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[188260_at]

Description C55C2.2 /REP_DB=WormBase Gene ID /WP=CE09025 /GEN=ssp-19 /TR=O01829 /GB=AAB54194.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 87      4grp_total > 0      6grp_cgc > 59      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 16.1
(0.9)
A 		3
(-3)
A 		23.1
(3)
A 		12.1
(-0.3)
A 		20
B 6.2
(-3)
A 		6.7
(-2.8)
A 		7.2
(-2.6)
A 		20
(3)
A 		14
C 3.9
(-3)
A 		8.8
(-1.9)
A 		6.1
(-2.5)
A 		29.5
(3)
A 		26
avr 8.7
(-2) 		6.2
(-3) 		12.1
(-0.5) 		20.5
(3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 141
1 2 3 4 5 6 range
A 18.4
(-2.4)
A 		4
(-3)
A 		35.5
(-1.7)
A 		14.9
(-2.5)
A 		75.8
(0.1)
M 		144.4
(3)
P 		140
B 6.2
(-3)
A 		22.8
(-2.3)
A 		18
(-2.5)
A 		30.5
(-1.9)
A 		81.2
(0.4)
A 		139.3
(3)
P 		133
C 3
(-3)
A 		12.3
(-2.6)
A 		4.6
(-2.9)
A 		37.2
(-1.4)
A 		60.6
(-0.2)
A 		128.3
(3)
P 		125
avr 9.2
(-3) 		13
(-2.8) 		19.4
(-2.5) 		27.5
(-2.1) 		72.5
(-0) 		137.3
(3) 		128
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 5.9
(2.9)
A 		0.7
(-3)
A 		6
(3)
A 		1.8
(-1.8)
A 		5
B 2
(-2.3)
A 		1.7
(-3)
A 		1.7
(-3)
A 		4.3
(3)
A 		3
C 1.3
(-3)
A 		2.5
(-1.1)
A 		2.1
(-1.7)
A 		5
(3)
A 		4
avr 3.1
(1.3) 		1.6
(-3) 		3.3
(1.9) 		3.7
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 3.4
(-2.6)
A 		1.4
(-3)
A 		7.7
(-1.9)
A 		3.8
(-2.6)
A 		22.9
(0.8)
M 		35.1
(3)
P 		34
B 2.2
(-3)
A 		7.6
(-2.3)
A 		4.4
(-2.7)
A 		8.1
(-2.3)
A 		33
(0.7)
A 		51.9
(3)
P 		50
C 1.1
(-3)
A 		3.7
(-2.6)
A 		1.2
(-3)
A 		7.5
(-2.1)
A 		19.6
(-0.3)
A 		42.9
(3)
P 		42
avr 2.2
(-3) 		4.2
(-2.7) 		4.4
(-2.7) 		6.5
(-2.4) 		25.2
(0.4) 		43.3
(3) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188260_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.277
Sequence Type Exemplar sequence
Representative Public ID C55C2.2 NCBI
Target Description C55C2.2 /REP_DB=WormBase Gene ID /WP=CE09025 /GEN=ssp-19 /TR=O01829 /GB=AAB54194.1 /SUBMIT=ST.LOUIS /CHR=1 /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_058599(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058599 NCBI Caenorhabditis elegans Sperm-Specific family, class P family member (ssp-19) (ssp-19) mRNA, complete cds. 11/11 None
SNAP00000032493 ENSEMBL cdna:SNAP chromosome:CEL140:I:2562669:2562998:1 11/11 None
GENEFINDER00000032499 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2562669:2562998:1 11/11 None
C55C2.2 ENSEMBL cdna:known chromosome:CEL140:I:2562669:2562998:1 gene:C55C2.2 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:2562668-2562998(+) 100.0 100.0
chrIV:4999480-4999810(-) 91.52 91.52
chrIV:4994366-4994696(-) 91.52 91.52
Public Domain and Genome References
Gene Title
Gene Symbol ssp-19
Ensembl C55C2.2
Entrez Gene 171813 Entrez gene
SwissProt O01829 EMBL-EBI
WormBase CE09025 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB54194 Sperm-specific family, class p protein 19 [Caenorhabditis elegans] ref|NP_491000.1| Sperm-Specific family, class P family member (ssp-19) [Caenorhabditis elegans] pdb|1ROW|B Chain B, Structure Of Ssp-19, An Msp-Domain Protein Like Family Member In Caenorhabditis Elegans pdb|1ROW|A Chain A, Structure Of Ssp-19, An Msp-Domain Protein Like Family Member In Caenorhabditis Elegans 2.0E-42
blast CAA94274 Hypothetical protein K07F5.9 [Caenorhabditis elegans] ref|NP_501767.1| Sperm-Specific family, class P family member (ssp-10) [Caenorhabditis elegans] 3.0E-41
blast AAB04599 Sperm-specific family, class p protein 11 [Caenorhabditis elegans] ref|NP_500699.1| Sperm-Specific family, class P family member (ssp-11) [Caenorhabditis elegans] ref|NP_500697.1| Sperm-Specific family, class P family member (ssp-9) [Caenorhabditis elegans] gb|AAC47985.1| Sperm-specific family, class p protein 9 [Caenorhabditis elegans] 7.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR000535 EMBL-EBI Major sperm protein (MSP) domain 1.3E-35
Sequence
Target Sequence 
>C. ELEGANS:188260_AT
ggagccgagaagatcgtcttcaagatcaaatcatcgaacaacaacgagtaccgcattgca
ccggtgttcggatttgtcgacccatctggatcgaaggatgttgtgatcacccgtactgct
ggtgcaccgaaggaagacaagctggtcgttcactttgcatcagcgccagctgatgctact
gatgctcaagccgcttttgttgcagtggctccagctggaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCCGAGAAGATCGTCTTCAAGA 589 521 91 Antisense
AACAACGAGTACCGCATTGCACCGG 433 135 130 Antisense
AACGAGTACCGCATTGCACCGGTGT 304 143 133 Antisense
CGACCCATCTGGATCGAAGGATGTT 83 251 168 Antisense
TACTGCTGGTGCACCGAAGGAAGAC 352 643 204 Antisense
GGTGCACCGAAGGAAGACAAGCTGG 441 501 211 Antisense
AAGACAAGCTGGTCGTTCACTTTGC 425 153 224 Antisense
GCTGGTCGTTCACTTTGCATCAGCG 221 295 231 Antisense
TCACTTTGCATCAGCGCCAGCTGAT 451 625 240 Antisense
CTCAAGCCGCTTTTGTTGCAGTGGC 495 227 275 Antisense
TTGTTGCAGTGGCTCCAGCTGGAAC 696 703 287 Antisense
Sequence Source Affymetrix Proprietary Database