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[171755_x_at]

Description C49410 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K01G5.2C /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49410 /WB_GENE_ID=K01G5.2C /WP=CE25038 /CHR=3 /FEA=Genomic Cluster /DEF=chromo (CHRromatin Organization MOdifier) domain; C.elegans cDNA clone yk470a11 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 78      6grp_high1_10_10 > 96      4grp_highest_8_8 > 21      4grp_high_8_8 > 23      6grp_highest_nonorm > 93      6grp_total > 87      4grp_total > 16      6grp_highest_sub > In      6grp_cgc > 58      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 279
1 2 3 4 range
A 289.7
(-3)
P 		510.9
(3)
P 		426.8
(0.7)
P 		405.2
(0.1)
P 		221
B 334.5
(-0.8)
P 		234.5
(-3)
P 		322.8
(-1.1)
P 		513
(3)
P 		279
C 308.7
(-1)
P 		263.7
(-3)
P 		334.2
(0.1)
P 		398.8
(3)
P 		135
avr 311
(-3) 		336.4
(-1.8) 		361.3
(-0.6) 		439
(3) 		128

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 467
1 2 3 4 5 6 range
A 246.4
(-2.6)
P 		249
(-2.5)
P 		226.6
(-3)
P 		344.8
(-0.6)
P 		469.6
(1.9)
P 		522.8
(3)
P 		296
B 233
(-3)
P 		243.2
(-2.9)
P 		383.7
(-0.9)
P 		379.2
(-0.9)
P 		477.1
(0.5)
P 		657.2
(3)
P 		424
C 259.8
(-3)
P 		311.1
(-2.3)
P 		293.6
(-2.5)
P 		296.3
(-2.5)
P 		353.2
(-1.7)
P 		693.4
(3)
P 		434
avr 246.4
(-3) 		267.8
(-2.7) 		301.3
(-2.1) 		340.1
(-1.5) 		433.3
(-0) 		624.5
(3) 		378
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 105.5
(2.3)
P 		110.9
(2.9)
P 		111.6
(3)
P 		59.3
(-3)
P 		52
B 106.7
(2.7)
P 		57.9
(-3)
P 		74.8
(-1)
P 		109.3
(3)
P 		51
C 102.2
(1.3)
P 		75.8
(-2)
P 		116.5
(3)
P 		67.2
(-3)
P 		49
avr 104.8
(3) 		81.5
(-2.3) 		101
(2.1) 		78.6
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 200
1 2 3 4 5 6 range
A 45.4
(-3)
P 		88.6
(-0.3)
P 		49.4
(-2.8)
P 		87.5
(-0.4)
P 		141.7
(3)
P 		127.3
(2.1)
P 		96
B 81.1
(-3)
P 		81
(-3)
P 		93.2
(-2.6)
P 		100.4
(-2.3)
P 		193.8
(1.1)
P 		245.1
(3)
P 		164
C 96.3
(-1.7)
P 		94.9
(-1.8)
P 		74.7
(-2.5)
P 		59.6
(-3)
P 		114.3
(-1.1)
P 		232.1
(3)
P 		173
avr 74.3
(-2.9) 		88.2
(-2.3) 		72.4
(-3) 		82.5
(-2.5) 		149.9
(0.6) 		201.5
(3) 		129
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171755_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24333
Sequence Type Exemplar sequence
Representative Public ID C49410 NCBI
Target Description C49410 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=K01G5.2C /5_PRIME_EXT_DB=WormBase Gene ID /GB=C49410 /WB_GENE_ID=K01G5.2C /WP=CE25038 /CHR=3 /FEA=Genomic Cluster /DEF=chromo (CHRromatin Organization MOdifier) domain; C.elegans cDNA clone yk470a11 : 5prime 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_001027482(9), NM_001027483(10)
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. 9/11 None
NM_001027483 NCBI Caenorhabditis elegans HP1 Like (heterochromatin protein) family member (hpl-2) (hpl-2) mRNA, complete cds. 10/11 None
SNAP00000033491 ENSEMBL cdna:SNAP chromosome:CEL140:III:10752201:10755387:-1 9/11 None
K01G5.2b ENSEMBL cdna:known chromosome:CEL140:III:10752140:10755392:-1 gene:K01G5.2 9/11 A 
K01G5.2c ENSEMBL cdna:known chromosome:CEL140:III:10752197:10755387:-1 gene:K01G5.2 10/11 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 3/11 Cross Hyb Matching Probes None
GENEFINDER00000029378 3/11 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 4/11 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:10752197-10755384(-) 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:171755_X_AT
taaaatgcattgtcgggctcaccaagggacctggggaacttcattttctgtgcaaattca
gtgatgacacggcacggcttcttccagcgaaggaggtgaacagtcgataccgcccgttcg
tcgacgcttacggcgaatttctgaagaaaaagatggagagacgacacaaacggatttccg
agggaaagaagaagcgttcgattgaggaagatgatgcagatgatgagtggcctgaaatgc
caccgggacatcgaattctgacaaccgaagaacacgagctgcaacgtaggaaggaatcga
aaatatcgcaggacgttgagatgactgaagcgtttcagcaaaccgcggccgatatgctca
atgatatgcacatggcggccaatggagatctgctttccagcttcccacaagatttccttg
aagactctggcgatggagaagttcacgaggcggccatcctctccgttttcgatgacaatt
cgaatagcccgccaccgtgtccgatcgttgtcgacactgtaccagac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAAAATGCATTGTCGGGCTCACCAA 477 639 363 Antisense
GGACCTGGGGAACTTCATTTTCTGT 145 523 389 Antisense
CACGGCTTCTTCCAGCGAAGGAGGT 479 197 435 Antisense
AGGAGGTGAACAGTCGATACCGCCC 501 55 453 Antisense
GTTCGTCGACGCTTACGGCGAATTT 372 441 478 Antisense
GCCACCGGGACATCGAATTCTGACA 219 279 601 Antisense
TTCAGCAAACCGCGGCCGATATGCT 40 683 696 Antisense
AATGGAGATCTGCTTTCCAGCTTCC 344 163 743 Antisense
CCAGCTTCCCACAAGATTTCCTTGA 596 271 759 Antisense
ATCCTCTCCGTTTTCGATGACAATT 258 39 818 Antisense
GATCGTTGTCGACACTGTACCAGAC 200 417 865 Antisense
Sequence Source Affymetrix Proprietary Database