[Home] | [Total List]

[185359_at]

Description F54E7.2 /REP_DB=WormBase Gene ID /WP=CE26896 /GEN=rps-12 /GB=AAK20077.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 21      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 18      6grp_total > 41      4grp_total > 16      6grp_highest_sub > 03_04      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12843
1 2 3 4 range
A 19580.8
(-3)
P 		22452.5
(-1.5)
P 		24772.9
(-0.4)
P 		31383.9
(3)
P 		11803
B 21956.6
(-3)
P 		22106.9
(-2.8)
P 		25080.2
(0.4)
P 		27437.5
(3)
P 		5481
C 19258.7
(-3)
P 		21803.6
(-1.8)
P 		20337.8
(-2.5)
P 		32101.6
(3)
P 		12843
avr 20265.4
(-3) 		22121
(-1.9) 		23397
(-1.1) 		30307.7
(3) 		10042

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6498
1 2 3 4 5 6 range
A 17732.3
(1.7)
P 		16470.7
(0.2)
P 		17055.2
(0.9)
P 		18874.5
(3)
P 		13776
(-3)
P 		16368.1
(0.1)
P 		5099
B 14833
(-0.4)
P 		16546.8
(3)
P 		16176.1
(2.3)
P 		14974.3
(-0.1)
P 		13738.7
(-2.5)
P 		13492.2
(-3)
P 		3055
C 16051.5
(0.8)
P 		16706.8
(1.5)
P 		18157.4
(3)
P 		16508.4
(1.3)
P 		16437.5
(1.2)
P 		12376.3
(-3)
P 		5781
avr 16205.6
(1.2) 		16574.8
(1.9) 		17129.6
(3) 		16785.7
(2.3) 		14650.7
(-1.9) 		14078.9
(-3) 		3051
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2535
1 2 3 4 range
A 7129.4
(3)
P 		4873.8
(-2.3)
P 		6476.1
(1.5)
P 		4594
(-3)
P 		2535
B 7001.8
(3)
P 		5459.9
(-3)
P 		5811.7
(-1.6)
P 		5846.9
(-1.5)
P 		1542
C 6375.2
(0.4)
P 		6268.7
(0.1)
P 		7088.4
(3)
P 		5412.8
(-3)
P 		1676
avr 6835.5
(3) 		5534.1
(-2) 		6458.7
(1.5) 		5284.6
(-3) 		1551

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2681
1 2 3 4 5 6 range
A 3268.8
(-3)
P 		5857.8
(3)
P 		3714.3
(-2)
P 		4787
(0.5)
P 		4157
(-0.9)
P 		3985.1
(-1.3)
P 		2589
B 5161.1
(1.5)
P 		5507.7
(2.7)
P 		3928
(-3)
P 		3966.2
(-2.9)
P 		5581.9
(3)
P 		5031.2
(1)
P 		1654
C 5949.6
(3)
P 		5097.8
(1.1)
P 		4621.4
(-0)
P 		3319.9
(-3)
P 		5318.9
(1.6)
P 		4143.1
(-1.1)
P 		2630
avr 4793.2
(0.2) 		5487.8
(3) 		4087.9
(-2.7) 		4024.4
(-3) 		5019.3
(1.1) 		4386.5
(-1.5) 		1463
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185359_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7545
Sequence Type Exemplar sequence
Representative Public ID F54E7.2 NCBI
Target Description F54E7.2 /REP_DB=WormBase Gene ID /WP=CE26896 /GEN=rps-12 /GB=AAK20077.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065820(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065820 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-12) (rps-12) mRNA, complete cds. 10/11 None
SNAP00000020784 ENSEMBL cdna:SNAP chromosome:CEL140:III:5668490:5680097:1 10/11 None
GENEFINDER00000020790 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5679247:5680097:1 10/11 None
F54E7.2.1 ENSEMBL cdna:known chromosome:CEL140:III:5679242:5680134:1 gene:F54E7.2 10/11 None
F54E7.2.2 ENSEMBL cdna:known chromosome:CEL140:III:5679245:5680134:1 gene:F54E7.2 10/11 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
chrIII:5679491-5680096(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rps-12
Ensembl F54E7.2
Entrez Gene 175786 Entrez gene
SwissProt P49196 EMBL-EBI
WormBase CE26896 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16433_AT 40S ribosomal protein S12 (RPS12C) at
ATH1-121501:265671_AT 40S ribosomal protein S12 (RPS12C) at
CANINE:1604523_AT similar to ribosomal protein S12 cfa
CANINE:1591950_AT similar to ribosomal protein S12 cfa
CANINE:1586519_AT similar to ribosomal protein S12 cfa
CANINE_2:CFA.16780.1.S1_AT similar to ribosomal protein S12 cfa
CANINE_2:CFA.802.1.S1_S_AT similar to ribosomal protein S12 cfa
DROSOPHILA_2:1627364_S_AT Ribosomal protein S12 dm
DROSGENOME1:154203_AT Ribosomal protein S12 dm
DROSOPHILA_2:1637708_A_AT Ribosomal protein S12 dm
DROSGENOME1:153529_AT Ribosomal protein S12 dm
CHICKEN:GGA.4524.2.S1_A_AT similar to ribosomal protein S12 gga
CHICKEN:GGA.6575.1.S1_AT similar to ribosomal protein S12 gga
HU35KSUBC:RC_D51287_F_AT ribosomal protein S12 hs
U133_X3P:HS.285405.2.S1_3P_S_AT ribosomal protein S12 hs
HG-U133A_2:213377_X_AT ribosomal protein S12 hs
HG-FOCUS:213377_X_AT ribosomal protein S12 hs
HG-U133_PLUS_2:213377_X_AT ribosomal protein S12 hs
HG-U133A:213377_X_AT ribosomal protein S12 hs
HG-U95AV2:33116_F_AT ribosomal protein S12 hs
HG-U95AV2:33117_R_AT ribosomal protein S12 hs
HG-U95C:64360_F_AT ribosomal protein S12 hs
MOUSE430_2:1447205_X_AT ribosomal protein S12 mm
MOE430B:1447205_X_AT ribosomal protein S12 mm
MOUSE430_2:1459631_AT ribosomal protein S12 mm
MOE430B:1459631_AT ribosomal protein S12 mm
MU11KSUBB:X15962_F_AT ribosomal protein S12 mm
MG-U74AV2:102126_AT ribosomal protein S12 mm
MG-U74BV2:165194_AT ribosomal protein S12 mm
MOE430A:1433432_X_AT ribosomal protein S12 mm
MOUSE430A_2:1433432_X_AT ribosomal protein S12 mm
MOUSE430_2:1433432_X_AT ribosomal protein S12 mm
MOE430A:1416453_X_AT ribosomal protein S12 mm
MOUSE430A_2:1416453_X_AT ribosomal protein S12 mm
MOUSE430_2:1416453_X_AT ribosomal protein S12 mm
MOE430A:1448344_AT ribosomal protein S12 mm
MOUSE430A_2:1448344_AT ribosomal protein S12 mm
MOUSE430_2:1448344_AT ribosomal protein S12 mm
MU19KSUBA:TC19405_F_AT Ribosomal protein S12, mRNA (cDNA clone MGC:6234 IMAGE:3489757) mm
MU19KSUBC:TC39726_AT Ribosomal protein S12, mRNA (cDNA clone MGC:6234 IMAGE:3489757) mm
RG-U34A:RC_AI103074_AT ribosomal protein S12 rn
RAE230A:1367640_AT ribosomal protein S12 rn
RAT230_2:1367640_AT ribosomal protein S12 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5840 ribosome inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast T34302 cell polarity protein par-3 - Caenorhabditis elegans 0.0
blast AAK73874 Abnormal embryonic partitioning of cytoplasm protein 3, isoform a [Caenorhabditis elegans] ref|NP_498217.2| abnormal embryonic PARtitioning of cytoplasm family member (par-3) [Caenorhabditis elegans] 0.0
blast AAK73875 Abnormal embryonic partitioning of cytoplasm protein 3, isoform b [Caenorhabditis elegans] ref|NP_001022607.1| abnormal embryonic PARtitioning of cytoplasm family member (par-3) [Caenorhabditis elegans] sp|Q17353|PARD3_CAEEL Partition defective-3 protein (Par-3 protein) (Abnormal embryonic partitioning of cytoplasm protein 3) gb|AAB18670.1| par-3 gene product 0.0
blast AAK20077 Ribosomal protein, small subunit protein 12 [Caenorhabditis elegans] ref|NP_498221.1| Ribosomal Protein, Small subunit family member (rps-12) [Caenorhabditis elegans] sp|P49196|RS12_CAEEL 40S ribosomal protein S12 3.0E-59
blast T34303 hypothetical protein F54E7.2 - Caenorhabditis elegans 3.0E-59
blast AAK20077 Ribosomal protein, small subunit protein 12 [Caenorhabditis elegans] ref|NP_498221.1| Ribosomal Protein, Small subunit family member (rps-12) [Caenorhabditis elegans] sp|P49196|RS12_CAEEL 40S ribosomal protein S12 4.0E-59
blast T34303 hypothetical protein F54E7.2 - Caenorhabditis elegans 4.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR004038 EMBL-EBI Ribosomal protein L7Ae/L30e/S12e/Gadd45 8.1E-36
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 1.5E-6
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 1.2E-7
Pfam IPR001478 EMBL-EBI PDZ/DHR/GLGF domain 4.8E-11
Pfam IPR004038 EMBL-EBI Ribosomal protein L7Ae/L30e/S12e/Gadd45 8.1E-36
Pfam IPR004038 EMBL-EBI Ribosomal protein L7Ae/L30e/S12e/Gadd45 8.1E-36
Sequence
Target Sequence 
>C. ELEGANS:185359_AT
ttagagatgttcaagtggccccagccgccgtcgcccagggaccaatggacaaggaaggag
ctttgagagctgttcttcgcgctgcccaccacgctgatggactcgccaagggactccacg
agacctgcaaggctcttgacaagcgtgaggctcacttctgtgtcctcgccgagaactgcg
acgagccacaatacgtcaagcttgtcgagaccctctgcgccgagcaccagattccactca
ttaaggtcgccgataagaagatcatcggagagtactgcggactctgcaagtacgata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTAGAGATGTTCAAGTGGCCCCAGC 560 681 41 Antisense
AGCTTTGAGAGCTGTTCTTCGCGCT 379 79 99 Antisense
TGATGGACTCGCCAAGGGACTCCAC 121 567 135 Antisense
TCCACGAGACCTGCAAGGCTCTTGA 534 589 155 Antisense
AAGCGTGAGGCTCACTTCTGTGTCC 606 149 181 Antisense
TCCTCGCCGAGAACTGCGACGAGCC 564 591 203 Antisense
GCGACGAGCCACAATACGTCAAGCT 432 287 218 Antisense
ATACGTCAAGCTTGTCGAGACCCTC 77 23 231 Antisense
AGATTCCACTCATTAAGGTCGCCGA 280 65 269 Antisense
AGATCATCGGAGAGTACTGCGGACT 9 67 299 Antisense
TACTGCGGACTCTGCAAGTACGATA 446 645 313 Antisense
Sequence Source Affymetrix Proprietary Database