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[194253_x_at]

Description C36663_rc /REP_DB=TREMBL Accession /GB=C36663 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk482h9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 93      6grp_high1_10_10 > 59      4grp_highest_8_8 > 39      4grp_high_8_8 > 12      6grp_highest_nonorm > 57      6grp_total > 49      4grp_total > 12      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1016
1 2 3 4 range
A 2339.1
(3)
P 		1929.5
(-3)
P 		2270.5
(2)
P 		2247.3
(1.7)
P 		410
B 1991.7
(-1.3)
P 		2199.1
(-0.1)
P 		1700.6
(-3)
P 		2716.3
(3)
P 		1016
C 2107
(-1)
P 		2013.5
(-2.8)
P 		2005.2
(-3)
P 		2311.7
(3)
P 		307
avr 2145.9
(-0.9) 		2047.4
(-2.2) 		1992.1
(-3) 		2425.1
(3) 		433

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 808
1 2 3 4 5 6 range
A 2604.5
(3)
P 		2187.7
(-0.1)
P 		1796.6
(-3)
P 		1998.4
(-1.5)
P 		2513.8
(2.3)
P 		2277.3
(0.6)
P 		808
B 2180
(-2.2)
P 		2452.7
(3)
P 		2289.1
(-0.1)
P 		2277.9
(-0.4)
P 		2140.7
(-3)
P 		2250.3
(-0.9)
P 		312
C 2165.9
(-1.3)
P 		2159.2
(-1.4)
P 		2372.3
(2)
P 		2289.2
(0.7)
P 		2062.1
(-3)
P 		2434.3
(3)
P 		372
avr 2316.8
(2.9) 		2266.5
(1.1) 		2152.7
(-3) 		2188.5
(-1.7) 		2238.9
(0.1) 		2320.6
(3) 		168
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 523
1 2 3 4 range
A 851.7
(3)
P 		418.9
(-2)
P 		593.5
(0)
P 		329
(-3)
P 		523
B 635.1
(3)
P 		543.1
(0.7)
P 		394.1
(-3)
P 		578.9
(1.6)
P 		241
C 697.5
(3)
P 		578.9
(0.7)
P 		698.9
(3)
P 		389.8
(-3)
P 		309
avr 728.1
(3) 		513.6
(-1.4) 		562.2
(-0.4) 		432.6
(-3) 		296

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 478
1 2 3 4 5 6 range
A 480.1
(-1.6)
P 		778
(3)
P 		391.3
(-3)
P 		506.8
(-1.2)
P 		758.6
(2.7)
P 		554.4
(-0.5)
P 		387
B 758.5
(0.9)
P 		816.4
(2)
P 		555.9
(-3)
P 		603.3
(-2.1)
P 		869.7
(3)
P 		839.1
(2.4)
P 		314
C 802.8
(2.8)
P 		658.8
(0.4)
P 		603.8
(-0.6)
P 		460.4
(-3)
P 		667.3
(0.5)
P 		814.9
(3)
P 		355
avr 680.5
(1) 		751.1
(2.7) 		517
(-3) 		523.5
(-2.8) 		765.2
(3) 		736.1
(2.3) 		248
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194253_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21794
Sequence Type Exemplar sequence
Representative Public ID C36663 NCBI
Target Description C36663_rc /REP_DB=TREMBL Accession /GB=C36663 /CHR=5 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk482h9 : 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_171511(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171511 NCBI Caenorhabditis elegans X-BoX promoter element regulated family member (xbx-6) (xbx-6) mRNA, complete cds. 11/11 A 
F40F9.1a ENSEMBL cdna:known chromosome:CEL140:V:9707942:9710378:1 gene:F40F9.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_073099 3/11 Cross Hyb Matching Probes A 
SNAP00000009249 3/11 Cross Hyb Matching Probes None
GENEFINDER00000009262 7/11 Cross Hyb Matching Probes None
F40F9.1b 3/11 Cross Hyb Matching Probes A 
F40F9.2 10/11 Negative Strand Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
179361 2 1 NM_171511 194253_x_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:9709530-9710324(+) 100.0 100.0
Public Domain and Genome References
Ensembl F40F9.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD44125 Hypothetical protein F40F9.1a [Caenorhabditis elegans] ref|NP_741597.1| X-BoX promoter element regulated family member (xbx-6) [Caenorhabditis elegans] 1.0E-145
blast CAD44126 Hypothetical protein F40F9.1b [Caenorhabditis elegans] ref|NP_505500.2| X-BoX promoter element regulated family member (xbx-6) [Caenorhabditis elegans] 1.0E-144
blast CAE72234 Hypothetical protein CBG19349 [Caenorhabditis briggsae] 1.0E-129
Protein Domains
Database ID Description E-Value
Pfam IPR006214 EMBL-EBI Protein of unknown function UPF0005 9.0E-30
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741597.1 7 87-106,121-139,146-168,173-195,207-229,233-252,271-293
F40F9.1a 7 87-106,121-139,146-168,173-195,207-229,233-252,271-293
Sequence
Target Sequence 
>C. ELEGANS:194253_X_AT
gcttctgttcaaatcttcattgacattgtccagatgttctggttccttctcagtttgttc
ggatccagcgactaaacaacggccttcacccgacttcatcgattctcgattcttcaattc
cttcttctttttctgttctatactagattccatgcctaatttacacactggtagttcact
ttgttcttctttg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTCTGTTCAAATCTTCATTGACA 151 307 15 Antisense
GTCCAGATGTTCTGGTTCCTTCTCA 295 477 42 Antisense
GTTCCTTCTCAGTTTGTTCGGATCC 591 439 56 Antisense
GGATCCAGCGACTAAACAACGGCCT 253 513 75 Antisense
ACCCGACTTCATCGATTCTCGATTC 6 91 102 Antisense
ATCGATTCTCGATTCTTCAATTCCT 49 37 112 Antisense
TTCTTCTTTTTCTGTTCTATACTAG 38 691 136 Antisense
GTTCTATACTAGATTCCATGCCTAA 501 443 149 Antisense
GATTCCATGCCTAATTTACACACTG 254 433 160 Antisense
TACACACTGGTAGTTCACTTTGTTC 410 643 176 Antisense
TGGTAGTTCACTTTGTTCTTCTTTG 306 551 183 Antisense
Sequence Source Affymetrix Proprietary Database