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[188182_at]

Description F54C1.9 /REP_DB=WormBase Gene ID /WP=CE23768 /GEN=sst-20 /TR=Q9TXJ7 /GB=AAK21397.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 87      4grp_total > 18      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 73
1 2 3 4 range
A 16.1
(-3)
A 		17.1
(-2.9)
A 		36
(-0.1)
A 		56.9
(3)
A 		41
B 13.9
(-3)
A 		56.7
(2.4)
A 		18.3
(-2.4)
A 		61.8
(3)
A 		48
C 38.2
(-0.9)
A 		53.5
(0.3)
A 		13.1
(-3)
A 		85.8
(3)
A 		73
avr 22.7
(-3) 		42.4
(-0.4) 		22.5
(-3) 		68.2
(3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 302
1 2 3 4 5 6 range
A 22.6
(-2.9)
A 		18.3
(-3)
A 		30.9
(-2.7)
A 		63.1
(-2.1)
A 		126
(-0.8)
P 		308.4
(3)
P 		290
B 6.7
(-3)
A 		11.9
(-2.9)
A 		24.6
(-2.6)
A 		42.9
(-2.1)
A 		168.8
(0.8)
P 		261.2
(3)
P 		255
C 9
(-3)
A 		13.3
(-2.9)
A 		18.9
(-2.8)
A 		50.5
(-2)
A 		139.1
(0.1)
P 		263.3
(3)
P 		254
avr 12.8
(-3) 		14.5
(-3) 		24.8
(-2.7) 		52.2
(-2.1) 		144.6
(-0) 		277.6
(3) 		265
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 5.9
(-0.7)
A 		3.7
(-3)
A 		9.4
(3)
A 		8.3
(1.8)
A 		6
B 4.4
(-2.9)
A 		14
(3)
A 		4.2
(-3)
A 		13.2
(2.5)
A 		10
C 12.7
(1.5)
A 		15.4
(3)
A 		4.6
(-3)
A 		14.5
(2.5)
A 		11
avr 7.7
(-1.4) 		11
(2) 		6.1
(-3) 		12
(3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 4.2
(-3)
A 		6.5
(-2.8)
A 		6.7
(-2.8)
A 		16
(-2)
A 		38
(-0.1)
P 		75.1
(3)
P 		71
B 2.3
(-3)
A 		3.9
(-2.9)
A 		6
(-2.8)
A 		11.4
(-2.4)
A 		68.6
(1.2)
P 		97.4
(3)
P 		95
C 3.3
(-3)
A 		4.1
(-2.9)
A 		4.8
(-2.9)
A 		10.1
(-2.5)
A 		45
(-0)
P 		88.1
(3)
P 		85
avr 3.3
(-3) 		4.8
(-2.9) 		5.8
(-2.8) 		12.5
(-2.3) 		50.5
(0.4) 		86.9
(3) 		84
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188182_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.550
Sequence Type Exemplar sequence
Representative Public ID F54C1.9 NCBI
Target Description F54C1.9 /REP_DB=WormBase Gene ID /WP=CE23768 /GEN=sst-20 /TR=Q9TXJ7 /GB=AAK21397.1 /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_059097(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059097 NCBI Caenorhabditis elegans Sperm Specific Transcript family member (sst-20) (sst-20) mRNA, complete cds. 11/11 None
SNAP00000015272 ENSEMBL cdna:SNAP chromosome:CEL140:I:5006834:5007919:1 11/11 None
GENEFINDER00000015283 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5006834:5007981:1 11/11 None
F54C1.9 ENSEMBL cdna:known chromosome:CEL140:I:5006746:5007991:1 gene:F54C1.9 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:5006833-5007919(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sst-20
Ensembl F54C1.9
Entrez Gene 172125 Entrez gene
SwissProt Q9TXJ7 EMBL-EBI
WormBase CE23768 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK21397 Sperm specific transcript protein 20 [Caenorhabditis elegans] ref|NP_491498.1| Sperm Specific Transcript family member (sst-20) [Caenorhabditis elegans] 3.0E-99
blast AAK21397 Sperm specific transcript protein 20 [Caenorhabditis elegans] ref|NP_491498.1| Sperm Specific Transcript family member (sst-20) [Caenorhabditis elegans] 6.0E-79
blast CAE65693 Hypothetical protein CBG10768 [Caenorhabditis briggsae] 8.0E-63
blast CAE65712 Hypothetical protein CBG10791 [Caenorhabditis briggsae] 1.0E-61
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491498.1 4 9-31,46-65,72-94,99-121
F54C1.9 4 9-31,46-65,72-94,99-121
SNAP00000015272 4 9-31,46-65,72-94,99-121
GENEFINDER00000015283 4 9-31,46-65,72-94,99-121
Sequence
Target Sequence 
>C. ELEGANS:188182_AT
gtgcgttgcgatcacaattctgacaaccgtcggaatctcatttgggtatccggtggcttc
tcattaccttatggctcttcttcaggcattggtggcaattccgggaattgtgtacattgt
gacacagacaaacatctgggtggcagtctacatcagcttccaagtggtaaccgccgcgtg
tgaagtctactggctcgtctacttgatcttcgacaatcaacccgctggatcttggatcgc
acttgcaattatcacagccgtcaacattttggcagctgttgtcggtgtgtggttccgcaa
aactgctttgaaccttccatgccttgataagaaaacgaaaaaggctggtgatgcgaagaa
ggagaagcccaaaatgaaggccccatcaacttcaatgagtgatattgagaaaagtaaatc
cagagctgcctccaaatccaactcgtcttcttccatcaaatcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGCGTTGCGATCACAATTCTGACA 524 479 84 Antisense
GACAACCGTCGGAATCTCATTTGGG 657 363 105 Antisense
TTACCTTATGGCTCTTCTTCAGGCA 443 681 147 Antisense
CTGGGTGGCAGTCTACATCAGCTTC 60 241 219 Antisense
TCAGCTTCCAAGTGGTAACCGCCGC 40 619 236 Antisense
GCCGCGTGTGAAGTCTACTGGCTCG 282 285 256 Antisense
GCTCGTCTACTTGATCTTCGACAAT 357 299 276 Antisense
CAAAACTGCTTTGAACCTTCCATGC 215 191 381 Antisense
AAGGCCCCATCAACTTCAATGAGTG 43 161 460 Antisense
GTAAATCCAGAGCTGCCTCCAAATC 479 461 497 Antisense
AACTCGTCTTCTTCCATCAAATCGA 570 141 523 Antisense
Sequence Source Affymetrix Proprietary Database