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[172917_x_at]

Description K01G5.2C /REP_DB=WormBase Gene ID /WP=CE25038 /TR=Q9U3C6 /GB=CAB54267.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=chromo (CHRromatin Organization MOdifier) domain
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 07      4grp_high_8_8 > 21      6grp_highest_nonorm > 93      6grp_total > 97      4grp_total > 19      6grp_highest_sub > In      6grp_cgc > 69      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.
4 254
1 2 3 4 range
A 357.5
(-2.4)
P 		451
(-0.1)
P 		330.5
(-3)
P 		584.1
(3)
P 		254
B 397.3
(1.5)
P 		405
(3)
P 		374.1
(-3)
P 		382.1
(-1.4)
P 		31
C 369.9
(-2.5)
P 		427.8
(-0.7)
P 		351.5
(-3)
P 		553.2
(3)
P 		202
avr 374.9
(-2.1) 		427.9
(-0.1) 		352
(-3) 		506.5
(3) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 402
1 2 3 4 5 6 range
A 343.1
(-1.9)
P 		293.5
(-2.8)
P 		280.3
(-3)
P 		320.4
(-2.3)
P 		615.9
(3)
P 		588.3
(2.5)
P 		336
B 302.3
(-2.3)
P 		255.8
(-3)
P 		328
(-1.9)
P 		352.3
(-1.5)
P 		515.2
(1)
P 		641
(3)
P 		385
C 286.8
(-2.5)
P 		253.6
(-3)
P 		344.4
(-1.6)
P 		432.2
(-0.3)
P 		511.9
(0.9)
P 		655.4
(3)
P 		402
avr 310.7
(-2.3) 		267.6
(-3) 		317.6
(-2.2) 		368.3
(-1.3) 		547.7
(1.7) 		628.2
(3) 		361
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 130.2
(3)
P 		97.9
(-1.3)
P 		86.4
(-2.9)
P 		85.5
(-3)
P 		45
B 126.7
(3)
P 		100
(-0.5)
P 		86.7
(-2.3)
P 		81.4
(-3)
P 		45
C 122.4
(2.9)
P 		123
(3)
P 		122.5
(2.9)
P 		93.3
(-3)
P 		30
avr 126.4
(3) 		107
(0.1) 		98.5
(-1.2) 		86.7
(-3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 178
1 2 3 4 5 6 range
A 63.2
(-2.9)
P 		104.4
(-0.9)
P 		61
(-3)
P 		81.3
(-2)
P 		185.9
(3)
P 		143.2
(0.9)
P 		125
B 105.2
(-2)
P 		85.1
(-2.8)
P 		79.6
(-3)
P 		93.3
(-2.5)
P 		209.3
(1.9)
P 		239
(3)
P 		159
C 106.3
(-1.8)
P 		77.4
(-3)
P 		87.7
(-2.6)
P 		86.9
(-2.6)
P 		165.7
(0.7)
P 		219.4
(3)
P 		142
avr 91.6
(-2.3) 		89
(-2.4) 		76.1
(-3) 		87.2
(-2.5) 		187
(2.3) 		200.5
(3) 		124
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172917_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6267
Sequence Type Exemplar sequence
Representative Public ID K01G5.2C NCBI
Target Description K01G5.2C /REP_DB=WormBase Gene ID /WP=CE25038 /TR=Q9U3C6 /GB=CAB54267.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=chromo (CHRromatin Organization MOdifier) domain
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_001027482(10), NM_001027483(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027482 NCBI Caenorhabditis elegans HP1 Like (heterochromatin protein) family member (hpl-2) (hpl-2) mRNA, complete cds. 10/11 None
NM_001027483 NCBI Caenorhabditis elegans HP1 Like (heterochromatin protein) family member (hpl-2) (hpl-2) mRNA, complete cds. 11/11 None
SNAP00000033491 ENSEMBL cdna:SNAP chromosome:CEL140:III:10752201:10755387:-1 10/11 None
K01G5.2b ENSEMBL cdna:known chromosome:CEL140:III:10752140:10755392:-1 gene:K01G5.2 10/11 A 
K01G5.2c ENSEMBL cdna:known chromosome:CEL140:III:10752197:10755387:-1 gene:K01G5.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_058746 2/11 Cross Hyb Matching Probes A 
NM_066902 4/11 Cross Hyb Matching Probes A 
NM_066903 3/11 Cross Hyb Matching Probes A 
NM_001027481 3/11 Cross Hyb Matching Probes None
SNAP00000029372 4/11 Cross Hyb Matching Probes None
GENEFINDER00000029378 4/11 Cross Hyb Matching Probes None
SNAP00000026564 3/11 Cross Hyb Matching Probes None
GENEFINDER00000026568 3/11 Cross Hyb Matching Probes None
SNAP00000018661 3/11 Cross Hyb Matching Probes None
GENEFINDER00000018677 3/11 Cross Hyb Matching Probes None
GENEFINDER00000033495 5/11 Cross Hyb Matching Probes None
GENEFINDER00000033502 3/11 Cross Hyb Matching Probes None
W05F2.7 2/11 Cross Hyb Matching Probes A 
H04D03.2b 4/11 Cross Hyb Matching Probes A 
H04D03.2a 3/11 Cross Hyb Matching Probes A 
K01G5.2a 3/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176506 3 2 NM_001027482 171755_x_at (9), 171757_x_at (10), 172917_x_at (10), 172918_x_at (11), 180081_s_at (11)
NM_001027483 171755_x_at (10), 171757_x_at (9), 172917_x_at (11), 172918_x_at (10), 180081_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:10752196-10755383(-) 100.0 100.0
Public Domain and Genome References
Ensembl K01G5.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB54267 Hypothetical protein K01G5.2c [Caenorhabditis elegans] ref|NP_001022654.1| HP1 Like (heterochromatin protein) family member (hpl-2) [Caenorhabditis elegans] 1.0E-148
blast CAB07243 Hypothetical protein K01G5.2b [Caenorhabditis elegans] ref|NP_001022653.1| HP1 Like (heterochromatin protein) family member (hpl-2) [Caenorhabditis elegans] gb|AAD21196.1| chromo-domain protein [Caenorhabditis elegans] 1.0E-146
blast CAB54267 Hypothetical protein K01G5.2c [Caenorhabditis elegans] ref|NP_001022654.1| HP1 Like (heterochromatin protein) family member (hpl-2) [Caenorhabditis elegans] 1.0E-145
blast CAB07243 Hypothetical protein K01G5.2b [Caenorhabditis elegans] ref|NP_001022653.1| HP1 Like (heterochromatin protein) family member (hpl-2) [Caenorhabditis elegans] gb|AAD21196.1| chromo-domain protein [Caenorhabditis elegans] 1.0E-145
Protein Domains
Database ID Description E-Value
Pfam IPR008251 EMBL-EBI Chromo shadow 2.1E-32
Pfam IPR000953 EMBL-EBI Chromo 2.6E-14
Sequence
Target Sequence 
>C. ELEGANS:172917_X_AT
taaaatgcattgtcgggctcaccaagggacctggggaacttcattttctgtgcaaattca
gtgatgacacggcacggcttcttccagcgaaggaggtgaacagtcgataccgcccgttcg
tcgacgcttacggcgaatttctgaagaaaaagatggagagacgacacaaacggatttccg
agggaaagaagaagcgttcgattgaggaagatgatgcagatgatgagtggcctgaaatgc
caccgggacatcgaattcttacaaccgaagaacacgagctgcaacgtaggaaggaatcga
aaatatcgcaggacgttgagatgactgaagcgtttcagcaaaccgcggccgatatgctca
atgatatgcacatggcggccaatggagatctgctttccagcttcccacaagatttccttg
aagactctggcgatggagaagttcacgaggcggccatcctctccgttttcgatgacaatt
cgaatagcccgccaccgtgtccgatcgttgtcgacactgtaccagac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAAAATGCATTGTCGGGCTCACCAA 475 639 362 Antisense
GGACCTGGGGAACTTCATTTTCTGT 143 523 388 Antisense
CACGGCTTCTTCCAGCGAAGGAGGT 477 197 434 Antisense
AGGAGGTGAACAGTCGATACCGCCC 499 55 452 Antisense
GTTCGTCGACGCTTACGGCGAATTT 370 441 477 Antisense
GCCACCGGGACATCGAATTCTTACA 217 279 600 Antisense
TTCAGCAAACCGCGGCCGATATGCT 39 683 695 Antisense
AATGGAGATCTGCTTTCCAGCTTCC 342 163 742 Antisense
CCAGCTTCCCACAAGATTTCCTTGA 594 271 758 Antisense
ATCCTCTCCGTTTTCGATGACAATT 256 39 817 Antisense
GATCGTTGTCGACACTGTACCAGAC 198 417 864 Antisense
Sequence Source Affymetrix Proprietary Database