[Home] | [Total List]

[179499_s_at]

Description C06H5.2 /REP_DB=WormBase Gene ID /WP=CE15604 /TR=O17578 /GB=CAB07162.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 48      6grp_high1_10_10 > 83      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 64      6grp_total > 74      4grp_total > 02      6grp_high1_sub > 04      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 403
1 2 3 4 range
A 683.8
(-0)
P 		522.8
(-3)
P 		635.5
(-0.9)
P 		849.1
(3)
P 		326
B 524
(-3)
P 		674.6
(-0.8)
P 		564.7
(-2.4)
P 		926
(3)
P 		402
C 663
(-1.7)
P 		618.5
(-2.7)
P 		604.2
(-3)
P 		881.9
(3)
P 		278
avr 623.6
(-2.5) 		605.3
(-2.9) 		601.5
(-3) 		885.7
(3) 		284

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 888
1 2 3 4 5 6 range
A 644.2
(-1.8)
P 		532.7
(-3)
P 		996.6
(2)
P 		1084
(3)
P 		979.5
(1.9)
P 		1064.2
(2.8)
P 		551
B 515.6
(-3)
P 		586.2
(-2.5)
P 		895.2
(-0.2)
P 		1331.6
(3)
P 		1033
(0.8)
P 		1130.9
(1.5)
P 		816
C 443.5
(-3)
P 		659.6
(-0.9)
P 		949.1
(1.8)
P 		1073.5
(3)
P 		703.3
(-0.5)
P 		934.1
(1.7)
P 		630
avr 534.4
(-3) 		592.8
(-2.4) 		947
(0.9) 		1163
(3) 		905.3
(0.5) 		1043.1
(1.9) 		629
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 136
1 2 3 4 range
A 249
(3)
P 		113.5
(-3)
P 		166.1
(-0.7)
P 		124.3
(-2.5)
P 		136
B 167.1
(0.3)
P 		166.6
(0.2)
P 		130.9
(-3)
P 		197.3
(3)
P 		66
C 219.5
(3)
P 		177.8
(-0.5)
P 		210.6
(2.2)
P 		148.7
(-3)
P 		71
avr 211.9
(3) 		152.6
(-3) 		169.2
(-1.3) 		156.8
(-2.6) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 303
1 2 3 4 5 6 range
A 118.8
(-3)
P 		189.5
(-0.6)
P 		217
(0.3)
P 		274.9
(2.3)
P 		295.6
(3)
P 		259.1
(1.8)
P 		177
B 179.4
(-3)
P 		195.1
(-2.6)
P 		217.4
(-2.1)
P 		352.7
(1.3)
P 		419.7
(3)
P 		421.7
(3)
P 		242
C 164.4
(-3)
P 		201.3
(-1.5)
P 		241.6
(0.1)
P 		215.9
(-0.9)
P 		227.6
(-0.4)
P 		312.7
(3)
P 		148
avr 154.2
(-3) 		195.3
(-1.6) 		225.3
(-0.6) 		281.2
(1.3) 		314.3
(2.4) 		331.2
(3) 		177
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 179499_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12924
Sequence Type Exemplar sequence
Representative Public ID C06H5.2 NCBI
Target Description C06H5.2 /REP_DB=WormBase Gene ID /WP=CE15604 /TR=O17578 /GB=CAB07162.1 /SUBMIT=HINXTON /CHR=5 /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_075109(11), NM_171558(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075109 NCBI Caenorhabditis elegans C06H5.2 (C06H5.2) mRNA, complete cds. 11/11 A 
NM_171558 NCBI Caenorhabditis elegans C06H5.1 (C06H5.1) mRNA, complete cds. 11/11 None
SNAP00000016163 ENSEMBL cdna:SNAP chromosome:CEL140:V:17897948:17899337:-1 11/11 None
SNAP00000016166 ENSEMBL cdna:SNAP chromosome:CEL140:V:17902404:17904453:1 11/11 None
GENEFINDER00000016171 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17897948:17899437:-1 11/11 None
GENEFINDER00000016177 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:17901304:17906905:1 11/11 None
C06H5.1 ENSEMBL cdna:known chromosome:CEL140:V:17897877:17899362:-1 gene:C06H5.1 11/11 A 
C06H5.2 ENSEMBL cdna:known chromosome:CEL140:V:17902404:17904453:1 gene:C06H5.2 11/11 A 
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
chrV:17902403-17904453(+) 100.0 100.0
chrV:17897938-17899217(-) 95.39 95.39
Public Domain and Genome References
Gene Title

Ensembl C06H5.1
C06H5.2
Entrez Gene 180171 Entrez gene
182349 Entrez gene
SwissProt O17577 EMBL-EBI
O17578 EMBL-EBI
WormBase CE27668 Wormbase
CE15604 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07162 Hypothetical protein C06H5.2 [Caenorhabditis elegans] ref|NP_507510.1| C06H5.2 [Caenorhabditis elegans] 0.0
blast CAB07161 Hypothetical protein C06H5.1 [Caenorhabditis elegans] ref|NP_741646.1| C06H5.1 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 3.3E-34
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 5.9E-5
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.3E-38
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 5.9E-5
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.3E-38
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 3.3E-34
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 5.9E-5
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.2E-28
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 5.9E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000016177 2 7-25,624-641
Sequence
Target Sequence 
>C. ELEGANS:179499_S_AT
gaagggctcattttatttgatgctcttaaaaatgtacttcaatcagttggagtcttgacg
acaaaatcagtattgatcaattggcttccttctgttcaaattgctgaaattctagaacac
ttcaatactgaaattttagaggacttgacaattaaaagtagcgaatccgatgaaaattcc
ataaaacgtctggtgcgccttgaacaatggaaacaagcaaagactctgacattgtctcct
gttccacattattcacttatcgtcaagcatcttgctcacttccaatcactgaactttgac
ttttctgagga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGGCTCATTTTATTTGATGCTC 466 335 649 Antisense
GATGCTCTTAAAAATGTACTTCAAT 557 413 667 Antisense
TGATCAATTGGCTTCCTTCTGTTCA 331 565 722 Antisense
GGCTTCCTTCTGTTCAAATTGCTGA 98 537 731 Antisense
ATTCCATAAAACGTCTGGTGCGCCT 470 7 824 Antisense
CGTCTGGTGCGCCTTGAACAATGGA 37 247 835 Antisense
AAGACTCTGACATTGTCTCCTGTTC 529 153 868 Antisense
TCTCCTGTTCCACATTATTCACTTA 172 611 883 Antisense
GTTCCACATTATTCACTTATCGTCA 401 441 889 Antisense
TTGCTCACTTCCAATCACTGAACTT 160 703 920 Antisense
CACTGAACTTTGACTTTTCTGAGGA 151 197 935 Antisense
Sequence Source Affymetrix Proprietary Database