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[186486_at]

Description Y116A8C.14 /REP_DB=WormBase Gene ID /WP=CE24148 /TR=Q9U2S3 /GB=CAB55154.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 05      4grp_total > 28      6grp_cgc > 32      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 65.9
(3)
A 		51.3
(-1.6)
A 		46.9
(-3)
A 		50.2
(-2)
A 		19
B 41.4
(-0.3)
A 		74
(3)
P 		43.6
(-0.1)
A 		15.4
(-3)
A 		59
C 68.2
(-0.5)
A 		65.5
(-0.7)
A 		9.5
(-3)
A 		153.1
(3)
P 		144
avr 58.5
(0.8) 		63.6
(1.6) 		33.3
(-3) 		72.9
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 94.7
(3)
P 		92.4
(2.8)
P 		89.5
(2.6)
M 		32.7
(-1.4)
A 		34.6
(-1.2)
A 		9.8
(-3)
A 		85
B 84.5
(3)
P 		59.7
(1)
A 		39.9
(-0.7)
A 		11.2
(-3)
A 		37.6
(-0.8)
A 		27.1
(-1.7)
A 		73
C 74
(3)
A 		55.8
(1.4)
P 		15.5
(-2.1)
A 		26.6
(-1.1)
A 		26
(-1.2)
A 		5
(-3)
A 		69
avr 84.4
(3) 		69.3
(1.7) 		48.3
(-0.1) 		23.5
(-2.2) 		32.7
(-1.4) 		14
(-3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 24
(3)
A 		11.1
(-1.7)
A 		12.3
(-1.2)
A 		7.4
(-3)
A 		17
B 13.2
(1)
A 		18.3
(3)
P 		10.1
(-0.3)
A 		3.3
(-3)
A 		15
C 22.6
(2.1)
A 		18.8
(1.1)
A 		3.3
(-3)
A 		25.8
(3)
P 		23
avr 19.9
(3) 		16.1
(1) 		8.6
(-3) 		12.2
(-1.1) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 17.5
(-0)
P 		32.9
(3)
P 		19.5
(0.4)
M 		8.3
(-1.8)
A 		10.4
(-1.4)
A 		2.4
(-3)
A 		31
B 29.4
(3)
P 		19.9
(0.8)
A 		9.7
(-1.5)
A 		3
(-3)
A 		15.3
(-0.2)
A 		10.1
(-1.4)
A 		26
C 27.4
(3)
A 		17
(0.6)
P 		4
(-2.5)
A 		5.4
(-2.1)
A 		8.4
(-1.4)
A 		1.7
(-3)
A 		26
avr 24.8
(3) 		23.3
(2.6) 		11.1
(-1.1) 		5.6
(-2.7) 		11.4
(-1) 		4.7
(-3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186486_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8638
Sequence Type Exemplar sequence
Representative Public ID Y116A8C.14 NCBI
Target Description Y116A8C.14 /REP_DB=WormBase Gene ID /WP=CE24148 /TR=Q9U2S3 /GB=CAB55154.1 /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_070612(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070612 NCBI Caenorhabditis elegans RhOMboid (Drosophila) related family member (rom-3) (rom-3) mRNA, complete cds. 11/11 None
Y116A8C.14 ENSEMBL cdna:known chromosome:CEL140:IV:16965241:16969110:-1 gene:Y116A8C.14 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000004079 7/11 Cross Hyb Matching Probes None
GENEFINDER00000004190 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:16965246-16969116(-) 98.08 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rom-3
Ensembl Y116A8C.14
Entrez Gene 191000 Entrez gene
SwissProt Q9U2S3 EMBL-EBI
WormBase CE24148 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB55154 Hypothetical protein Y116A8C.14 [Caenorhabditis elegans] ref|NP_503013.1| RhOMboid (Drosophila) related family member (rom-3) [Caenorhabditis elegans] 0.0
blast CAB55122 Hypothetical protein Y116A8C.16 [Caenorhabditis elegans] ref|NP_503016.1| RhOMboid (Drosophila) related family member (rom-4) [Caenorhabditis elegans] 0.0
blast CAE57390 Hypothetical protein CBG00339 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002610 EMBL-EBI Peptidase S54, rhomboid-like protein 4.4E-47
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503013.1 7 317-339,550-567,582-604,617-639,673-690,697-714,796-818
Y116A8C.14 7 317-339,550-567,582-604,617-639,673-690,697-714,796-818
Sequence
Target Sequence 
>C. ELEGANS:186486_AT
ttttctcctcggttgttgtcgaactttggcattttagacatcttctagatccattcgagt
tgaaattccagtcgatagcccatttaatcgtgacactactcgtcttatgcatcggtttga
ttccatggatcgacaactggtcgcacctttttggaacaatttttgggttgataacttcta
taatagtctacccatatatggatttcggggataaggattacgaccctcttcttcagtaca
tttcaagtaccgtacctaaatcacccctggtccaacgtggctcaatgagcacaataataa
atatcgcggacatgaggactgctcagggatacggtcaatgggcaaatgcattcccttatc
gtggagatcaaggcaggacgcctgtattcacggctcaagtgatctggaaatttctacgca
aaaaattcaacaataagcgatcgttctacgtgttcatctcggcaattgtgttctccatct
tgctctccatcctactcgtggttttctttggaaatgtgaaaatcgactgtccatggtgca
ctcatttcaattgtctacccgtatttcagtgccataat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTCTCCTCGGTTGTTGTCGAACT 246 677 1955 Antisense
AGCCCATTTAATCGTGACACTACTC 396 83 2031 Antisense
ACACTACTCGTCTTATGCATCGGTT 176 107 2047 Antisense
CAACTGGTCGCACCTTTTTGGAACA 560 187 2088 Antisense
ATAAGGATTACGACCCTCTTCTTCA 667 23 2165 Antisense
GGCAAATGCATTCCCTTATCGTGGA 308 535 2295 Antisense
AGCGATCGTTCTACGTGTTCATCTC 624 81 2390 Antisense
GTTCATCTCGGCAATTGTGTTCTCC 235 445 2406 Antisense
TCCATCCTACTCGTGGTTTTCTTTG 11 591 2440 Antisense
AAAATCGACTGTCCATGGTGCACTC 459 133 2473 Antisense
TCTACCCGTATTTCAGTGCCATAAT 31 615 2508 Antisense
Sequence Source Affymetrix Proprietary Database