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[194214_x_at]

Description CEK019HXR_rc /REP_DB=TREMBL Accession /GB=D32638 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk19h10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 01      4grp_high_8_8 > 53      6grp_highest_nonorm > 95      6grp_total > 78      4grp_total > 58      6grp_highest_sub > Da      6grp_cgc > 49      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 357
1 2 3 4 range
A 538.6
(-1.5)
P 		768.2
(3)
P 		739.6
(2.4)
P 		461.1
(-3)
P 		307
B 511.6
(-1.3)
P 		758.3
(3)
P 		717.7
(2.3)
P 		411.6
(-3)
P 		347
C 543.2
(-0.7)
P 		736.8
(3)
P 		728
(2.8)
P 		425.7
(-3)
P 		311
avr 531.1
(-1.2) 		754.4
(3) 		728.4
(2.5) 		432.8
(-3) 		322

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1128
1 2 3 4 5 6 range
A 524.1
(-2.7)
P 		474
(-3)
P 		504.4
(-2.8)
P 		553.8
(-2.6)
P 		876.4
(-0.8)
P 		1588.3
(3)
P 		1114
B 668.2
(-1.9)
P 		523.4
(-3)
P 		535.4
(-2.9)
P 		705.9
(-1.6)
P 		692.5
(-1.7)
P 		1318.5
(3)
P 		795
C 598.2
(-2.2)
P 		460
(-3)
P 		488.6
(-2.8)
P 		616.1
(-2.1)
P 		800.4
(-1)
P 		1486.1
(3)
P 		1026
avr 596.8
(-2.3) 		485.8
(-3) 		509.5
(-2.9) 		625.3
(-2.1) 		789.8
(-1.1) 		1464.3
(3) 		979
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 186
1 2 3 4 range
A 196.1
(3)
P 		166.8
(1.6)
P 		193.4
(2.9)
P 		67.5
(-3)
P 		129
B 163.1
(1.5)
P 		187.3
(3)
P 		166.3
(1.7)
P 		87.7
(-3)
P 		100
C 179.8
(0.6)
P 		211.8
(1.6)
P 		253.7
(3)
P 		71.8
(-3)
P 		182
avr 179.7
(1.8) 		188.6
(2.3) 		204.5
(3) 		75.7
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 401
1 2 3 4 5 6 range
A 96.6
(-3)
P 		168.6
(-1.5)
P 		109.9
(-2.7)
P 		140.5
(-2.1)
P 		264.5
(0.5)
P 		386.7
(3)
P 		290
B 232.5
(-1.3)
P 		174.2
(-2.3)
P 		130
(-3)
P 		187
(-2.1)
P 		281.4
(-0.5)
P 		491.6
(3)
P 		362
C 221.7
(-1.4)
P 		140.4
(-2.7)
P 		124.3
(-3)
P 		123.9
(-3)
P 		259
(-0.8)
P 		497.5
(3)
P 		374
avr 183.6
(-1.9) 		161.1
(-2.3) 		121.4
(-3) 		150.5
(-2.5) 		268.3
(-0.4) 		458.6
(3) 		337
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194214_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21769
Sequence Type Exemplar sequence
Representative Public ID CEK019HXR NCBI
Target Description CEK019HXR_rc /REP_DB=TREMBL Accession /GB=D32638 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk19h10 : 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_073088(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073088 NCBI Caenorhabditis elegans HoloCentric chromosome binding Protein family member (hcp-2) (hcp-2) mRNA, complete cds. 10/11 A 
T06E4.1 ENSEMBL cdna:known chromosome:CEL140:V:9648424:9652881:1 gene:T06E4.1 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000007444 7/11 Cross Hyb Matching Probes None
GENEFINDER00000007457 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:9652329-9652871(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hcp-2
Ensembl T06E4.1
Entrez Gene 179353 Entrez gene
SwissProt Q22257 EMBL-EBI
WormBase CE06368 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94789 Hypothetical protein T06E4.1 [Caenorhabditis elegans] ref|NP_505489.1| HoloCentric chromosome binding Protein family member (hcp-2) [Caenorhabditis elegans] 0.0
blast CAE70092 Hypothetical protein CBG16534 [Caenorhabditis briggsae] 0.0
blast AAC19259 Holocentric chromosome binding protein protein 1 [Caenorhabditis elegans] ref|NP_504677.1| HoloCentric chromosome binding Protein family member (hcp-1) [Caenorhabditis elegans] 1.0E-141
Sequence
Target Sequence 
>C. ELEGANS:194214_X_AT
taatgggactccttcaacaggccagacttggccgctgagtcgtgaacattctcatgcgga
gccaccagagcctgttgttgaggacaagttcgaagatgctcaggattcgttccaagaaga
gttttcccattcgccagatgctatcacgtcatctacggtactccatccagatgatcatct
tcaagaaacaactgcagttgaaacgccgtcgaagaaggcgaaccgctcaaactgcaacca
gcaataatttgaactcgtattttatttatttttactttttgtgtgccattacgtatttcc
gcgcactactcaactgtgaatgtctttccgggtcaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAATGGGACTCCTTCAACAGGCCAG 301 637 63 Antisense
CTTGGCCGCTGAGTCGTGAACATTC 148 217 89 Antisense
GCCACCAGAGCCTGTTGTTGAGGAC 297 279 123 Antisense
CAAGAAGAGTTTTCCCATTCGCCAG 647 185 175 Antisense
GCTATCACGTCATCTACGGTACTCC 437 303 202 Antisense
TCTACGGTACTCCATCCAGATGATC 139 615 214 Antisense
ACAACTGCAGTTGAAACGCCGTCGA 145 111 250 Antisense
GAAGGCGAACCGCTCAAACTGCAAC 389 333 276 Antisense
TTGTGTGCCATTACGTATTTCCGCG 378 707 341 Antisense
TCCGCGCACTACTCAACTGTGAATG 222 597 360 Antisense
ACTGTGAATGTCTTTCCGGGTCAGA 116 97 375 Antisense
Sequence Source Affymetrix Proprietary Database