[Home] | [Total List]

[190889_s_at]

Description K08F11.4 /REP_DB=WormBase Gene ID /WP=CE11956 /TR=Q94262 /GB=AAB09162.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=tyrosyl-tRNA synthetase
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 01      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 90      6grp_total > 08      4grp_total > 03      6grp_cgc > 20      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 821
1 2 3 4 range
A 428.9
(-1.4)
P 		285
(-2.5)
P 		218
(-3)
P 		1004
(3)
P 		786
B 396
(-1.9)
P 		325.6
(-2.4)
P 		250.4
(-3)
P 		1011.5
(3)
P 		761
C 254.4
(-2.4)
P 		190.8
(-3)
P 		231.8
(-2.6)
P 		841.5
(3)
P 		651
avr 359.8
(-1.9) 		267.1
(-2.7) 		233.4
(-3) 		952.3
(3) 		719

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 158.5
(2.1)
P 		155.2
(1.8)
P 		121.7
(-0.7)
P 		171
(3)
P 		91.6
(-3)
P 		169.1
(2.9)
P 		79
B 154.7
(1.1)
P 		144.5
(0.5)
P 		186.3
(3)
P 		118.4
(-1.1)
P 		90.1
(-2.8)
P 		86.9
(-3)
P 		99
C 226.3
(3)
P 		118.3
(-2.5)
P 		173.9
(0.3)
P 		130.9
(-1.8)
P 		153.1
(-0.7)
P 		107.7
(-3)
P 		119
avr 179.8
(3) 		139.3
(-0.6) 		160.6
(1.3) 		140.1
(-0.5) 		111.6
(-3) 		121.2
(-2.2) 		68
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 161
1 2 3 4 range
A 156.2
(3)
P 		61.9
(-2.7)
P 		57
(-3)
P 		147
(2.4)
P 		99
B 126.3
(-0.4)
P 		80.4
(-2.1)
P 		58
(-3)
P 		215.6
(3)
P 		158
C 84.2
(-1)
P 		54.8
(-3)
P 		80.8
(-1.2)
P 		141.9
(3)
P 		87
avr 122.2
(0.3) 		65.7
(-3) 		65.3
(-3) 		168.2
(3) 		103

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 29.2
(-2.4)
P 		55.2
(3)
P 		26.5
(-3)
P 		43.4
(0.5)
P 		27.6
(-2.8)
P 		41.2
(0.1)
P 		29
B 53.8
(3)
P 		48.1
(1.5)
P 		45.2
(0.7)
P 		31.4
(-3)
P 		36.6
(-1.6)
P 		32.4
(-2.7)
P 		22
C 83.9
(3)
P 		36.1
(-2)
P 		44.3
(-1.1)
P 		26.3
(-3)
P 		49.6
(-0.6)
P 		36.1
(-2)
P 		58
avr 55.6
(3) 		46.5
(0.5) 		38.7
(-1.6) 		33.7
(-3) 		37.9
(-1.8) 		36.6
(-2.2) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190889_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11000
Sequence Type Exemplar sequence
Representative Public ID K08F11.4 NCBI
Target Description K08F11.4 /REP_DB=WormBase Gene ID /WP=CE11956 /TR=Q94262 /GB=AAB09162.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=tyrosyl-tRNA synthetase
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_171325, NM_171324
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000001916 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4710473:4712487:-1 None
K08F11.4a ENSEMBL cdna:known chromosome:CEL140:IV:4710860:4712492:-1 gene:K08F11.4 None
K08F11.4b ENSEMBL cdna:known chromosome:CEL140:IV:4710899:4712494:-1 gene:K08F11.4 None
NM_171324 NCBI Caenorhabditis elegans tYrosinyl tRNA Synthetase family member (yrs-1) (yrs-1) mRNA, complete cds. None
NM_171325 NCBI Caenorhabditis elegans tYrosinyl tRNA Synthetase family member (yrs-1) (yrs-1) mRNA, complete cds. None
SNAP00000001909 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4710899:4715797:-1 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_068217 6/11 Cross Hyb Matching Probes None
SNAP00000001908 5/11 Cross Hyb Matching Probes None
K08F11.3.1 6/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:4710478-4712493(-) 100.0 100.0
Public Domain and Genome References
Ensembl K08F11.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB09162 Tyrosinyl trna synthetase protein 1, isoform a [Caenorhabditis elegans] ref|NP_741382.1| tYrosinyl tRNA Synthetase family member (yrs-1) [Caenorhabditis elegans] 0.0
blast AAM98001 Tyrosinyl trna synthetase protein 1, isoform b [Caenorhabditis elegans] ref|NP_741383.1| tYrosinyl tRNA Synthetase family member (yrs-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002305 EMBL-EBI Aminoacyl-tRNA synthetase, class Ib 1.2E-107
Pfam IPR002305 EMBL-EBI Aminoacyl-tRNA synthetase, class Ib 2.0E-73
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.0014
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 8.5E-5
Pfam IPR001806 EMBL-EBI Ras GTPase superfamily 8.9E-9
Pfam IPR002305 EMBL-EBI Aminoacyl-tRNA synthetase, class Ib 1.2E-107
Sequence
Target Sequence 
>C. ELEGANS:190889_S_AT
tttcctggaaaatgcctccgatctcacccttgtttgttggggaaaacgagttgttataat
gaaaataaatattcatttttttgttgtatttgtggtgtcatattctcggcgttctctacg
ctttattatatctctttttctcgtttccaagcatattttttgtattttattcctgaataa
ttttcggctcgtctctattcgcatgagcggaggagtagtgcacagcaaacttcaaaagct
cgttctctccacctaccgtgattttttgcgcgcctcccgtggccgtgacccgagcattcg
cacgcatattcggcacgagttccgcgccgctgcaacacgtttcgagccaagtgacctgtt
gctcattgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCCTGGAAAATGCCTCCGATCTC 576 669 1281 Antisense
CCGATCTCACCCTTGTTTGTTGGGG 633 263 1298 Antisense
ATTTGTGGTGTCATATTCTCGGCGT 565 17 1368 Antisense
GTTCTCTACGCTTTATTATATCTCT 634 443 1391 Antisense
CTCTTTTTCTCGTTTCCAAGCATAT 186 231 1412 Antisense
GCTCGTCTCTATTCGCATGAGCGGA 603 299 1467 Antisense
AAACTTCAAAAGCTCGTTCTCTCCA 307 127 1507 Antisense
CTCCACCTACCGTGATTTTTTGCGC 535 233 1527 Antisense
CATTCGCACGCATATTCGGCACGAG 239 217 1575 Antisense
CGCTGCAACACGTTTCGAGCCAAGT 425 255 1608 Antisense
GCCAAGTGACCTGTTGCTCATTGAG 414 277 1626 Antisense
Sequence Source Affymetrix Proprietary Database