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[177676_s_at]

Description C53B4.3 /REP_DB=WormBase Gene ID /WP=CE27115 /TR=Q18797 /GB=CAA92452.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 20      4grp_highest_8_8 > 34      4grp_high_8_8 > 58      6grp_highest_nonorm > 42      6grp_total > 40      4grp_total > 61      6grp_highest_sub > 03_04      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 495
1 2 3 4 range
A 702.7
(2.4)
P 		652.2
(1.6)
P 		737
(3)
P 		368.4
(-3)
P 		369
B 755.6
(3)
P 		641.4
(0.6)
P 		576
(-0.8)
P 		473
(-3)
P 		283
C 796.1
(1.9)
P 		553.9
(-2)
P 		863.6
(3)
P 		494.9
(-3)
P 		369
avr 751.5
(3) 		615.8
(0.3) 		725.5
(2.5) 		445.4
(-3) 		306

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 445
1 2 3 4 5 6 range
A 687.8
(-0.3)
P 		744.3
(0.6)
P 		903.2
(3)
P 		817.3
(1.7)
P 		510.3
(-3)
P 		510.4
(-3)
P 		393
B 756.7
(0.4)
P 		849.4
(1.8)
P 		922.6
(3)
P 		724
(-0.1)
P 		540.7
(-3)
P 		546.6
(-2.9)
P 		382
C 823.5
(0.9)
P 		954.8
(3)
P 		889.5
(2)
P 		944.1
(2.8)
P 		596.8
(-2.6)
P 		574
(-3)
P 		381
avr 756
(0.5) 		849.5
(2.1) 		905.1
(3) 		828.5
(1.7) 		549.3
(-2.9) 		543.7
(-3) 		361
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 247
1 2 3 4 range
A 255.8
(3)
P 		141.6
(-0.4)
P 		192.7
(1.1)
P 		53.9
(-3)
P 		202
B 241
(3)
P 		158.4
(-0.5)
P 		133.5
(-1.6)
P 		100.8
(-3)
P 		140
C 263.5
(2)
P 		159.3
(-0.9)
P 		301
(3)
P 		83.5
(-3)
P 		218
avr 253.4
(3) 		153.1
(-0.5) 		209.1
(1.5) 		79.4
(-3) 		174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 181
1 2 3 4 5 6 range
A 126.8
(-2.9)
P 		264.7
(3)
P 		196.7
(0.1)
P 		207.3
(0.5)
P 		154
(-1.7)
P 		124.3
(-3)
P 		140
B 263.3
(1.7)
P 		282.7
(3)
P 		224
(-0.9)
P 		191.8
(-3)
P 		219.7
(-1.2)
P 		203.8
(-2.2)
P 		91
C 305.2
(3)
P 		291.3
(2.3)
P 		226.4
(-1.1)
P 		189.9
(-3)
P 		193.1
(-2.8)
P 		192.1
(-2.9)
P 		115
avr 231.8
(0.3) 		279.6
(3) 		215.7
(-0.6) 		196.3
(-1.7) 		188.9
(-2.1) 		173.4
(-3) 		106
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 177676_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9773
Sequence Type Exemplar sequence
Representative Public ID C53B4.3 NCBI
Target Description C53B4.3 /REP_DB=WormBase Gene ID /WP=CE27115 /TR=Q18797 /GB=CAA92452.2 /SUBMIT=HINXTON /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_069156(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069156 NCBI Caenorhabditis elegans C53B4.3 (C53B4.3) mRNA, complete cds. 11/11 None
SNAP00000003706 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8970945:8973017:-1 11/11 None
GENEFINDER00000003718 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8970945:8973286:-1 11/11 None
C53B4.3.1 ENSEMBL cdna:known chromosome:CEL140:IV:8970861:8973296:-1 gene:C53B4.3 11/11 None
C53B4.3.2 ENSEMBL cdna:known chromosome:CEL140:IV:8970861:8973645:-1 gene:C53B4.3 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:8970950-8972588(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C53B4.3
Entrez Gene 177714 Entrez gene
SwissProt Q18797 EMBL-EBI
WormBase CE37333 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1598450_AT similar to tumor suppressing subtransferable candidate 5 cfa
CANINE_2:CFA.14404.1.A1_S_AT similar to tumor suppressing subtransferable candidate 5 cfa
CANINE_2:CFAAFFX.16023.1.S1_AT similar to tumor suppressing subtransferable candidate 5 cfa
CHICKEN:GGA.6442.1.S1_AT solute carrier family 22 (organic cation transporter), member 18 gga
HG-U133_PLUS_2:204981_AT solute carrier family 22 (organic cation transporter), member 18 hs
HG-U133A:204981_AT solute carrier family 22 (organic cation transporter), member 18 hs
HG-FOCUS:204981_AT solute carrier family 22 (organic cation transporter), member 18 hs
HG-U133A_2:204981_AT solute carrier family 22 (organic cation transporter), member 18 hs
HU35KSUBA:HUM_ALU_AT solute carrier family 22 (organic cation transporter), member 18 hs
HU35KSUBB:HUM_ALU_AT solute carrier family 22 (organic cation transporter), member 18 hs
HU35KSUBC:HUM_ALU_AT solute carrier family 22 (organic cation transporter), member 18 hs
HU35KSUBD:HUM_ALU_AT solute carrier family 22 (organic cation transporter), member 18 hs
HUGENEFL:HUM_ALU_AT solute carrier family 22 (organic cation transporter), member 18 hs
HC-G110:HUM_ALU_AT solute carrier family 22 (organic cation transporter), member 18 hs
HU35KSUBC:RC_AA406180_AT solute carrier family 22 (organic cation transporter), member 18 hs
U133_X3P:G4505526_3P_AT solute carrier family 22 (organic cation transporter), member 18 hs
HG-U95AV2:39992_AT solute carrier family 22 (organic cation transporter), member 18 hs
MU11KSUBA:AF028739_AT solute carrier family 22 (organic cation transporter), member 18 mm
MOUSE430_2:1427531_A_AT solute carrier family 22 (organic cation transporter), member 18 mm
MOE430A:1427531_A_AT solute carrier family 22 (organic cation transporter), member 18 mm
MOUSE430A_2:1427531_A_AT solute carrier family 22 (organic cation transporter), member 18 mm
MU11KSUBA:AF028739_G_AT solute carrier family 22 (organic cation transporter), member 18 mm
MG-U74AV2:102861_AT solute carrier family 22 (organic cation transporter), member 18 mm
MOE430A:1417809_AT solute carrier family 22 (organic cation transporter), member 18 mm
MOUSE430A_2:1417809_AT solute carrier family 22 (organic cation transporter), member 18 mm
MOUSE430_2:1417809_AT solute carrier family 22 (organic cation transporter), member 18 mm
MG-U74CV2:133547_AT Solute carrier family 22 (organic cation transporter), member 18, mRNA (cDNA clone MGC:5807 IMAGE:3599736) mm
RG-U34A:RC_AA892545_AT tumor suppressing subtransferable candidate 5 rn
RAE230A:1374222_AT tumor suppressing subtransferable candidate 5 rn
RAT230_2:1374222_AT tumor suppressing subtransferable candidate 5 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
15904 tetracycline transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
15520 tetracycline:hydrogen antiporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92452 Hypothetical protein C53B4.3 [Caenorhabditis elegans] ref|NP_501557.2| C53B4.3 [Caenorhabditis elegans] 0.0
blast CAE74078 Hypothetical protein CBG21733 [Caenorhabditis briggsae] 0.0
blast CAE74078 Hypothetical protein CBG21733 [Caenorhabditis briggsae] 1.0E-171
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501557.2 8 21-40,55-77,84-103,142-164,236-253,263-285,298-320,379-401
C53B4.3.1 8 21-40,55-77,84-103,142-164,236-253,263-285,298-320,379-401
C53B4.3.2 8 21-40,55-77,84-103,142-164,236-253,263-285,298-320,379-401
SNAP00000003706 7 15-37,76-98,103-122,170-187,197-219,232-254,313-335
GENEFINDER00000003718 8 21-40,55-77,84-103,142-164,236-253,263-285,298-320,379-401
Sequence
Target Sequence 
>C. ELEGANS:177676_S_AT
atgcaaatggtccaccacctcaaataaacattacaaatgttgttcgcattcttcaaaagc
ctggagtagcaaatgttatgattaagaaaaatggtggagttgttcctttcattatgataa
ttgcattatacatcattgagaaattcaatgctaccaatacagaaaatcaaataatgcaga
tgatgatgggtgtatttattatgttctctaatggattcggagtcatttggcttagaaaaa
aatttgatgagcaaacacttttaataatcggatcgttgagttttgttattggctacactt
tattcacatttgtctttttcaatttctggatgcttcttgttataatgccatttgtttctc
ttggaatgagtgtagttgcaacatgtgcagatagtcttctcacagctttagttgatgaat
ctgaacagggaatcgtactgggcacggccacatctttaaactctcttgttcgtactttct
ctccactttttgctggttatcttctccaaaactatggattccaatcactgactcttcttg
gaattgttggatctcttttagcaatatcatttatggttgtgtcgccggtcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCAAATGGTCCACCACCTCAAAT 302 41 350 Antisense
GTTGTTCGCATTCTTCAAAAGCCTG 688 435 388 Antisense
TGGATTCGGAGTCATTTGGCTTAGA 285 547 561 Antisense
ATTGGCTACACTTTATTCACATTTG 520 3 637 Antisense
GTCTTTTTCAATTTCTGGATGCTTC 291 469 661 Antisense
GGATGCTTCTTGTTATAATGCCATT 532 513 677 Antisense
ATAGTCTTCTCACAGCTTTAGTTGA 704 19 740 Antisense
TACTGGGCACGGCCACATCTTTAAA 630 647 785 Antisense
TAAACTCTCTTGTTCGTACTTTCTC 222 641 806 Antisense
ATGGATTCCAATCACTGACTCTTCT 196 51 863 Antisense
TCATTTATGGTTGTGTCGCCGGTCG 38 617 916 Antisense
Sequence Source Affymetrix Proprietary Database