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[190741_at] Yeast RAD18 protein like

Description C23H4.6 /REP_DB=WormBase Gene ID /WP=CE08332 /TR=Q93250 /GB=CAB01681.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Yeast RAD18 protein like
Cluster 6grp_high1_10_10 > 82      6grp_total > 90      4grp_total > 13      6grp_high1_sub > 04      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 116
1 2 3 4 range
A 55.1
(-0.7)
A 		35.5
(-1.7)
A 		12.6
(-3)
A 		122.2
(3)
A 		110
B 68.2
(2.1)
P 		10.2
(-2.7)
A 		6.2
(-3)
A 		79.1
(3)
P 		73
C 35.5
(-1)
A 		16.7
(-3)
A 		22.7
(-2.4)
A 		73.8
(3)
P 		57
avr 52.9
(0) 		20.8
(-2.5) 		13.8
(-3) 		91.7
(3) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 133
1 2 3 4 5 6 range
A 85.4
(-2.1)
A 		74.5
(-2.8)
P 		88.1
(-2)
P 		174.9
(3)
P 		132.1
(0.5)
P 		70.6
(-3)
M 		104
B 97.9
(-1.7)
P 		69.4
(-3)
P 		74.2
(-2.8)
P 		202.5
(3)
P 		96
(-1.8)
P 		98.9
(-1.7)
P 		133
C 80
(-1.7)
P 		72.9
(-3)
P 		82.5
(-1.3)
P 		91.1
(0.2)
P 		106.6
(3)
P 		81.2
(-1.5)
P 		34
avr 87.8
(-1.9) 		72.3
(-3) 		81.6
(-2.3) 		156.2
(3) 		111.6
(-0.2) 		83.6
(-2.2) 		84
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 20.1
(3)
A 		7.7
(-1.4)
A 		3.3
(-3)
A 		17.9
(2.2)
A 		17
B 21.8
(3)
P 		2.5
(-2.7)
A 		1.4
(-3)
A 		16.9
(1.6)
P 		20
C 11.8
(2.5)
A 		4.8
(-3)
A 		7.9
(-0.6)
A 		12.5
(3)
P 		8
avr 17.9
(3) 		5
(-2.6) 		4.2
(-3) 		15.8
(2.1) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 15.7
(-3)
A 		26.5
(-0.7)
P 		19.2
(-2.3)
P 		44.4
(3)
P 		39.9
(2.1)
P 		17.2
(-2.7)
M 		29
B 34.1
(-0.3)
P 		23.1
(-2.1)
P 		18
(-3)
P 		53.6
(3)
P 		39
(0.5)
P 		36.9
(0.2)
P 		36
C 29.7
(1.2)
P 		22.3
(-1.5)
P 		21
(-2)
P 		18.3
(-3)
P 		34.5
(3)
P 		27.2
(0.3)
P 		16
avr 26.5
(-0.8) 		24
(-1.6) 		19.4
(-3) 		38.8
(3) 		37.8
(2.7) 		27.1
(-0.6) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190741_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17160
Sequence Type Exemplar sequence
Representative Public ID C23H4.6 NCBI
Target Description C23H4.6 /REP_DB=WormBase Gene ID /WP=CE08332 /TR=Q93250 /GB=CAB01681.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Yeast RAD18 protein like
Cluster Evidence This cluster is supported by a 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_077640(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077640 NCBI Caenorhabditis elegans C23H4.6 (C23H4.6) mRNA, complete cds. 11/11 None
SNAP00000004844 ENSEMBL cdna:SNAP chromosome:CEL140:X:12235542:12240538:1 11/11 None
GENEFINDER00000004845 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12235542:12240538:1 11/11 None
C23H4.6 ENSEMBL cdna:known chromosome:CEL140:X:12235542:12240702:1 gene:C23H4.6 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:12235541-12240538(+) 100.0 100.0
Public Domain and Genome References
Gene Title Yeast RAD18 protein like
Ensembl C23H4.6
Entrez Gene 181384 Entrez gene
SwissProt Q93250 EMBL-EBI
WormBase CE08332 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250588_AT structural maintenance of chromosomes (SMC) family protein at
CANINE:1588910_AT similar to SMC6 protein cfa
CANINE_2:CFA.19957.1.S1_S_AT similar to SMC6 protein cfa
CANINE_2:CFAAFFX.6551.1.S1_AT similar to SMC6 protein cfa
DROSOPHILA_2:1639138_AT dm
DROSGENOME1:150491_AT dm
CHICKEN:GGA.11111.1.S1_A_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) gga
CHICKEN:GGA.11111.1.S1_S_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) gga
CHICKEN:GGA.16992.1.S1_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) gga
CHICKEN:GGA.18837.1.S1_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) gga
CHICKEN:GGAAFFX.24967.1.S1_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) gga
CHICKEN:GGAAFFX.24967.1.S1_S_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) gga
HG-U133_PLUS_2:218781_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U133A:218781_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U133A_2:218781_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HU35KSUBA:RC_AA429861_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
U133_X3P:G13375847_3P_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
U133_X3P:HS.159452.0.A1_3P_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U133_PLUS_2:236535_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U133B:236535_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U95C:61714_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U95E:75685_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U95B:42429_R_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U95B:50173_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HG-U95C:56511_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HU35KSUBB:RC_H27870_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
HU35KSUBD:RC_H97215_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) hs
MOUSE430_2:1422909_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430A_2:1422909_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430A:1422909_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MU11KSUBB:W41927_S_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MG-U74AV2:100887_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MG-U74BV2:109045_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MG-U74CV2:165841_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430A:1422910_S_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430A_2:1422910_S_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430_2:1422910_S_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430A:1448829_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430A_2:1448829_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430_2:1448829_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430A:1417736_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430A_2:1417736_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430_2:1417736_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430A:1448828_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430A_2:1448828_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430_2:1448828_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430B:1460069_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOUSE430_2:1460069_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) mm
MOE430B:1447086_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast), mRNA (cDNA clone IMAGE:4224576) mm
MOUSE430_2:1447086_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast), mRNA (cDNA clone IMAGE:4224576) mm
MG-U74CV2:169793_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast), mRNA (cDNA clone IMAGE:4224576) mm
MU19KSUBC:TC38046_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast), mRNA (cDNA clone IMAGE:4224576) mm
RG-U34B:RC_AA850777_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) (predicted) rn
RAE230B:1378178_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) (predicted) rn
RAT230_2:1378178_AT SMC6 structural maintenance of chromosomes 6-like 1 (yeast) (predicted) rn
YEAST_2:1773057_AT Protein involved in structural maintenance of chromosomes; required for interchromosomal and sister chromatid recombination; homologous to S. pombe rad18 Sc
Protein Similarities
Method ID Description E-Value
blast CAB01681 Hypothetical protein C23H4.6 [Caenorhabditis elegans] ref|NP_510041.1| C23H4.6 [Caenorhabditis elegans] 0.0
blast CAA91339 Hypothetical protein F54D5.14 [Caenorhabditis elegans] emb|CAB16920.1| Hypothetical protein F54D5.14 [Caenorhabditis elegans] ref|NP_496476.1| F54D5.14 [Caenorhabditis elegans] 0.0
blast CAE59470 Hypothetical protein CBG02854 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003395 EMBL-EBI SMC protein, N-terminal 5.9E-5
Sequence
Target Sequence 
>C. ELEGANS:190741_AT
tggtcgattgaaagcctatcccaccctaaaaaagtacactgagttgaaagtcactgataa
gttcaaggagcttcttgcaattcgtgggcattttgttggtggtctggagtttgatcacga
gaaggaaaatcttaatgtgaatgttcattctactaaagagaaagatgctttagccggtaa
agagtacagctctactgacgaagatgaagatgatgaacaggagttttacaaaaatgggaa
gccaaagaagaagagatcaaaaaagacaaagaagaagcccgtttgtgatctaaaaggatt
gtcaggtggagaacgatcatttgtaactgcagcacttgtaatgagcttatgggaagtcat
ggagcaaccatttcgcatgctggatgaatttgacgttttcatggatatgatgaatagaaa
acttgtcatggatcttcttgtcgaaatggccactaaaaagtttccgcacaaccagttcat
ttttttcactcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGTCGATTGAAAGCCTATCCCACC 57 553 2865 Antisense
TATCCCACCCTAAAAAAGTACACTG 193 649 2881 Antisense
AAGGAGCTTCTTGCAATTCGTGGGC 141 159 2929 Antisense
ATTCGTGGGCATTTTGTTGGTGGTC 350 7 2944 Antisense
GGTGGTCTGGAGTTTGATCACGAGA 380 499 2962 Antisense
GAAGAAGCCCGTTTGTGATCTAAAA 114 341 3135 Antisense
GATCATTTGTAACTGCAGCACTTGT 102 421 3179 Antisense
GCAACCATTTCGCATGCTGGATGAA 117 319 3228 Antisense
GTCATGGATCTTCTTGTCGAAATGG 334 467 3289 Antisense
AAAAGTTTCCGCACAACCAGTTCAT 40 131 3320 Antisense
CAACCAGTTCATTTTTTTCACTCCT 375 187 3333 Antisense
Sequence Source Affymetrix Proprietary Database