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[194199_x_at]

Description CE01F2 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=H13N06.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M88821 /WB_GENE_ID=H13N06.5 /WP=CE18815 /CHR=X /FEA=Genomic Cluster /DEF=CEL01F2 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm01f2 5prime similar to histidine-rich glycoprotein precursor - Plasmodium lophurae homologous peptide, mRNA sequence.
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 10      4grp_highest_8_8 > 03      4grp_high_8_8 > 37      6grp_highest_nonorm > 14      6grp_total > 32      4grp_total > 42      6grp_highest_sub > De      6grp_cgc > 60      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3994
1 2 3 4 range
A 3619.2
(-3)
P 		7511.3
(3)
P 		5304
(-0.4)
P 		6545.7
(1.5)
P 		3892
B 3517.3
(-3)
P 		7150.8
(3)
P 		5952.8
(1)
P 		4837.5
(-0.8)
P 		3634
C 4063.3
(-2.5)
P 		6019
(2.6)
P 		6159.1
(3)
P 		3871.5
(-3)
P 		2288
avr 3733.3
(-3) 		6893.7
(3) 		5805.3
(0.9) 		5084.9
(-0.4) 		3160

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2456
1 2 3 4 5 6 range
A 3911.3
(2.3)
P 		4019.2
(2.6)
P 		4133.8
(3)
P 		3853.3
(2.1)
P 		2753.1
(-1.5)
P 		2282.1
(-3)
P 		1852
B 3882
(2.3)
P 		3080.8
(0.1)
P 		3984.6
(2.6)
P 		4141.7
(3)
P 		2755.8
(-0.7)
P 		1921
(-3)
P 		2221
C 4376.7
(3)
P 		2876.6
(-0.8)
P 		4122.7
(2.4)
P 		3258.5
(0.2)
P 		3807
(1.6)
P 		1984.9
(-3)
P 		2392
avr 4056.7
(2.9) 		3325.5
(0.8) 		4080.4
(3) 		3751.2
(2) 		3105.3
(0.1) 		2062.7
(-3) 		2018
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1494
1 2 3 4 range
A 1317.8
(0.2)
P 		1630.5
(3)
P 		1386.6
(0.8)
P 		958.2
(-3)
P 		672
B 1121.6
(-2.3)
P 		1766.1
(3)
P 		1379.4
(-0.2)
P 		1030.9
(-3)
P 		735
C 1345.1
(-0.2)
P 		1730.5
(1.3)
P 		2146.6
(3)
P 		652.8
(-3)
P 		1494
avr 1261.5
(-0.2) 		1709
(3) 		1637.5
(2.5) 		880.6
(-3) 		828

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1067
1 2 3 4 5 6 range
A 721
(-1.9)
P 		1429.4
(3)
P 		900.3
(-0.6)
P 		977.3
(-0.1)
P 		830.8
(-1.1)
P 		555.6
(-3)
P 		874
B 1350.7
(3)
P 		1025.5
(-0.1)
P 		967.6
(-0.6)
P 		1097
(0.6)
P 		1119.6
(0.8)
P 		716.3
(-3)
P 		634
C 1622.2
(3)
P 		877.7
(-1.6)
P 		1049.3
(-0.6)
P 		655.3
(-3)
P 		1231.9
(0.6)
P 		664.5
(-2.9)
P 		967
avr 1231.3
(3) 		1110.9
(1.8) 		972.4
(0.3) 		909.9
(-0.3) 		1060.8
(1.3) 		645.5
(-3) 		586
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194199_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26112
Sequence Type Exemplar sequence
Representative Public ID CE01F2 NCBI
Target Description CE01F2 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=H13N06.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=M88821 /WB_GENE_ID=H13N06.5 /WP=CE18815 /CHR=X /FEA=Genomic Cluster /DEF=CEL01F2 Chris Martin sorted cDNA library Caenorhabditis elegans cDNA clone cm01f2 5prime similar to histidine-rich glycoprotein precursor - Plasmodium lophurae homologous peptide, mRNA sequence.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_078162(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078162 NCBI Caenorhabditis elegans H13N06.5 (H13N06.5) mRNA, complete cds. 11/11 A 
SNAP00000006583 ENSEMBL cdna:SNAP chromosome:CEL140:X:15506121:15507782:-1 10/11 None
GENEFINDER00000006588 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15506121:15507798:-1 10/11 None
H13N06.5 ENSEMBL cdna:known chromosome:CEL140:X:15505959:15507941:-1 gene:H13N06.5 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
chrX:15506003-15507942(-) 98.26 100.0
Public Domain and Genome References
Gene Title
Ensembl H13N06.5
Entrez Gene 181640 Entrez gene
WormBase CE38718 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260003_AT IAA-alanine resistance protein 1, putative at
CANINE_2:CFA.18787.1.S1_S_AT similar to Zinc transporter SLC39A7 (Solute carrier family 39 member 7) (Histidine-rich membrane protein Ke4) cfa
CANINE_2:CFAAFFX.2291.1.S1_AT similar to Zinc transporter SLC39A7 (Solute carrier family 39 member 7) (Histidine-rich membrane protein Ke4) cfa
DROSOPHILA_2:1627458_AT Catecholamines up dm
DROSGENOME1:154165_AT Catecholamines up dm
HG-U133_PLUS_2:202667_S_AT solute carrier family 39 (zinc transporter), member 7 hs
HG-FOCUS:202667_S_AT solute carrier family 39 (zinc transporter), member 7 hs
HG-U133A_2:202667_S_AT solute carrier family 39 (zinc transporter), member 7 hs
HG-U133A:202667_S_AT solute carrier family 39 (zinc transporter), member 7 hs
HUGENEFL:D82060_AT solute carrier family 39 (zinc transporter), member 7 hs
U133_X3P:G5901935_3P_A_AT solute carrier family 39 (zinc transporter), member 7 hs
HG-U95AV2:40329_AT solute carrier family 39 (zinc transporter), member 7 hs
MOE430A:1416949_S_AT solute carrier family 39 (zinc transporter), member 7 mm
MOUSE430A_2:1416949_S_AT solute carrier family 39 (zinc transporter), member 7 mm
MOUSE430_2:1416949_S_AT solute carrier family 39 (zinc transporter), member 7 mm
MU11KSUBA:M32010_S_AT solute carrier family 39 (zinc transporter), member 7 mm
MG-U74AV2:103371_AT solute carrier family 39 (zinc transporter), member 7 mm
MU19KSUBA:TC24718_S_AT Solute carrier family 39 (zinc transporter), member 7 (Slc39a7), mRNA mm
RG-U34B:RC_AI013750_AT RT1 class I, locus Ke4 rn
RAE230A:1389089_AT RT1 class I, locus Ke4 rn
RAT230_2:1389089_AT RT1 class I, locus Ke4 rn
Protein Similarities
Method ID Description E-Value
blast Q9XTQ7 Hypothetical Ke4-like protein H13N06.5 in chromosome X 1.0E-157
blast Q9XTQ7 Hypothetical Ke4-like protein H13N06.5 in chromosome X 1.0E-145
blast CAB17070 Hypothetical protein H13N06.5 [Caenorhabditis elegans] ref|NP_510563.2| H13N06.5 [Caenorhabditis elegans] 1.0E-143
blast Q9XTQ7 Hypothetical Ke4-like protein H13N06.5 in chromosome X 1.0E-143
blast CAE63324 Hypothetical protein CBG07716 [Caenorhabditis briggsae] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 2.4E-110
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 2.4E-110
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 2.4E-110
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510563.2 7 157-179,191-213,245-267,331-353,376-398,411-433,438-460
H13N06.5 9 15-37,49-71,210-232,244-266,298-320,384-406,429-451,464-486,491-513
SNAP00000006583 7 157-179,191-213,245-267,331-353,376-398,411-433,438-460
GENEFINDER00000006588 8 7-26,163-185,197-219,251-273,337-359,382-404,417-439,444-466
Sequence
Target Sequence 
>C. ELEGANS:194199_X_AT
tcaatcaaggttaccgcctacctcaacctcgctgctgatttcacccacaacttcactgac
ggacttgccatcggagcgtccttcattgcgggaaccaccgtcggaatcgttactatgatc
acagttcttgtccatgaggttcctcacgagattggagatttcgccattctgattcaatct
ggatactctaagaagaaggccatgctcatccaacttgtaactgctctcggagcactttcc
ggatgtgtcatctccttgttctctgctgacgccgatgctctcgccgacgctgcggctagc
tcctgggttcttccattcacagccggaggattcatctacattgctacggtttccgtgatt
cctgagcttctcgagaacagctcattcttccagacagttaaggaaatcttcgctattctt
accggaatcttccttatgtatctcattgctatttatgagtaaatttttgtcgaagctagt
ctcatcatcacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAATCAAGGTTACCGCCTACCTCA 535 633 1100 Antisense
ACAACTTCACTGACGGACTTGCCAT 276 113 1146 Antisense
CATTGCGGGAACCACCGTCGGAATC 243 215 1183 Antisense
ACAGTTCTTGTCCATGAGGTTCCTC 498 107 1220 Antisense
GCCATGCTCATCCAACTTGTAACTG 302 279 1298 Antisense
GAGCACTTTCCGGATGTGTCATCTC 510 389 1329 Antisense
TCATCTACATTGCTACGGTTTCCGT 343 619 1431 Antisense
GTGATTCCTGAGCTTCTCGAGAACA 295 485 1454 Antisense
AACAGCTCATTCTTCCAGACAGTTA 90 137 1475 Antisense
AGGAAATCTTCGCTATTCTTACCGG 692 51 1500 Antisense
GTCGAAGCTAGTCTCATCATCACAA 307 475 1568 Antisense
Sequence Source Affymetrix Proprietary Database