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[186788_s_at]

Description R07B1.9 /REP_DB=WormBase Gene ID /WP=CE01635 /TR=SW:Q09609 /GB=CAA88546.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 01      4grp_total > 50      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 446
1 2 3 4 range
A 93.9
(-3)
A 		485.4
(3)
P 		345.9
(0.9)
P 		119
(-2.6)
A 		392
B 117.1
(-2)
A 		457
(3)
P 		390.3
(2)
P 		46.8
(-3)
A 		410
C 130
(-2.4)
A 		493.1
(3)
P 		356.7
(1)
P 		91.6
(-3)
A 		402
avr 113.7
(-2.6) 		478.5
(3) 		364.3
(1.3) 		85.8
(-3) 		393

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 261
1 2 3 4 5 6 range
A 205.4
(-1)
A 		379.4
(3)
P 		118.1
(-3)
A 		150.6
(-2.3)
A 		209.1
(-0.9)
A 		156.1
(-2.1)
A 		261
B 211.4
(-1.7)
P 		355
(3)
P 		185.4
(-2.6)
A 		225.4
(-1.3)
A 		212.4
(-1.7)
P 		173.4
(-3)
A 		182
C 224
(-0.7)
P 		376.7
(3)
P 		203.2
(-1.2)
A 		141.8
(-2.6)
A 		246.9
(-0.1)
P 		127.2
(-3)
M 		250
avr 213.6
(-1.3) 		370.4
(3) 		168.9
(-2.5) 		172.6
(-2.4) 		222.8
(-1.1) 		152.2
(-3) 		218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 34.2
(-1.9)
A 		105.4
(3)
P 		90.4
(2)
P 		17.4
(-3)
A 		88
B 37.3
(-1.4)
A 		112.9
(3)
P 		90.4
(1.7)
P 		10
(-3)
A 		103
C 43
(-1.7)
A 		141.8
(3)
P 		124.3
(2.2)
P 		15.4
(-3)
A 		126
avr 38.2
(-1.6) 		120
(3) 		101.7
(2) 		14.3
(-3) 		106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 37.9
(-2.3)
A 		134.9
(3)
P 		25.7
(-3)
A 		38.2
(-2.3)
A 		63.1
(-0.9)
A 		38
(-2.3)
A 		109
B 73.6
(-0.7)
P 		118.2
(3)
P 		45
(-3)
A 		59.7
(-1.8)
A 		86.3
(0.4)
P 		64.6
(-1.4)
A 		73
C 83
(0.8)
P 		114.9
(3)
P 		51.7
(-1.4)
A 		28.5
(-3)
A 		79.9
(0.6)
P 		42.6
(-2)
M 		86
avr 64.8
(-1.2) 		122.7
(3) 		40.8
(-3) 		42.1
(-2.9) 		76.4
(-0.4) 		48.4
(-2.4) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186788_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16360
Sequence Type Exemplar sequence
Representative Public ID R07B1.9 NCBI
Target Description R07B1.9 /REP_DB=WormBase Gene ID /WP=CE01635 /TR=SW:Q09609 /GB=CAA88546.1 /SUBMIT=HINXTON /CHR=X /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_077256(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077256 NCBI Caenorhabditis elegans R07B1.9 (R07B1.9) mRNA, complete cds. 11/11 None
SNAP00000020697 ENSEMBL cdna:SNAP chromosome:CEL140:X:9877410:9880980:1 11/11 None
GENEFINDER00000020708 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:9877410:9880980:1 11/11 None
R07B1.9 ENSEMBL cdna:known chromosome:CEL140:X:9877405:9881364:1 gene:R07B1.9 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
chrX:9877409-9880980(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R07B1.9
Entrez Gene 181201 Entrez gene
SwissProt Q09609 EMBL-EBI
WormBase CE01635 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA88546 Hypothetical protein R07B1.9 [Caenorhabditis elegans] ref|NP_509657.1| R07B1.9 [Caenorhabditis elegans] sp|Q09609|YRN9_CAEEL Hypothetical protein R07B1.9 in chromosome X 0.0
blast CAE58728 Hypothetical protein CBG01914 [Caenorhabditis briggsae] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509657.1 15 13-31,46-65,77-99,125-142,144-166,181-203,311-333,353-375,388-410,414-436,456-478,498-520,541-563,568-590,611-633
R07B1.9 15 13-31,46-65,77-99,125-142,144-166,181-203,311-333,353-375,388-410,414-436,456-478,498-520,541-563,568-590,611-633
SNAP00000020697 15 13-31,46-65,77-99,144-166,187-209,224-243,316-338,358-380,393-415,419-441,461-483,503-525,546-568,573-595,616-638
GENEFINDER00000020708 15 13-31,46-65,77-99,125-142,144-166,181-203,311-333,353-375,388-410,414-436,456-478,498-520,541-563,568-590,611-633
Sequence
Target Sequence 
>C. ELEGANS:186788_S_AT
tcattgcttcgatatctttgttcacggtatcttcggcaattaccaatgtttactatttgc
aacggtacttgcaagcatctgaccttttgccgacgactgaaacacagcaaacaatctatc
aggttgctatcattctcgccgccggtgcagctctcgcgtgtgtcatctgcactgtttgcg
caatcatttgctcgctaagatcctcttacattctccatcatcggtctacctcaccagata
gcaccgttgtcgctccgcttggagaagagcagtttggaagcggaactttgagagttggaa
cacatatgaggacaccttcacgacccttccacccacaacaaagcccggccggaggaggcg
ttcagccaatggaagagcaatcagtttactggagtgctgacgaaaatccattttattatc
atacttcgaaacgattttatggaaaaccttatcaaattgagtctggattttatggatatg
cgctagctggaagtggaagtgggcagcctggtcaaagccccgcaaatgttggagatgatc
caaatagaatggtacaatcatcggcgtcaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATTGCTTCGATATCTTTGTTCAC 326 619 1724 Antisense
CTTTGTTCACGGTATCTTCGGCAAT 368 223 1739 Antisense
TGCAAGCATCTGACCTTTTGCCGAC 642 575 1793 Antisense
CTATCAGGTTGCTATCATTCTCGCC 16 225 1839 Antisense
TGTGTCATCTGCACTGTTTGCGCAA 490 555 1882 Antisense
TCTTACATTCTCCATCATCGGTCTA 73 617 1927 Antisense
CGGTCTACCTCACCAGATAGCACCG 97 245 1945 Antisense
ACATATGAGGACACCTTCACGACCC 658 103 2025 Antisense
GGAAGTGGGCAGCCTGGTCAAAGCC 571 531 2218 Antisense
GGTCAAAGCCCCGCAAATGTTGGAG 244 437 2233 Antisense
GAATGGTACAATCATCGGCGTCACA 54 333 2270 Antisense
Sequence Source Affymetrix Proprietary Database