[Home] | [Total List]

[187214_at]

Description C28H8.8 /REP_DB=WormBase Gene ID /WP=CE01830 /TR=SW:Q09246 /GB=AAA62296.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 03      4grp_total > 22      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 12.3
(2.2)
A 		2.7
(-3)
A 		13.8
(3)
A 		6.9
(-0.7)
A 		11
B 33.9
(3)
A 		17.3
(-3)
A 		21.8
(-1.4)
A 		27.8
(0.8)
A 		17
C 12.6
(-1.1)
A 		23.1
(2.7)
A 		7.2
(-3)
A 		24
(3)
A 		17
avr 19.6
(3) 		14.4
(-2.9) 		14.3
(-3) 		19.6
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 24.6
(2.9)
A 		4.6
(-2.2)
A 		24.8
(3)
A 		17.8
(1.2)
A 		24.3
(2.9)
A 		1.5
(-3)
A 		23
B 47.5
(3)
A 		25.5
(0.1)
A 		2.5
(-3)
A 		32.1
(0.9)
A 		7.5
(-2.3)
A 		7.9
(-2.3)
A 		45
C 3
(-2.6)
A 		36.3
(3)
A 		4.5
(-2.3)
A 		26.2
(1.3)
A 		0.6
(-3)
A 		14.4
(-0.7)
A 		36
avr 25
(2.9) 		22.1
(1.9) 		10.6
(-2.1) 		25.4
(3) 		10.8
(-2) 		7.9
(-3) 		18
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 4.5
(3)
A 		0.6
(-3)
A 		3.6
(1.6)
A 		1
(-2.4)
A 		4
B 10.8
(3)
A 		4.3
(-3)
A 		5
(-2.4)
A 		5.9
(-1.5)
A 		7
C 4.2
(-0.6)
A 		6.7
(3)
A 		2.5
(-3)
A 		4
(-0.9)
A 		4
avr 6.5
(3) 		3.9
(-2.4) 		3.7
(-2.8) 		3.6
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 4.5
(0.6)
A 		1.6
(-2)
A 		5.4
(1.3)
A 		4.5
(0.6)
A 		7.3
(3)
A 		0.4
(-3)
A 		7
B 16.5
(3)
A 		8.5
(-0)
A 		0.6
(-3)
A 		8.5
(-0)
A 		3.1
(-2.1)
A 		2.9
(-2.1)
A 		16
C 1.1
(-2.5)
A 		11.1
(3)
A 		1.1
(-2.5)
A 		5.3
(-0.2)
A 		0.2
(-3)
A 		4.8
(-0.5)
A 		11
avr 7.4
(3) 		7.1
(2.6) 		2.4
(-3) 		6.1
(1.4) 		3.5
(-1.7) 		2.7
(-2.6) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187214_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7328
Sequence Type Exemplar sequence
Representative Public ID C28H8.8 NCBI
Target Description C28H8.8 /REP_DB=WormBase Gene ID /WP=CE01830 /TR=SW:Q09246 /GB=AAA62296.1 /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_065878(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065878 NCBI Caenorhabditis elegans C28H8.8 (C28H8.8) mRNA, complete cds. 11/11 None
GENEFINDER00000005446 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5887698:5888754:-1 11/11 None
SNAP00000005430 ENSEMBL cdna:SNAP chromosome:CEL140:III:5887797:5888754:-1 11/11 None
C28H8.8 ENSEMBL cdna:known chromosome:CEL140:III:5887797:5888724:-1 gene:C28H8.8 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:5887795-5888723(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28H8.8
Entrez Gene 182998 Entrez gene
WormBase CE38944 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498279 C28H8.8 [Caenorhabditis elegans] sp|Q09246|YP98_CAEEL Hypothetical protein C28H8.8 in chromosome III 1.0E-100
blast AAA62296 Hypothetical protein C28H8.8 [Caenorhabditis elegans] 1.0E-100
blast NP_498279 C28H8.8 [Caenorhabditis elegans] sp|Q09246|YP98_CAEEL Hypothetical protein C28H8.8 in chromosome III 1.0E-96
blast AAA62296 Hypothetical protein C28H8.8 [Caenorhabditis elegans] 1.0E-96
blast CAE64367 Hypothetical protein CBG09054 [Caenorhabditis briggsae] 6.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR002485 EMBL-EBI Protein of unknown function DUF13 2.0E-29
Pfam IPR002485 EMBL-EBI Protein of unknown function DUF13 1.8E-30
Pfam IPR002485 EMBL-EBI Protein of unknown function DUF13 1.8E-30
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000005446 1 5-27
SNAP00000005430 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:187214_AT
cataatcctatttttgtgcttcactgttcttttcatgttgttctatccagattataaaga
accaagtgtagtagtaactcttggcattggtttggatgtgaaagcagaaacaacactcaa
ggaaacacttccgacgaattcccgattctatgccgccgatccaatatacactggaaacgg
agaactttacgaacctgttgggtcgtatttcccatttgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATAATCCTATTTTTGTGCTTCACT 11 215 18 Antisense
TGCTTCACTGTTCTTTTCATGTTGT 606 579 34 Antisense
CTTTTCATGTTGTTCTATCCAGATT 170 223 46 Antisense
AAGTGTAGTAGTAACTCTTGGCATT 155 159 81 Antisense
GTAACTCTTGGCATTGGTTTGGATG 167 457 91 Antisense
GGCATTGGTTTGGATGTGAAAGCAG 488 537 100 Antisense
GCAGAAACAACACTCAAGGAAACAC 612 311 121 Antisense
TCAAGGAAACACTTCCGACGAATTC 628 629 134 Antisense
ATGCCGCCGATCCAATATACACTGG 400 41 167 Antisense
TACACTGGAAACGGAGAACTTTACG 586 379 184 Antisense
TGTTGGGTCGTATTTCCCATTTGCT 532 561 213 Antisense
Sequence Source Affymetrix Proprietary Database