[Home] | [Total List]

[172946_s_at] 40S ribosomal protein

Description C55755_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C55755 /DEF=C.elegans cDNA clone yk222f4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 24      6grp_high1_10_10 > 31      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 21      4grp_total > 16      6grp_cgc > 81      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 17422
1 2 3 4 range
A 27499.4
(-3)
P 		38499.6
(2.2)
P 		37037
(1.5)
P 		40303.6
(3)
P 		12804
B 30256.6
(-3)
P 		30556.8
(-2.8)
P 		34785.7
(0.2)
P 		38766
(3)
P 		8509
C 28440
(-2.7)
P 		27559
(-3)
P 		28966.1
(-2.5)
P 		44921.3
(3)
P 		17362
avr 28732
(-3) 		32205.1
(-1.3) 		33596.3
(-0.7) 		41330.3
(3) 		12598

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10685
1 2 3 4 5 6 range
A 22037.3
(-3)
P 		25089.1
(-0.7)
P 		30076.9
(3)
P 		24289.9
(-1.3)
P 		22543.3
(-2.6)
P 		23668.5
(-1.8)
P 		8040
B 24039.3
(-0.9)
P 		25202.8
(0.4)
P 		27603.9
(3)
P 		22824.7
(-2.2)
P 		22054
(-3)
P 		22925.9
(-2.1)
P 		5550
C 23176.6
(0.4)
P 		26170.2
(3)
P 		25537.2
(2.4)
P 		21018.7
(-1.6)
P 		25010.9
(2)
P 		19392.2
(-3)
P 		6778
avr 23084.4
(-1.9) 		25487.4
(0.6) 		27739.3
(3) 		22711.1
(-2.3) 		23202.7
(-1.7) 		21995.5
(-3) 		5744
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4196
1 2 3 4 range
A 10012.5
(3)
P 		8357.2
(0.6)
P 		9682.2
(2.5)
P 		5899.7
(-3)
P 		4113
B 9648.6
(3)
P 		7546.8
(-3)
P 		8060.6
(-1.5)
P 		8261
(-1)
P 		2102
C 9414.4
(1.4)
P 		7923.4
(-2.2)
P 		10095.6
(3)
P 		7574.4
(-3)
P 		2521
avr 9691.8
(3) 		7942.5
(-1.3) 		9279.5
(2) 		7245
(-3) 		2447

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4898
1 2 3 4 5 6 range
A 4062.4
(-3)
P 		8922.9
(3)
P 		6550.1
(0.1)
P 		6160.5
(-0.4)
P 		6802.6
(0.4)
P 		5762.5
(-0.9)
P 		4861
B 8364.5
(1.8)
P 		8389
(1.8)
P 		6703.1
(-1.6)
P 		6045.5
(-3)
P 		8960.3
(3)
P 		8549
(2.2)
P 		2915
C 8590.6
(3)
P 		7985.3
(2.2)
P 		6499.7
(0.1)
P 		4226.9
(-3)
P 		8093.2
(2.3)
P 		6491.7
(0.1)
P 		4364
avr 7005.8
(0.1) 		8432.4
(3) 		6584.3
(-0.8) 		5477.6
(-3) 		7952
(2) 		6934.4
(-0) 		2955
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172946_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26547
Sequence Type Exemplar sequence
Representative Public ID C55755 NCBI
Target Description C55755_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C55755 /DEF=C.elegans cDNA clone yk222f4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_065577(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065577 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-0) (rps-0) mRNA, complete cds. 11/11 A 
SNAP00000037564 ENSEMBL cdna:SNAP chromosome:CEL140:III:4753012:4754008:-1 11/11 None
GENEFINDER00000037579 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4753012:4754008:-1 11/11 None
B0393.1.2 ENSEMBL cdna:known chromosome:CEL140:III:4752962:4754015:-1 gene:B0393.1 11/11 None
B0393.1.1 ENSEMBL cdna:known chromosome:CEL140:III:4752962:4754013:-1 gene:B0393.1 11/11 None
B0393.1.3 ENSEMBL cdna:known chromosome:CEL140:III:4752964:4754015:-1 gene:B0393.1 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
chrIII:4753029-4753270(-) 79.33 79.33
Public Domain and Genome References
Gene Title 40S ribosomal protein
Gene Symbol rps-0
Ensembl B0393.1
Entrez Gene 175628 Entrez gene
SwissProt P46769 EMBL-EBI
WormBase CE00854 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258799_AT 40S ribosomal protein SA (RPSaB) at
CANINE:1599303_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
CANINE:1585059_S_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
CANINE_2:CFA.10840.1.S1_S_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
CANINE_2:CFAAFFX.322.1.S1_X_AT similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin receptor) (Colon carcinoma laminin-binding protein) (NEM/1CHD4) (Multidrug resistance-associated protein MGr1-Ag) cfa
DROSOPHILA_2:1638847_S_AT stubarista dm
DROSGENOME1:143369_AT stubarista dm
CHICKEN:GGA.16564.1.S1_A_AT ribosomal protein SA gga
CHICKEN:GGA.16564.2.S1_S_AT ribosomal protein SA gga
CHICKEN:GGA.16564.3.S1_S_AT ribosomal protein SA gga
HU35KSUBD:RC_H75933_F_AT ribosomal protein SA hs
HU35KSUBD:RC_H75933_I_AT ribosomal protein SA hs
HU35KSUBD:RC_H75933_R_AT ribosomal protein SA hs
HG-U95AV2:256_S_AT ribosomal protein SA hs
HC-G110:256_S_AT ribosomal protein SA hs
HUGENEFL:U43901_RNA1_S_AT ribosomal protein SA hs
HUGENEFL:M14199_S_AT ribosomal protein SA hs
U133_X3P:HS.181357.2.A1_3P_X_AT ribosomal protein SA hs
HG-U133A_2:213801_X_AT ribosomal protein SA hs
HG-U133_PLUS_2:213801_X_AT ribosomal protein SA hs
HG-U133A:213801_X_AT ribosomal protein SA hs
HG-U95C:59681_AT ribosomal protein SA hs
HU35KSUBB:RC_AA062744_AT Ribosomal protein SA hs
MOUSE430A_2:1416196_AT ribosomal protein SA mm
MOE430A:1416196_AT ribosomal protein SA mm
MOUSE430_2:1416196_AT ribosomal protein SA mm
MOUSE430A_2:1448245_AT ribosomal protein SA mm
MOE430A:1448245_AT ribosomal protein SA mm
MOUSE430_2:1448245_AT ribosomal protein SA mm
MU11KSUBA:J02870_S_AT ribosomal protein SA mm
MU11KSUBA:C78471_RC_F_AT ribosomal protein SA mm
MU11KSUBA:AA048123_F_AT ribosomal protein SA mm
MU11KSUBB:MSA.31906.0_F_AT ribosomal protein SA mm
MU11KSUBB:MSA.30636.0_F_AT ribosomal protein SA mm
MG-U74AV2:97750_AT ribosomal protein SA mm
MU11KSUBA:AA165765_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBA:TC14766_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBA:TC14767_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBA:TC14768_F_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBB:TC30202_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC39262_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC39263_F_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC39264_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC42121_F_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
MU19KSUBC:TC42121_I_AT Laminin receptor 1 (ribosomal protein SA), mRNA (cDNA clone MGC:47040 IMAGE:4500748) mm
RN-U34:D25224_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RG-U34A:D25224_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RG-U34A:D25224_G_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RG-U34B:RC_AA924747_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAE230A:1388244_S_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAT230_2:1388244_S_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAE230A:1371189_X_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAT230_2:1371189_X_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAE230A:1367569_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
RAT230_2:1367569_AT laminin receptor 1 (67kD, ribosomal protein SA) rn
YEAST_2:1770653_AT Protein component of the small (40S) ribosomal subunit, nearly identical to Rps0Bp; required for maturation of 18S rRNA along with Rps0Bp; deletion of either RPS0 gene reduces growth rate, deletion of both genes is lethal Sc
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
15935 small ribosomal subunit 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 CAA86061 Hypothetical protein B0393.1 [Caenorhabditis elegans] ref|NP_497978.1| Ribosomal Protein, Small subunit family member (rps-0) [Caenorhabditis elegans] sp|P46769|RSSA_CAEEL Probable 40S ribosomal protein SA (p40) 1.0E-143
blast CAE71139 Hypothetical protein CBG17994 [Caenorhabditis briggsae] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR001865 EMBL-EBI Ribosomal protein S2 2.7E-96
Sequence
Target Sequence 
>C. ELEGANS:172946_S_AT
gaaaggaaatcatgccagatctttanttttaccgtgacccaactgagaccgagaaggagg
agactggagctcacgctgatgttgctgaggntcaagaataccaacaaccaactgacatcg
acttcaccacccaaggaggaaaggttgacgattgggccgctgag

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAGGAAATCATGCCAGATCTTTA 463 361 95 Antisense
CGTGACCCAACTGAGACCGAGAAGG 206 243 127 Antisense
GACCCAACTGAGACCGAGAAGGAGG 120 381 130 Antisense
GAAGGAGGAGACTGGAGCTCACGCT 109 335 147 Antisense
GACTGGAGCTCACGCTGATGTTGCT 655 373 156 Antisense
GGAGCTCACGCTGATGTTGCTGAGG 361 521 160 Antisense
GAATACCAACAACCAACTGACATCG 78 327 190 Antisense
AACAACCAACTGACATCGACTTCAC 424 135 197 Antisense
CGACTTCACCACCCAAGGAGGAAAG 597 251 213 Antisense
GAGGAAAGGTTGACGATTGGGCCGC 541 403 230 Antisense
AAAGGTTGACGATTGGGCCGCTGAG 433 117 234 Antisense
Sequence Source Affymetrix Proprietary Database