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[192999_s_at]

Description R05F9.1 /REP_DB=WormBase Gene ID /WP=CE04803 /TR=Q21748 /GB=AAA83172.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=yeast suppressor protein SRP40 (weak)
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 69      4grp_highest_8_8 > 15      4grp_high_8_8 > 06      6grp_highest_nonorm > 83      6grp_total > 59      4grp_total > 09      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 895
1 2 3 4 range
A 664.4
(-3)
P 		755.8
(-2.2)
P 		685.8
(-2.8)
P 		1389.7
(3)
P 		725
B 702
(-3)
P 		710.6
(-2.9)
P 		733.9
(-2.8)
P 		1559.1
(3)
P 		857
C 691.1
(-2.8)
P 		669.8
(-3)
P 		743.6
(-2.3)
P 		1311.1
(3)
P 		641
avr 685.8
(-3) 		712.1
(-2.8) 		721.1
(-2.7) 		1420
(3) 		734

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 382
1 2 3 4 5 6 range
A 447.6
(-1.4)
P 		519.3
(-0.2)
P 		352.3
(-3)
P 		494.7
(-0.6)
P 		450.4
(-1.4)
P 		713.8
(3)
P 		362
B 576.5
(2.8)
P 		473.8
(0.3)
P 		332
(-3)
P 		348.9
(-2.6)
P 		537.9
(1.9)
P 		586.2
(3)
P 		254
C 562.2
(2)
P 		421.6
(-3)
P 		509.7
(0.1)
P 		505.9
(-0)
P 		591.1
(3)
P 		568.4
(2.2)
P 		170
avr 528.8
(0.5) 		471.6
(-1) 		398
(-3) 		449.8
(-1.6) 		526.5
(0.4) 		622.8
(3) 		225
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 168
1 2 3 4 range
A 241.9
(3)
P 		164.1
(-3)
P 		179.3
(-1.8)
P 		203.4
(0)
P 		78
B 223.9
(-1)
P 		175.5
(-2.8)
P 		170.1
(-3)
P 		332.2
(3)
P 		162
C 228.8
(0.3)
P 		192.6
(-3)
P 		259.2
(3)
P 		221.1
(-0.4)
P 		67
avr 231.5
(1.3) 		177.4
(-3) 		202.9
(-1) 		252.2
(3) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 82.5
(-2.7)
P 		184.7
(3)
P 		76.7
(-3)
P 		125.5
(-0.3)
P 		135.9
(0.3)
P 		173.8
(2.4)
P 		108
B 200.6
(2.2)
P 		157.7
(0.4)
P 		80.6
(-3)
P 		92.4
(-2.5)
P 		218.6
(3)
P 		218.6
(3)
P 		138
C 208.4
(3)
P 		128.7
(-1.5)
P 		129.7
(-1.4)
P 		101.7
(-3)
P 		191.3
(2)
P 		190.3
(2)
P 		107
avr 163.8
(1.1) 		157
(0.7) 		95.7
(-3) 		106.5
(-2.3) 		181.9
(2.3) 		194.2
(3) 		99
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192999_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4513
Sequence Type Exemplar sequence
Representative Public ID R05F9.1 NCBI
Target Description R05F9.1 /REP_DB=WormBase Gene ID /WP=CE04803 /TR=Q21748 /GB=AAA83172.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=yeast suppressor protein SRP40 (weak)
Cluster Evidence This cluster is supported by a 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_170983(11), NM_170984(11), NM_062493(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170983 NCBI Caenorhabditis elegans R05F9.1b (R05F9.1) mRNA, complete cds. 11/11 A 
NM_170984 NCBI Caenorhabditis elegans R05F9.1a (R05F9.1) mRNA, complete cds. 11/11 None
NM_062493 NCBI Caenorhabditis elegans R05F9.1c (R05F9.1) mRNA, complete cds. 11/11 None
SNAP00000043873 ENSEMBL cdna:SNAP chromosome:CEL140:II:4908660:4911404:1 11/11 None
GENEFINDER00000043887 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4905045:4911404:1 11/11 None
R05F9.1b ENSEMBL cdna:known chromosome:CEL140:II:4904997:4911821:1 gene:R05F9.1 11/11 A 
R05F9.1a ENSEMBL cdna:known chromosome:CEL140:II:4908525:4911404:1 gene:R05F9.1 11/11 None
R05F9.1c.2 ENSEMBL cdna:known chromosome:CEL140:II:4908559:4911404:1 gene:R05F9.1 11/11 None
R05F9.1c.1 ENSEMBL cdna:known chromosome:CEL140:II:4908794:4911404:1 gene:R05F9.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173847 4 3 NM_001027094 183023_at (11)
NM_062493 192999_s_at (11)
NM_170983 183023_at (10), 192999_s_at (11)
NM_170984 192999_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:4908657-4911402(+) 100.0 100.0
Public Domain and Genome References
Ensembl R05F9.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_740981 R05F9.1b [Caenorhabditis elegans] gb|AAA83171.2| Hypothetical protein R05F9.1b [Caenorhabditis elegans] 0.0
blast CAE58998 Hypothetical protein CBG02271 [Caenorhabditis briggsae] 0.0
blast NP_740982 R05F9.1a [Caenorhabditis elegans] gb|AAA83172.1| Hypothetical protein R05F9.1a [Caenorhabditis elegans] 0.0
blast NP_494894 R05F9.1c [Caenorhabditis elegans] gb|AAO38614.1| Hypothetical protein R05F9.1c [Caenorhabditis elegans] 0.0
Sequence
Target Sequence 
>C. ELEGANS:192999_S_AT
cgttgtccttctcgatgatgatgttgtagattgggatgatgagtatccaccacagatggg
tgaggaaacaacacatgttgtatactctacacatctctacaagttcttcaagtatgctga
aaatcgagattgcgcgaaacaagtgctgaaagagcgaggattgaagaagatacgacttgg
tatggaaggttatccaacacacaaagagaagattaagaagcgtttcaataaggcagaagt
catctataattatgtccagcgaccatttgtacattgctcgtgggagaaagaagaggctag
aagtcgacatgtggattttgcgtgccctattgtgaagtcaaaatcaaatccatcgttggc
agctgccgcatcggatccacttccacagccagctccacttcaacaacagcatcgagtcgc
agtttttggagaagctgcaccgctggcagctcataatcgagttgacgatcaacatttcgt
tcaacctttgaatcaattaatgcaacaacaggcacagcttccacagaataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTTGTCCTTCTCGATGATGATGTT 577 247 861 Antisense
GATGATGAGTATCCACCACAGATGG 70 411 895 Antisense
GTATACTCTACACATCTCTACAAGT 506 453 940 Antisense
GAGATTGCGCGAAACAAGTGCTGAA 166 397 986 Antisense
TGTCCAGCGACCATTTGTACATTGC 130 557 1113 Antisense
ACATGTGGATTTTGCGTGCCCTATT 283 107 1167 Antisense
ATCAAATCCATCGTTGGCAGCTGCC 632 27 1203 Antisense
AACAGCATCGAGTCGCAGTTTTTGG 122 137 1265 Antisense
AGAAGCTGCACCGCTGGCAGCTCAT 110 75 1290 Antisense
CGATCAACATTTCGTTCAACCTTTG 606 245 1326 Antisense
AACAGGCACAGCTTCCACAGAATAA 486 137 1367 Antisense
Sequence Source Affymetrix Proprietary Database