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[180241_at]

Description R04F11.1 /REP_DB=WormBase Gene ID /WP=CE06232 /TR=Q21731 /GB=CAA98959.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 70      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 90      6grp_total > 71      4grp_total > 03      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 303
1 2 3 4 range
A 147.1
(-2.4)
P 		141.3
(-2.5)
P 		117.5
(-3)
P 		418.4
(3)
P 		301
B 198.2
(-1.4)
P 		155.1
(-2.3)
P 		118.7
(-3)
P 		420.5
(3)
P 		302
C 171.6
(-2)
P 		125.2
(-3)
P 		136.8
(-2.8)
P 		406
(3)
P 		281
avr 172.3
(-2) 		140.5
(-2.7) 		124.3
(-3) 		415
(3) 		291

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 144
1 2 3 4 5 6 range
A 190
(0.2)
P 		126.2
(-3)
P 		247.4
(3)
P 		235.5
(2.4)
P 		165.5
(-1.1)
P 		132.3
(-2.7)
P 		121
B 143.2
(-2.1)
P 		226.3
(3)
P 		174.3
(-0.2)
P 		192.5
(0.9)
P 		198.5
(1.3)
P 		127.6
(-3)
P 		99
C 103.9
(-3)
P 		217.2
(3)
P 		132.4
(-1.5)
P 		198.4
(2)
P 		135.4
(-1.3)
P 		157.5
(-0.2)
P 		113
avr 145.7
(-2.4) 		189.9
(1.4) 		184.7
(0.9) 		208.8
(3) 		166.5
(-0.6) 		139.1
(-3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 53.5
(1.5)
P 		30.7
(-3)
P 		30.7
(-3)
P 		61.2
(3)
P 		31
B 63.2
(0.4)
P 		38.3
(-2)
P 		27.5
(-3)
P 		89.6
(3)
P 		62
C 56.8
(0.8)
P 		36
(-3)
P 		47.7
(-0.8)
P 		68.5
(3)
P 		33
avr 57.8
(0.6) 		35
(-3) 		35.3
(-3) 		73.1
(3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 35
(-2.4)
P 		44.9
(-0.2)
P 		53.9
(1.7)
P 		59.7
(3)
P 		49.9
(0.9)
P 		32.2
(-3)
P 		28
B 49.8
(-1.8)
P 		75.3
(2.2)
P 		42.3
(-3)
P 		51
(-1.6)
P 		80.7
(3)
P 		47.6
(-2.2)
P 		38
C 38.5
(-2.1)
P 		66.3
(3)
P 		33.7
(-3)
P 		39.9
(-1.9)
P 		43.8
(-1.1)
P 		52.7
(0.5)
P 		33
avr 41.1
(-3) 		62.2
(3) 		43.3
(-2.4) 		50.2
(-0.4) 		58.1
(1.8) 		44.2
(-2.1) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180241_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12980
Sequence Type Exemplar sequence
Representative Public ID R04F11.1 NCBI
Target Description R04F11.1 /REP_DB=WormBase Gene ID /WP=CE06232 /TR=Q21731 /GB=CAA98959.1 /SUBMIT=HINXTON /CHR=5 /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_073686(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073686 NCBI Caenorhabditis elegans R04F11.1 (R04F11.1) mRNA, complete cds. 11/11 None
SNAP00000007837 ENSEMBL cdna:SNAP chromosome:CEL140:V:12311437:12312918:-1 11/11 None
GENEFINDER00000007848 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12311437:12312930:-1 11/11 None
R04F11.1 ENSEMBL cdna:known chromosome:CEL140:V:12311614:12313726:-1 gene:R04F11.1 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
chrV:12311613-12313726(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R04F11.1
Entrez Gene 187592 Entrez gene
SwissProt Q21731 EMBL-EBI
WormBase CE06232 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA98959 Hypothetical protein R04F11.1 [Caenorhabditis elegans] ref|NP_506087.1| R04F11.1 [Caenorhabditis elegans] 1.0E-174
blast CAA98959 Hypothetical protein R04F11.1 [Caenorhabditis elegans] ref|NP_506087.1| R04F11.1 [Caenorhabditis elegans] 1.0E-143
blast CAA98959 Hypothetical protein R04F11.1 [Caenorhabditis elegans] ref|NP_506087.1| R04F11.1 [Caenorhabditis elegans] 1.0E-141
blast CAE75454 Hypothetical protein CBG23449 [Caenorhabditis briggsae] 1.0E-129
blast CAE75454 Hypothetical protein CBG23449 [Caenorhabditis briggsae] 1.0E-127
blast CAB54276 Hypothetical protein K10D6.2c [Caenorhabditis elegans] ref|NP_505844.2| K10D6.2c [Caenorhabditis elegans] 5.0E-31
blast CAB54276 Hypothetical protein K10D6.2c [Caenorhabditis elegans] ref|NP_505844.2| K10D6.2c [Caenorhabditis elegans] 6.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR010761 EMBL-EBI Clc-like 1.0E-126
Pfam IPR010761 EMBL-EBI Clc-like 1.0E-126
Pfam IPR010761 EMBL-EBI Clc-like 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506087.1 4 56-78,160-182,189-211,255-277
R04F11.1 4 56-78,160-182,189-211,255-277
SNAP00000007837 4 7-29,108-130,137-159,203-225
GENEFINDER00000007848 4 7-29,112-134,141-163,207-229
Sequence
Target Sequence 
>C. ELEGANS:180241_AT
ttatcacatcatcacggtctttggtgggattgtattgtacatcatgaaactttaattccg
ttacatgaagatcaagcagaacttcgaggtgatcgatgtgatagtaagatggattcttcg
gttcaagcatcattaagagttgctcttgaaaaaggagatgaagaggccagagagcttttg
ttacatcggtttctacctcatcacaaaggtgtaattttcttcgcagttttcacttttgtt
ttcggactaatctccatcctgattggctcctgttctccatgttttccaccaaatgcacta
ctttatgtagttggtgtctttatgaccggagcatgttctttattagcagatattatctac
atatttgcttttaatcagaaaccaatttttacaaaagaacaatctgagccacaccaagaa
gttttatcgagaagagaacgaggatccattggacccatttataagcgtcttggcattgca
acgtacatgcatatgtttggttccatgctattaattgctgcattcatcttttcaattttt
tgtgcctacttcctcatcacttcaaaacatgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATCACATCATCACGGTCTTTGGT 345 669 283 Antisense
TGGATTCTTCGGTTCAAGCATCATT 453 551 392 Antisense
GAGGCCAGAGAGCTTTTGTTACATC 450 405 445 Antisense
TTACATCGGTTTCTACCTCATCACA 136 681 463 Antisense
GGTGTAATTTTCTTCGCAGTTTTCA 630 499 490 Antisense
TTTTCGGACTAATCTCCATCCTGAT 351 677 521 Antisense
TTCTCCATGTTTTCCACCAAATGCA 576 691 555 Antisense
GACCGGAGCATGTTCTTTATTAGCA 485 381 606 Antisense
AAAGAACAATCTGAGCCACACCAAG 655 123 676 Antisense
AGCGTCTTGGCATTGCAACGTACAT 8 81 746 Antisense
ACTTCCTCATCACTTCAAAACATGC 134 105 830 Antisense
Sequence Source Affymetrix Proprietary Database