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[188864_s_at]

Description F52F12.1 /REP_DB=WormBase Gene ID /WP=CE10840 /TR=O02270 /GB=CAB05732.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transporter
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 49      6grp_highest_nonorm > 90      6grp_total > 38      4grp_total > 14      6grp_highest_sub > Cu      6grp_cgc > 04      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 262
1 2 3 4 range
A 289.4
(2.2)
P 		134.4
(-2.8)
A 		128.8
(-3)
M 		312.6
(3)
P 		184
B 239.8
(1.2)
P 		114.4
(-3)
A 		123
(-2.7)
P 		292.9
(3)
P 		179
C 301.2
(1.4)
P 		150.8
(-2)
M 		107.8
(-3)
A 		369.3
(3)
P 		262
avr 276.8
(1.6) 		133.2
(-2.6) 		119.9
(-3) 		324.9
(3) 		205

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 178
(0.4)
P 		159.5
(-1.5)
P 		153.3
(-2.2)
P 		145.4
(-3)
P 		160.6
(-1.4)
P 		202.7
(3)
P 		57
B 200
(3)
P 		163.8
(-1.4)
P 		158.7
(-2)
P 		161.8
(-1.7)
P 		194.1
(2.3)
P 		150.9
(-3)
P 		49
C 167.1
(-2.1)
P 		211.4
(3)
P 		176.3
(-1)
P 		199.5
(1.6)
P 		159.3
(-3)
P 		177.3
(-0.9)
P 		52
avr 181.7
(3) 		178.2
(1.9) 		162.8
(-3) 		168.9
(-1.1) 		171.3
(-0.3) 		177
(1.5) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 77
1 2 3 4 range
A 105.4
(3)
P 		29.2
(-3)
A 		33.7
(-2.6)
M 		45.8
(-1.7)
P 		76
B 76.5
(3)
P 		28.3
(-3)
A 		28.5
(-3)
P 		62.4
(1.2)
P 		48
C 99.7
(3)
P 		43.4
(-2.4)
M 		37.6
(-3)
A 		62.3
(-0.6)
P 		62
avr 93.9
(3) 		33.6
(-3) 		33.3
(-3) 		56.8
(-0.7) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 32.8
(-3)
P 		56.7
(3)
P 		33.4
(-2.8)
P 		36.9
(-2)
P 		48.5
(0.9)
P 		49.3
(1.1)
P 		24
B 69.6
(1.6)
P 		54.5
(-0.6)
P 		38.5
(-3)
P 		42.8
(-2.4)
P 		78.8
(3)
P 		56.3
(-0.3)
P 		40
C 61.9
(2.4)
P 		64.5
(3)
P 		44.9
(-1.8)
P 		40.1
(-3)
P 		51.5
(-0.2)
P 		59.3
(1.7)
P 		24
avr 54.8
(1.6) 		58.6
(2.7) 		38.9
(-3) 		39.9
(-2.7) 		59.6
(3) 		55
(1.7) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188864_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1137
Sequence Type Exemplar sequence
Representative Public ID F52F12.1 NCBI
Target Description F52F12.1 /REP_DB=WormBase Gene ID /WP=CE10840 /TR=O02270 /GB=CAB05732.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=transporter
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_060216(11), NM_001026311(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060216 NCBI Caenorhabditis elegans F52F12.1a (transporter) mRNA, complete cds. 11/11 None
NM_001026311 NCBI Caenorhabditis elegans F52F12.1b (transporter) mRNA, complete cds. 11/11 None
SNAP00000038774 ENSEMBL cdna:SNAP chromosome:CEL140:I:9896571:9900299:-1 11/11 None
GENEFINDER00000038788 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9896594:9899632:-1 11/11 None
F52F12.1a ENSEMBL cdna:known chromosome:CEL140:I:9896505:9900710:-1 gene:F52F12.1 11/11 None
F52F12.1b ENSEMBL cdna:known chromosome:CEL140:I:9896508:9899665:-1 gene:F52F12.1 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
chrI:9896501-9900641(-) 100.0 100.0
Public Domain and Genome References
Ensembl F52F12.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05732 Hypothetical protein F52F12.1a [Caenorhabditis elegans] ref|NP_492617.3| F52F12.1a [Caenorhabditis elegans] sp|Q9U539|OCT1_CAEEL Organic cation transporter 1 (CeOCT1) 0.0
blast CAC70093 Hypothetical protein F52F12.1b [Caenorhabditis elegans] ref|NP_001021482.1| F52F12.1b [Caenorhabditis elegans] gb|AAF21932.1| organic cation transporter 1 [Caenorhabditis elegans] 0.0
blast CAE60271 Hypothetical protein CBG03850 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005828 EMBL-EBI General substrate transporter 4.4E-7
Pfam IPR005828 EMBL-EBI General substrate transporter 1.8E-12
Pfam IPR005828 EMBL-EBI General substrate transporter 4.4E-7
Pfam IPR005828 EMBL-EBI General substrate transporter 1.8E-12
Pfam IPR005828 EMBL-EBI General substrate transporter 4.4E-7
Pfam IPR005828 EMBL-EBI General substrate transporter 1.8E-12
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492617.3 12 33-55,142-164,176-193,199-221,233-255,260-279,352-369,379-401,408-427,433-455,462-484,494-516
NP_001021482.1 12 20-42,136-158,168-185,192-214,224-246,253-271,343-365,372-394,399-418,425-447,457-479,486-508
F52F12.1a 12 33-55,142-164,176-193,199-221,233-255,260-279,352-369,379-401,408-427,433-455,462-484,494-516
F52F12.1b 12 20-42,136-158,168-185,192-214,224-246,253-271,343-365,372-394,399-418,425-447,457-479,486-508
SNAP00000038774 12 15-37,127-149,159-176,183-205,215-237,244-262,334-356,363-385,390-409,416-438,448-470,477-499
GENEFINDER00000038788 12 20-42,136-158,168-185,192-214,224-246,253-271,343-365,372-394,399-418,425-447,457-479,486-508
Sequence
Target Sequence 
>C. ELEGANS:188864_S_AT
ctggatatttcgttgtttggcctctacttcaatgtgcgggtcgtcgttggacacttgcag
caacaatgattgtatgtggtattggatgtgtttctgcaatgtttatgccagatggttatc
catggcttgtggccagtgcttcgtttataggaaaatttggagttggatccggattcgctg
ttatctatatatttgctggagagctttatccaactgttgttagagcaattggaatgggaa
tgagtagcatggttgccggttctgggctcttgttggctccgcatattgttaatttgggga
aaatagtaaagatattgcctctacttatcatgggcctgatggctttgtctgccggtattt
tgacatttttcctacccgaaactcttggagcaccactgccaatgacaattgaggatgcag
agaattttggtaaaaagccagaaccagacagtggaatgttcacacaagcagccaagaaac
gagaatctcaaccacttctggaacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGGATATTTCGTTGTTTGGCCTCT 631 239 1187 Antisense
GATGGTTATCCATGGCTTGTGGCCA 686 407 1297 Antisense
CTTGTGGCCAGTGCTTCGTTTATAG 595 217 1312 Antisense
GGATCCGGATTCGCTGTTATCTATA 100 513 1351 Antisense
AGTAGCATGGTTGCCGGTTCTGGGC 92 61 1429 Antisense
CTCTTGTTGGCTCCGCATATTGTTA 42 231 1453 Antisense
ATTGCCTCTACTTATCATGGGCCTG 660 5 1500 Antisense
GATGGCTTTGTCTGCCGGTATTTTG 660 399 1524 Antisense
TCCTACCCGAAACTCTTGGAGCACC 603 541 1556 Antisense
GGAGCACCACTGCCAATGACAATTG 129 521 1573 Antisense
GAGAATCTCAACCACTTCTGGAACC 446 391 1667 Antisense
Sequence Source Affymetrix Proprietary Database