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[177987_at]

Description C28D4.7 /REP_DB=WormBase Gene ID /WP=CE25789 /TR=Q9NAR2 /GB=CAB97264.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 79      4grp_total > 04      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 23.4
(-0.2)
A 		2
(-3)
A 		30.2
(0.7)
A 		47.7
(3)
A 		46
B 31.6
(1.9)
A 		37.9
(3)
A 		5
(-3)
A 		20.5
(-0.2)
A 		33
C 18.4
(-1.6)
A 		2.4
(-3)
A 		23.1
(-1.3)
A 		73.4
(3)
A 		71
avr 24.5
(-1.1) 		14.1
(-3) 		19.4
(-2) 		47.2
(3) 		33

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 5.2
(-3)
A 		27.4
(-1.1)
A 		34.7
(-0.4)
A 		20.3
(-1.7)
A 		56.6
(1.5)
P 		73.6
(3)
P 		68
B 18.5
(-1.1)
A 		37.8
(1.8)
A 		39.1
(2)
A 		5.8
(-3)
A 		36.2
(1.5)
P 		46
(3)
A 		40
C 26.1
(-0.5)
A 		33.6
(0.2)
A 		33.2
(0.2)
A 		1.7
(-3)
A 		32.6
(0.1)
P 		61.3
(3)
P 		60
avr 16.6
(-2.1) 		32.9
(-0.2) 		35.7
(0.1) 		9.3
(-3) 		41.8
(0.8) 		60.3
(3) 		51
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12
1 2 3 4 range
A 8.5
(3)
A 		0.4
(-3)
A 		7.9
(2.6)
A 		7
(1.9)
A 		8
B 10.1
(3)
A 		9.4
(2.5)
A 		1.2
(-3)
A 		4.4
(-0.8)
A 		9
C 6.1
(-0.2)
A 		0.7
(-3)
A 		8.1
(0.8)
A 		12.4
(3)
A 		12
avr 8.2
(3) 		3.5
(-3) 		5.7
(-0.2) 		7.9
(2.6) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 1
(-3)
A 		9.8
(0.1)
A 		7.6
(-0.7)
A 		5.2
(-1.5)
A 		17.1
(2.7)
P 		17.9
(3)
P 		17
B 6.5
(-1.1)
A 		12.6
(1.3)
A 		9.5
(0.1)
A 		1.5
(-3)
A 		14.7
(2.1)
P 		17.1
(3)
A 		16
C 9.7
(-0.2)
A 		10.3
(-0)
A 		8.4
(-0.6)
A 		0.3
(-3)
A 		10.5
(0)
P 		20.5
(3)
P 		20
avr 5.7
(-1.7) 		10.9
(0.2) 		8.5
(-0.7) 		2.3
(-3) 		14.1
(1.4) 		18.5
(3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177987_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10158
Sequence Type Exemplar sequence
Representative Public ID C28D4.7 NCBI
Target Description C28D4.7 /REP_DB=WormBase Gene ID /WP=CE25789 /TR=Q9NAR2 /GB=CAB97264.1 /SUBMIT=HINXTON /CHR=4 /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_069333(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069333 NCBI Caenorhabditis elegans C28D4.7 (C28D4.7) mRNA, complete cds. 11/11 None
SNAP00000030229 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9741872:9743087:-1 11/11 None
GENEFINDER00000030237 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9739539:9744958:-1 11/11 None
C28D4.7 ENSEMBL cdna:known chromosome:CEL140:IV:9741872:9743087:-1 gene:C28D4.7 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
chrIV:9741877-9743093(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28D4.7
Entrez Gene 182982 Entrez gene
SwissProt Q9NAR2 EMBL-EBI
WormBase CE25789 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB97264 Hypothetical protein C28D4.7 [Caenorhabditis elegans] ref|NP_501734.1| C28D4.7 [Caenorhabditis elegans] 0.0
blast CAB05127 Hypothetical protein C28D4.3 [Caenorhabditis elegans] ref|NP_501733.1| GLutamiNe synthetase (glutamate-ammonia ligase) family member (gln-6) [Caenorhabditis elegans] 0.0
blast CAB02317 Hypothetical protein F26D10.10 [Caenorhabditis elegans] ref|NP_503065.1| GLutamiNe synthetase (glutamate-ammonia ligase) family member (gln-5) [Caenorhabditis elegans] 0.0
blast CAE72665 Hypothetical protein CBG19879 [Caenorhabditis briggsae] 0.0
blast CAB05125 Hypothetical protein C28D4.5 [Caenorhabditis elegans] ref|NP_501736.1| C28D4.5 [Caenorhabditis elegans] 1.0E-147
blast CAB05128 Hypothetical protein C28D4.4 [Caenorhabditis elegans] ref|NP_501735.1| C28D4.4 [Caenorhabditis elegans] 1.0E-145
Protein Domains
Database ID Description E-Value
Pfam IPR009658 EMBL-EBI Protein of unknown function DUF1248 2.4E-117
Pfam IPR008147 EMBL-EBI Glutamine synthetase, beta-Grasp domain 7.9E-32
Pfam IPR008146 EMBL-EBI Glutamine synthetase, catalytic domain 1.2E-93
Pfam IPR009658 EMBL-EBI Protein of unknown function DUF1248 7.5E-114
Pfam IPR009658 EMBL-EBI Protein of unknown function DUF1248 1.5E-100
Sequence
Target Sequence 
>C. ELEGANS:177987_AT
gaagctcagaattcgtaatcaatcagataatgctgttgctcaatgcatgcctacttcgat
gaacttatggaagaaaatgcatggacaaaatgatgctggacatattcagaatgtttcata
ttacaagccagatgagatgcaggttcctgacgacttgaatcttgatggaatattccttaa
aaatgcaacggaggcaccaaatatgtatattgtgaaactgttaaatcttcttagagatcc
tgaaggttttggaaaggtagcatacgacaataatggaaaagtgattggatttggaaatgt
gatcatctatccatctggtgaatgtgtattgactccactatatgctgatgatagtaaagt
ggctcaggcaatattcaaaagcattttaaaagaaattccactcaatgacaagaagctttt
gagattccaaataagatcaatcgatcaatgtgaaggaggatttgaatggattcaaccctt
tgttaaaaatccaataagaaaggaaatcatgggatatttgacttacgaaactcactctcc
aattattaact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCTCAGAATTCGTAATCAATCA 162 343 435 Antisense
ATCAATCAGATAATGCTGTTGCTCA 661 25 452 Antisense
GCTGTTGCTCAATGCATGCCTACTT 659 295 466 Antisense
GCATGCCTACTTCGATGAACTTATG 125 309 479 Antisense
GATGCTGGACATATTCAGAATGTTT 129 415 526 Antisense
AGAATGTTTCATATTACAAGCCAGA 232 75 542 Antisense
GATGAGATGCAGGTTCCTGACGACT 620 411 565 Antisense
GGTTCCTGACGACTTGAATCTTGAT 478 507 576 Antisense
GCAACGGAGGCACCAAATATGTATA 505 319 619 Antisense
TTGACTTACGAAACTCACTCTCCAA 369 705 952 Antisense
GAAACTCACTCTCCAATTATTAACT 142 357 961 Antisense
Sequence Source Affymetrix Proprietary Database