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[192125_s_at]

Description C15F1.7 /REP_DB=WormBase Gene ID /WP=CE23550 /GEN=sod-1 /TR=Q9N5Y1 /GB=AAF39759.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=superoxide dismutase
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 02      4grp_highest_8_8 > 40      4grp_high_8_8 > 50      6grp_highest_nonorm > 06      6grp_total > 33      4grp_total > 53      6grp_cgc > 20      6grp_high1_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5343
1 2 3 4 range
A 8757.7
(3)
P 		7403.7
(1.1)
P 		6779.7
(0.2)
P 		4535.5
(-3)
P 		4222
B 8090.9
(3)
P 		6598.3
(0.9)
P 		6162.8
(0.2)
P 		3913.5
(-3)
P 		4177
C 7801
(3)
P 		6674.2
(1.5)
P 		6295.4
(0.9)
P 		3415.2
(-3)
P 		4386
avr 8216.5
(3) 		6892.1
(1.1) 		6412.6
(0.5) 		3954.7
(-3) 		4262

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4156
1 2 3 4 5 6 range
A 10507
(2.8)
P 		8539.5
(-0.5)
P 		10649
(3)
P 		9021.6
(0.3)
P 		7034.2
(-3)
P 		9487.7
(1.1)
P 		3615
B 10476.6
(3)
P 		8385.1
(-0.5)
P 		9502.2
(1.4)
P 		8528
(-0.2)
P 		6872.3
(-3)
P 		7864.4
(-1.3)
P 		3604
C 9704.6
(2)
P 		8693.4
(0.4)
P 		10358.5
(3)
P 		7523.6
(-1.4)
P 		7461.3
(-1.5)
P 		6493.4
(-3)
P 		3865
avr 10229.4
(3) 		8539.3
(-0.3) 		10169.9
(2.9) 		8357.7
(-0.6) 		7122.6
(-3) 		7948.5
(-1.4) 		3107
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2613
1 2 3 4 range
A 3188.7
(3)
P 		1607.1
(-0.8)
P 		1772.3
(-0.4)
P 		663.9
(-3)
P 		2525
B 2580.1
(3)
P 		1629.6
(-0.3)
P 		1428.1
(-1)
P 		834
(-3)
P 		1746
C 2582.4
(3)
P 		1918.9
(1)
P 		2194.2
(1.8)
P 		575.9
(-3)
P 		2007
avr 2783.7
(3) 		1718.5
(-0.1) 		1798.2
(0.2) 		691.3
(-3) 		2092

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2132
1 2 3 4 5 6 range
A 1936.9
(-3)
P 		3037.1
(3)
P 		2319.1
(-0.9)
P 		2288.1
(-1.1)
P 		2122.6
(-2)
P 		2310
(-1)
P 		1100
B 3645.3
(3)
P 		2791.1
(-0.7)
P 		2307.4
(-2.8)
P 		2258.8
(-3)
P 		2792.1
(-0.7)
P 		2932.6
(-0.1)
P 		1387
C 3597.1
(3)
P 		2652.6
(0.3)
P 		2636.4
(0.2)
P 		1513
(-3)
P 		2414.4
(-0.4)
P 		2173.7
(-1.1)
P 		2084
avr 3059.8
(3) 		2826.9
(1.7) 		2421
(-0.7) 		2020
(-3) 		2443
(-0.6) 		2472.1
(-0.4) 		1040
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192125_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4626
Sequence Type Exemplar sequence
Representative Public ID C15F1.7 NCBI
Target Description C15F1.7 /REP_DB=WormBase Gene ID /WP=CE23550 /GEN=sod-1 /TR=Q9N5Y1 /GB=AAF39759.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=superoxide dismutase
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_001026785(11), NM_001026786(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026785 NCBI Caenorhabditis elegans SOD (superoxide dismutase) family member (sod-1) (sod-1) mRNA, complete cds. 11/11 None
NM_001026786 NCBI Caenorhabditis elegans SOD (superoxide dismutase) family member (sod-1) (sod-1) mRNA, complete cds. 10/11 None
SNAP00000007585 ENSEMBL cdna:SNAP chromosome:CEL140:II:6972807:6973414:-1 9/11 None
GENEFINDER00000007591 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6972807:6977298:-1 10/11 None
C15F1.7a ENSEMBL cdna:known chromosome:CEL140:II:6972643:6973823:-1 gene:C15F1.7 11/11 None
C15F1.7b.1 ENSEMBL cdna:known chromosome:CEL140:II:6972654:6973434:-1 gene:C15F1.7 10/11 None
C15F1.7b.2 ENSEMBL cdna:known chromosome:CEL140:II:6972721:6973432:-1 gene:C15F1.7 10/11 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
chrII:6972802-6973807(-) 100.0 100.0
Public Domain and Genome References
Ensembl C15F1.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39759 Sod (superoxide dismutase) protein 1, isoform a [Caenorhabditis elegans] ref|NP_001021956.1| SOD (superoxide dismutase) family member (sod-1) [Caenorhabditis elegans] 1.0E-100
blast AAF39759 Sod (superoxide dismutase) protein 1, isoform a [Caenorhabditis elegans] ref|NP_001021956.1| SOD (superoxide dismutase) family member (sod-1) [Caenorhabditis elegans] 4.0E-91
blast CAE66006 Hypothetical protein CBG11197 [Caenorhabditis briggsae] 5.0E-91
blast AAF39759 Sod (superoxide dismutase) protein 1, isoform a [Caenorhabditis elegans] ref|NP_001021956.1| SOD (superoxide dismutase) family member (sod-1) [Caenorhabditis elegans] 8.0E-88
blast CAA54318 copper/zinc superoxide dismutase [Caenorhabditis elegans] gb|AAV34795.1| Sod (superoxide dismutase) protein 1, isoform b [Caenorhabditis elegans] ref|NP_001021957.1| SOD (superoxide dismutase) family member (sod-1) [Caenorhabditis elegans] sp|P34697|SODC_CAEEL Superoxide dismutase [Cu-Zn] gb|AAA28147.1| superoxide dismutase 8.0E-88
Protein Domains
Database ID Description E-Value
Pfam IPR001424 EMBL-EBI Copper/Zinc superoxide dismutase 1.8E-104
Pfam IPR001424 EMBL-EBI Copper/Zinc superoxide dismutase 1.8E-104
Pfam IPR001424 EMBL-EBI Copper/Zinc superoxide dismutase 1.8E-104
Sequence
Target Sequence 
>C. ELEGANS:192125_S_AT
tccaacgcgatttttccgcaggtcgaagccgctcaaaaaatgtcgaaccgtgctgtcgct
gttcttcgtggagaaactgttaccggtactatctggatcacacagaagtccgaaaatgac
caggcagttattgaaggagaaatcaagggacttactcccggtcttcatggattccacgtt
caccaatatggtgattccaccaacggatgcatttctgccggtccacacttcaatccattt
ggaaagactcatggtggaccaaaatccgagatccgtcacgtaggcgatctaggaaatgtg
gaagctggagccgatggagtggcaaaaatcaagctcaccgacacgctcgtcacgctttac
ggtccaaacactgtcgttggccgatctatggttgttcatgccggacaagacgacctcggc
gagggagtcggagaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCAACGCGATTTTTCCGCAGGTCG 434 587 40 Antisense
AAAAATGTCGAACCGTGCTGTCGCT 608 129 75 Antisense
GTTACCGGTACTATCTGGATCACAC 136 447 118 Antisense
GGTCTTCATGGATTCCACGTTCACC 112 503 199 Antisense
ACCAACGGATGCATTTCTGCCGGTC 84 85 238 Antisense
GATCCGTCACGTAGGCGATCTAGGA 212 417 309 Antisense
TCGTCACGCTTTACGGTCCAAACAC 110 603 386 Antisense
CGGTCCAAACACTGTCGTTGGCCGA 697 239 399 Antisense
GTCGTTGGCCGATCTATGGTTGTTC 105 469 412 Antisense
TGTTCATGCCGGACAAGACGACCTC 83 559 432 Antisense
GACCTCGGCGAGGGAGTCGGAGACA 456 381 451 Antisense
Sequence Source Affymetrix Proprietary Database