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[172908_x_at] ubiquitin/ribosomal protein

Description F34H10.1 /REP_DB=WormBase Gene ID /WP=CE01571 /TR=SW:Q09557 /GB=CAA87034.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=ubiquitin-ribosomal protein
Cluster 6grp_high1_10_10 > 90      4grp_high_8_8 > 13      6grp_total > 93      4grp_total > 09      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 467
1 2 3 4 range
A 163.4
(-2.9)
M 		159.4
(-3)
A 		220.8
(-1.8)
P 		461.3
(3)
A 		302
B 103.4
(-3)
M 		224.9
(1.4)
P 		230.4
(1.6)
P 		268.7
(3)
P 		165
C 188.9
(-2)
P 		206.2
(-1.8)
P 		116
(-3)
P 		570.8
(3)
P 		455
avr 151.9
(-3) 		196.8
(-2) 		189.1
(-2.2) 		433.6
(3) 		282

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 273
1 2 3 4 5 6 range
A 270
(1.5)
P 		93.2
(-2.4)
M 		85
(-2.6)
A 		68.4
(-3)
A 		337.7
(3)
P 		230.4
(0.6)
P 		269
B 115.1
(-3)
P 		211.3
(0.9)
P 		190.7
(0)
P 		233.9
(1.8)
P 		263.9
(3)
P 		117
(-2.9)
A 		149
C 90.5
(-2.3)
P 		273.3
(3)
P 		190.2
(0.6)
P 		147.3
(-0.6)
P 		188.8
(0.6)
P 		65
(-3)
A 		208
avr 158.5
(-2) 		192.6
(-0.4) 		155.3
(-2.2) 		149.9
(-2.4) 		263.5
(3) 		137.5
(-3) 		126
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 59.5
(1.5)
M 		34.6
(-3)
A 		57.7
(1.2)
P 		67.5
(3)
A 		33
B 33
(-3)
M 		55.6
(2.6)
P 		53.4
(2)
P 		57.3
(3)
P 		24
C 62.5
(-0.6)
P 		59.3
(-1)
P 		40.4
(-3)
P 		96.2
(3)
P 		56
avr 51.7
(-2.5) 		49.8
(-3) 		50.5
(-2.8) 		73.7
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 49.8
(-0.7)
P 		33.2
(-1.9)
M 		18.5
(-2.9)
A 		17.4
(-3)
A 		101.9
(3)
P 		56.1
(-0.3)
P 		85
B 40
(-3)
P 		70.3
(-0.3)
P 		46.3
(-2.4)
P 		62
(-1)
P 		107.2
(3)
P 		43.6
(-2.7)
A 		67
C 33.5
(-1.9)
P 		83.4
(3)
P 		48.4
(-0.4)
P 		29.6
(-2.2)
P 		61.1
(0.8)
P 		21.8
(-3)
A 		62
avr 41.1
(-2.5) 		62.3
(-0.1) 		37.7
(-2.8) 		36.3
(-3) 		90.1
(3) 		40.5
(-2.5) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172908_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16676
Sequence Type Exemplar sequence
Representative Public ID F34H10.1 NCBI
Target Description F34H10.1 /REP_DB=WormBase Gene ID /WP=CE01571 /TR=SW:Q09557 /GB=CAA87034.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=ubiquitin-ribosomal protein
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_077221(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077221 NCBI Caenorhabditis elegans F34H10.1 (F34H10.1) mRNA, complete cds. 11/11 None
SNAP00000008829 ENSEMBL cdna:SNAP chromosome:CEL140:X:9626056:9626781:1 9/11 None
F34H10.1 ENSEMBL cdna:known chromosome:CEL140:X:9626067:9626781:1 gene:F34H10.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_060536 6/11 Cross Hyb Matching Probes A 
GENEFINDER00000013586 6/11 Cross Hyb Matching Probes None
SNAP00000013579 6/11 Cross Hyb Matching Probes None
GENEFINDER00000011746 4/11 Cross Hyb Matching Probes None
SNAP00000011740 8/11 Cross Hyb Matching Probes None
SNAP00000008153 1/11 Cross Hyb Matching Probes None
GENEFINDER00000008167 2/11 Cross Hyb Matching Probes None
GENEFINDER00000008836 6/11 Cross Hyb Matching Probes None
K08C9.7 6/11 Cross Hyb Matching Probes A 
Y105E8B.10 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:9626066-9626781(+) 100.0 100.0
chrI:14687044-14687759(-) 99.07 99.07
chrI:11503573-11504287(-) 97.9 97.9
Public Domain and Genome References
Gene Title ubiquitin/ribosomal protein
Ensembl F34H10.1
Entrez Gene 185243 Entrez gene
SwissProt Q09557 EMBL-EBI
WormBase CE01571 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA87034 Hypothetical protein F34H10.1 [Caenorhabditis elegans] ref|NP_509622.1| F34H10.1 [Caenorhabditis elegans] sp|Q09557|YQX1_CAEEL Probable ribosomal protein F34H10.1 in chromosome III 3.0E-78
blast CAB04588 Hypothetical protein K08C9.7 [Caenorhabditis elegans] ref|NP_492937.1| K08C9.7 [Caenorhabditis elegans] 2.0E-51
blast CAA87034 Hypothetical protein F34H10.1 [Caenorhabditis elegans] ref|NP_509622.1| F34H10.1 [Caenorhabditis elegans] sp|Q09557|YQX1_CAEEL Probable ribosomal protein F34H10.1 in chromosome III 5.0E-51
blast CAB04588 Hypothetical protein K08C9.7 [Caenorhabditis elegans] ref|NP_492937.1| K08C9.7 [Caenorhabditis elegans] 1.0E-45
blast B48766 ubiquitin-like protein / ribosomal protein (UbL) - Caenorhabditis briggsae gb|AAA28160.1| ubiquitin-like:ribosomal protein fusion protein 2.0E-18
blast AAF39865 Ubiquitin-like family protein 1, isoform a [Caenorhabditis elegans] ref|NP_741102.1| H06I04.4a [Caenorhabditis elegans] pir||A48766 ubiquitin / ribosomal protein S27a - Caenorhabditis elegans gb|AAA28161.1| ubiquitin-like:ribosomal protein fusion protein 8.0E-18
Sequence
Target Sequence 
>C. ELEGANS:172908_X_AT
gccagccacgaacaactcaagagaagaaaaagaggaagaaactacagatgtttgttcggc
taatgccgaaaaatcaacgaaaatcctcaattgtgcagaaactcatttcacccttcaaag
acggcttcacttttgtcagctaggaaatagcgactgtggaatcaaggctgcggctaccat
ctacgtcaactgtgagcttctcggaggagccaagaaaagaaagaaaaaggtctacaccat
tccaaagaagaacaatataagccaaaggaagtcaagctcgccgtcccccaagtacttcaa
gatcgacgagaacggcaagatcagccgtctaccaacagggatactaacagccagcattca
gagggaagccttcatgacccagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAGCCACGAACAACTCAAGAGAA 518 279 18 Antisense
GAAACTCATTTCACCCTTCAAAGAC 365 355 115 Antisense
ACGGCTTCACTTTTGTCAGCTAGGA 147 95 138 Antisense
GCGACTGTGGAATCAAGGCTGCGGC 7 291 167 Antisense
GCTACCATCTACGTCAACTGTGAGC 54 303 190 Antisense
ACTGTGAGCTTCTCGGAGGAGCCAA 370 95 206 Antisense
CCAAAGGAAGTCAAGCTCGCCGTCC 396 275 279 Antisense
GTCCCCCAAGTACTTCAAGATCGAC 588 473 300 Antisense
ATCAGCCGTCTACCAACAGGGATAC 47 29 337 Antisense
ACAGGGATACTAACAGCCAGCATTC 532 107 352 Antisense
CAGAGGGAAGCCTTCATGACCCAGC 91 207 376 Antisense
Sequence Source Affymetrix Proprietary Database