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[188372_s_at] helicase

Description F54E12.2 /REP_DB=WormBase Gene ID /WP=CE11083 /TR=O17550 /GB=CAB05213.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=helicase
Cluster 6grp_high1_10_10 > 96      6grp_total > 87      4grp_total > 51      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 165
1 2 3 4 range
A 101.1
(-1.4)
A 		197.2
(3)
P 		115.7
(-0.7)
P 		66.5
(-3)
A 		131
B 84.8
(0.4)
A 		126.1
(3)
A 		106
(1.7)
P 		31.9
(-3)
A 		94
C 100.6
(0.5)
M 		124.8
(2)
A 		139.6
(3)
P 		46.6
(-3)
A 		93
avr 95.5
(-0.2) 		149.4
(3) 		120.4
(1.3) 		48.3
(-3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 487
1 2 3 4 5 6 range
A 130.8
(-2.7)
A 		110.2
(-3)
P 		123.3
(-2.8)
A 		126.4
(-2.8)
P 		238.5
(-1.3)
P 		567.6
(3)
P 		457
B 100
(-3)
M 		151.7
(-2.1)
P 		124.7
(-2.6)
A 		246.2
(-0.3)
P 		275.9
(0.2)
P 		430.8
(3)
P 		331
C 80.4
(-3)
P 		105.3
(-2.5)
P 		134.1
(-1.9)
P 		185.7
(-0.9)
P 		274.1
(0.9)
P 		379.6
(3)
P 		299
avr 103.7
(-3) 		122.4
(-2.7) 		127.4
(-2.6) 		186.1
(-1.6) 		262.8
(-0.3) 		459.3
(3) 		356
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 36.8
(1.9)
A 		42.8
(3)
P 		30.2
(0.7)
P 		9.7
(-3)
A 		33
B 27.1
(2)
A 		31.1
(3)
A 		24.6
(1.4)
P 		6.8
(-3)
A 		24
C 33.3
(0.7)
M 		35.9
(1.1)
A 		48.7
(3)
P 		7.9
(-3)
A 		41
avr 32.4
(2.1) 		36.6
(3) 		34.5
(2.6) 		8.1
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 24.1
(-3)
A 		39.2
(-2.2)
P 		26.8
(-2.9)
A 		32.1
(-2.6)
P 		72
(-0.5)
P 		138.2
(3)
P 		114
B 34.8
(-2.8)
M 		50.5
(-2.1)
P 		30.3
(-3)
A 		65.2
(-1.4)
P 		112.1
(0.8)
P 		160.6
(3)
P 		130
C 29.8
(-3)
P 		32.1
(-2.9)
P 		34.1
(-2.7)
P 		37.3
(-2.5)
P 		88.7
(0.6)
P 		127.1
(3)
P 		97
avr 29.6
(-3) 		40.6
(-2.4) 		30.4
(-3) 		44.9
(-2.2) 		90.9
(0.3) 		142
(3) 		112
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188372_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8840
Sequence Type Exemplar sequence
Representative Public ID F54E12.2 NCBI
Target Description F54E12.2 /REP_DB=WormBase Gene ID /WP=CE11083 /TR=O17550 /GB=CAB05213.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=helicase
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_069736(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069736 NCBI Caenorhabditis elegans F54E12.2 (helicase) mRNA, complete cds. 11/11 None
F54E12.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:11333070:11336836:-1 gene:F54E12.2 11/11 None
F54E12.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:11333122:11337155:-1 gene:F54E12.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000002620 4/11 Cross Hyb Matching Probes None
GENEFINDER00000002633 4/11 Cross Hyb Matching Probes None
SNAP00000035843 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:11333218-11336840(-) 100.0 100.0
Public Domain and Genome References
Gene Title helicase
Ensembl F54E12.2
Entrez Gene 178054 Entrez gene
SwissProt O17550 EMBL-EBI
WormBase CE11083 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSGENOME1:143236_AT lodestar dm
DROSOPHILA_2:1634695_AT lodestar dm
CHICKEN:GGA.10062.1.S1_S_AT similar to transcription termination factor, RNA polymerase II; lodestar protein; human factor 2 gga
CHICKEN:GGAAFFX.24633.1.S1_AT similar to transcription termination factor, RNA polymerase II; lodestar protein; human factor 2 gga
CHICKEN:GGAAFFX.9706.1.S1_AT similar to transcription termination factor, RNA polymerase II; lodestar protein; human factor 2 gga
HG-U95AV2:37870_AT transcription termination factor, RNA polymerase II hs
HG-U133A:204407_AT transcription termination factor, RNA polymerase II hs
HG-U133_PLUS_2:204407_AT transcription termination factor, RNA polymerase II hs
HG-FOCUS:204407_AT transcription termination factor, RNA polymerase II hs
HG-U133A_2:204407_AT transcription termination factor, RNA polymerase II hs
U133_X3P:G5733121_3P_AT transcription termination factor, RNA polymerase II hs
U133_X3P:1555307_3P_AT transcription termination factor, RNA polymerase II hs
HG-U133_PLUS_2:1555307_AT transcription termination factor, RNA polymerase II hs
HG-U95E:75654_AT transcription termination factor, RNA polymerase II hs
HG-U95E:88165_R_AT transcription termination factor, RNA polymerase II hs
HG-U95D:69123_AT Transcription termination factor, RNA polymerase II hs
MOE430B:1452818_AT transcription termination factor, RNA polymerase II mm
MOUSE430_2:1452818_AT transcription termination factor, RNA polymerase II mm
MG-U74BV2:108314_AT transcription termination factor, RNA polymerase II mm
MG-U74BV2:163889_AT transcription termination factor, RNA polymerase II mm
MOE430B:1428522_AT transcription termination factor, RNA polymerase II mm
MOUSE430_2:1428522_AT transcription termination factor, RNA polymerase II mm
MU19KSUBA:TC18946_AT transcription termination factor, RNA polymerase II mm
MU19KSUBB:TC32664_R_AT transcription termination factor, RNA polymerase II mm
RAE230B:1382656_AT transcription termination factor, RNA polymerase II (predicted) rn
RAT230_2:1382656_AT transcription termination factor, RNA polymerase II (predicted) rn
RAE230B:1393521_AT Transcription termination factor, RNA polymerase II (predicted) rn
RAT230_2:1393521_AT Transcription termination factor, RNA polymerase II (predicted) rn
RG-U34C:RC_AI232280_AT Transcription termination factor, RNA polymerase II (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA97421 Hypothetical protein F54E12.2 [Caenorhabditis elegans] emb|CAB05213.1| Hypothetical protein F54E12.2 [Caenorhabditis elegans] ref|NP_502137.1| F54E12.2 [Caenorhabditis elegans] 0.0
blast CAE60366 Hypothetical protein CBG03965 [Caenorhabditis briggsae] 0.0
blast CAE67662 Hypothetical protein CBG13225 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000330 EMBL-EBI SNF2 related domain 4.0E-60
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 4.6E-20
Sequence
Target Sequence 
>C. ELEGANS:188372_S_AT
gagacaaaccgagggctacaacacgaattttcgatccggactacctgagctgtaaaatta
aaaatacacttgaaattgttgagaacattatggagaagaaagagaaagttgtcattgttt
ctcaatggacatcggttctcaatttgatcgaaattcacataaaatcaagtggtttcaaat
atacatcaattaccggacaagttctggtcaaggatcgtcaagagagagtggacagcttta
atcgggagaaaggtggtgctcgagttatgcttctctctctggccgcgggaggtgttgggc
tcaatctgacaggtggaaatcatttagtgatggtggatttgcattggaatccggctctcg
aacagcaagctttcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGACAAACCGAGGGCTACAACACG 163 383 2711 Antisense
CACGAATTTTCGATCCGGACTACCT 229 39 2732 Antisense
GATCCGGACTACCTGAGCTGTAAAA 250 417 2743 Antisense
GTTTCTCAATGGACATCGGTTCTCA 249 451 2827 Antisense
TACATCAATTACCGGACAAGTTCTG 160 643 2892 Antisense
ACAAGTTCTGGTCAAGGATCGTCAA 423 111 2907 Antisense
GAGAGTGGACAGCTTTAATCGGGAG 427 395 2934 Antisense
AGGTGGTGCTCGAGTTATGCTTCTC 24 59 2961 Antisense
GCGGGAGGTGTTGGGCTCAATCTGA 139 293 2995 Antisense
TTTGCATTGGAATCCGGCTCTCGAA 460 667 3048 Antisense
CCGGCTCTCGAACAGCAAGCTTTCG 110 267 3061 Antisense
Sequence Source Affymetrix Proprietary Database