[Home] | [Total List]

[187924_s_at]

Description F32B6.5 /REP_DB=WormBase Gene ID /WP=CE09860 /GEN=sss-1 /TR=Q9XVP7 /GB=CAB03036.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 98      4grp_total > 10      6grp_cgc > 69      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 1.4
(-3)
A 		1.7
(-2.9)
A 		1.2
(-3)
A 		27.2
(3)
A 		26
B 1.5
(-3)
A 		1.9
(-1)
A 		2.7
(3)
A 		2
(-0.5)
A 		1
C 2.4
(-2.5)
A 		5.9
(3)
A 		2.1
(-3)
A 		5.1
(1.7)
A 		4
avr 1.8
(-3) 		3.2
(-2.1) 		2
(-2.9) 		11.4
(3) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 225
1 2 3 4 5 6 range
A 2.4
(-3)
A 		3.1
(-3)
A 		6.7
(-2.9)
A 		4
(-3)
A 		98.9
(-0.1)
P 		203.5
(3)
P 		201
B 4.8
(-2.9)
A 		2.4
(-3)
A 		3.9
(-3)
A 		7.8
(-2.9)
A 		182.9
(1.8)
P 		226.4
(3)
P 		224
C 1.2
(-3)
A 		3
(-2.9)
A 		2
(-3)
A 		6.9
(-2.8)
A 		139.1
(1.2)
P 		200.1
(3)
P 		199
avr 2.8
(-3) 		2.8
(-3) 		4.2
(-3) 		6.2
(-2.9) 		140.3
(1) 		210
(3) 		207
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 0.5
(-2.7)
A 		0.4
(-2.8)
A 		0.3
(-3)
A 		4
(3)
A 		4
B 0.5
(0)
A 		0.5
(0)
A 		0.6
(3)
A 		0.4
(-3)
A 		0
C 0.8
(-2.4)
A 		1.7
(3)
A 		0.7
(-3)
A 		0.9
(-1.8)
A 		1
avr 0.6
(-2.5) 		0.9
(-1.2) 		0.5
(-3) 		1.8
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 0.4
(-3)
A 		1.1
(-2.9)
A 		1.5
(-2.9)
A 		1
(-2.9)
A 		29.9
(0.6)
P 		49.5
(3)
P 		49
B 1.7
(-2.9)
A 		0.8
(-3)
A 		0.9
(-3)
A 		2.1
(-2.9)
A 		74.3
(2.3)
P 		84.4
(3)
P 		84
C 0.4
(-3)
A 		0.9
(-3)
A 		0.5
(-3)
A 		1.4
(-2.9)
A 		45
(1)
P 		67
(3)
P 		67
avr 0.8
(-3) 		0.9
(-3) 		1
(-3) 		1.5
(-2.9) 		49.7
(1.4) 		67
(3) 		66
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187924_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9808
Sequence Type Exemplar sequence
Representative Public ID F32B6.5 NCBI
Target Description F32B6.5 /REP_DB=WormBase Gene ID /WP=CE09860 /GEN=sss-1 /TR=Q9XVP7 /GB=CAB03036.1 /SUBMIT=HINXTON /CHR=4 /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_069379(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069379 NCBI Caenorhabditis elegans Sperm-Specific family, class S family member (sss-1) (sss-1) mRNA, complete cds. 11/11 A 
SNAP00000041532 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9892741:9893669:-1 11/11 None
GENEFINDER00000041540 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9892741:9893669:-1 11/11 None
F32B6.5 ENSEMBL cdna:known chromosome:CEL140:IV:9892713:9893669:-1 gene:F32B6.5 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043474 2/11 Cross Hyb Matching Probes None
GENEFINDER00000043491 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:9768036-9768964(+) 96.42 96.42
chrIV:9892746-9893675(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sss-1
Ensembl F32B6.5
Entrez Gene 177843 Entrez gene
SwissProt Q9XVP7 EMBL-EBI
WormBase CE09860 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03036 Hypothetical protein F32B6.5 [Caenorhabditis elegans] ref|NP_501780.1| Sperm-Specific family, class S family member (sss-1) [Caenorhabditis elegans] 1.0E-134
blast CAB03360 Hypothetical protein T13F2.9 [Caenorhabditis elegans] ref|NP_501741.1| T13F2.9 [Caenorhabditis elegans] 1.0E-100
blast CAB01199 Hypothetical protein F47B8.11 [Caenorhabditis elegans] ref|NP_506557.1| Sperm-Specific family, class S family member (sss-2) [Caenorhabditis elegans] 8.0E-66
Sequence
Target Sequence 
>C. ELEGANS:187924_S_AT
attggctctccaagcagatcaactgattgaggtgaccgtctccccagtcccaacaactac
agaatcaaaaaagatcaatgaggctgcggagcttatggccaatttctggatgagctttaa
ttgccttgataacgagaaagaacagatggaatcgatttttgagaagatgaatggattgtt
tgctgcaccctccacaacatctacggcatcacttttcgggaagtacgagggattttttga
gaaaacggaggttgctacggaagatatgaacacgtttttgtggaattctccagctcatcc
atctttcccacaacttccagttttcgtcaaatctccaatcgactcgatgaaaatatatgg
agcagttaatcataaattcgatatttctgaagatgaatcactcccatgcacg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGGCTCTCCAAGCAGATCAACTG 438 3 228 Antisense
CAACTGATTGAGGTGACCGTCTCCC 173 187 247 Antisense
GATCAATGAGGCTGCGGAGCTTATG 200 421 300 Antisense
GCTGCGGAGCTTATGGCCAATTTCT 334 297 310 Antisense
GAGCTTATGGCCAATTTCTGGATGA 208 389 316 Antisense
TTCTGGATGAGCTTTAATTGCCTTG 389 693 331 Antisense
GAGCTTTAATTGCCTTGATAACGAG 584 387 339 Antisense
GAACAGATGGAATCGATTTTTGAGA 181 351 367 Antisense
GTTGCTACGGAAGATATGAACACGT 119 439 478 Antisense
GAACACGTTTTTGTGGAATTCTCCA 105 341 495 Antisense
TGAAGATGAATCACTCCCATGCACG 337 575 615 Antisense
Sequence Source Affymetrix Proprietary Database