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[177316_at]

Description R52.1 /REP_DB=WormBase Gene ID /WP=CE12824 /TR=O17297 /GB=AAB71059.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 68      4grp_total > 05      6grp_cgc > 38      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 136
1 2 3 4 range
A 7.8
(3)
A 		5
(-2.4)
A 		4.7
(-3)
A 		6.7
(0.9)
A 		3
B 8
(-2.5)
A 		4
(-3)
A 		4.6
(-2.9)
A 		56.1
(3)
A 		52
C 59.5
(-0.5)
A 		5
(-2.9)
A 		3.6
(-3)
A 		139.3
(3)
P 		136
avr 25.1
(-1) 		4.7
(-3) 		4.3
(-3) 		67.4
(3) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 168
1 2 3 4 5 6 range
A 35.7
(-1)
A 		1.8
(-3)
A 		32.7
(-1.1)
A 		5.9
(-2.8)
A 		10.1
(-2.5)
A 		101.2
(3)
P 		99
B 4.6
(-3)
A 		11.3
(-2.8)
A 		8.2
(-2.9)
A 		7.7
(-2.9)
A 		39.9
(-1.7)
A 		169.3
(3)
P 		165
C 27.3
(-2.1)
A 		50.7
(-1.2)
A 		2.2
(-3)
A 		5.5
(-2.9)
A 		8.2
(-2.8)
A 		167
(3)
P 		165
avr 22.5
(-2.3) 		21.3
(-2.4) 		14.4
(-2.7) 		6.4
(-3) 		19.4
(-2.4) 		145.8
(3) 		139
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 2.9
(3)
A 		1.1
(-2.7)
A 		1.2
(-2.4)
A 		1
(-3)
A 		2
B 2.6
(-2.1)
A 		1
(-3)
A 		1.1
(-2.9)
A 		12
(3)
A 		11
C 19.7
(2)
A 		1.5
(-2.9)
A 		1.3
(-3)
A 		23.5
(3)
P 		22
avr 8.4
(0.9) 		1.2
(-3) 		1.2
(-3) 		12.2
(3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 6.6
(-1.5)
A 		0.7
(-3)
A 		7.1
(-1.4)
A 		1.5
(-2.8)
A 		3
(-2.4)
A 		24.6
(3)
P 		24
B 1.6
(-3)
A 		3.8
(-2.8)
A 		2
(-3)
A 		2
(-3)
A 		16.2
(-1.6)
A 		63.1
(3)
P 		62
C 10.1
(-2)
A 		15.5
(-1.4)
A 		0.6
(-3)
A 		1.1
(-2.9)
A 		2.7
(-2.8)
A 		55.9
(3)
P 		55
avr 6.1
(-2.4) 		6.7
(-2.3) 		3.2
(-2.8) 		1.5
(-3) 		7.3
(-2.3) 		47.9
(3) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177316_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4609
Sequence Type Exemplar sequence
Representative Public ID R52.1 NCBI
Target Description R52.1 /REP_DB=WormBase Gene ID /WP=CE12824 /TR=O17297 /GB=AAB71059.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061791(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061791 NCBI Caenorhabditis elegans R52.1 (R52.1) mRNA, complete cds. 11/11 None
SNAP00000005073 ENSEMBL cdna:SNAP chromosome:CEL140:II:2131319:2132262:1 11/11 None
GENEFINDER00000005086 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2131522:2133227:1 9/11 None
R52.1 ENSEMBL cdna:known chromosome:CEL140:II:2131081:2132400:1 gene:R52.1 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
chrII:2131084-2132261(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sdz-28
Ensembl R52.1
Entrez Gene 173569 Entrez gene
SwissProt O17297 EMBL-EBI
WormBase CE12824 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5515 protein binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB71059 Hypothetical protein R52.1 [Caenorhabditis elegans] ref|NP_494192.1| R52.1 [Caenorhabditis elegans] 1.0E-172
blast AAB71059 Hypothetical protein R52.1 [Caenorhabditis elegans] ref|NP_494192.1| R52.1 [Caenorhabditis elegans] 1.0E-134
blast H88066 protein R52.10 [imported] - Caenorhabditis elegans 1.0E-110
blast AAK72052 Hypothetical protein R52.10a [Caenorhabditis elegans] ref|NP_001022285.1| R52.10 [Caenorhabditis elegans] 2.0E-86
blast AAB71059 Hypothetical protein R52.1 [Caenorhabditis elegans] ref|NP_494192.1| R52.1 [Caenorhabditis elegans] 3.0E-85
blast H88066 protein R52.10 [imported] - Caenorhabditis elegans 2.0E-84
blast AAK72052 Hypothetical protein R52.10a [Caenorhabditis elegans] ref|NP_001022285.1| R52.10 [Caenorhabditis elegans] 3.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR002083 EMBL-EBI MATH 6.0E-21
Pfam IPR000210 EMBL-EBI BTB/POZ domain 1.5E-36
Pfam IPR000210 EMBL-EBI BTB/POZ domain 1.5E-36
Pfam IPR002083 EMBL-EBI MATH 1.6E-43
Pfam IPR000210 EMBL-EBI BTB/POZ domain 1.5E-36
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000005086 1 267-289
Sequence
Target Sequence 
>C. ELEGANS:177316_AT
ctcccactcaacatacttcaatgctcttcttctcgggaagcctgagatgtcagaagtcac
aatccaagacaccagttcagtcgatttccagaaccttctcgaggttctgtacggagaacc
tgcaattgatgaggacacaatcgatggaattcttaccttggctcacaagttcaccatgcc
gcttccgattcaaaaatgcgaagagtttttgatcgaaaaatctgagaaatcagtaaagga
gaaactcaaactggttaagaaatatcagctgaagagtttaaagacgcattgcctctcaaa
aatcaatacaccctacggaatcaacgcattgatgccatttgatcataatgacatggatcc
agaagtagttatggctcttcttaaaaaatcattggccactgatgagttttatttagattg
tattatgcgcttcacggtaatttgtttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTCCCACTCAACATACTTCAATGCT 594 233 516 Antisense
TCTTCTTCTCGGGAAGCCTGAGATG 15 615 540 Antisense
GAAGTCACAATCCAAGACACCAGTT 43 335 568 Antisense
GACACCAGTTCAGTCGATTTCCAGA 372 367 583 Antisense
TCGATTTCCAGAACCTTCTCGAGGT 184 603 596 Antisense
GGACACAATCGATGGAATTCTTACC 246 527 648 Antisense
GTTTAAAGACGCATTGCCTCTCAAA 102 449 791 Antisense
TACACCCTACGGAATCAACGCATTG 671 637 822 Antisense
AACGCATTGATGCCATTTGATCATA 34 145 838 Antisense
TAGATTGTATTATGCGCTTCACGGT 356 653 929 Antisense
TATGCGCTTCACGGTAATTTGTTTG 308 657 939 Antisense
Sequence Source Affymetrix Proprietary Database