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[194222_x_at]

Description AV200549_rc /REP_DB=TREMBL Accession /GB=AV200549 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk576h10 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 05      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 04      6grp_total > 05      4grp_total > 58      6grp_highest_sub > De      6grp_high1_sub > De      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6388
1 2 3 4 range
A 5526.7
(-0.5)
P 		7046.8
(1)
P 		9221.4
(3)
P 		2833.8
(-3)
P 		6388
B 5614.7
(-0.6)
P 		7750.9
(1.6)
P 		9065
(3)
P 		3276.8
(-3)
P 		5788
C 5160.7
(-0.5)
P 		7072
(1.7)
P 		8190.9
(3)
P 		2967.9
(-3)
P 		5223
avr 5434
(-0.5) 		7289.9
(1.4) 		8825.8
(3) 		3026.2
(-3) 		5800

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3838
1 2 3 4 5 6 range
A 6232.8
(3)
P 		5531.3
(1.2)
P 		5019.6
(-0.1)
P 		5251.3
(0.5)
P 		4480.4
(-1.5)
P 		3896.1
(-3)
P 		2337
B 5999.5
(3)
P 		5369.4
(1.4)
P 		3682.3
(-2.9)
P 		4518.8
(-0.8)
P 		4562.7
(-0.7)
P 		3650.8
(-3)
P 		2349
C 7173.2
(3)
P 		5364.9
(0.2)
P 		5541.3
(0.4)
P 		3777.1
(-2.3)
P 		5148.3
(-0.2)
P 		3335.7
(-3)
P 		3838
avr 6468.5
(3) 		5421.9
(0.8) 		4747.7
(-0.6) 		4515.7
(-1.1) 		4730.5
(-0.7) 		3627.5
(-3) 		2841
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2440
1 2 3 4 range
A 2012.3
(1.8)
P 		1529.7
(0.4)
P 		2410.7
(3)
P 		414.8
(-3)
P 		1996
B 1790.5
(1.7)
P 		1914.3
(2.2)
P 		2100.6
(3)
P 		698.3
(-3)
P 		1402
C 1708.4
(0.1)
P 		2033.3
(0.9)
P 		2854.8
(3)
P 		500.4
(-3)
P 		2354
avr 1837.1
(1.1) 		1825.8
(1) 		2455.4
(3) 		537.8
(-3) 		1918

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1899
1 2 3 4 5 6 range
A 1149
(-1.8)
P 		1967.2
(3)
P 		1093.2
(-2.1)
P 		1331.9
(-0.7)
P 		1352
(-0.6)
P 		948.6
(-3)
P 		1019
B 2087.5
(3)
P 		1787.3
(1.5)
P 		894.2
(-3)
P 		1196.9
(-1.5)
P 		1853.7
(1.8)
P 		1361.3
(-0.7)
P 		1193
C 2658.8
(3)
P 		1637
(-0.2)
P 		1410.4
(-0.9)
P 		759.6
(-3)
P 		1665.9
(-0.1)
P 		1116.7
(-1.9)
P 		1899
avr 1965.1
(3) 		1797.2
(1.8) 		1132.6
(-2.7) 		1096.1
(-3) 		1623.9
(0.6) 		1142.2
(-2.7) 		869
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194222_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21549
Sequence Type Exemplar sequence
Representative Public ID AV200549 NCBI
Target Description AV200549_rc /REP_DB=TREMBL Accession /GB=AV200549 /CHR=4 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk576h10 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_067796(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067796 NCBI Caenorhabditis elegans Y38F2AR.9 (Y38F2AR.9) mRNA, complete cds. 11/11 B 
Y38F2AR.9.1 ENSEMBL cdna:known chromosome:CEL140:IV:2388192:2388675:-1 gene:Y38F2AR.9 11/11 None
Y38F2AR.9.2 ENSEMBL cdna:known chromosome:CEL140:IV:2388192:2388673:-1 gene:Y38F2AR.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000033664 4/11 Cross Hyb Matching Probes None
GENEFINDER00000033679 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2388225-2388621(-) 88.79 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38F2AR.9
Entrez Gene 177027 Entrez gene
SwissProt Q95XS2 EMBL-EBI
WormBase CE27617 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_500197 Y38F2AR.9 [Caenorhabditis elegans] gb|AAK68450.1| Hypothetical protein Y38F2AR.9 [Caenorhabditis elegans] 2.0E-28
blast CAE70295 Hypothetical protein CBG16816 [Caenorhabditis briggsae] 4.0E-26
blast AAI06322 Unknown (protein for MGC:130844) [Xenopus laevis] gb|AAH41270.1| Sec61beta-prov protein [Xenopus laevis] 7.0E-18
Protein Domains
Database ID Description E-Value
Pfam IPR005609 EMBL-EBI Sec61beta 2.3E-27
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500197.1 1 51-73
Y38F2AR.9.1 1 51-73
Y38F2AR.9.2 1 51-73
Sequence
Target Sequence 
>C. ELEGANS:194222_X_AT
ggaggcaacaacggagggctctggcgcttctacaccgaggattcgaccggcttgaagatc
ggaccagttccagtgctcgtcatgtcgctcgtcttcatcgcttccgtgttcgtgctccac
atttggggaaaattcacgagaagccgcgcttaagcccttaaaatggctctttgtgctccg
caacttctatgggtcgatattctcttcgttttttttttcgtcgaaaaaaatttaaattaa
ttattttattgtctcccttcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGGCAACAACGGAGGGCTCTGGC 498 515 51 Antisense
CGCTTCTACACCGAGGATTCGACCG 368 253 75 Antisense
GATTCGACCGGCTTGAAGATCGGAC 404 431 90 Antisense
GAAGATCGGACCAGTTCCAGTGCTC 340 337 104 Antisense
TGTTCGTGCTCCACATTTGGGGAAA 232 555 157 Antisense
GAAAATTCACGAGAAGCCGCGCTTA 15 353 178 Antisense
AAGCCGCGCTTAAGCCCTTAAAATG 661 143 191 Antisense
CCTTAAAATGGCTCTTTGTGCTCCG 77 255 206 Antisense
TCCGCAACTTCTATGGGTCGATATT 458 595 227 Antisense
ATGGGTCGATATTCTCTTCGTTTTT 502 49 239 Antisense
TAATTATTTTATTGTCTCCCTTCGT 364 635 288 Antisense
Sequence Source Affymetrix Proprietary Database