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[186054_s_at]

Description H28G03.2 /REP_DB=WormBase Gene ID /WP=CE11600 /TR=Q9TXP7 /GB=AAC67404.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 03      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_highest_nonorm > 41      6grp_total > 24      4grp_total > 43      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 515
1 2 3 4 range
A 776.4
(-1.1)
P 		998.8
(3)
P 		670
(-3)
P 		686.8
(-2.7)
P 		329
B 586.4
(-3)
P 		973.5
(3)
P 		774.6
(-0.1)
P 		645.9
(-2.1)
P 		387
C 862.3
(0.6)
P 		1068.1
(3)
P 		902.8
(1.1)
P 		553.5
(-3)
P 		515
avr 741.7
(-1.2) 		1013.5
(3) 		782.5
(-0.6) 		628.7
(-3) 		385

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 671
1 2 3 4 5 6 range
A 1101.7
(3)
P 		757.1
(-0.3)
P 		549.8
(-2.4)
P 		561.7
(-2.2)
P 		484
(-3)
P 		578.7
(-2.1)
P 		618
B 910
(3)
P 		877.7
(2.6)
P 		768.1
(1.2)
P 		541.5
(-1.8)
P 		444.6
(-3)
P 		499.3
(-2.3)
P 		465
C 812.7
(3)
P 		751.8
(2)
P 		789.1
(2.6)
P 		561.4
(-0.9)
P 		646.7
(0.4)
P 		430.7
(-3)
P 		382
avr 941.5
(3) 		795.5
(1) 		702.3
(-0.3) 		554.9
(-2.3) 		525.1
(-2.7) 		502.9
(-3) 		439
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 221
1 2 3 4 range
A 282.7
(3)
P 		216.8
(0.8)
P 		175.2
(-0.5)
P 		100.5
(-3)
P 		182
B 187
(-0.1)
P 		240.4
(3)
P 		179.5
(-0.6)
P 		137.6
(-3)
P 		103
C 285.4
(2.2)
P 		307.1
(2.8)
P 		314.7
(3)
P 		93.3
(-3)
P 		221
avr 251.7
(2.9) 		254.8
(3) 		223.1
(1.7) 		110.5
(-3) 		144

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 204
1 2 3 4 5 6 range
A 203.1
(0.3)
P 		269.3
(3)
P 		119.7
(-3)
P 		142.5
(-2.1)
P 		146.1
(-1.9)
P 		140.9
(-2.1)
P 		150
B 316.6
(3)
P 		292.2
(2.2)
P 		186.5
(-1.5)
P 		143.4
(-3)
P 		180.7
(-1.7)
P 		186.2
(-1.5)
P 		173
C 301.2
(3)
P 		229.4
(0.7)
P 		200.8
(-0.2)
P 		112.9
(-3)
P 		209.3
(0.1)
P 		144.2
(-2)
P 		188
avr 273.6
(3) 		263.6
(2.6) 		169
(-1.5) 		132.9
(-3) 		178.7
(-1) 		157.1
(-2) 		141
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186054_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16347
Sequence Type Exemplar sequence
Representative Public ID H28G03.2 NCBI
Target Description H28G03.2 /REP_DB=WormBase Gene ID /WP=CE11600 /TR=Q9TXP7 /GB=AAC67404.1 /SUBMIT=ST.LOUIS /CHR=X /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_171678(11), NM_171679(11), NM_171680(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171678 NCBI Caenorhabditis elegans H28G03.2a (H28G03.2) mRNA, complete cds. 11/11 A 
NM_171679 NCBI Caenorhabditis elegans H28G03.2b (H28G03.2) mRNA, complete cds. 11/11 A 
NM_171680 NCBI Caenorhabditis elegans H28G03.2c (H28G03.2) mRNA, complete cds. 11/11 A 
GENEFINDER00000008041 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:5205789:5217970:1 11/11 None
SNAP00000008031 ENSEMBL cdna:SNAP chromosome:CEL140:X:5213976:5215523:1 11/11 None
H28G03.2a ENSEMBL cdna:known chromosome:CEL140:X:5205737:5216175:1 gene:H28G03.2 11/11 A 
H28G03.2c.1 ENSEMBL cdna:known chromosome:CEL140:X:5211102:5215523:1 gene:H28G03.2 11/11 None
H28G03.2b ENSEMBL cdna:known chromosome:CEL140:X:5213803:5215523:1 gene:H28G03.2 11/11 A 
H28G03.2c.2 ENSEMBL cdna:known chromosome:CEL140:X:5214075:5215523:1 gene:H28G03.2 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
chrX:5205789-5215524(+) 100.0 100.0
Public Domain and Genome References
Ensembl H28G03.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL38959 Hypothetical protein H28G03.1a [Caenorhabditis elegans] ref|NP_741783.1| H28G03.1a [Caenorhabditis elegans] 0.0
blast AAM69104 Hypothetical protein H28G03.1c [Caenorhabditis elegans] ref|NP_741784.1| H28G03.1c [Caenorhabditis elegans] 0.0
blast CAE68714 Hypothetical protein CBG14639 [Caenorhabditis briggsae] 1.0E-173
blast AAC67404 Hypothetical protein H28G03.2a [Caenorhabditis elegans] ref|NP_741780.1| H28G03.2a [Caenorhabditis elegans] 1.0E-163
blast AAM69106 Hypothetical protein H28G03.2c [Caenorhabditis elegans] ref|NP_741782.1| H28G03.2c [Caenorhabditis elegans] 6.0E-45
blast AAM69105 Hypothetical protein H28G03.2b [Caenorhabditis elegans] ref|NP_741781.1| H28G03.2b [Caenorhabditis elegans] 6.0E-45
blast AAC67404 Hypothetical protein H28G03.2a [Caenorhabditis elegans] ref|NP_741780.1| H28G03.2a [Caenorhabditis elegans] 6.0E-45
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.9E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.1E-6
Sequence
Target Sequence 
>C. ELEGANS:186054_S_AT
caatgcctcaccacatggggatgcctcctccaggaatgggtccacctccgttcatgccgc
caccaattgggatgcctccaccaccactgggcatgcccccaccacacattggcttggggg
ccgctccgtacgcagttcccccgccgatgagtcttttgggaccaccaccattcagtgttc
cgccaagtgttccaccacccacaagctcggcagcagctccaattgtgccacctccaccgg
tccaatccacagcccagccaccgccaagtgggacatcagaggcagaaaaaatgaaaatga
ctcatggtttgaatccgattgcattctccaatgcgccaccagggctcaaattgggcatga
acgattacaaccagccaccaccagcgaagaagccagctgctcaacaaaatccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATGCCTCACCACATGGGGATGCC 21 183 962 Antisense
TTCATGCCGCCACCAATTGGGATGC 541 679 1012 Antisense
CCACCACACATTGGCTTGGGGGCCG 599 273 1060 Antisense
TCCCCCGCCGATGAGTCTTTTGGGA 707 549 1098 Antisense
CCGATGAGTCTTTTGGGACCACCAC 674 263 1105 Antisense
CACCGCCAAGTGGGACATCAGAGGC 333 201 1220 Antisense
GACTCATGGTTTGAATCCGATTGCA 546 373 1260 Antisense
TCCGATTGCATTCTCCAATGCGCCA 65 595 1275 Antisense
GCATGAACGATTACAACCAGCCACC 532 309 1316 Antisense
CCACCAGCGAAGAAGCCAGCTGCTC 659 273 1339 Antisense
AAGCCAGCTGCTCAACAAAATCCGC 300 149 1351 Antisense
Sequence Source Affymetrix Proprietary Database