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[193669_s_at]

Description K11G12.4 /REP_DB=WormBase Gene ID /WP=CE02826 /GEN=smf-1 /TR=SW:Q21434 /GB=AAC46569.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=transport system membrane protein
Cluster 6grp_highest_10_10 > 49      6grp_high1_10_10 > 92      4grp_highest_8_8 > 14      4grp_high_8_8 > 15      6grp_highest_nonorm > 72      6grp_total > 94      4grp_total > 16      6grp_highest_sub > 04_05_06      6grp_cgc > 77      6grp_high1_sub > 04_05      6grp_cgc_sub > 04_05_06      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 421
1 2 3 4 range
A 282.2
(-3)
P 		362.9
(-1.3)
P 		441.1
(0.3)
P 		572
(3)
P 		290
B 279.6
(-3)
P 		298.8
(-2.7)
P 		394.5
(-1.4)
P 		700.2
(3)
P 		421
C 295.5
(-3)
P 		387.1
(-1.5)
P 		366.2
(-1.9)
P 		667.9
(3)
P 		372
avr 285.8
(-3) 		349.6
(-1.9) 		400.6
(-1.1) 		646.7
(3) 		361

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 479
1 2 3 4 5 6 range
A 261.7
(-3)
P 		408.3
(-1)
P 		370.1
(-1.5)
P 		576.6
(1.4)
P 		692.5
(3)
P 		449.4
(-0.4)
P 		431
B 269.5
(-2.4)
P 		222.8
(-3)
P 		443.4
(0)
P 		532.7
(1.3)
P 		659.6
(3)
P 		592.3
(2.1)
P 		437
C 213.4
(-3)
P 		256.1
(-2.4)
P 		384.4
(-0.6)
P 		635.9
(3)
P 		578.5
(2.2)
P 		528.5
(1.5)
P 		423
avr 248.2
(-3) 		295.7
(-2.3) 		399.3
(-0.7) 		581.7
(2.1) 		643.5
(3) 		523.4
(1.2) 		395
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 102.8
(0.9)
P 		78.8
(-3)
P 		115.3
(3)
P 		83.7
(-2.2)
P 		37
B 89.1
(-1.8)
P 		73.8
(-3)
P 		91.4
(-1.6)
P 		149.2
(3)
P 		75
C 97.8
(-3)
P 		111.3
(-0.3)
P 		127.6
(3)
P 		112.6
(-0)
P 		30
avr 96.6
(-1.1) 		88
(-3) 		111.4
(2.2) 		115.2
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 220
1 2 3 4 5 6 range
A 48.3
(-3)
P 		145.2
(0.6)
P 		80.6
(-1.8)
P 		146.2
(0.7)
P 		209
(3)
P 		109.4
(-0.7)
P 		161
B 93.8
(-2.4)
P 		74.2
(-3)
P 		107.7
(-2)
P 		141.1
(-0.9)
P 		268
(3)
P 		220.9
(1.5)
P 		194
C 79.1
(-2.9)
P 		78.1
(-3)
P 		97.8
(-1.9)
P 		127.9
(-0.3)
P 		187.2
(3)
P 		176.9
(2.4)
P 		109
avr 73.7
(-3) 		99.2
(-2) 		95.4
(-2.1) 		138.4
(-0.4) 		221.4
(3) 		169.1
(0.9) 		148
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193669_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17104
Sequence Type Exemplar sequence
Representative Public ID K11G12.4 NCBI
Target Description K11G12.4 /REP_DB=WormBase Gene ID /WP=CE02826 /GEN=smf-1 /TR=SW:Q21434 /GB=AAC46569.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=transport system membrane protein
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_001029621(11), NM_001029622(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029621 NCBI Caenorhabditis elegans yeast SMF (divalent cation transporter) homolog family member (smf-1) (smf-1) mRNA, complete cds. 11/11 None
NM_001029622 NCBI Caenorhabditis elegans yeast SMF (divalent cation transporter) homolog family member (smf-1) (smf-1) mRNA, complete cds. 10/11 None
SNAP00000013741 ENSEMBL cdna:SNAP chromosome:CEL140:X:6719753:6722996:-1 11/11 None
GENEFINDER00000013747 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6719753:6722996:-1 11/11 None
K11G12.4a ENSEMBL cdna:known chromosome:CEL140:X:6719631:6722996:-1 gene:K11G12.4 11/11 None
K11G12.4b ENSEMBL cdna:known chromosome:CEL140:X:6719648:6723019:-1 gene:K11G12.4 10/11 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
chrX:6719752-6722996(-) 100.0 100.0
Public Domain and Genome References
Ensembl K11G12.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC46569 Yeast smf (divalent cation transporter) homolog protein 1, isoform a [Caenorhabditis elegans] ref|NP_001024792.1| yeast SMF (divalent cation transporter) homolog family member (smf-1) [Caenorhabditis elegans] sp|Q21434|NRAML_CAEEL NRAMP-like transporter smf-1 0.0
blast CAE65780 Hypothetical protein CBG10875 [Caenorhabditis briggsae] 0.0
blast CAE65779 Hypothetical protein CBG10874 [Caenorhabditis briggsae] 0.0
blast AAU05559 Yeast smf (divalent cation transporter) homolog protein 1, isoform b [Caenorhabditis elegans] ref|NP_001024793.1| yeast SMF (divalent cation transporter) homolog family member (smf-1) [Caenorhabditis elegans] 0.0
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 IPR001046 EMBL-EBI Natural resistance-associated macrophage protein 5.4E-58
Pfam IPR001046 EMBL-EBI Natural resistance-associated macrophage protein 1.0E-126
Pfam IPR001046 EMBL-EBI Natural resistance-associated macrophage protein 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024792.1 10 90-109,151-173,193-215,239-261,282-304,342-364,394-413,428-445,458-480,490-512
NP_001024793.1 8 90-109,151-173,193-215,240-262,308-327,342-359,372-394,404-426
K11G12.4a 10 90-109,151-173,193-215,239-261,282-304,342-364,394-413,428-445,458-480,490-512
K11G12.4b 8 90-109,151-173,193-215,240-262,308-327,342-359,372-394,404-426
SNAP00000013741 10 90-109,151-173,193-215,239-261,282-304,347-369,399-418,433-450,463-485,495-517
GENEFINDER00000013747 9 90-109,151-173,193-215,239-261,282-304,347-369,435-454,469-488,501-523
Sequence
Target Sequence 
>C. ELEGANS:193669_S_AT
ggaatattcgcagctggacagtcatcaacaatgacaggaacatatacaggacagtttgtg
atggaaggatttgtgaaaattgagtggcccaaatggaagagagttctaattacaagagcg
attgcaatcactccaaccctcgtgctcacgttttattcgcaaggagttcaaaacttaaca
ggaatgaatgatttcttaaattgtgttcaaatgattcaacttccgtttgcactaattcca
atcatcacatttacctcgagccgaaaaataatgcacgacttcagaagctctaaagttttt
caaatttttgctctgatcacttctgcgttaattttatcgattaacgtttattttatttct
gactacgtgttttctcgacttggtagtgagtggtatatcataatggttcttgctccgatc
acctttgcatacgtgctctttgtgttatatctagcactatactgtttggtctcttgtgaa
attatcccagacaccgtttccatccgaggattcagctttaacaagtcatacgaaaacgat
gctccgtggttggcggtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAATATTCGCAGCTGGACAGTCAT 41 533 1090 Antisense
CAACCCTCGTGCTCACGTTTTATTC 194 185 1223 Antisense
CAACTTCCGTTTGCACTAATTCCAA 209 165 1306 Antisense
TCCAATCATCACATTTACCTCGAGC 334 587 1326 Antisense
AATTTTTGCTCTGATCACTTCTGCG 228 175 1392 Antisense
CTGACTACGTGTTTTCTCGACTTGG 413 237 1448 Antisense
TCACCTTTGCATACGTGCTCTTTGT 7 627 1508 Antisense
ACTATACTGTTTGGTCTCTTGTGAA 178 103 1545 Antisense
TGAAATTATCCCAGACACCGTTTCC 429 571 1566 Antisense
CACCGTTTCCATCCGAGGATTCAGC 409 201 1581 Antisense
AAACGATGCTCCGTGGTTGGCGGTT 510 123 1623 Antisense
Sequence Source Affymetrix Proprietary Database