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[184227_at]

Description Y47D3A.28 /REP_DB=WormBase Gene ID /WP=CE24338 /TR=Q9U2C2 /GB=CAB57900.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 87      4grp_total > 24      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 133.3
(-0.6)
A 		111.6
(-3)
A 		119.9
(-2.1)
A 		166.6
(3)
A 		55
B 93.1
(-3)
A 		146.5
(1.1)
A 		171.8
(3)
A 		159.6
(2.1)
A 		79
C 129.7
(-3)
A 		154.7
(-1.4)
A 		178.3
(0.1)
A 		224.5
(3)
A 		95
avr 118.7
(-3) 		137.6
(-1.3) 		156.7
(0.5) 		183.6
(3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 164
1 2 3 4 5 6 range
A 138.1
(-3)
A 		154.7
(-2.2)
A 		141.1
(-2.8)
A 		180.7
(-0.9)
A 		216.9
(1)
P 		257.2
(3)
P 		119
B 148.2
(-2)
A 		123.5
(-3)
A 		140.5
(-2.3)
A 		189.4
(-0.3)
A 		188.8
(-0.4)
P 		272.3
(3)
P 		149
C 108.2
(-3)
A 		174.3
(-0.2)
A 		205.6
(1.1)
A 		119.3
(-2.5)
A 		199
(0.9)
M 		249.2
(3)
P 		141
avr 131.5
(-3) 		150.8
(-2.1) 		162.4
(-1.6) 		163.1
(-1.5) 		201.6
(0.3) 		259.6
(3) 		128
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 48.6
(3)
A 		24.2
(-3)
A 		31.3
(-1.3)
A 		24.4
(-3)
A 		24
B 29.7
(-3)
A 		36.2
(0.9)
A 		39.8
(3)
A 		34
(-0.4)
A 		10
C 42.9
(-1.8)
A 		44.5
(-1.4)
A 		62.1
(3)
A 		37.9
(-3)
A 		24
avr 40.4
(1) 		35
(-1.6) 		44.4
(3) 		32.1
(-3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 25.5
(-3)
A 		55
(1.4)
A 		30.7
(-2.2)
A 		45.8
(0)
A 		65.5
(3)
P 		62.6
(2.6)
P 		40
B 51.6
(-1.4)
A 		41.1
(-2.4)
A 		34.1
(-3)
A 		50.2
(-1.6)
A 		76.7
(0.8)
P 		101.6
(3)
P 		68
C 40.1
(-1.4)
A 		53.2
(-0.1)
A 		52.3
(-0.1)
A 		24
(-3)
A 		64.4
(1.1)
M 		83.4
(3)
P 		59
avr 39.1
(-3) 		49.8
(-1.5) 		39
(-3) 		40
(-2.9) 		68.9
(1.1) 		82.5
(3) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184227_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6080
Sequence Type Exemplar sequence
Representative Public ID Y47D3A.28 NCBI
Target Description Y47D3A.28 /REP_DB=WormBase Gene ID /WP=CE24338 /TR=Q9U2C2 /GB=CAB57900.1 /SUBMIT=HINXTON /CHR=3 /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_067055(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067055 NCBI Caenorhabditis elegans Y47D3A.28 (Y47D3A.28) mRNA, complete cds. 11/11 None
SNAP00000007216 ENSEMBL cdna:SNAP chromosome:CEL140:III:11270742:11331624:1 11/11 None
GENEFINDER00000007270 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11320520:11326005:1 9/11 None
Y47D3A.28 ENSEMBL cdna:known chromosome:CEL140:III:11317447:11326529:1 gene:Y47D3A.28 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:11317442-11326435(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y47D3A.28
Entrez Gene 176562 Entrez gene
SwissProt Q9U2C2 EMBL-EBI
WormBase CE24338 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.8071.1.S1_AT similar to minichromosome maintenance protein 10 isoform 2 cfa
DROSOPHILA_2:1638868_AT Sensitized chromosome inheritance modifier 19 dm
DROSGENOME1:155063_AT Sensitized chromosome inheritance modifier 19 dm
CHICKEN:GGAAFFX.25864.1.S1_AT similar to minichromosome maintenance protein 10 isoform 2; homolog of yeast MCM10 gga
HG-U133_PLUS_2:222962_S_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U133B:222962_S_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U133_PLUS_2:223570_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U133B:223570_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U133_PLUS_2:220651_S_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U133A:220651_S_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U133A_2:220651_S_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
U133_X3P:G8924142_3P_A_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
U133_X3P:G12053186_3P_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U95E:69475_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
HG-U95E:76057_F_AT MCM10 minichromosome maintenance deficient 10 (S. cerevisiae) hs
MOE430A:1433408_A_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOUSE430A_2:1433408_A_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOUSE430_2:1433408_A_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MU11KSUBA:AA238367_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MG-U74AV2:103553_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MG-U74CV2:171198_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOE430B:1454244_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOUSE430_2:1454244_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOE430A:1433407_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOUSE430A_2:1433407_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MOUSE430_2:1433407_AT minichromosome maintenance deficient 10 (S. cerevisiae) mm
MG-U74CV2:134809_AT Minichromosome maintenance deficient 10 (S. cerevisiae), mRNA (cDNA clone MGC:106615 IMAGE:6853824) mm
MU19KSUBB:TC28976_AT Minichromosome maintenance deficient 10 (S. cerevisiae), mRNA (cDNA clone MGC:106615 IMAGE:6853824) mm
MU19KSUBB:TC29050_AT Minichromosome maintenance deficient 10 (S. cerevisiae), mRNA (cDNA clone MGC:106615 IMAGE:6853824) mm
RAE230B:1392061_AT minichromosome maintenance deficient 10 (S. cerevisiae) (predicted) rn
RAT230_2:1392061_AT minichromosome maintenance deficient 10 (S. cerevisiae) (predicted) rn
RAE230B:1381298_AT Minichromosome maintenance deficient 10 (S. cerevisiae) (predicted) rn
RAT230_2:1381298_AT Minichromosome maintenance deficient 10 (S. cerevisiae) (predicted) rn
RG-U34C:RC_AI103253_AT Minichromosome maintenance deficient 10 (S. cerevisiae) (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB57900 Hypothetical protein Y47D3A.28 [Caenorhabditis elegans] ref|NP_499456.1| Y47D3A.28 [Caenorhabditis elegans] 0.0
blast CAE67644 Hypothetical protein CBG13203 [Caenorhabditis briggsae] 0.0
blast CAB57898 Hypothetical protein Y47D3A.26 [Caenorhabditis elegans] ref|NP_499453.2| SMC (structural maintenance of chromosomes) family member (smc-3) [Caenorhabditis elegans] 0.0
blast CAE67647 Hypothetical protein CBG13206 [Caenorhabditis briggsae] 0.0
blast CAB57900 Hypothetical protein Y47D3A.28 [Caenorhabditis elegans] ref|NP_499456.1| Y47D3A.28 [Caenorhabditis elegans] 1.0E-134
blast CAE67644 Hypothetical protein CBG13203 [Caenorhabditis briggsae] 2.0E-84
blast XP_225570 PREDICTED: similar to minichromosome maintenance protein 10 [Rattus norvegicus] 6.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR003405 EMBL-EBI Structural maintenance of chromosome protein SMC, C-terminal 5.9E-5
Pfam IPR003405 EMBL-EBI Structural maintenance of chromosome protein SMC, C-terminal 1.0E-20
Pfam IPR003395 EMBL-EBI SMC protein, N-terminal 4.1E-45
Pfam IPR010935 EMBL-EBI SMCs flexible hinge 1.2E-37
Sequence
Target Sequence 
>C. ELEGANS:184227_AT
tcaggagcatgccgctaggctccgcgcaatcgcaattctcaaggcaaaacgaaaagaagc
cgaaatggagaagctcaccggaggcggcggcggagtcaagcgaaaagcttccggaacacc
gacggctccggagcccgaagcaaagaagccgagaagccagaaaatggatgagattcgtgc
gatgctcgccagaaagagcacacatcacaaggaagcggagaaggcggagcacgacatgct
ccagcgtcatttgacaggaatggaagaacgcgaaaaagtggaaacatttacgacgacttg
tgttgaagttaaaaatgttaaagttgtcacgtgtaatcagtgcaaatacacatcacaatt
cgcatcatcagaatgtattaaaaaagagcataaactcattaaacacaccgctgacaagcg
attcttcaaatgtactggatgcaaaaaacggactgtttgttttgaaatgatgcctgtcaa
gcattgtgcgcactgcaacgagaacaaatgggagcgcgtagcgatgaaagacgaacgaaa
agtggttctcgacacggaaaatctgctgctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGGAGCATGCCGCTAGGCTCCGC 497 621 1485 Antisense
CTCCGCGCAATCGCAATTCTCAAGG 245 233 1504 Antisense
GCGGCGGCGGAGTCAAGCGAAAAGC 620 293 1568 Antisense
GCGAAAAGCTTCCGGAACACCGACG 402 285 1584 Antisense
GATGAGATTCGTGCGATGCTCGCCA 354 411 1651 Antisense
GCGGAGAAGGCGGAGCACGACATGC 170 293 1699 Antisense
ACATGCTCCAGCGTCATTTGACAGG 461 107 1718 Antisense
TACACATCACAATTCGCATCATCAG 117 643 1831 Antisense
AACACACCGCTGACAAGCGATTCTT 566 135 1886 Antisense
TGCCTGTCAAGCATTGTGCGCACTG 554 583 1955 Antisense
TCTCGACACGGAAAATCTGCTGCTC 707 609 2031 Antisense
Sequence Source Affymetrix Proprietary Database