[Home] | [Total List]

[178353_s_at]

Description R04D3.3 /REP_DB=WormBase Gene ID /WP=CE06224 /TR=Q21713 /GB=CAA94163.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 4grp_high_8_8 > 45      6grp_total > 78      4grp_total > 36      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 104.8
(0)
P 		121.4
(2.5)
P 		124.6
(3)
P 		85
(-3)
M 		40
B 138.3
(2.2)
P 		154.8
(3)
P 		34.8
(-3)
A 		109.6
(0.7)
P 		120
C 68.2
(-3)
P 		112.9
(3)
A 		107
(2.2)
M 		108.4
(2.4)
P 		45
avr 103.8
(-0.8) 		129.7
(3) 		88.8
(-3) 		101
(-1.2) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 504
1 2 3 4 5 6 range
A 91.4
(-2.5)
P 		66.1
(-2.8)
M 		101.8
(-2.3)
P 		54.4
(-3)
A 		158.8
(-1.5)
P 		482.2
(3)
P 		428
B 29.6
(-3)
A 		58.6
(-2.6)
P 		41.7
(-2.8)
A 		55.3
(-2.6)
A 		242.2
(-0.1)
P 		463.8
(3)
P 		434
C 86.1
(-2.5)
A 		63.3
(-2.8)
P 		67.9
(-2.7)
A 		43.4
(-3)
A 		193.5
(-1.2)
P 		533.2
(3)
P 		490
avr 69
(-2.8) 		62.7
(-2.8) 		70.5
(-2.7) 		51
(-3) 		198.2
(-1) 		493.1
(3) 		442
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 38.2
(3)
P 		26.3
(0.2)
P 		32.6
(1.7)
P 		12.4
(-3)
M 		26
B 44.1
(3)
P 		38.2
(2)
P 		8.1
(-3)
A 		23.4
(-0.5)
P 		36
C 22.6
(-1.6)
P 		32.5
(1.5)
A 		37.3
(3)
M 		18.3
(-3)
P 		19
avr 35
(3) 		32.3
(2) 		26
(-0.2) 		18
(-3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 170
1 2 3 4 5 6 range
A 16.8
(-2.8)
P 		23.5
(-2.4)
M 		22.2
(-2.5)
P 		13.8
(-3)
A 		47.9
(-1)
P 		117.4
(3)
P 		104
B 10.3
(-3)
A 		19.5
(-2.7)
P 		10.1
(-3)
A 		14.6
(-2.8)
A 		98.4
(0.3)
P 		173
(3)
P 		163
C 31.9
(-2.2)
A 		19.3
(-2.6)
P 		17.3
(-2.7)
A 		8.7
(-3)
A 		62.6
(-1.1)
P 		178.5
(3)
P 		170
avr 19.7
(-2.7) 		20.8
(-2.6) 		16.5
(-2.8) 		12.4
(-3) 		69.6
(-0.6) 		156.3
(3) 		144
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178353_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18021
Sequence Type Exemplar sequence
Representative Public ID R04D3.3 NCBI
Target Description R04D3.3 /REP_DB=WormBase Gene ID /WP=CE06224 /TR=Q21713 /GB=CAA94163.1 /SUBMIT=HINXTON /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_077809(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077809 NCBI Caenorhabditis elegans R04D3.3 (R04D3.3) mRNA, complete cds. 11/11 None
SNAP00000014109 ENSEMBL cdna:SNAP chromosome:CEL140:X:13289057:13290543:-1 11/11 None
GENEFINDER00000014120 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13289057:13294689:-1 11/11 None
R04D3.3.2 ENSEMBL cdna:known chromosome:CEL140:X:13288893:13290548:-1 gene:R04D3.3 11/11 None
R04D3.3.1 ENSEMBL cdna:known chromosome:CEL140:X:13288904:13290548:-1 gene:R04D3.3 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
chrX:13289056-13290543(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R04D3.3
Entrez Gene 181453 Entrez gene
SwissProt Q21713 EMBL-EBI
WormBase CE06224 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94163 Hypothetical protein R04D3.3 [Caenorhabditis elegans] ref|NP_510210.1| R04D3.3 [Caenorhabditis elegans] 0.0
blast CAA94164 Hypothetical protein R04D3.6 [Caenorhabditis elegans] ref|NP_510212.1| Serpentine Receptor, class D (delta) family member (srd-36) [Caenorhabditis elegans] 1.0E-155
blast CAE61417 Hypothetical protein CBG05282 [Caenorhabditis briggsae] 1.0E-118
blast CAA94162 Hypothetical protein R04D3.2 [Caenorhabditis elegans] ref|NP_510208.1| R04D3.2 [Caenorhabditis elegans] 3.0E-87
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000014120 7 9-31,41-63,93-115,130-152,193-212,241-263,270-292
Sequence
Target Sequence 
>C. ELEGANS:178353_S_AT
gagacgttggctcaatctggatcgaaaactcgcgattctcactcgcgccgccgccaatac
ccggaatacgagtacgaggacgaagatcgtgaggagatggagtcccggccaagacgtcgt
cacagcaacaacgctagaggtcgctcaactcgtaagcatcgtgaggaaggtgaatcggac
gatgagaatgaggattatgaagaggaggaaagtaagactcgtaaaaccaaccgtcgcagt
cgcaacgatgatgatgacattctcgacgatgaagataacttcaaaccccgcagaaaacct
tatggaggtcgctcagctcatagaaaccgagaggaagatgattatgaggatgatgaggat
tatgaggaagacaatagttttaagcctcgtaaaactaaccgtcgtagtcgcatcgatgat
gaagatgagtccaagccacggaagacacagagagggcggaaaaacaagaaggattccgat
gaggatgagttgtttgatacagaggaaaacgatgaggactggtctgacctggacaattct
g

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGACGTTGGCTCAATCTGGATCGA 37 395 688 Antisense
GAAAACTCGCGATTCTCACTCGCGC 299 355 711 Antisense
CGCCGCCAATACCCGGAATACGAGT 331 255 736 Antisense
AGAGGTCGCTCAACTCGTAAGCATC 679 67 823 Antisense
ATGATGATGACATTCTCGACGATGA 388 45 935 Antisense
ACCTTATGGAGGTCGCTCAGCTCAT 466 39 984 Antisense
GGTCGCTCAGCTCATAGAAACCGAG 4 501 994 Antisense
AACTAACCGTCGTAGTCGCATCGAT 180 139 1080 Antisense
GATGAGTCCAAGCCACGGAAGACAC 295 411 1111 Antisense
GGAAAACGATGAGGACTGGTCTGAC 586 527 1191 Antisense
GACTGGTCTGACCTGGACAATTCTG 7 377 1204 Antisense
Sequence Source Affymetrix Proprietary Database