[Home] | [Total List]

[193510_s_at]

Description C06C6.5 /REP_DB=WormBase Gene ID /WP=CE15599 /GEN=nhr-50 /TR=O62031 /GB=CAB07555.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 17      4grp_total > 47      6grp_cgc > 15      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 240
1 2 3 4 range
A 235
(3)
P 		161.4
(-0.7)
A 		116.3
(-3)
A 		125.6
(-2.5)
A 		119
B 327.2
(3)
P 		125.1
(-2.1)
A 		87.4
(-3)
A 		98.4
(-2.7)
A 		240
C 244.8
(3)
P 		121.1
(-2.9)
A 		119
(-3)
A 		147.4
(-1.6)
A 		126
avr 269
(3) 		135.9
(-1.9) 		107.6
(-3) 		123.8
(-2.4) 		161

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 285.3
(3)
M 		165.8
(-0.9)
A 		164.1
(-1)
A 		153.8
(-1.3)
A 		103.6
(-3)
A 		159.2
(-1.2)
A 		182
B 254.8
(3)
P 		195.8
(0.4)
A 		125.6
(-2.7)
A 		143.3
(-1.9)
A 		118.6
(-3)
A 		161
(-1.1)
A 		136
C 238.2
(3)
P 		179.8
(0.8)
P 		156.1
(-0.1)
A 		109.4
(-1.8)
A 		78.3
(-3)
A 		187.2
(1.1)
M 		160
avr 259.4
(3) 		180.5
(0) 		148.6
(-1.2) 		135.5
(-1.7) 		100.2
(-3) 		169.1
(-0.4) 		159
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 85.6
(3)
P 		35
(-1.5)
A 		30.4
(-1.9)
A 		18.4
(-3)
A 		67
B 104.3
(3)
P 		30.9
(-2.2)
A 		20.2
(-3)
A 		21
(-2.9)
A 		84
C 81
(3)
P 		34.8
(-1.9)
A 		41.5
(-1.2)
A 		24.9
(-3)
A 		56
avr 90.3
(3) 		33.6
(-1.9) 		30.7
(-2.2) 		21.4
(-3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 52.6
(1.6)
M 		59
(3)
A 		35.7
(-2)
A 		39
(-1.3)
A 		31.3
(-3)
A 		38.8
(-1.4)
A 		28
B 88.7
(3)
P 		65.2
(0.6)
A 		30.5
(-3)
A 		37.9
(-2.2)
A 		48.2
(-1.2)
A 		60
(0)
A 		58
C 88.3
(3)
P 		54.9
(-0)
P 		39.7
(-1.4)
A 		22
(-3)
A 		25.3
(-2.7)
A 		62.7
(0.7)
M 		66
avr 76.5
(3) 		59.7
(0.7) 		35.3
(-2.7) 		33
(-3) 		34.9
(-2.7) 		53.8
(-0.1) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193510_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13393
Sequence Type Exemplar sequence
Representative Public ID C06C6.5 NCBI
Target Description C06C6.5 /REP_DB=WormBase Gene ID /WP=CE15599 /GEN=nhr-50 /TR=O62031 /GB=CAB07555.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
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_074614(11), NM_001026206(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074614 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-50) (nhr-50) mRNA, complete cds. 11/11 A 
NM_001026206 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-50) (nhr-50) mRNA, complete cds. 11/11 None
SNAP00000040511 ENSEMBL cdna:SNAP chromosome:CEL140:V:16000415:16001440:-1 11/11 None
GENEFINDER00000040521 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16000415:16002206:-1 11/11 None
C06C6.5a ENSEMBL cdna:known chromosome:CEL140:V:16000353:16002206:-1 gene:C06C6.5 11/11 A 
C06C6.5b ENSEMBL cdna:known chromosome:CEL140:V:16000355:16002742:-1 gene:C06C6.5 11/11 A 
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
chrV:16000414-16002206(-) 100.0 100.0
Public Domain and Genome References
Ensembl C06C6.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07555 Hypothetical protein C06C6.5a [Caenorhabditis elegans] ref|NP_507015.3| Nuclear Hormone Receptor family member (nhr-50) [Caenorhabditis elegans] 0.0
blast CAB07555 Hypothetical protein C06C6.5a [Caenorhabditis elegans] ref|NP_507015.3| Nuclear Hormone Receptor family member (nhr-50) [Caenorhabditis elegans] 1.0E-129
blast CAB07558 Hypothetical protein C06C6.4 [Caenorhabditis elegans] ref|NP_741645.3| Nuclear Hormone Receptor family member (nhr-63) [Caenorhabditis elegans] 2.0E-93
blast AAG15164 nuclear receptor NHR-63 [Caenorhabditis elegans] 2.0E-93
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.0062
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.9E-8
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.0062
Sequence
Target Sequence 
>C. ELEGANS:193510_S_AT
agatctttttccgtctttaacatggaatttaaggaagttggataaagaagctcttctccg
aaactttcttccgaagtggtcagttttaacagcggctattgatatggaagttaaagtgca
aagatactcaaaagtcaacaatactgaagagtttaaaagaatgattgtagatttctttac
atattcaatgccagagaagttcaaaatgccaccggaagatatattgaaagtgttcggacc
catgatagtgtactacgtaacaaaaattattcttccaattcatgaaaaaggcttggacca
gccggaatttatggcgttggcgctgattattttgttcgatggagcctactccaacatctc
cgtggagtgctccgaaatgtgccgaacaattcgcaacctgatatttcgagagctcaaaaa
ttatcaaaccgacaagaactttgatgaaattcagtttgccgatactgtcgacaccttgaa
ta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATCTTTTTCCGTCTTTAACATGG 383 65 501 Antisense
GAAGCTCTTCTCCGAAACTTTCTTC 110 343 547 Antisense
AGTGGTCAGTTTTAACAGCGGCTAT 500 59 575 Antisense
GTTCGGACCCATGATAGTGTACTAC 138 441 732 Antisense
GGACCAGCCGGAATTTATGGCGTTG 637 521 795 Antisense
GGCGTTGGCGCTGATTATTTTGTTC 482 541 813 Antisense
TCGATGGAGCCTACTCCAACATCTC 382 603 836 Antisense
CCAACATCTCCGTGGAGTGCTCCGA 59 277 851 Antisense
TGGAGTGCTCCGAAATGTGCCGAAC 338 549 863 Antisense
GAACAATTCGCAACCTGATATTTCG 349 353 884 Antisense
GCCGATACTGTCGACACCTTGAATA 182 285 958 Antisense
Sequence Source Affymetrix Proprietary Database