[Home] | [Total List]

[190983_at] seryl-tRNA synthetase

Description C47E12.1 /REP_DB=WormBase Gene ID /WP=CE05445 /TR=SW:Q18678 /GB=CAA93105.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=seryl-tRNA synthetase
Cluster 6grp_highest_10_10 > 82      6grp_high1_10_10 > 38      4grp_highest_8_8 > 30      4grp_high_8_8 > 07      6grp_highest_nonorm > 57      6grp_total > 37      4grp_total > 01      6grp_highest_sub > Cu      6grp_cgc > 14      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6553
1 2 3 4 range
A 3642.6
(-1.4)
P 		2243.9
(-3)
P 		3373.8
(-1.7)
P 		7624.2
(3)
P 		5380
B 3514.7
(-1.9)
P 		2821.3
(-3)
P 		2871.4
(-2.9)
P 		6591.8
(3)
P 		3771
C 3019.7
(-2.4)
P 		2354
(-3)
P 		3166.5
(-2.2)
P 		8796.6
(3)
P 		6443
avr 3392.3
(-1.9) 		2473.1
(-3) 		3137.2
(-2.2) 		7670.9
(3) 		5198

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1225
1 2 3 4 5 6 range
A 2939.4
(2.8)
P 		2981
(3)
P 		1862.6
(-3)
P 		2966
(2.9)
P 		2169.2
(-1.4)
P 		2720.6
(1.6)
P 		1118
B 2743.2
(3)
P 		2720.4
(2.9)
P 		1793.8
(-3)
P 		2282.3
(0.1)
P 		2283.1
(0.1)
P 		2574.7
(1.9)
P 		949
C 3019.1
(3)
P 		2668.3
(0.4)
P 		2330
(-2.1)
P 		2213.9
(-3)
P 		2286.6
(-2.5)
P 		2495.8
(-0.9)
P 		805
avr 2900.6
(3) 		2789.9
(2.3) 		1995.5
(-3) 		2487.4
(0.3) 		2246.3
(-1.3) 		2597
(1) 		905
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 996
1 2 3 4 range
A 1326.3
(3)
P 		487.1
(-3)
P 		882
(-0.2)
P 		1116
(1.5)
P 		839
B 1120.8
(0.7)
P 		696.8
(-2.7)
P 		665.4
(-3)
P 		1404.7
(3)
P 		739
C 999.6
(-0.6)
P 		676.8
(-3)
P 		1103.6
(0.2)
P 		1483.2
(3)
P 		806
avr 1148.9
(1.4) 		620.2
(-3) 		883.7
(-0.8) 		1334.6
(3) 		714

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 713
1 2 3 4 5 6 range
A 541.9
(-1.8)
P 		1060.2
(3)
P 		405.6
(-3)
P 		752.2
(0.2)
P 		654.6
(-0.7)
P 		662.4
(-0.6)
P 		655
B 954.5
(2.9)
P 		905.5
(2.4)
P 		435.6
(-3)
P 		604.5
(-1.1)
P 		927.6
(2.6)
P 		960.1
(3)
P 		525
C 1119
(3)
P 		814.2
(0.3)
P 		593
(-1.7)
P 		445.2
(-3)
P 		739.9
(-0.4)
P 		835.5
(0.5)
P 		674
avr 871.8
(2.3) 		926.6
(3) 		478.1
(-3) 		600.6
(-1.4) 		774
(1) 		819.3
(1.6) 		449
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190983_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9037
Sequence Type Exemplar sequence
Representative Public ID C47E12.1 NCBI
Target Description C47E12.1 /REP_DB=WormBase Gene ID /WP=CE05445 /TR=SW:Q18678 /GB=CAA93105.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=seryl-tRNA synthetase
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_069403(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069403 NCBI Caenorhabditis elegans Seryl tRNA Synthetase family member (srs-2) (srs-2) mRNA, complete cds. 11/11 A 
SNAP00000021573 ENSEMBL cdna:SNAP chromosome:CEL140:IV:10003726:10005396:1 11/11 None
GENEFINDER00000021588 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10003726:10005396:1 11/11 None
C47E12.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:10003671:10005551:1 gene:C47E12.1 11/11 None
C47E12.1.4 ENSEMBL cdna:known chromosome:CEL140:IV:10003692:10005529:1 gene:C47E12.1 11/11 None
C47E12.1.3 ENSEMBL cdna:known chromosome:CEL140:IV:10003698:10005550:1 gene:C47E12.1 11/11 None
C47E12.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:10003698:10005551:1 gene:C47E12.1 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
chrIV:10003731-10005402(+) 100.0 100.0
Public Domain and Genome References
Gene Title seryl-tRNA synthetase
Gene Symbol srs-2
Ensembl C47E12.1
Entrez Gene 177859 Entrez gene
SwissProt Q18678 EMBL-EBI
WormBase CE05445 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20545_AT seryl-tRNA synthetase / serine--tRNA ligase at
ATH1-121501:246780_AT seryl-tRNA synthetase / serine--tRNA ligase at
CANINE:1602740_S_AT similar to seryl-tRNA synthetase cfa
CANINE:1596298_AT similar to seryl-tRNA synthetase cfa
CANINE:1588781_AT similar to seryl-tRNA synthetase cfa
CANINE:1587051_AT similar to seryl-tRNA synthetase cfa
CANINE:1584564_S_AT similar to seryl-tRNA synthetase cfa
CANINE:1584563_AT similar to seryl-tRNA synthetase cfa
CANINE_2:CFA.18627.1.S1_S_AT similar to seryl-tRNA synthetase cfa
CANINE_2:CFA.19116.1.S1_S_AT similar to seryl-tRNA synthetase cfa
CANINE_2:CFA.6293.1.A1_AT similar to seryl-tRNA synthetase cfa
CANINE_2:CFA.7872.1.A1_A_AT similar to seryl-tRNA synthetase cfa
CANINE_2:CFA.7872.1.A1_S_AT similar to seryl-tRNA synthetase cfa
CANINE_2:CFAAFFX.30372.1.S1_AT similar to seryl-tRNA synthetase cfa
DROSOPHILA_2:1638642_AT dm
DROSGENOME1:142167_AT dm
CHICKEN:GGAAFFX.335.1.S1_S_AT seryl-tRNA synthetase gga
HG-U133_PLUS_2:200802_AT seryl-tRNA synthetase hs
HG-U133A:200802_AT seryl-tRNA synthetase hs
HG-FOCUS:200802_AT seryl-tRNA synthetase hs
HG-U133A_2:200802_AT seryl-tRNA synthetase hs
HUGENEFL:X91257_AT seryl-tRNA synthetase hs
U133_X3P:G5730028_3P_AT seryl-tRNA synthetase hs
HG-U95AV2:34849_AT seryl-tRNA synthetase hs
HG-U95E:75529_AT seryl-tRNA synthetase hs
HG-U133_PLUS_2:231894_AT Seryl-tRNA synthetase hs
HG-U133B:231894_AT Seryl-tRNA synthetase hs
HU35KSUBA:RC_AA406640_S_AT Seryl-tRNA synthetase hs
U133_X3P:HS.18498.0.S1_3P_AT Seryl-tRNA synthetase hs
HG-U95B:51666_I_AT Seryl-tRNA synthetase hs
HG-U95B:51667_F_AT Seryl-tRNA synthetase hs
HG-U133_PLUS_2:237689_AT Seryl-tRNA synthetase hs
HG-U133B:237689_AT Seryl-tRNA synthetase hs
U133_X3P:HS.144063.0.A1_3P_AT Seryl-tRNA synthetase hs
MU11KSUBA:AA497681_S_AT seryl-aminoacyl-tRNA synthetase 1 mm
MU11KSUBB:MSA.3900.0_S_AT seryl-aminoacyl-tRNA synthetase 1 mm
MU11KSUBB:MSA.34802.0_S_AT seryl-aminoacyl-tRNA synthetase 1 mm
MU11KSUBB:MSA.42131.0_F_AT seryl-aminoacyl-tRNA synthetase 1 mm
MG-U74AV2:98936_AT seryl-aminoacyl-tRNA synthetase 1 mm
MOE430A:1426257_A_AT seryl-aminoacyl-tRNA synthetase 1 mm
MOUSE430A_2:1426257_A_AT seryl-aminoacyl-tRNA synthetase 1 mm
MOUSE430_2:1426257_A_AT seryl-aminoacyl-tRNA synthetase 1 mm
MOE430A:1452000_S_AT seryl-aminoacyl-tRNA synthetase 1 mm
MOUSE430A_2:1452000_S_AT seryl-aminoacyl-tRNA synthetase 1 mm
MOUSE430_2:1452000_S_AT seryl-aminoacyl-tRNA synthetase 1 mm
MU19KSUBA:TC17090_AT Seryl-aminoacyl-tRNA synthetase 1, mRNA (cDNA clone MGC:7162 IMAGE:3257101) mm
MU19KSUBB:TC33952_AT Seryl-aminoacyl-tRNA synthetase 1, mRNA (cDNA clone MGC:7162 IMAGE:3257101) mm
RG-U34B:RC_AA957307_AT seryl-aminoacyl-tRNA synthetase 1 rn
RAE230A:1375441_AT seryl-aminoacyl-tRNA synthetase 1 rn
RAT230_2:1375441_AT seryl-aminoacyl-tRNA synthetase 1 rn
RAE230B:1392262_AT Seryl-aminoacyl-tRNA synthetase 1 rn
RAT230_2:1392262_AT Seryl-aminoacyl-tRNA synthetase 1 rn
YEAST_2:1776877_AT Cytosolic seryl-tRNA synthetase, class II aminoacyl-tRNA synthetase that aminoacylates tRNA(Ser), displays tRNA-dependent amino acid recognition which enhances discrimination of the serine substrate, interacts with peroxin Pex21p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6418 tRNA aminoacylation for protein translation inferred from electronic annotation QuickGO AmiGO
6434 seryl-tRNA aminoacylation inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4812 tRNA ligase activity inferred from electronic annotation QuickGO AmiGO
4828 serine-tRNA ligase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA93105 Hypothetical protein C47E12.1 [Caenorhabditis elegans] ref|NP_501804.1| Seryl tRNA Synthetase family member (srs-2) [Caenorhabditis elegans] sp|Q18678|SYS_CAEEL Probable seryl-tRNA synthetase (Serine--tRNA ligase) (SerRS) 0.0
blast CAE59948 Hypothetical protein CBG03435 [Caenorhabditis briggsae] 0.0
blast AAH67920 Seryl-aminoacyl-tRNA synthetase 1 [Xenopus tropicalis] ref|NP_998852.1| seryl-aminoacyl-tRNA synthetase 1 [Xenopus tropicalis] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002314 EMBL-EBI tRNA synthetases, class-II (G, H, P and S) 3.7E-56
Pfam IPR002317 EMBL-EBI Seryl-tRNA synthetase, class IIa 4.8E-29
Sequence
Target Sequence 
>C. ELEGANS:190983_AT
aaatatgctggtgtctccacttgcttccgacaagaagtcggaagtcacggtagagataca
cgcggtattttccgtgttcatcaatttgaaaagatcgagcaattcgttctgtgcagtccc
aacgataatgaatcatggacactcttcgatgagatgattggaaatgcagagagctattac
caggagcttcaaattccataccaagtcgtcaatattgtctctggagaactcaacaatgct
gccgcgaaaaagttcgatttggaagcctggttcccaggatctggagcttatcgtgagctt
gtttcgtgctctaactgcttggattatcaatcccggcgactcaaggtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATATGCTGGTGTCTCCACTTGCT 107 117 889 Antisense
TCTCCACTTGCTTCCGACAAGAAGT 611 609 902 Antisense
GATACACGCGGTATTTTCCGTGTTC 438 421 943 Antisense
CGAGCAATTCGTTCTGTGCAGTCCC 247 251 984 Antisense
GGAGCTTCAAATTCCATACCAAGTC 465 519 1071 Antisense
GAACTCAACAATGCTGCCGCGAAAA 192 349 1114 Antisense
TCGATTTGGAAGCCTGGTTCCCAGG 246 601 1142 Antisense
TCCCAGGATCTGGAGCTTATCGTGA 495 597 1160 Antisense
GCTTATCGTGAGCTTGTTTCGTGCT 8 305 1174 Antisense
TTTCGTGCTCTAACTGCTTGGATTA 263 671 1190 Antisense
TTATCAATCCCGGCGACTCAAGGTT 217 657 1212 Antisense
Sequence Source Affymetrix Proprietary Database