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[188429_at]

Description F54C1.2 /REP_DB=WormBase Gene ID /WP=CE11044 /GEN=dom-3 /TR=SW:Q10660 /GB=AAK21392.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 88      4grp_high_8_8 > 07      6grp_total > 98      4grp_total > 06      6grp_cgc > 69      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 90
1 2 3 4 range
A 168.8
(3)
P 		105.6
(-3)
P 		110.7
(-2.5)
M 		168.2
(2.9)
A 		63
B 139.1
(-0.8)
P 		110
(-3)
A 		152.2
(0.2)
P 		188.8
(3)
P 		79
C 178.7
(1.2)
A 		139.9
(-3)
P 		160.6
(-0.8)
P 		195.6
(3)
M 		56
avr 162.2
(1) 		118.5
(-3) 		141.2
(-0.9) 		184.2
(3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 200.3
(3)
A 		153.3
(-3)
P 		198
(2.7)
M 		180.5
(0.5)
P 		192
(1.9)
P 		188.8
(1.5)
P 		47
B 215.9
(-0.4)
P 		173.1
(-3)
M 		201.8
(-1.3)
P 		200.8
(-1.3)
M 		240.3
(1.1)
P 		272.3
(3)
P 		99
C 167.8
(-2.7)
P 		159.9
(-3)
A 		210.2
(-1.3)
P 		185
(-2.1)
P 		270.3
(0.8)
P 		336
(3)
P 		176
avr 194.7
(-1.1) 		162.1
(-3) 		203.3
(-0.6) 		188.8
(-1.5) 		234.2
(1.2) 		265.7
(3) 		104
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 61.5
(3)
P 		22.9
(-3)
P 		28.9
(-2.1)
M 		24.6
(-2.7)
A 		39
B 44.3
(3)
P 		27.2
(-3)
A 		35.3
(-0.2)
P 		40.2
(1.6)
P 		17
C 59.2
(3)
A 		40.2
(-1.4)
P 		56
(2.3)
P 		33
(-3)
M 		26
avr 55
(3) 		30.1
(-3) 		40.1
(-0.6) 		32.6
(-2.4) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 76
1 2 3 4 5 6 range
A 36.9
(-3)
A 		54.5
(2)
P 		43.1
(-1.2)
M 		45.8
(-0.5)
P 		57.9
(3)
P 		46
(-0.4)
P 		21
B 75.1
(-0)
P 		57.6
(-2)
M 		49
(-3)
P 		53.2
(-2.5)
M 		97.6
(2.5)
P 		101.6
(3)
P 		53
C 62.2
(-1)
P 		48.8
(-2.1)
A 		53.5
(-1.7)
P 		37.2
(-3)
P 		87.5
(1)
P 		112.5
(3)
P 		75
avr 58.1
(-1.2) 		53.6
(-1.8) 		48.5
(-2.5) 		45.4
(-3) 		81
(2.2) 		86.7
(3) 		41
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188429_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.341
Sequence Type Exemplar sequence
Representative Public ID F54C1.2 NCBI
Target Description F54C1.2 /REP_DB=WormBase Gene ID /WP=CE11044 /GEN=dom-3 /TR=SW:Q10660 /GB=AAK21392.1 /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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059095(11), U34893(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059095 NCBI Caenorhabditis elegans Downstream Of Mes (in same operon) family member (dom-3) (dom-3) mRNA, complete cds. 11/11 None
U34893 NCBI Caenorhabditis elegans DOM-3 (dom-3) mRNA, complete cds. 11/11 None
SNAP00000015270 ENSEMBL cdna:SNAP chromosome:CEL140:I:5003465:5004884:1 11/11 None
GENEFINDER00000015276 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5003465:5004884:1 11/11 None
F54C1.2.2 ENSEMBL cdna:known chromosome:CEL140:I:5003352:5004884:1 gene:F54C1.2 11/11 None
F54C1.2.1 ENSEMBL cdna:known chromosome:CEL140:I:5003451:5004936:1 gene:F54C1.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182463 7/11 Cross Hyb Matching Probes None
SNAP00000014004 7/11 Cross Hyb Matching Probes None
GENEFINDER00000014018 7/11 Cross Hyb Matching Probes None
Y108F1.4 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:5003464-5004884(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol dom-3
Ensembl F54C1.2
Entrez Gene 172124 Entrez gene
SwissProt Q10660 EMBL-EBI
WormBase CE11044 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:12557_AT glycine-rich protein at
ATH1-121501:245374_AT glycine-rich protein at
CANINE:1591052_AT similar to DOM-3 homolog Z cfa
CANINE_2:CFA.14339.1.S1_S_AT similar to DOM-3 homolog Z cfa
CANINE_2:CFAAFFX.1968.1.S1_AT similar to DOM-3 homolog Z cfa
DROSOPHILA_2:1624253_AT dm
DROSGENOME1:145215_AT dm
HG-U133_PLUS_2:204522_AT dom-3 homolog Z (C. elegans) hs
HG-U133A:204522_AT dom-3 homolog Z (C. elegans) hs
HG-U133A_2:204522_AT dom-3 homolog Z (C. elegans) hs
HU35KSUBA:RC_AA348910_AT dom-3 homolog Z (C. elegans) hs
U133_X3P:HS.153299.1.S1_3P_S_AT dom-3 homolog Z (C. elegans) hs
HG-U133A_2:215982_S_AT dom-3 homolog Z (C. elegans) hs
HG-U133_PLUS_2:215982_S_AT dom-3 homolog Z (C. elegans) hs
HG-U133A:215982_S_AT dom-3 homolog Z (C. elegans) hs
HG-U133A_2:38157_AT dom-3 homolog Z (C. elegans) hs
HG-FOCUS:38157_AT dom-3 homolog Z (C. elegans) hs
HG-U133_PLUS_2:38157_AT dom-3 homolog Z (C. elegans) hs
HG-U133A:38157_AT dom-3 homolog Z (C. elegans) hs
HG-U95AV2:38157_AT dom-3 homolog Z (C. elegans) hs
MG-U74AV2:97428_AT DOM-3 homolog Z (C. elegans) mm
MG-U74BV2:165390_AT DOM-3 homolog Z (C. elegans) mm
MOE430A:1423116_AT DOM-3 homolog Z (C. elegans) mm
MOUSE430A_2:1423116_AT DOM-3 homolog Z (C. elegans) mm
MOUSE430_2:1423116_AT DOM-3 homolog Z (C. elegans) mm
MG-U74CV2:171165_R_AT DOM-3 homolog Z (C. elegans) (Dom3z), mRNA mm
MU19KSUBB:TC32156_AT DOM-3 homolog Z (C. elegans) (Dom3z), mRNA mm
MU19KSUBB:TC32156_G_AT DOM-3 homolog Z (C. elegans) (Dom3z), mRNA mm
RG-U34C:RC_AI229945_AT DOM-3 homolog Z rn
RAE230B:1391052_AT DOM-3 homolog Z rn
RAT230_2:1391052_AT DOM-3 homolog Z rn
YEAST_2:1777489_AT Nuclear protein that binds to and stabilizes the exoribonuclease Rat1p, required for pre-rRNA processing Sc
Protein Similarities
Method ID Description E-Value
blast AAK21392 Downstream of mes (in same operon) protein 3 [Caenorhabditis elegans] ref|NP_491496.1| Downstream Of Mes (in same operon) family member (dom-3) [Caenorhabditis elegans] sp|Q10660|DOM3_CAEEL Protein dom-3 gb|AAB01720.1| DOM-3 0.0
blast AAN01435 Hypothetical protein Y108F1.4 [Caenorhabditis elegans] ref|NP_872263.1| Y108F1.4 [Caenorhabditis elegans] 1.0E-100
Sequence
Target Sequence 
>C. ELEGANS:188429_AT
gagatctcaatcaaaccgacttggacaaaagaatgagctactggggacacaagttcgagc
aatatgttacgctcgacgatgatgcggaacaaccagacacttcaagtccagtgacaacga
aagaagagtatgcagttgtatttcggaatgatcttcaaactgatcaacgtcttaatcctg
aaaaaaggtcaattgggatattctattcgggagaagttgattgtctggatagacacggaa
atatgctcgagctaaaaactcagaaaggcgagctcggtcatggattctacaaatactcaa
aatccttcaaatggtggcttcaatcatcattggtcaacgtcgatcacatcatcgtcggac
ttcgaacacaggaaggccacgtcaaatcgttgacgtcactgcgtacccgagagatcccac
agcgagcctcatggaatttcagagccggcttcgagtttctctccacaattttcacttata
ttcttaactgccttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGATCTCAATCAAACCGACTTGGA 462 395 569 Antisense
GTTACGCTCGACGATGATGCGGAAC 544 445 634 Antisense
AAAGGCGAGCTCGGTCATGGATTCT 445 121 832 Antisense
AAATCCTTCAAATGGTGGCTTCAAT 503 117 868 Antisense
GGTCAACGTCGATCACATCATCGTC 554 503 900 Antisense
TCATCGTCGGACTTCGAACACAGGA 308 621 917 Antisense
ACACAGGAAGGCCACGTCAAATCGT 484 89 934 Antisense
CAAATCGTTGACGTCACTGCGTACC 463 193 951 Antisense
ACAGCGAGCCTCATGGAATTTCAGA 64 109 987 Antisense
ATTTCAGAGCCGGCTTCGAGTTTCT 381 15 1004 Antisense
TTCACTTATATTCTTAACTGCCTTG 613 685 1039 Antisense
Sequence Source Affymetrix Proprietary Database