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[175632_at]

Description g4336898 /REP_DB=GenBank Identifier /GB=AF111934.1 /PROTEIN_GB=AAD18003.1 /CHR=X /FEA=Mapped Transcript /DEF=SDC-2
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 26      4grp_highest_8_8 > 52      4grp_high_8_8 > 16      6grp_highest_nonorm > 80      6grp_total > 26      4grp_total > 39      6grp_highest_sub > Cu      6grp_cgc > 14      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 435
1 2 3 4 range
A 512.1
(3)
P 		178.7
(-3)
P 		236.7
(-2)
P 		219.1
(-2.3)
P 		333
B 601.3
(3)
P 		166.5
(-3)
P 		189.2
(-2.7)
P 		406.5
(0.3)
P 		435
C 487.7
(3)
P 		199
(-3)
P 		202.9
(-2.9)
P 		280
(-1.3)
P 		289
avr 533.7
(3) 		181.4
(-3) 		209.6
(-2.5) 		301.9
(-0.9) 		352

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 380
1 2 3 4 5 6 range
A 200.8
(-1.4)
P 		357.8
(3)
P 		142.4
(-3)
P 		188.4
(-1.7)
P 		197.8
(-1.5)
P 		202.6
(-1.3)
P 		215
B 467.2
(3)
P 		268.5
(-0.7)
P 		177.4
(-2.4)
P 		151.9
(-2.9)
P 		145.4
(-3)
P 		203.4
(-1.9)
P 		322
C 317.5
(3)
P 		300.5
(2.6)
P 		144.3
(-1.5)
P 		87.7
(-3)
P 		141.2
(-1.6)
P 		191.4
(-0.3)
P 		230
avr 328.5
(3) 		308.9
(2.4) 		154.7
(-2.6) 		142.7
(-3) 		161.5
(-2.4) 		199.1
(-1.2) 		186
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 186.5
(3)
P 		38.8
(-2.7)
P 		61.9
(-1.8)
P 		32.1
(-3)
P 		154
B 191.8
(3)
P 		41.1
(-3)
P 		43.8
(-2.9)
P 		86.6
(-1.2)
P 		151
C 161.4
(3)
P 		57.2
(-2.5)
P 		70.7
(-1.8)
P 		47.2
(-3)
P 		114
avr 179.9
(3) 		45.7
(-3) 		58.8
(-2.4) 		55.3
(-2.6) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 37
(-2.6)
P 		127.2
(3)
P 		31
(-3)
P 		47.8
(-2)
P 		59.7
(-1.2)
P 		49.3
(-1.9)
P 		96
B 162.6
(3)
P 		89.4
(-0.6)
P 		43.1
(-2.9)
P 		40.2
(-3)
P 		59.1
(-2.1)
P 		75.8
(-1.3)
P 		122
C 117.7
(3)
P 		91.7
(1.4)
P 		36.7
(-1.9)
P 		17.6
(-3)
P 		45.7
(-1.3)
P 		64.1
(-0.2)
P 		100
avr 105.8
(3) 		102.8
(2.7) 		36.9
(-2.9) 		35.2
(-3) 		54.8
(-1.3) 		63.1
(-0.6) 		71
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175632_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19965
Sequence Type Exemplar sequence
Representative Public ID 4336898 NCBI
Target Description g4336898 /REP_DB=GenBank Identifier /GB=AF111934.1 /PROTEIN_GB=AAD18003.1 /CHR=X /FEA=Mapped Transcript /DEF=SDC-2
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_077523(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077523 NCBI Caenorhabditis elegans Sex determination and Dosage Compensation defect family member (sdc-2) (sdc-2) mRNA, complete cds. 11/11 A 
C35C5.1.1 ENSEMBL cdna:known chromosome:CEL140:X:11522634:11533371:1 gene:C35C5.1 11/11 None
C35C5.1.2 ENSEMBL cdna:known chromosome:CEL140:X:11522660:11533514:1 gene:C35C5.1 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
chrX:11522633-11533371(+) 99.73 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sdc-2
Ensembl C35C5.1
Entrez Gene 181341 Entrez gene
SwissProt Q93326 EMBL-EBI
WormBase CE18542 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
228 nuclear chromosome inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01756 Hypothetical protein C35C5.1 [Caenorhabditis elegans] emb|CAB01693.1| Hypothetical protein C35C5.1 [Caenorhabditis elegans] ref|NP_509924.1| Sex determination and Dosage Compensation defect family member (sdc-2) [Caenorhabditis elegans] gb|AAD18003.1| SDC-2 [Caenorhabditis elegans] 0.0
blast CAE70623 Hypothetical protein CBG17307 [Caenorhabditis briggsae] 1.0E-159
blast CAE72719 Hypothetical protein CBG19956 [Caenorhabditis briggsae] 1.0E-14
Sequence
Target Sequence 
>C. ELEGANS:175632_AT
acgaattgtgttctatacgtgtatttactcgcaatctcaaatcactggcattattttaca
cttctttctaaattttgagtacaccatactctcatattcccagtttagtaatttcgatac
tactttgataattatatcaaaaaatttctttcatattaattttttttgctcaagctcggt
tttattaaattgtaaattttacttgtaattcatgtatctatttatttgttgttcgttgtt
ttcaaacactctccatgcattttttcttgtta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGAATTGTGTTCTATACGTGTATT 524 91 8935 Antisense
ATACGTGTATTTACTCGCAATCTCA 379 23 8949 Antisense
TTACTCGCAATCTCAAATCACTGGC 385 683 8959 Antisense
TGGCATTATTTTACACTTCTTTCTA 452 545 8980 Antisense
GAGTACACCATACTCTCATATTCCC 559 399 9011 Antisense
CATACTCTCATATTCCCAGTTTAGT 496 213 9019 Antisense
GTAATTTCGATACTACTTTGATAAT 65 461 9042 Antisense
TTGCTCAAGCTCGGTTTTATTAAAT 288 679 9100 Antisense
GTATCTATTTATTTGTTGTTCGTTG 169 455 9148 Antisense
GTTGTTTTCAAACACTCTCCATGCA 408 437 9169 Antisense
ACTCTCCATGCATTTTTTCTTGTTA 177 101 9182 Antisense
Sequence Source GenBank