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[185968_at]

Description C56E10.4 /REP_DB=WormBase Gene ID /WP=CE04282 /TR=Q18896 /GB=AAA81157.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 47      6grp_high1_10_10 > 64      4grp_highest_8_8 > 13      4grp_high_8_8 > 30      6grp_highest_nonorm > 73      6grp_total > 65      4grp_total > 24      6grp_cgc > 46      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 147
1 2 3 4 range
A 267.8
(-3)
P 		338.8
(-0.1)
P 		381.4
(1.6)
P 		414.9
(3)
P 		147
B 287.7
(-3)
P 		328.4
(0.6)
P 		299.7
(-1.9)
P 		355.4
(3)
P 		68
C 279.3
(-3)
P 		324.9
(-0.2)
P 		377.8
(3)
P 		359.2
(1.9)
P 		99
avr 278.3
(-3) 		330.7
(0.2) 		353
(1.6) 		376.5
(3) 		98

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 295
1 2 3 4 5 6 range
A 467
(-0.5)
P 		439.6
(-1.1)
P 		634.5
(3)
P 		594.2
(2.2)
P 		350
(-3)
P 		628.5
(2.9)
P 		285
B 521.5
(-0.1)
P 		444.4
(-2.2)
P 		596
(2)
P 		576.8
(1.5)
P 		417.8
(-3)
P 		630.1
(3)
P 		212
C 528.3
(0.1)
P 		415.5
(-2.7)
P 		622.7
(2.4)
P 		645
(3)
P 		405.3
(-3)
P 		612.1
(2.2)
P 		240
avr 505.6
(-0) 		433.2
(-1.9) 		617.7
(2.8) 		605.3
(2.5) 		391
(-3) 		623.6
(3) 		233
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 97.5
(2.7)
P 		73.6
(-1)
P 		99.7
(3)
P 		60.7
(-3)
P 		39
B 91.8
(3)
P 		81.1
(0.1)
P 		69.4
(-3)
P 		75.7
(-1.3)
P 		22
C 92.4
(-0.3)
P 		93.4
(-0.2)
P 		131.7
(3)
P 		60.6
(-3)
P 		71
avr 93.9
(1.9) 		82.7
(-0.1) 		100.3
(3) 		65.7
(-3) 		35

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 86.1
(-3)
P 		156.3
(3)
P 		138.2
(1.5)
P 		150.7
(2.5)
P 		105.6
(-1.3)
P 		153
(2.7)
P 		70
B 181.4
(-0.6)
P 		147.9
(-2.8)
P 		144.7
(-3)
P 		152.8
(-2.5)
P 		169.7
(-1.3)
P 		235
(3)
P 		90
C 195.8
(2.3)
P 		126.8
(-3)
P 		158.5
(-0.6)
P 		129.7
(-2.8)
P 		131.1
(-2.7)
P 		204.9
(3)
P 		78
avr 154.4
(-1.2) 		143.7
(-2.2) 		147.1
(-1.9) 		144.4
(-2.1) 		135.5
(-3) 		197.6
(3) 		62
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185968_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16640
Sequence Type Exemplar sequence
Representative Public ID C56E10.4 NCBI
Target Description C56E10.4 /REP_DB=WormBase Gene ID /WP=CE04282 /TR=Q18896 /GB=AAA81157.1 /SUBMIT=ST.LOUIS /CHR=X /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_001029334(11), NM_001029335(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029334 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-137) (nhr-137) mRNA, complete cds. 11/11 None
NM_001029335 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-137) (nhr-137) mRNA, complete cds. 11/11 None
GENEFINDER00000019179 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6661864:6665435:-1 11/11 None
C56E10.4a ENSEMBL cdna:known chromosome:CEL140:X:6661752:6665583:-1 gene:C56E10.4 11/11 None
C56E10.4b ENSEMBL cdna:known chromosome:CEL140:X:6661864:6668798:-1 gene:C56E10.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000019178 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:6661863-6665583(-) 100.0 100.0
Public Domain and Genome References
Ensembl C56E10.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA81157 Nuclear hormone receptor family protein 137, isoform a [Caenorhabditis elegans] ref|NP_001024505.1| Nuclear Hormone Receptor family member (nhr-137) [Caenorhabditis elegans] 0.0
blast NP_001024506 Nuclear Hormone Receptor family member (nhr-137) [Caenorhabditis elegans] 0.0
blast NP_001024506 Nuclear Hormone Receptor family member (nhr-137) [Caenorhabditis elegans] 1.0E-178
blast AAA81157 Nuclear hormone receptor family protein 137, isoform a [Caenorhabditis elegans] ref|NP_001024505.1| Nuclear Hormone Receptor family member (nhr-137) [Caenorhabditis elegans] 1.0E-178
blast CAE65769 Hypothetical protein CBG10861 [Caenorhabditis briggsae] 1.0E-153
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.5E-26
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-6
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.5E-26
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.1E-23
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.5E-26
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024505.1 1 21-40
C56E10.4a 1 21-40
Sequence
Target Sequence 
>C. ELEGANS:185968_AT
atgcccgacggtactgatgtcatgcaatctctagctaattcgggttctgtgatacacgcc
gtatttactcaaatgtttgtctgcattttggatccattacatcgagaatcattcacaatc
gatgagctggtcttgacactacaattgctctttttcacaattgcagcgccggaaaattta
acaccggaaggcaaagaacaattggaaaaatctgtgaaatctagcatgcattgcttaatg
gttttgctcattacacaaaatacaactaacttttcggcacgttacggatccttgattgca
ctaaacgaaacgttcatcaaaacagcccacgcacataagcaaaaaatgaaggaagctgaa
cactctcgacagaaatttcgcgactttctcattgaaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCCGACGGTACTGATGTCATGC 324 39 505 Antisense
GCAATCTCTAGCTAATTCGGGTTCT 118 323 528 Antisense
TCGGGTTCTGTGATACACGCCGTAT 6 605 544 Antisense
GTTTGTCTGCATTTTGGATCCATTA 94 453 579 Antisense
AATCGATGAGCTGGTCTTGACACTA 167 169 621 Antisense
TGACACTACAATTGCTCTTTTTCAC 290 571 638 Antisense
CTTTTTCACAATTGCAGCGCCGGAA 367 221 654 Antisense
TTTTCGGCACGTTACGGATCCTTGA 153 661 775 Antisense
AAAACAGCCCACGCACATAAGCAAA 518 129 823 Antisense
TGAAGGAAGCTGAACACTCTCGACA 191 575 851 Antisense
AATTTCGCGACTTTCTCATTGAACA 28 175 878 Antisense
Sequence Source Affymetrix Proprietary Database