 39 (zinc transporter), member 8 hs
U133_X3P:G12657580_3P_A_AT solute carrier family 39 (zinc transporter), member 8 hs
U133_X3P:G11545899_3P_A_AT solute carrier family 39 (zinc transporter), member 8 hs
U133_X3P:HS.284205.1.A1_3P_A_AT solute carrier family 39 (zinc transporter), member 8 hs
U133_X3P:HS.284205.0.S1_3P_A_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A_2:209266_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133_PLUS_2:209266_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A:209266_S_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133_PLUS_2:222935_X_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133B:222935_X_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U95AV2:40456_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U95E:78153_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U95E:90587_AT solute carrier family 39 (zinc transporter), member 8 hs
HG-U133_PLUS_2:216504_S_AT Solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A_2:216504_S_AT Solute carrier family 39 (zinc transporter), member 8 hs
HG-U133A:216504_S_AT Solute carrier family 39 (zinc transporter), member 8 hs
HG-U133_PLUS_2:228945_S_AT Solute carrier family 39 (zinc transporter), member 8 hs
HG-U133B:228945_S_AT Solute carrier family 39 (zinc transporter), member 8 hs
HG-U95B:45180_AT Solute carrier family 39 (zinc transporter), member 8 hs
HG-U95B:45554_AT Solute carrier family 39 (zinc transporter), member 8 hs
HU35KSUBC:RC_H87489_AT Solute carrier family 39 (zinc transporter), member 8 hs
HU35KSUBA:H87488_AT Solute carrier family 39 (zinc transporter), member 8 hs
U133_X3P:HS.284205.2.A1_3P_AT Solute carrier family 39 (zinc transporter), member 8 hs
MG-U74AV2:97442_AT solute carrier family 39 (metal ion transporter), member 8 mm
MG-U74BV2:112237_AT solute carrier family 39 (metal ion transporter), member 8 mm
MOE430A:1416832_AT solute carrier family 39 (metal ion transporter), member 8 mm
MOUSE430A_2:1416832_AT solute carrier family 39 (metal ion transporter), member 8 mm
MOUSE430_2:1416832_AT solute carrier family 39 (metal ion transporter), member 8 mm
MOE430A:1448482_AT solute carrier family 39 (metal ion transporter), member 8 mm
MOUSE430A_2:1448482_AT solute carrier family 39 (metal ion transporter), member 8 mm
MOUSE430_2:1448482_AT solute carrier family 39 (metal ion transporter), member 8 mm
MU19KSUBC:TC42052_AT Solute carrier family 39 (metal ion transporter), member 8, mRNA (cDNA clone MGC:7011 IMAGE:3155670) mm
RAE230A:1376709_AT solute carrier family 39 (metal ion transporter), member 8 (predicted) rn
RAT230_2:1376709_AT solute carrier family 39 (metal ion transporter), member 8 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
30001 metal ion 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
46873 metal ion transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAU87812 Hypothetical protein Y55F3BL.2 [Caenorhabditis elegans] ref|NP_499995.2| Y55F3BL.2 [Caenorhabditis elegans] 0.0
blast AAU87812 Hypothetical protein Y55F3BL.2 [Caenorhabditis elegans] ref|NP_499995.2| Y55F3BL.2 [Caenorhabditis elegans] 4.0E-98
blast AAU87812 Hypothetical protein Y55F3BL.2 [Caenorhabditis elegans] ref|NP_499995.2| Y55F3BL.2 [Caenorhabditis elegans] 2.0E-83
blast CAE68299 Hypothetical protein CBG13990 [Caenorhabditis briggsae] 3.0E-72
blast CAE68299 Hypothetical protein CBG13990 [Caenorhabditis briggsae] 4.0E-71
blast BAD02485.1 hypothetical protein [Homo sapiens] 4.0E-54
blast CAE68299 Hypothetical protein CBG13990 [Caenorhabditis briggsae] 5.0E-52
Protein Domains
Database ID Description E-Value
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 4.9E-50
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 4.0E-14
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 1.0E-4
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 3.0E-37
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499995.2 6 102-124,137-159,174-196,365-387,397-411,432-454
Y55F3BL.2 6 102-124,137-159,174-196,365-387,397-411,432-454
SNAP00000006746 2 112-133,148-170
GENEFINDER00000006752 3 140-162,172-186,207-229
Sequence
Target Sequence 
>C. ELEGANS:186634_AT
ggagcagcttttgccgaaagtcttcactcgggactatcgatttcgttggctgttctttgt
gaggagtttccacatgaattgggtgacgtggcaatcctcgtggcttctggaatgacactg
aaacaggctttaatttataatcttctctctgcaattacatgttatgttggattcttcatt
ggcgtcggaattggagaactcggccctgacacgtcgaaatatgcattcggattggctggt
ggcatgtttttatacatttccctggcttgtatgatgccagaaatgaaaaaagcgatggaa
gaagccctaaacgtctcacttcgtcacggaatctacgtacttttcctccaatccgttggc
cttttttcgggattaactctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCAGCTTTTGCCGAAAGTCTTC 256 521 64 Antisense
GTCTTCACTCGGGACTATCGATTTC 518 467 83 Antisense
ATCGATTTCGTTGGCTGTTCTTTGT 391 35 99 Antisense
AATTGGGTGACGTGGCAATCCTCGT 474 161 140 Antisense
AATCTTCTCTCTGCAATTACATGTT 184 171 202 Antisense
CGGAATTGGAGAACTCGGCCCTGAC 194 243 249 Antisense
ATATGCATTCGGATTGGCTGGTGGC 470 21 282 Antisense
ACATTTCCCTGGCTTGTATGATGCC 224 105 317 Antisense
GAAGAAGCCCTAAACGTCTCACTTC 506 339 361 Antisense
GTCTCACTTCGTCACGGAATCTACG 527 467 376 Antisense
TGGCCTTTTTTCGGGATTAACTCTG 29 537 420 Antisense
Sequence Source Affymetrix Proprietary Database