[Home] | [Total List]

[183280_at]

Description R07C3.3 /REP_DB=WormBase Gene ID /WP=CE12526 /TR=O16776 /GB=AAB66233.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 81      4grp_total > 63      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 20.6
(-1.8)
A 		15.3
(-3)
A 		39.6
(2.5)
A 		41.9
(3)
A 		27
B 47.9
(3)
P 		29.4
(-0.1)
A 		39.3
(1.6)
A 		12
(-3)
A 		36
C 31.1
(3)
P 		11.5
(-3)
A 		29.8
(2.6)
A 		29.8
(2.6)
A 		20
avr 33.2
(2) 		18.7
(-3) 		36.2
(3) 		27.9
(0.2) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 16.3
(-3)
A 		16.7
(-2.9)
A 		20.4
(-1.9)
A 		37.8
(3)
M 		30.3
(0.9)
A 		24.9
(-0.6)
A 		22
B 24.7
(-1.3)
A 		21.4
(-2.7)
A 		26.3
(-0.6)
A 		27.2
(-0.2)
A 		34.7
(3)
P 		20.8
(-3)
A 		14
C 25.6
(-0.9)
A 		30.4
(0.1)
P 		15
(-3)
A 		45.1
(3)
A 		27.9
(-0.4)
P 		15.8
(-2.8)
A 		30
avr 22.2
(-2.4) 		22.8
(-2.1) 		20.6
(-3) 		36.7
(3) 		31
(0.9) 		20.5
(-3) 		16
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 7.5
(0.5)
A 		3.3
(-3)
A 		10.4
(3)
A 		6.1
(-0.6)
A 		7
B 15.3
(3)
P 		7.3
(-0.8)
A 		9.1
(0.1)
A 		2.6
(-3)
A 		13
C 10.3
(2.9)
P 		3.3
(-3)
A 		10.4
(3)
A 		5
(-1.6)
A 		7
avr 11
(3) 		4.6
(-3) 		10
(2.1) 		4.6
(-3) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 3
(-3)
A 		5.9
(-0.4)
A 		4.4
(-1.7)
A 		9.6
(3)
M 		9.1
(2.5)
A 		6.1
(-0.2)
A 		7
B 8.6
(-1.3)
A 		7.1
(-2.5)
A 		6.4
(-3)
A 		7.2
(-2.4)
A 		14.1
(3)
P 		7.8
(-1.9)
A 		8
C 9.5
(3)
A 		9.3
(2.8)
P 		3.8
(-3)
A 		9.1
(2.6)
A 		9
(2.5)
P 		5.3
(-1.4)
A 		6
avr 7
(-0.8) 		7.4
(-0.4) 		4.9
(-3) 		8.6
(0.8) 		10.7
(3) 		6.4
(-1.4) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183280_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5204
Sequence Type Exemplar sequence
Representative Public ID R07C3.3 NCBI
Target Description R07C3.3 /REP_DB=WormBase Gene ID /WP=CE12526 /TR=O16776 /GB=AAB66233.1 /SUBMIT=ST.LOUIS /CHR=2 /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_061456(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061456 NCBI Caenorhabditis elegans R07C3.3 (R07C3.3) mRNA, complete cds. 11/11 None
SNAP00000022244 ENSEMBL cdna:SNAP chromosome:CEL140:II:938972:943114:1 10/11 None
GENEFINDER00000022252 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:934542:940689:1 10/11 None
R07C3.3 ENSEMBL cdna:known chromosome:CEL140:II:938855:940689:1 gene:R07C3.3 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
chrII:938853-940688(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R07C3.3
Entrez Gene 187665 Entrez gene
SwissProt O16776 EMBL-EBI
WormBase CE12526 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8375 acetylglucosaminyltransferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB66233 Hypothetical protein R07C3.3 [Caenorhabditis elegans] ref|NP_493857.1| R07C3.3 [Caenorhabditis elegans] 0.0
blast CAB04185 Hypothetical protein F26D2.3a [Caenorhabditis elegans] ref|NP_001023854.1| F26D2.3a [Caenorhabditis elegans] 0.0
blast AAB66234 Hypothetical protein R07C3.4 [Caenorhabditis elegans] ref|NP_493856.1| R07C3.4 [Caenorhabditis elegans] 0.0
blast CAA94298 Hypothetical protein R09E10.3 [Caenorhabditis elegans] ref|NP_501893.1| R09E10.3 [Caenorhabditis elegans] 0.0
blast CAE73813 Hypothetical protein CBG21363 [Caenorhabditis briggsae] 1.0E-150
Protein Families
Method ID Description E-Value
ec 4CL1_ARATH (Q42524) 4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1) (4-coumaroyl-CoA synthase 1) 1.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR003406 EMBL-EBI Glycosyl transferase, family 14 2.2E-103
Pfam IPR003406 EMBL-EBI Glycosyl transferase, family 14 3.9E-103
Pfam IPR000873 EMBL-EBI AMP-dependent synthetase and ligase 5.8E-66
Pfam IPR003406 EMBL-EBI Glycosyl transferase, family 14 2.2E-103
Sequence
Target Sequence 
>C. ELEGANS:183280_AT
ggttcagtacattcttcgctgtcaagagctgcggtaaaatggttggtggaagaagttgat
ctgtcaattttcatagatcagtggaaccagacagactatggagctgacgagcaatttatc
tcaacttttcaaatgagccctgatctcaaaatgcccggtcattttacaaatgaatgcatc
cataatgacacagctattgttactatttccagactggcccgttgggtaccgatatatctc
gatagagctgcacattgtgcaaccgggactgtgagacatgacatttgcattttcggcatc
gaagacttccgagcaatttcgaaatttccaattttaaacatgcttccagcattcgattat
tcaattatagaatgtactgccgagcttctgcacaacaggacctact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTTCAGTACATTCTTCGCTGTCAA 411 507 877 Antisense
TGAGCCCTGATCTCAAAATGCCCGG 370 567 1010 Antisense
GACACAGCTATTGTTACTATTTCCA 296 365 1063 Antisense
CTATTTCCAGACTGGCCCGTTGGGT 183 225 1079 Antisense
GCCCGTTGGGTACCGATATATCTCG 677 283 1093 Antisense
ATCTCGATAGAGCTGCACATTGTGC 285 33 1112 Antisense
GTGCAACCGGGACTGTGAGACATGA 147 481 1133 Antisense
GACATTTGCATTTTCGGCATCGAAG 605 369 1156 Antisense
TCCAATTTTAAACATGCTTCCAGCA 646 585 1203 Antisense
TAGAATGTACTGCCGAGCTTCTGCA 466 651 1244 Antisense
GAGCTTCTGCACAACAGGACCTACT 260 389 1258 Antisense
Sequence Source Affymetrix Proprietary Database