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[172864_x_at] KUP-1 protein

Description F10C2.2 /REP_DB=WormBase Gene ID /WP=CE09306 /GEN=kup-1 /TR=SW:P34705 /GB=CAB04080.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=KUP-1 protein
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 86      4grp_highest_8_8 > 63      4grp_high_8_8 > 27      6grp_highest_nonorm > 95      6grp_total > 77      4grp_total > 29      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 173
1 2 3 4 range
A 541.4
(1.4)
P 		488.7
(-0.5)
P 		415.7
(-3)
P 		588.5
(3)
P 		173
B 525.7
(2.1)
P 		544.4
(3)
P 		417.5
(-3)
P 		444.2
(-1.7)
P 		127
C 489.3
(3)
P 		466
(-3)
P 		467.6
(-2.6)
P 		487.1
(2.4)
P 		23
avr 518.8
(3) 		499.7
(1.7) 		433.6
(-3) 		506.6
(2.1) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1210
1 2 3 4 5 6 range
A 358.2
(-3)
P 		367.1
(-2.9)
P 		493.7
(-1.9)
P 		377.6
(-2.8)
P 		677.7
(-0.4)
P 		1082.5
(3)
P 		724
B 436.7
(-2.9)
P 		420.5
(-3)
P 		594.8
(-2)
P 		621.7
(-1.9)
P 		875.5
(-0.4)
P 		1475.2
(3)
P 		1055
C 433.2
(-3)
P 		482
(-2.7)
P 		548
(-2.4)
P 		519.4
(-2.5)
P 		493.6
(-2.7)
P 		1568
(3)
P 		1135
avr 409.4
(-3) 		423.2
(-2.9) 		545.5
(-2.2) 		506.2
(-2.4) 		682.3
(-1.3) 		1375.2
(3) 		966
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 115
1 2 3 4 range
A 197.1
(3)
P 		106.1
(-1.9)
P 		108.7
(-1.8)
P 		86.1
(-3)
P 		111
B 167.7
(3)
P 		134.4
(0.3)
P 		96.7
(-2.8)
P 		94.7
(-3)
P 		73
C 162
(2.9)
P 		134
(0.8)
P 		163
(3)
P 		82.1
(-3)
P 		81
avr 175.6
(3) 		124.8
(-0.5) 		122.8
(-0.6) 		87.6
(-3) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 484
1 2 3 4 5 6 range
A 66
(-3)
P 		130.6
(-1)
P 		107.5
(-1.7)
P 		95.8
(-2.1)
P 		204.5
(1.2)
P 		263.6
(3)
P 		198
B 152
(-2.8)
P 		140
(-3)
P 		144.4
(-2.9)
P 		164.7
(-2.6)
P 		355.7
(0.2)
P 		550.1
(3)
P 		410
C 160.6
(-2.2)
P 		147.1
(-2.4)
P 		139.5
(-2.5)
P 		104.4
(-3)
P 		159.7
(-2.2)
P 		524.9
(3)
P 		421
avr 126.2
(-2.9) 		139.2
(-2.7) 		130.5
(-2.8) 		121.6
(-3) 		240
(-0.8) 		446.2
(3) 		325
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172864_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14596
Sequence Type Exemplar sequence
Representative Public ID F10C2.2 NCBI
Target Description F10C2.2 /REP_DB=WormBase Gene ID /WP=CE09306 /GEN=kup-1 /TR=SW:P34705 /GB=CAB04080.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=KUP-1 protein
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_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 11/11 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
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
chrV:12034914-12043454(-) 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:172864_X_AT
aatgctcgcgaggttccaaatggaaaatggagagtattaacaaaacacgttccagccaac
atgttcgtcattattcgatatgcaacgacggatgaatatcagacaatggtaacatcagat
cggagtcaagttaaaaagaccggcgtaaaacgtggaaatgattcgttttggacacatgag
tcatcaaatcgtggaggattgaatgtattcgataaagaaggaaaagaactcgaatgggat
tatgagcatgatacaagattttacaacgaagataaaaatgaggagaaagtcgagaaagtg
aaacttccacagggaatcaaaattaaaggtcgaggagctgtgaaatgcggatttcttttc
ggcgagggaagtagttcgttagcttctgatgacaccactccagtcaagaaacggagaact
gatgaaaaagattacgaaaaggatgatatcgtatcacggcaagggtcttctgcacacgcc
atacgacctggaagagttgaacgtccaattcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGCTCGCGAGGTTCCAAATGGAA 520 165 613 Antisense
ACACGTTCCAGCCAACATGTTCGTC 79 109 657 Antisense
GTTCGTCATTATTCGATATGCAACG 319 443 675 Antisense
ATGATTCGTTTTGGACACATGAGTC 56 47 770 Antisense
AGGTCGAGGAGCTGTGAAATGCGGA 87 57 939 Antisense
GAAATGCGGATTTCTTTTCGGCGAG 488 359 954 Antisense
GTTCGTTAGCTTCTGATGACACCAC 127 443 986 Antisense
GACACCACTCCAGTCAAGAAACGGA 212 367 1003 Antisense
GTATCACGGCAAGGGTCTTCTGCAC 680 451 1063 Antisense
CACACGCCATACGACCTGGAAGAGT 295 195 1085 Antisense
GGAAGAGTTGAACGTCCAATTCGAG 259 527 1102 Antisense
Sequence Source Affymetrix Proprietary Database