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[184962_at]

Description Y42G9A.4 /REP_DB=WormBase Gene ID /WP=CE24276 /TR=Q9N4Z7 /GB=AAF60558.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 63      6grp_high1_10_10 > 36      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 20      6grp_total > 35      4grp_total > 54      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1133
1 2 3 4 range
A 1811.9
(3)
P 		1199.1
(-0.2)
P 		975.7
(-1.4)
P 		679.2
(-3)
P 		1133
B 1750.9
(3)
P 		1157
(-0.4)
P 		1068.1
(-0.9)
P 		694.3
(-3)
P 		1057
C 1642.7
(3)
P 		1241.8
(0.4)
P 		1153.6
(-0.1)
P 		711
(-3)
P 		932
avr 1735.2
(3) 		1199.3
(-0.1) 		1065.8
(-0.9) 		694.8
(-3) 		1040

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 672
1 2 3 4 5 6 range
A 1354.4
(3)
P 		1240.1
(1.8)
P 		1175.8
(1.2)
P 		836
(-2.3)
P 		767.2
(-3)
P 		1042.6
(-0.2)
P 		587
B 1416.3
(3)
P 		1355.7
(2.4)
P 		1361
(2.5)
P 		1070.3
(-0.4)
P 		796.8
(-3)
P 		1041.9
(-0.6)
P 		620
C 1411.3
(3)
P 		1343.3
(2.4)
P 		1102.4
(0.2)
P 		744.2
(-3)
P 		906.7
(-1.5)
P 		1095
(0.2)
P 		667
avr 1394
(3) 		1313
(2.1) 		1213.1
(1.1) 		883.5
(-2.4) 		823.6
(-3) 		1059.8
(-0.5) 		570
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 560
1 2 3 4 range
A 659.7
(3)
P 		260.3
(-1.3)
P 		255.1
(-1.3)
P 		99.4
(-3)
P 		560
B 558.4
(3)
P 		285.8
(-1)
P 		247.5
(-1.5)
P 		148
(-3)
P 		410
C 543.8
(3)
P 		357
(0.4)
P 		402.1
(1)
P 		119.9
(-3)
P 		424
avr 587.3
(3) 		301
(-0.7) 		301.6
(-0.7) 		122.4
(-3) 		465

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 373
1 2 3 4 5 6 range
A 249.7
(-2)
P 		441
(3)
P 		256.1
(-1.8)
P 		212
(-3)
P 		231.5
(-2.5)
P 		253.9
(-1.9)
P 		229
B 492.8
(3)
P 		451.3
(1.8)
P 		330.5
(-1.7)
P 		283.5
(-3)
P 		323.7
(-1.8)
P 		388.5
(0)
P 		209
C 523.1
(3)
P 		409.9
(1.2)
P 		280.6
(-0.9)
P 		149.7
(-3)
P 		293.4
(-0.7)
P 		366.6
(0.5)
P 		373
avr 421.9
(2.7) 		434.1
(3) 		289.1
(-1) 		215.1
(-3) 		282.9
(-1.1) 		336.3
(0.3) 		219
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184962_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6564
Sequence Type Exemplar sequence
Representative Public ID Y42G9A.4 NCBI
Target Description Y42G9A.4 /REP_DB=WormBase Gene ID /WP=CE24276 /TR=Q9N4Z7 /GB=AAF60558.1 /SUBMIT=ST.LOUIS /CHR=3 /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_001027696(10), NM_001027697(10), NM_001027698(10), NM_001027695(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027696 NCBI Caenorhabditis elegans Y42G9A.4b (Y42G9A.4) mRNA, complete cds. 10/11 None
NM_001027697 NCBI Caenorhabditis elegans Y42G9A.4c (Y42G9A.4) mRNA, complete cds. 10/11 None
NM_001027698 NCBI Caenorhabditis elegans Y42G9A.4d (Y42G9A.4) mRNA, complete cds. 10/11 None
NM_001027695 NCBI Caenorhabditis elegans Y42G9A.4a (Y42G9A.4) mRNA, complete cds. 11/11 None
SNAP00000011124 ENSEMBL cdna:SNAP chromosome:CEL140:III:6124785:6131802:-1 11/11 None
GENEFINDER00000011138 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6124785:6133042:-1 10/11 None
Y42G9A.4b.1 ENSEMBL cdna:known chromosome:CEL140:III:6124124:6133044:-1 gene:Y42G9A.4 11/11 None
Y42G9A.4b.2 ENSEMBL cdna:known chromosome:CEL140:III:6124131:6133042:-1 gene:Y42G9A.4 10/11 None
Y42G9A.4a ENSEMBL cdna:known chromosome:CEL140:III:6124785:6136079:-1 gene:Y42G9A.4 11/11 None
Y42G9A.4d ENSEMBL cdna:known chromosome:CEL140:III:6124785:6136079:-1 gene:Y42G9A.4 10/11 None
Y42G9A.4c.2 ENSEMBL cdna:known chromosome:CEL140:III:6124785:6131687:-1 gene:Y42G9A.4 10/11 None
Y42G9A.4c.3 ENSEMBL cdna:known chromosome:CEL140:III:6124785:6136408:-1 gene:Y42G9A.4 10/11 None
Y42G9A.4c.1 ENSEMBL cdna:known chromosome:CEL140:III:6124785:6136216:-1 gene:Y42G9A.4 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
chrIII:6124783-6136078(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y42G9A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001022867 Y42G9A.4b [Caenorhabditis elegans] gb|AAU20834.1| Hypothetical protein Y42G9A.4b [Caenorhabditis elegans] 0.0
blast NP_001022869 Y42G9A.4d [Caenorhabditis elegans] gb|AAU87813.1| Hypothetical protein Y42G9A.4d [Caenorhabditis elegans] 0.0
blast NP_001022868 Y42G9A.4c [Caenorhabditis elegans] gb|AAU20835.1| Hypothetical protein Y42G9A.4c [Caenorhabditis elegans] 0.0
blast NP_001022866 Y42G9A.4a [Caenorhabditis elegans] gb|AAF60558.2| Hypothetical protein Y42G9A.4a [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006204 EMBL-EBI GHMP kinase 4.0E-14
Pfam IPR006204 EMBL-EBI GHMP kinase 3.9E-13
Pfam IPR006204 EMBL-EBI GHMP kinase 1.8E-16
Pfam IPR006204 EMBL-EBI GHMP kinase 1.8E-16
Pfam IPR006204 EMBL-EBI GHMP kinase 1.8E-16
Pfam IPR006204 EMBL-EBI GHMP kinase 1.8E-16
Sequence
Target Sequence 
>C. ELEGANS:184962_AT
cccgatcttcgtgttattcttgtaaattcgaaagttgaaaggaatacggcaagaatggta
caaacagtgaaagaacgattaaagaagttcccagaagttgttgatgcaatgtttggatca
attgatgctatttcacttgatgctgcaaagattctacatcgtccgttgcttgaggagaat
ggtggtggagatactggatctacagtacaggaaaatggcctaggaccatttggtggaaat
atggtagaacaggatcatcactcccttcaggatctatgtcggataaacaatcaattgctc
attgcattgggtgttggccatccaaaagttgatctcatttgtacgacattggctagatat
ggaatacatccaaaaatgacgggtgctggtggtggtggatcagtttttgcgttcttgaag
ccaaacacgccacaaactcttctcgacatgattgacggcgagcttcgcagtcatggattt
gaagtttggcagccaccacttggcggacccggagttgttgaacatcagacacgtcctgag
ctctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCGATCTTCGTGTTATTCTTGTAA 694 259 1102 Antisense
TTCTACATCGTCCGTTGCTTGAGGA 311 691 1253 Antisense
GTAGAACAGGATCATCACTCCCTTC 302 457 1345 Antisense
CACTCCCTTCAGGATCTATGTCGGA 663 197 1360 Antisense
CATTGCATTGGGTGTTGGCCATCCA 192 217 1401 Antisense
TGGTGGATCAGTTTTTGCGTTCTTG 465 553 1494 Antisense
CGTTCTTGAAGCCAAACACGCCACA 382 247 1511 Antisense
AACTCTTCTCGACATGATTGACGGC 230 141 1536 Antisense
GATTGACGGCGAGCTTCGCAGTCAT 141 435 1551 Antisense
TTGGCGGACCCGGAGTTGTTGAACA 35 669 1601 Antisense
AACATCAGACACGTCCTGAGCTCTT 52 139 1622 Antisense
Sequence Source Affymetrix Proprietary Database