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[181213_s_at]

Description T03F1.9 /REP_DB=WormBase Gene ID /WP=CE13112 /TR=P91426 /GB=AAB42237.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 33      4grp_high_8_8 > 51      6grp_highest_nonorm > 93      6grp_total > 77      4grp_total > 60      6grp_highest_sub > Da      6grp_cgc > 49      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.
4 152
1 2 3 4 range
A 290.8
(0.9)
P 		309.9
(3)
P 		309.4
(2.9)
P 		256.4
(-3)
P 		54
B 270.1
(3)
P 		247.4
(1.8)
P 		263.9
(2.7)
P 		158.4
(-3)
P 		112
C 295.5
(3)
P 		268.3
(0.7)
P 		271
(0.9)
P 		226
(-3)
P 		70
avr 285.5
(3) 		275.2
(2.1) 		281.4
(2.7) 		213.6
(-3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 601
1 2 3 4 5 6 range
A 282.2
(-2.5)
P 		240.3
(-3)
P 		242.2
(-3)
P 		314
(-2.1)
P 		300.7
(-2.2)
P 		706.9
(3)
P 		467
B 211.6
(-3)
P 		214.7
(-3)
P 		232.1
(-2.8)
P 		271.2
(-2.3)
P 		428.9
(-0.6)
P 		752.4
(3)
P 		541
C 205.1
(-3)
P 		212.7
(-2.9)
P 		250
(-2.6)
P 		282
(-2.2)
P 		382.8
(-1.2)
P 		806.2
(3)
P 		601
avr 233
(-2.9) 		222.6
(-3) 		241.4
(-2.8) 		289.1
(-2.3) 		370.8
(-1.3) 		755.2
(3) 		533
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 105.9
(3)
P 		67.3
(-0.4)
P 		80.9
(0.8)
P 		37.5
(-3)
P 		68
B 86.1
(3)
P 		61.1
(0.1)
P 		61.2
(0.1)
P 		33.7
(-3)
P 		52
C 97.8
(3)
P 		77.1
(0.9)
P 		94.4
(2.7)
P 		38.1
(-3)
P 		60
avr 96.6
(3) 		68.5
(0.2) 		78.8
(1.2) 		36.4
(-3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 229
1 2 3 4 5 6 range
A 52
(-3)
P 		85.4
(-1.3)
P 		52.7
(-3)
P 		79.6
(-1.6)
P 		90.7
(-1.1)
P 		172.1
(3)
P 		120
B 73.6
(-2.5)
P 		71.5
(-2.6)
P 		56.4
(-3)
P 		71.8
(-2.6)
P 		174.2
(0.2)
P 		280.6
(3)
P 		224
C 76
(-2.5)
P 		64.9
(-2.8)
P 		63.6
(-2.8)
P 		56.7
(-3)
P 		123.9
(-1.1)
P 		269.9
(3)
P 		213
avr 67.2
(-2.7) 		73.9
(-2.5) 		57.6
(-3) 		69.4
(-2.6) 		129.6
(-0.6) 		240.9
(3) 		183
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 181213_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.107
Sequence Type Exemplar sequence
Representative Public ID T03F1.9 NCBI
Target Description T03F1.9 /REP_DB=WormBase Gene ID /WP=CE13112 /TR=P91426 /GB=AAB42237.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_058843(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058843 NCBI Caenorhabditis elegans HoloCentric chromosome binding Protein family member (hcp-4) (hcp-4) mRNA, complete cds. 11/11 None
SNAP00000013117 ENSEMBL cdna:SNAP chromosome:CEL140:I:3862937:3865939:-1 11/11 None
GENEFINDER00000013127 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3862937:3865939:-1 11/11 None
T03F1.9 ENSEMBL cdna:known chromosome:CEL140:I:3862833:3865940:-1 gene:T03F1.9 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
chrI:3862936-3865939(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hcp-4
Ensembl T03F1.9
Entrez Gene 171964 Entrez gene
SwissProt P91426 EMBL-EBI
WormBase CE13112 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5737 cytoplasm inferred from direct assay QuickGO AmiGO
5654 nucleoplasm inferred from direct assay QuickGO AmiGO
779 condensed chromosome, pericentric region inferred from direct assay QuickGO AmiGO
793 condensed chromosome inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_491244 HoloCentric chromosome binding Protein family member (hcp-4) [Caenorhabditis elegans] gb|AAK07638.1| CENP-C-like protein HCP-4 [Caenorhabditis elegans] gb|AAB42237.1| Holocentric chromosome binding protein protein 4 [Caenorhabditis elegans] 0.0
blast CAE66636 Hypothetical protein CBG11973 [Caenorhabditis briggsae] 1.0E-54
Sequence
Target Sequence 
>C. ELEGANS:181213_S_AT
ctgactgtcaacgaagagcctgcacatgatatcagtgccattgattttccagaggacgat
acaaatgaaatgagatcttcttctgacgaagaagaaatggaagcacgtccagatccaagg
aaaaagtcgtctagaagactcgggcttcttagtgattcgattgctcttggtcttgctagt
tcgtcgagaagacgcccaaacgacacattcgttgacgaaacatggtatcctgaaccgaat
tctaaaggaaacagacgtccgagaacacacaggggtatgaaactgaaagagcatcaactc
atgaagccagaagatgctccagacggtgtccgaagatcgacgcgtgtccgcgtgaagcct
gttcgttcgtggcttggagaacaaccggtttatgtcaattcgccgattagtggctgcaag
cgattgactggtgtgacggccgttgtcatcaaggatccgcgtttgtgctattacagaact
gctgacgtcagaacagcaaccgagcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTGACTGTCAACGAAGAGCCTGCAC 431 237 1990 Antisense
GTGCCATTGATTTTCCAGAGGACGA 447 477 2024 Antisense
TGATTCGATTGCTCTTGGTCTTGCT 128 565 2142 Antisense
TCTTGGTCTTGCTAGTTCGTCGAGA 642 615 2154 Antisense
GATGCTCCAGACGGTGTCCGAAGAT 142 415 2302 Antisense
GATCGACGCGTGTCCGCGTGAAGCC 414 415 2324 Antisense
GAAGCCTGTTCGTTCGTGGCTTGGA 54 345 2343 Antisense
CGATTGACTGGTGTGACGGCCGTTG 128 247 2410 Antisense
ACGGCCGTTGTCATCAAGGATCCGC 652 95 2425 Antisense
AAGGATCCGCGTTTGTGCTATTACA 275 161 2440 Antisense
GACGTCAGAACAGCAACCGAGCGAG 24 379 2473 Antisense
Sequence Source Affymetrix Proprietary Database