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[193028_s_at] EGF-like domain (2 domains)

Description C17D12.6 /REP_DB=WormBase Gene ID /WP=CE27074 /GEN=spe-9 /TR=Q9TVY6 /GB=CAB61013.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=EGF-like domain (2 domains)
Cluster 6grp_total > 57      4grp_total > 31      6grp_cgc > 37      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 30.8
(1)
A 		4.8
(-3)
A 		43.6
(3)
A 		29.1
(0.8)
A 		39
B 67.3
(3)
A 		52.3
(0.1)
A 		36.7
(-3)
A 		39.9
(-2.4)
A 		31
C 45.5
(1.1)
A 		48.7
(1.8)
A 		27.6
(-3)
A 		54
(3)
A 		26
avr 47.9
(3) 		35.3
(-3) 		36
(-2.7) 		41
(-0.3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 54.6
(0)
A 		40
(-2.2)
A 		44.6
(-1.5)
A 		36.3
(-2.8)
A 		34.9
(-3)
A 		74.1
(3)
A 		39
B 39.4
(0.1)
A 		45.5
(0.7)
A 		8.5
(-3)
A 		68.2
(3)
A 		33.7
(-0.5)
A 		54.3
(1.6)
A 		60
C 34.4
(-0.9)
A 		49.3
(1)
A 		64.7
(3)
A 		18.5
(-3)
A 		42.4
(0.1)
A 		58.5
(2.2)
A 		46
avr 42.8
(-1.6) 		44.9
(-1.1) 		39.3
(-2.5) 		41
(-2.1) 		37
(-3) 		62.3
(3) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 11.2
(2.9)
A 		1
(-3)
A 		11.4
(3)
A 		4.3
(-1.1)
A 		10
B 21.5
(3)
A 		12.9
(-1)
A 		8.5
(-3)
A 		8.5
(-3)
A 		13
C 15.1
(3)
A 		14
(1.9)
A 		9.6
(-2.5)
A 		9.1
(-3)
A 		6
avr 15.9
(3) 		9.3
(-1.6) 		9.8
(-1.3) 		7.3
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 10.1
(-2.4)
A 		14.2
(0.4)
A 		9.7
(-2.7)
A 		9.2
(-3)
A 		10.5
(-2.1)
A 		18
(3)
A 		9
B 13.7
(0.8)
A 		15.1
(1.3)
A 		2.1
(-3)
A 		18.1
(2.3)
A 		13.7
(0.8)
A 		20.3
(3)
A 		18
C 12.8
(0.4)
A 		15
(1.3)
A 		16.5
(1.8)
A 		3.7
(-3)
A 		13.7
(0.8)
A 		19.6
(3)
A 		16
avr 12.2
(-1.3) 		14.8
(0.3) 		9.4
(-3) 		10.3
(-2.5) 		12.6
(-1.1) 		19.3
(3) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193028_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1103
Sequence Type Exemplar sequence
Representative Public ID C17D12.6 NCBI
Target Description C17D12.6 /REP_DB=WormBase Gene ID /WP=CE27074 /GEN=spe-9 /TR=Q9TVY6 /GB=CAB61013.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=EGF-like domain (2 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_060554(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060554 NCBI Caenorhabditis elegans defective SPErmatogenesis family member (spe-9) (spe-9) mRNA, complete cds. 11/11 None
SNAP00000011110 ENSEMBL cdna:SNAP chromosome:CEL140:I:11590962:11594169:-1 10/11 None
GENEFINDER00000011122 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11591089:11594169:-1 9/11 None
C17D12.6 ENSEMBL cdna:known chromosome:CEL140:I:11590867:11594169:-1 gene:C17D12.6 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
chrI:11590811-11594100(-) 100.0 100.0
Public Domain and Genome References
Gene Title EGF-like domain (2 domains)
Gene Symbol spe-9
Ensembl C17D12.6
Entrez Gene 173042 Entrez gene
SwissProt Q9TVY6 EMBL-EBI
WormBase CE27074 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5886 plasma membrane inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5509 calcium ion binding inferred from electronic annotation QuickGO AmiGO
5102 receptor binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB61013 Hypothetical protein C17D12.6 [Caenorhabditis elegans] emb|CAB60992.2| Hypothetical protein C17D12.6 [Caenorhabditis elegans] ref|NP_492955.1| defective SPErmatogenesis family member (spe-9) [Caenorhabditis elegans] gb|AAC38980.1| sperm transmembrane protein [Caenorhabditis elegans] 0.0
blast AAM49751 SPE-9 [Caenorhabditis elegans] gb|AAM49749.1| SPE-9 [Caenorhabditis elegans] gb|AAM49748.1| SPE-9 [Caenorhabditis elegans] gb|AAM49746.1| SPE-9 [Caenorhabditis elegans] gb|AAM49744.1| SPE-9 [Caenorhabditis elegans] gb|AAM49741.1| SPE-9 [Caenorhabditis elegans] gb|AAM49739.1| SPE-9 [Caenorhabditis elegans] 0.0
blast AAM49753 SPE-9 [Caenorhabditis elegans] gb|AAM49740.1| SPE-9 [Caenorhabditis elegans] 0.0
blast AAM49752 SPE-9 [Caenorhabditis elegans] 0.0
blast T19346 hypothetical protein C17D12.6 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006209 EMBL-EBI EGF-like domain 1.4E-7
Pfam IPR006209 EMBL-EBI EGF-like domain 3.6E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 3.1E-4
Pfam IPR006209 EMBL-EBI EGF-like domain 3.1E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492955.1 1 619-641
C17D12.6 1 619-641
Sequence
Target Sequence 
>C. ELEGANS:193028_S_AT
cggagcctgtggcaacggacggtgtgttccttgtgagagcgatgccgatgacctgatgcc
tctctgtaacgacaatgacaatcgccagggattccgatgcctctgcgaagccgggtacct
tccaccgttttgcaaagtccatacaaacccctgctaccaaaacctgtgccagaacagtgc
cacatgccatatcgacccaaagcagcggagttatgactgtcaatgcgtcaatgggacacg
tggctcgttgtgtgagaatgtggatgactcgtgtgatgcgtttggaaacaaaatctgcgt
ccatggaacctgtatcaatgatgagtactttcaccggggcttctcgtgtgagtgtgacga
cggatttgagggtctcgactgcaacgtggaaatcgcctggtccagtgtgatgaccaatcg
gcttatgaagaactatgaattttcgttgccactggttgcgtgcttcgtctcgctggctat
tcttctgccagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGAGCCTGTGGCAACGGACGGTGT 537 241 1476 Antisense
GACGGTGTGTTCCTTGTGAGAGCGA 69 377 1493 Antisense
GTGAGAGCGATGCCGATGACCTGAT 607 481 1508 Antisense
GATGCCTCTCTGTAACGACAATGAC 298 415 1530 Antisense
GACAATCGCCAGGGATTCCGATGCC 704 363 1552 Antisense
TTCCACCGTTTTGCAAAGTCCATAC 413 691 1595 Antisense
AGAACAGTGCCACATGCCATATCGA 230 73 1646 Antisense
AATCTGCGTCCATGGAACCTGTATC 221 169 1767 Antisense
TGAGGGTCTCGACTGCAACGTGGAA 601 567 1842 Antisense
GAATTTTCGTTGCCACTGGTTGCGT 633 323 1912 Antisense
TCTCGCTGGCTATTCTTCTGCCAGT 353 611 1943 Antisense
Sequence Source Affymetrix Proprietary Database