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[173019_s_at] KUP-1 protein

Description C38590_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C38590 /DEF=C.elegans cDNA clone yk495e11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 88      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 92      6grp_total > 88      4grp_total > 07      6grp_highest_sub > In      6grp_cgc > 59      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 84
1 2 3 4 range
A 177.4
(3)
P 		121.5
(-2.2)
P 		113.1
(-3)
P 		124.3
(-2)
P 		64
B 184.3
(2.4)
P 		128.2
(-3)
P 		163.5
(0.4)
P 		191
(3)
P 		63
C 187.8
(1.9)
P 		144.9
(-3)
P 		197.4
(3)
P 		189.9
(2.1)
P 		53
avr 183.2
(3) 		131.5
(-3) 		158
(0.1) 		168.4
(1.3) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 414
1 2 3 4 5 6 range
A 125.6
(-3)
P 		203.3
(-0.4)
P 		236.5
(0.8)
P 		202.7
(-0.4)
P 		284.3
(2.4)
P 		303
(3)
P 		177
B 213.3
(-2.3)
P 		220.9
(-2.2)
P 		196.6
(-2.6)
P 		170.9
(-3)
P 		353.1
(-0)
P 		539.4
(3)
P 		369
C 188.6
(-2.9)
P 		184.6
(-3)
P 		186.3
(-3)
P 		240.5
(-1.9)
P 		313.2
(-0.6)
P 		502
(3)
P 		317
avr 175.8
(-3) 		202.9
(-2.4) 		206.5
(-2.3) 		204.7
(-2.4) 		316.9
(0.1) 		448.1
(3) 		272
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 64.6
(3)
P 		26.4
(-1.9)
P 		29.6
(-1.5)
P 		18.2
(-3)
P 		46
B 58.8
(3)
P 		31.7
(-3)
P 		37.9
(-1.6)
P 		40.7
(-1)
P 		27
C 62.2
(1.9)
P 		41.7
(-1.4)
P 		68.8
(3)
P 		32
(-3)
P 		37
avr 61.9
(3) 		33.3
(-2.4) 		45.4
(-0.1) 		30.3
(-3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 23.2
(-3)
P 		72.3
(1.7)
P 		51.5
(-0.3)
P 		51.4
(-0.3)
P 		85.8
(3)
P 		73.8
(1.8)
P 		63
B 74.2
(-1.9)
P 		73.5
(-1.9)
P 		47.7
(-2.9)
P 		45.3
(-3)
P 		143.5
(0.8)
P 		201.1
(3)
P 		156
C 69.9
(-1.9)
P 		56.3
(-2.6)
P 		47.4
(-3)
P 		48.4
(-3)
P 		101.3
(-0.3)
P 		168
(3)
P 		121
avr 55.8
(-2.6) 		67.4
(-1.9) 		48.9
(-3) 		48.4
(-3) 		110.2
(0.7) 		147.6
(3) 		99
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173019_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26420
Sequence Type Exemplar sequence
Representative Public ID C38590 NCBI
Target Description C38590_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C38590 /DEF=C.elegans cDNA clone yk495e11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_073615(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073615 NCBI Caenorhabditis elegans Kinase UPstream gene (in operon) family member (kup-1) (kup-1) mRNA, complete cds. 11/11 A 
SNAP00000025557 ENSEMBL cdna:SNAP chromosome:CEL140:V:12034915:12036484:-1 10/11 None
GENEFINDER00000025567 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12034915:12043454:-1 11/11 None
F10C2.2 ENSEMBL cdna:known chromosome:CEL140:V:12034844:12043461:-1 gene:F10C2.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000025558 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12036170-12038158(-) 100.0 100.0
Public Domain and Genome References
Gene Title KUP-1 protein
Gene Symbol kup-1
Ensembl F10C2.2
Entrez Gene 179651 Entrez gene
SwissProt P34705 EMBL-EBI
WormBase CE09306 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB04080 Hypothetical protein F10C2.2 [Caenorhabditis elegans] ref|NP_506016.1| Kinase UPstream gene (in operon) family member (kup-1) [Caenorhabditis elegans] sp|P34705|KUP1_CAEEL Protein kup-1 gb|AAA28102.1| 'no significant homology' 0.0
blast CAE75372 Hypothetical protein CBG23358 [Caenorhabditis briggsae] 1.0E-161
blast CAE75372 Hypothetical protein CBG23358 [Caenorhabditis briggsae] 1.0E-156
blast CAB04080 Hypothetical protein F10C2.2 [Caenorhabditis elegans] ref|NP_506016.1| Kinase UPstream gene (in operon) family member (kup-1) [Caenorhabditis elegans] sp|P34705|KUP1_CAEEL Protein kup-1 gb|AAA28102.1| 'no significant homology' 1.0E-107
blast CAE75372 Hypothetical protein CBG23358 [Caenorhabditis briggsae] 1.0E-84
Sequence
Target Sequence 
>C. ELEGANS:173019_S_AT
atgacgtcgaactgattgaggatcttaanccgaacgaaaaaggaatcgtcgcaagtgaga
agaacaacgaatttattactgtagacataaatgctcgcgaggttccaaatggaaaatgga
gagtattaacaaaacacgttccagccaacatgttcgtcattattcgatatgcaacgacgg
atgaatatcagacaatggtaacatcagatcggagtcaagttaaaaagaccggcgtaaaac
gtggaaatgat

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGACGTCGAACTGATTGAGGATCT 335 45 21 Antisense
GGAATCGTCGCAAGTGAGAAGAACA 618 525 62 Antisense
GAACAACGAATTTATTACTGTAGAC 165 353 82 Antisense
TACTGTAGACATAAATGCTCGCGAG 429 645 97 Antisense
AATGCTCGCGAGGTTCCAAATGGAA 521 165 110 Antisense
GTATTAACAAAACACGTTCCAGCCA 681 445 143 Antisense
AAAACACGTTCCAGCCAACATGTTC 430 129 151 Antisense
AACATGTTCGTCATTATTCGATATG 224 137 167 Antisense
TTCGATATGCAACGACGGATGAATA 338 695 183 Antisense
GGTAACATCAGATCGGAGTCAAGTT 57 505 217 Antisense
GACCGGCGTAAAACGTGGAAATGAT 615 377 247 Antisense
Sequence Source Affymetrix Proprietary Database