[Home] | [Total List]

[187437_at]

Description C28F5.2 /REP_DB=WormBase Gene ID /WP=CE01816 /TR=SW:Q09240 /GB=AAC46726.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 14      4grp_highest_8_8 > 61      4grp_high_8_8 > 18      6grp_highest_nonorm > 90      6grp_total > 14      4grp_total > 30      6grp_highest_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 152
1 2 3 4 range
A 170.6
(3)
P 		133.8
(-0.7)
P 		111.4
(-3)
P 		159.5
(1.9)
P 		59
B 202.3
(3)
P 		160.4
(1)
P 		78
(-3)
P 		190.9
(2.4)
P 		124
C 230.2
(3)
P 		110.2
(-2.6)
P 		102.2
(-3)
P 		149.9
(-0.8)
P 		128
avr 201
(3) 		134.8
(-0.8) 		97.2
(-3) 		166.8
(1) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 122
1 2 3 4 5 6 range
A 199
(3)
P 		172.7
(1)
P 		130.2
(-2.2)
P 		132.2
(-2.1)
P 		124.7
(-2.7)
P 		120.2
(-3)
P 		79
B 170
(3)
P 		140.5
(0.9)
P 		140.3
(0.9)
P 		149.1
(1.5)
P 		125.5
(-0.1)
P 		84.2
(-3)
P 		86
C 205.7
(3)
P 		182.5
(1.8)
P 		145.7
(-0.2)
P 		148.7
(0)
P 		98
(-2.7)
P 		91.6
(-3)
P 		114
avr 191.6
(3) 		165.2
(1.3) 		138.7
(-0.4) 		143.3
(-0.1) 		116.1
(-1.9) 		98.7
(-3) 		93
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 62.1
(3)
P 		29
(-2.1)
P 		29.1
(-2.1)
P 		23.4
(-3)
P 		39
B 64.5
(3)
P 		39.6
(-0.2)
P 		18.1
(-3)
P 		40.7
(-0.1)
P 		46
C 76.2
(3)
P 		31.7
(-2.2)
P 		35.6
(-1.8)
P 		25.3
(-3)
P 		51
avr 67.6
(3) 		33.4
(-2.1) 		27.6
(-3) 		29.8
(-2.7) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 36.7
(-1.5)
P 		61.4
(3)
P 		28.3
(-3)
P 		33.5
(-2.1)
P 		37.6
(-1.3)
P 		29.3
(-2.8)
P 		33
B 59.2
(3)
P 		46.8
(0.3)
P 		34.1
(-2.4)
P 		39.5
(-1.3)
P 		51
(1.2)
P 		31.4
(-3)
P 		28
C 76.2
(3)
P 		55.7
(0.3)
P 		37.1
(-2.1)
P 		29.9
(-3)
P 		31.7
(-2.8)
P 		30.6
(-2.9)
P 		46
avr 57.4
(3) 		54.6
(2.4) 		33.2
(-2.4) 		34.3
(-2.1) 		40.1
(-0.8) 		30.4
(-3) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187437_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5155
Sequence Type Exemplar sequence
Representative Public ID C28F5.2 NCBI
Target Description C28F5.2 /REP_DB=WormBase Gene ID /WP=CE01816 /TR=SW:Q09240 /GB=AAC46726.1 /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_063171(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063171 NCBI Caenorhabditis elegans C28F5.2 (C28F5.2) mRNA, complete cds. 11/11 None
SNAP00000012808 ENSEMBL cdna:SNAP chromosome:CEL140:II:7507377:7509270:-1 10/11 None
GENEFINDER00000012813 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:7507377:7513898:-1 10/11 None
C28F5.2 ENSEMBL cdna:known chromosome:CEL140:II:7507377:7510660:-1 gene:C28F5.2 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
chrII:7507373-7510657(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28F5.2
Entrez Gene 182985 Entrez gene
SwissProt Q09240 EMBL-EBI
WormBase CE01816 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE67526 Hypothetical protein CBG13047 [Caenorhabditis briggsae] 1.0E-130
blast CAE67526 Hypothetical protein CBG13047 [Caenorhabditis briggsae] 1.0E-108
blast AAC46726 Hypothetical protein C28F5.2 [Caenorhabditis elegans] ref|NP_495572.1| C28F5.2 [Caenorhabditis elegans] sp|Q09240|YQA2_CAEEL Hypothetical protein C28F5.2 in chromosome II 1.0E-106
blast AAC46726 Hypothetical protein C28F5.2 [Caenorhabditis elegans] ref|NP_495572.1| C28F5.2 [Caenorhabditis elegans] sp|Q09240|YQA2_CAEEL Hypothetical protein C28F5.2 in chromosome II 1.0E-66
blast AAC46726 Hypothetical protein C28F5.2 [Caenorhabditis elegans] ref|NP_495572.1| C28F5.2 [Caenorhabditis elegans] sp|Q09240|YQA2_CAEEL Hypothetical protein C28F5.2 in chromosome II 2.0E-66
blast CAE67526 Hypothetical protein CBG13047 [Caenorhabditis briggsae] 1.0E-63
blast CAA90269 Hypothetical protein W01C9.5 [Caenorhabditis elegans] ref|NP_495806.1| W01C9.5 [Caenorhabditis elegans] 1.0E-13
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000012813 1 80-102
Sequence
Target Sequence 
>C. ELEGANS:187437_AT
ttgggaacaattgcctccttgacattcagtcaaaaacaagctctcaatctttcatggcgt
cttctgaaacctcaagcgtcagcatgcttccgaaaaatctttttggaattggaaatcgca
tctccaaaacttatatatttaacagattctttgatgaactgttagtctctctggacgatg
aaaccgaatttgtgaacaaaatccgcggtatcggatcagcccatgctattctggcaaaag
gcagtaatttttcatctgacatctgggaacgtcttggagaaatcgcaatggaacgtgttt
gttcccacgaagtagttacaaagacacgagaagcttctcgtgcatggagaactc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGGAACAATTGCCTCCTTGACAT 19 709 68 Antisense
AAGCTCTCAATCTTTCATGGCGTCT 103 151 105 Antisense
CATGGCGTCTTCTGAAACCTCAAGC 145 165 120 Antisense
AAACCTCAAGCGTCAGCATGCTTCC 2 127 134 Antisense
AAATCGCATCTCCAAAACTTATATA 82 119 180 Antisense
GAACTGTTAGTCTCTCTGGACGATG 164 349 223 Antisense
AAATCCGCGGTATCGGATCAGCCCA 114 117 266 Antisense
GATCAGCCCATGCTATTCTGGCAAA 520 421 281 Antisense
CTGACATCTGGGAACGTCTTGGAGA 661 235 323 Antisense
GAACGTGTTTGTTCCCACGAAGTAG 639 347 358 Antisense
GAAGCTTCTCGTGCATGGAGAACTC 60 343 397 Antisense
Sequence Source Affymetrix Proprietary Database