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[172699_x_at]

Description ZK1127.8_rc /REP_DB=WormBase Gene ID /WP=CE07646 /TR=Q23397 /GB=AAB93430.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /REVCOMP
Cluster 6grp_high1_10_10 > 68      4grp_highest_8_8 > 24      4grp_high_8_8 > 51      6grp_total > 59      4grp_total > 52      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 332
1 2 3 4 range
A 498.3
(3)
P 		421.5
(0.4)
P 		421.2
(0.4)
P 		320.3
(-3)
P 		178
B 416.8
(1)
P 		516.4
(3)
P 		450.2
(1.6)
P 		224.4
(-3)
P 		292
C 504
(1.8)
P 		556.4
(3)
P 		479.2
(1.3)
P 		286.6
(-3)
P 		270
avr 473
(2.3) 		498.1
(3) 		450.2
(1.7) 		277.1
(-3) 		221

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 436
1 2 3 4 5 6 range
A 207.2
(-2.9)
P 		418
(0.4)
P 		203.9
(-3)
P 		324.6
(-1.1)
P 		238.3
(-2.5)
P 		586.9
(3)
P 		383
B 330.2
(0.7)
P 		238.9
(-1.4)
P 		169.3
(-3)
A 		259.3
(-1)
P 		315.1
(0.3)
P 		433.5
(3)
P 		264
C 495.9
(3)
P 		260.7
(-1.1)
P 		299.3
(-0.4)
P 		150.8
(-3)
P 		450.8
(2.2)
P 		402
(1.4)
P 		345
avr 344.4
(-0.1) 		305.9
(-1) 		224.2
(-3) 		244.9
(-2.5) 		334.7
(-0.3) 		474.1
(3) 		250
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 135
1 2 3 4 range
A 181.4
(3)
P 		91.5
(-1)
P 		110.1
(-0.2)
P 		46.9
(-3)
P 		135
B 132.9
(3)
P 		127.5
(2.6)
P 		104.3
(1)
P 		47.8
(-3)
P 		85
C 166.8
(3)
P 		160
(2.6)
P 		167
(3)
P 		48.3
(-3)
P 		119
avr 160.4
(3) 		126.3
(1.2) 		127.1
(1.2) 		47.7
(-3) 		113

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 154
1 2 3 4 5 6 range
A 38.2
(-3)
P 		148.7
(3)
P 		44.4
(-2.7)
P 		82.3
(-0.6)
P 		71.9
(-1.2)
P 		142.9
(2.7)
P 		111
B 114.9
(0.7)
P 		79.5
(-1.1)
P 		41.1
(-3)
A 		68.7
(-1.6)
P 		128
(1.3)
P 		161.7
(3)
P 		121
C 183.8
(3)
P 		79.6
(-1.1)
P 		76.2
(-1.2)
P 		30.3
(-3)
P 		145.9
(1.5)
P 		134.6
(1.1)
P 		154
avr 112.3
(0.8) 		102.6
(0.2) 		53.9
(-3) 		60.4
(-2.6) 		115.3
(1) 		146.4
(3) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172699_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28113
Sequence Type Exemplar sequence
Representative Public ID ZK1127.8 NCBI
Target Description ZK1127.8_rc /REP_DB=WormBase Gene ID /WP=CE07646 /TR=Q23397 /GB=AAB93430.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /REVCOMP
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_063039(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063039 NCBI Caenorhabditis elegans ZK1127.7 (ZK1127.7) mRNA, complete cds. 11/11 A 
SNAP00000033586 ENSEMBL cdna:SNAP chromosome:CEL140:II:7038403:7040885:1 10/11 None
GENEFINDER00000033599 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7036914:7041090:1 10/11 None
ZK1127.7 ENSEMBL cdna:known chromosome:CEL140:II:7038333:7041069:1 gene:ZK1127.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_071082 3/11 Cross Hyb Matching Probes A 
NM_064135 4/11 Cross Hyb Matching Probes A 
SNAP00000000319 4/11 Cross Hyb Matching Probes None
GENEFINDER00000000332 3/11 Cross Hyb Matching Probes None
GENEFINDER00000037013 3/11 Cross Hyb Matching Probes None
SNAP00000037007 4/11 Cross Hyb Matching Probes None
SNAP00000038918 2/11 Cross Hyb Matching Probes None
GENEFINDER00000038929 3/11 Cross Hyb Matching Probes None
K12D12.1 4/11 Cross Hyb Matching Probes A 
K08E5.1 3/11 Cross Hyb Matching Probes None
Y46H3C.4 3/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7039906-7040808(+) 100.0 100.0
chrII:11878318-11879197(+) 94.04 94.04
Public Domain and Genome References
Gene Title
Ensembl ZK1127.7
Entrez Gene 191525 Entrez gene
SwissProt Q27537 EMBL-EBI
WormBase CE36257 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6259 DNA metabolism inferred from electronic annotation QuickGO AmiGO
6265 DNA topological change inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3918 DNA topoisomerase (ATP-hydrolyzing) activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB93429 Hypothetical protein ZK1127.7 [Caenorhabditis elegans] ref|NP_495440.2| ZK1127.7 [Caenorhabditis elegans] 0.0
blast CAA94177 Hypothetical protein K12D12.1 [Caenorhabditis elegans] emb|CAA88867.1| Hypothetical protein K12D12.1 [Caenorhabditis elegans] ref|NP_496536.1| K12D12.1 [Caenorhabditis elegans] sp|Q23670|TOP2_CAEEL Probable DNA topoisomerase 2 (DNA topoisomerase II) 0.0
blast CAE59389 Hypothetical protein CBG02746 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 2.5E-109
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 2.5E-109
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 3.4E-105
Sequence
Target Sequence 
>C. ELEGANS:172699_X_AT
gttaagttcgtcgtgaagctctcgccgggaaaacttcgtgaattggagcgcggtcaggat
cttcatcaagtcttcaagctccaagctgtcatcaacactacgtgcatggtacttttcgat
gctgccggatggcttcgtacatacacttcgccagaagcgattactcaagagttctacgat
agccgccaagagaagtacgtacagagaaaggagtacctcctcggagttcttcaggctcag
agcaagcgtctcactaaccaggctcgttttatcctcgccacgatcaacaacaagattgtt
ctcgagaacaagaagaagacggcgattgtcgatgttttgatcaagatgaagttcgatgct
gatccagtgaagaagtggaaggaggaccaaaagctcaaagagcttcgtgaatctcgtcgg
attagctctcatcaagctttcggaagaagagaagaataagctcatcaaagaatcggagga
gaagatggctgaggttcgagttctggag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTAAGTTCGTCGTGAAGCTCTCGC 473 445 247 Antisense
GATCTTCATCAAGTCTTCAAGCTCC 599 419 304 Antisense
CAAGCTGTCATCAACACTACGTGCA 677 185 328 Antisense
TTTCGATGCTGCCGGATGGCTTCGT 283 669 360 Antisense
GATGGCTTCGTACATACACTTCGCC 251 405 374 Antisense
TCCTCGGAGTTCTTCAGGCTCAGAG 541 593 464 Antisense
GGCTCAGAGCAAGCGTCTCACTAAC 81 539 480 Antisense
CACTAACCAGGCTCGTTTTATCCTC 671 197 498 Antisense
TTTTATCCTCGCCACGATCAACAAC 579 675 513 Antisense
GCTTCGTGAATCTCGTCGGATTAGC 388 305 648 Antisense
GATGGCTGAGGTTCGAGTTCTGGAG 219 407 730 Antisense
Sequence Source Affymetrix Proprietary Database