[Home] | [Total List]

[179907_at]

Description T20H4.2 /REP_DB=WormBase Gene ID /WP=CE00749 /TR=Q22621 /GB=AAA50659.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 99      4grp_total > 16      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 33.5
(-1.4)
A 		12.7
(-3)
A 		44.9
(-0.5)
A 		88.7
(3)
A 		76
B 6.4
(-3)
A 		15.4
(-0.2)
A 		25.4
(3)
A 		8.1
(-2.5)
A 		19
C 4.2
(-3)
A 		38.5
(-0.2)
A 		34.8
(-0.5)
A 		76.9
(3)
A 		73
avr 14.7
(-3) 		22.2
(-2) 		35
(-0.2) 		57.9
(3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 119
1 2 3 4 5 6 range
A 22.8
(-2.2)
A 		6.8
(-3)
A 		14.3
(-2.6)
A 		45.5
(-1)
P 		108.4
(2.2)
P 		123.8
(3)
P 		117
B 25.5
(-1.8)
A 		7.2
(-2.9)
A 		18.5
(-2.2)
A 		6
(-3)
A 		100.3
(3)
P 		84.5
(2)
P 		94
C 32.5
(-1.3)
A 		4.9
(-3)
A 		7.9
(-2.8)
A 		52.2
(-0)
A 		99.9
(3)
P 		84.1
(2)
P 		95
avr 26.9
(-1.7) 		6.3
(-3) 		13.6
(-2.5) 		34.6
(-1.2) 		102.9
(3) 		97.5
(2.7) 		97
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 12.2
(2.5)
A 		2.8
(-3)
A 		11.7
(2.2)
A 		13
(3)
A 		10
B 2.1
(-2.4)
A 		3.8
(-0)
A 		5.9
(3)
A 		1.7
(-3)
A 		4
C 1.4
(-3)
A 		11.1
(2)
A 		12.1
(2.5)
A 		13
(3)
A 		12
avr 5.2
(-3) 		5.9
(-2.1) 		9.9
(3) 		9.2
(2.1) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 4.2
(-2.6)
A 		2.4
(-3)
A 		3.1
(-2.9)
A 		11.5
(-1.2)
P 		32.7
(3)
P 		30.1
(2.5)
P 		30
B 8.9
(-1.9)
A 		2.4
(-2.9)
A 		4.5
(-2.6)
A 		1.6
(-3)
A 		40.7
(3)
P 		31.5
(1.6)
P 		39
C 12
(-1)
A 		1.5
(-3)
A 		2
(-2.9)
A 		10.5
(-1.2)
A 		32.3
(3)
P 		28.1
(2.2)
P 		31
avr 8.4
(-1.9) 		2.1
(-3) 		3.2
(-2.8) 		7.9
(-1.9) 		35.2
(3) 		29.9
(2) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179907_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7527
Sequence Type Exemplar sequence
Representative Public ID T20H4.2 NCBI
Target Description T20H4.2 /REP_DB=WormBase Gene ID /WP=CE00749 /TR=Q22621 /GB=AAA50659.1 /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_066196(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066196 NCBI Caenorhabditis elegans T20H4.2 (T20H4.2) mRNA, complete cds. 11/11 None
GENEFINDER00000008525 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7238962:7242824:1 11/11 None
SNAP00000008521 ENSEMBL cdna:SNAP chromosome:CEL140:III:7241314:7242824:1 11/11 None
T20H4.2 ENSEMBL cdna:known chromosome:CEL140:III:7241314:7242824:1 gene:T20H4.2 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:7241311-7242822(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl T20H4.2
Entrez Gene 188663 Entrez gene
SwissProt Q22621 EMBL-EBI
WormBase CE00749 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA50660 Prolyl trna synthetase protein 1, isoform a [Caenorhabditis elegans] ref|NP_001022777.1| Prolyl tRNA Synthetase family member (prs-1) [Caenorhabditis elegans] 0.0
blast CAE56448 Hypothetical protein CBG24153 [Caenorhabditis briggsae] 0.0
blast AAU20840 Prolyl trna synthetase protein 1, isoform b [Caenorhabditis elegans] ref|NP_001022778.1| Prolyl tRNA Synthetase family member (prs-1) [Caenorhabditis elegans] 0.0
blast AAA50659 Hypothetical protein T20H4.2 [Caenorhabditis elegans] ref|NP_498597.1| T20H4.2 [Caenorhabditis elegans] 1.0E-91
blast CAE56447 Hypothetical protein CBG24152 [Caenorhabditis briggsae] 1.0E-44
Protein Domains
Database ID Description E-Value
Pfam IPR002314 EMBL-EBI tRNA synthetases, class-II (G, H, P and S) 1.2E-26
Pfam IPR004154 EMBL-EBI Anticodon binding domain 7.7E-30
Pfam IPR000738 EMBL-EBI WHEP-TRS 5.7E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000008525 2 585-607,627-649
Sequence
Target Sequence 
>C. ELEGANS:179907_AT
gcggagaagccgtgagtcatccaagatgaagcatcaaaaaacggcgaaacgggacaaacc
aatgtggaaagaggaaggagaaatttcatgtgacagtgagagtgacgtctgtaattcctc
gagtagcaacaaccggagccgctgtcgtgatcggcgaagaagaactgattacggaagaag
acgtcacagaaattcagattctagatctcatgagagatggagtactagaagaagacagac
aactccagagggaaatttcagatgtgatgagtgtggatgtaaccactacactttgaaggg
tctaatccatcacgaaatgaacgaccacaacctcaatgcaaaatgtcatttatgccagaa
atctttcgagaataagaagacattccgtgaacactgtgaattggatcacacaccggaagt
ggttagatgtgtattctgcaaaagctcattcgatcagccactggaaatgaacgatgaaca
atgggcacactttttcgctcatatttatggggaaatcctctactcccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGGAGAAGCCGTGAGTCATCCAAG 285 291 153 Antisense
GTGACGTCTGTAATTCCTCGAGTAG 262 481 254 Antisense
CTCGAGTAGCAACAACCGGAGCCGC 137 199 270 Antisense
GAGCCGCTGTCGTGATCGGCGAAGA 384 383 288 Antisense
GTAACCACTACACTTTGAAGGGTCT 123 461 431 Antisense
GAAGGGTCTAATCCATCACGAAATG 573 333 447 Antisense
AAATGAACGACCACAACCTCAATGC 468 119 467 Antisense
GAAGACATTCCGTGAACACTGTGAA 511 339 528 Antisense
AAAAGCTCATTCGATCAGCCACTGG 702 131 592 Antisense
AACAATGGGCACACTTTTTCGCTCA 283 135 629 Antisense
TTATGGGGAAATCCTCTACTCCCGC 472 671 657 Antisense
Sequence Source Affymetrix Proprietary Database