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[173803_at] Yeast RAD50 like protein

Description CEK043G2R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C33D9.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D34285 /WB_GENE_ID=C33D9.5 /WP=CE03046 /CHR=4 /FEA=Genomic Cluster /DEF=Yeast RAD50 like protein; C.elegans cDNA clone yk43g2 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 01      6grp_total > 14      4grp_total > 30      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 148.3
(3)
P 		18.7
(-3)
A 		26.1
(-2.7)
A 		51.1
(-1.5)
P 		130
B 157.3
(3)
P 		72.2
(-1)
P 		28.4
(-3)
A 		108.3
(0.7)
P 		129
C 167.8
(2.3)
P 		57.8
(-1.7)
P 		21.3
(-3)
A 		186.3
(3)
P 		165
avr 157.8
(3) 		49.6
(-1.9) 		25.3
(-3) 		115.2
(1.1) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 264
1 2 3 4 5 6 range
A 251
(3)
P 		161.8
(0)
P 		157.2
(-0.1)
P 		165.3
(0.2)
P 		70
(-3)
A 		140.9
(-0.6)
P 		181
B 162.7
(0.5)
P 		220.8
(3)
P 		122.3
(-1.2)
P 		150.7
(0)
P 		90.4
(-2.6)
P 		79.9
(-3)
P 		141
C 310.4
(3)
P 		191.4
(0.3)
P 		174.6
(-0.1)
P 		222.9
(1)
P 		46.7
(-3)
A 		126.9
(-1.2)
P 		264
avr 241.4
(3) 		191.3
(1.3) 		151.4
(-0.1) 		179.6
(0.8) 		69
(-3) 		115.9
(-1.4) 		172
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 52
1 2 3 4 range
A 54
(3)
P 		4.1
(-3)
A 		6.8
(-2.7)
A 		7.5
(-2.6)
P 		50
B 50.1
(3)
P 		17.8
(-1.5)
P 		6.6
(-3)
A 		23.1
(-0.7)
P 		44
C 55.6
(3)
P 		16.6
(-1.9)
P 		7.4
(-3)
A 		31.4
(-0)
P 		48
avr 53.2
(3) 		12.8
(-2.2) 		6.9
(-3) 		20.7
(-1.2) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 46.3
(1.2)
P 		57.5
(3)
P 		34.2
(-0.8)
P 		41.9
(0.4)
P 		21.1
(-3)
A 		34.3
(-0.8)
P 		36
B 56.6
(0.7)
P 		73.5
(3)
P 		29.7
(-3)
P 		39.9
(-1.6)
P 		36.7
(-2)
P 		29.8
(-3)
P 		44
C 115
(3)
P 		58.4
(-0.4)
P 		44.4
(-1.2)
P 		44.8
(-1.2)
P 		15.1
(-3)
A 		42.5
(-1.4)
P 		100
avr 72.6
(3) 		63.1
(1.8) 		36.1
(-1.5) 		42.2
(-0.8) 		24.3
(-3) 		35.5
(-1.6) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173803_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24714
Sequence Type Exemplar sequence
Representative Public ID CEK043G2R NCBI
Target Description CEK043G2R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C33D9.5 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D34285 /WB_GENE_ID=C33D9.5 /WP=CE03046 /CHR=4 /FEA=Genomic Cluster /DEF=Yeast RAD50 like protein; C.elegans cDNA clone yk43g2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_069115(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069115 NCBI Caenorhabditis elegans C33D9.5 (C33D9.5) mRNA, complete cds. 11/11 None
C33D9.5 ENSEMBL cdna:known chromosome:CEL140:IV:8778369:8780854:-1 gene:C33D9.5 11/11 A 
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
chrIV:8778385-8780861(-) 100.0 100.0
Public Domain and Genome References
Gene Title Yeast RAD50 like protein
Ensembl C33D9.5
Entrez Gene 177689 Entrez gene
SwissProt Q18378 EMBL-EBI
WormBase CE37808 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92288 Hypothetical protein C33D9.5 [Caenorhabditis elegans] ref|NP_501516.2| C33D9.5 [Caenorhabditis elegans] 0.0
blast XP_653447 Viral A-type inclusion protein repeat, putative [Entamoeba histolytica HM-1:IMSS] gb|EAL48061.1| Viral A-type inclusion protein repeat, putative [Entamoeba histolytica HM-1:IMSS] 3.0E-14
blast XP_657028 myosin heavy chain [Entamoeba histolytica HM-1:IMSS] gb|EAL51645.1| myosin heavy chain [Entamoeba histolytica HM-1:IMSS] 9.0E-14
Sequence
Target Sequence 
>C. ELEGANS:173803_AT
attctacatggtcttgctatatatttattgaaaaagattgggtccgtaatttgttaataa
ctttttttttattttttccaaaaaactcttgtttgtctttcgcggtaactcaatttcact
ttttatttcaaaaataaggatttcgatatttcattttggacgacagtttttctgtgattc
attaatatttttaaatgcattttctcattcgtatgcctcttgattccttctttctcatta
tttttatttcaactgctcacattcattctcaggatttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCTACATGGTCTTGCTATATATT 256 11 1599 Antisense
TTGTTTGTCTTTCGCGGTAACTCAA 533 703 1687 Antisense
TCGCGGTAACTCAATTTCACTTTTT 267 595 1698 Antisense
ATATTTCATTTTGGACGACAGTTTT 656 19 1744 Antisense
GGACGACAGTTTTTCTGTGATTCAT 701 523 1756 Antisense
ATGCATTTTCTCATTCGTATGCCTC 614 43 1793 Antisense
TTTCTCATTCGTATGCCTCTTGATT 433 671 1799 Antisense
CTTGATTCCTTCTTTCTCATTATTT 223 219 1817 Antisense
TCATTATTTTTATTTCAACTGCTCA 18 621 1833 Antisense
TCAACTGCTCACATTCATTCTCAGG 412 631 1847 Antisense
GCTCACATTCATTCTCAGGATTTCA 569 301 1853 Antisense
Sequence Source Affymetrix Proprietary Database