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[179208_at]

Description B0399.1 /REP_DB=WormBase Gene ID /WP=CE20453 /TR=Q9XTJ3 /GB=CAA21625.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 17      4grp_highest_8_8 > 60      4grp_high_8_8 > 25      6grp_highest_nonorm > 70      6grp_total > 06      4grp_total > 38      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 377
1 2 3 4 range
A 455
(3)
P 		341.1
(0.1)
P 		221.1
(-3)
P 		416.9
(2)
P 		234
B 551
(3)
P 		268.7
(-2.6)
P 		250.5
(-3)
P 		321.1
(-1.6)
P 		301
C 462.2
(3)
P 		257.1
(-1.3)
P 		174
(-3)
P 		232.3
(-1.8)
P 		288
avr 489.4
(3) 		289
(-1.4) 		215.2
(-3) 		323.4
(-0.6) 		274

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 388
1 2 3 4 5 6 range
A 469.5
(3)
P 		319.7
(0.4)
P 		173.9
(-2.1)
P 		187.5
(-1.9)
P 		176.8
(-2.1)
P 		121.9
(-3)
P 		348
B 392.6
(3)
P 		300.6
(0.8)
P 		165.2
(-2.4)
P 		189
(-1.9)
P 		147.1
(-2.9)
P 		141.2
(-3)
P 		251
C 509.5
(3)
P 		239.1
(-1.7)
P 		248.4
(-1.5)
P 		188.5
(-2.5)
P 		185.2
(-2.6)
P 		161.4
(-3)
P 		348
avr 457.2
(3) 		286.5
(-0.2) 		195.8
(-2) 		188.3
(-2.1) 		169.7
(-2.5) 		141.5
(-3) 		316
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 137
1 2 3 4 range
A 165.7
(3)
P 		74
(-2.1)
P 		57.8
(-3)
P 		61
(-2.8)
P 		108
B 175.7
(3)
P 		66.4
(-2.6)
P 		58
(-3)
P 		68.4
(-2.5)
P 		118
C 153
(3)
P 		73.9
(-1.2)
P 		60.6
(-1.9)
P 		39.2
(-3)
P 		114
avr 164.8
(3) 		71.4
(-2.2) 		58.8
(-2.9) 		56.2
(-3) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 159
1 2 3 4 5 6 range
A 86.5
(1.1)
P 		113.7
(3)
P 		37.9
(-2.4)
P 		47.6
(-1.7)
P 		53.3
(-1.3)
P 		29.7
(-3)
P 		84
B 136.6
(3)
P 		100.1
(0.7)
P 		40.1
(-3)
P 		50.1
(-2.4)
P 		59.8
(-1.8)
P 		52.7
(-2.2)
P 		97
C 188.8
(3)
P 		73
(-1.6)
P 		63.2
(-2)
P 		37.9
(-3)
P 		59.9
(-2.1)
P 		54
(-2.4)
P 		151
avr 137.3
(3) 		95.6
(0.3) 		47.1
(-2.9) 		45.2
(-3) 		57.7
(-2.2) 		45.5
(-3) 		92
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179208_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12758
Sequence Type Exemplar sequence
Representative Public ID B0399.1 NCBI
Target Description B0399.1 /REP_DB=WormBase Gene ID /WP=CE20453 /TR=Q9XTJ3 /GB=CAA21625.1 /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_182382(11), NM_075399(11), NM_182383(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_182382 NCBI Caenorhabditis elegans B0399.1b (B0399.1) mRNA, complete cds. 11/11 None
NM_075399 NCBI Caenorhabditis elegans B0399.1a (B0399.1) mRNA, complete cds. 11/11 None
NM_182383 NCBI Caenorhabditis elegans B0399.1c (B0399.1) mRNA, complete cds. 11/11 None
SNAP00000039605 ENSEMBL cdna:SNAP chromosome:CEL140:V:19607993:19608460:1 10/11 None
GENEFINDER00000039636 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19604427:19608460:1 11/11 None
B0399.1b ENSEMBL cdna:known chromosome:CEL140:V:19567958:19608687:1 gene:B0399.1 11/11 None
B0399.1a ENSEMBL cdna:known chromosome:CEL140:V:19567963:19608460:1 gene:B0399.1 11/11 None
B0399.1c ENSEMBL cdna:known chromosome:CEL140:V:19603502:19608460:1 gene:B0399.1 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:19567962-19608460(+) 100.0 100.0
Public Domain and Genome References
Ensembl B0399.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD54171 Hypothetical protein B0399.1b [Caenorhabditis elegans] emb|CAD54123.1| Hypothetical protein B0399.1b [Caenorhabditis elegans] ref|NP_872182.1| B0399.1b [Caenorhabditis elegans] 0.0
blast CAA21625 Hypothetical protein B0399.1a [Caenorhabditis elegans] emb|CAB03807.2| Hypothetical protein B0399.1a [Caenorhabditis elegans] ref|NP_507800.2| B0399.1a [Caenorhabditis elegans] 0.0
blast CAE61722 Hypothetical protein CBG05672 [Caenorhabditis briggsae] 0.0
blast CAD54169 Hypothetical protein B0399.1c [Caenorhabditis elegans] ref|NP_872183.1| B0399.1c [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003931 EMBL-EBI Calcium-activated SK potassium channel 7.9E-19
Pfam IPR004178 EMBL-EBI Calmodulin binding domain 1.9E-50
Pfam IPR003931 EMBL-EBI Calcium-activated SK potassium channel 7.9E-19
Pfam IPR004178 EMBL-EBI Calmodulin binding domain 1.9E-50
Pfam IPR003931 EMBL-EBI Calcium-activated SK potassium channel 7.9E-19
Pfam IPR004178 EMBL-EBI Calmodulin binding domain 1.9E-50
Pfam IPR003931 EMBL-EBI Calcium-activated SK potassium channel 7.9E-19
Pfam IPR004178 EMBL-EBI Calmodulin binding domain 1.9E-50
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_872182.1 5 229-246,266-288,411-433,448-467,474-496
NP_507800.2 5 276-293,313-335,458-480,495-514,521-543
NP_872183.1 5 39-56,76-98,221-243,258-277,284-306
B0399.1b 5 229-246,266-288,411-433,448-467,474-496
B0399.1a 5 276-293,313-335,458-480,495-514,521-543
B0399.1c 5 39-56,76-98,221-243,258-277,284-306
GENEFINDER00000039636 5 21-40,55-77,198-220,235-254,261-283
Sequence
Target Sequence 
>C. ELEGANS:179208_AT
tcctccactctatcaacgagttccgtcgaatcaagtgggaccagcgaaagctccaagaaa
aaggaaattctctgctagacgtcggaaaactgcacagcgacatgcacgagaccctctggg
agatgcaccgtacccaggaccacttcatctcccagatcgacgtgctcactcagaagatca
tggagctccaaatgactctgaacacccgaccgccgtgttgtgctccaccgacttcatcat
ccaacgacgcgtacttctctacctcaactcagctgggcacagtactgcctacagtgatcc
cgacgattcccctgccgcccacgcagtcgccaatgctccacgcgagccagtcacaccggg
agcccctccaggtcaccaccacgactactacgtcatcagatggtctgccacgtattagcg
tcggatccacgtcatcaactgccacttcagcatcctctgggaacggtagtctcccacagt
gtacggtagatcaattgtccaactgcccgaccggcgggatctacgctacagtaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCTCCACTCTATCAACGAGTTCCG 565 589 2222 Antisense
ACGAGACCCTCTGGGAGATGCACCG 680 91 2327 Antisense
CCAGATCGACGTGCTCACTCAGAAG 10 273 2373 Antisense
TTCATCATCCAACGACGCGTACTTC 709 687 2454 Antisense
AGCTGGGCACAGTACTGCCTACAGT 220 79 2492 Antisense
CCACCACGACTACTACGTCATCAGA 677 273 2597 Antisense
TGGTCTGCCACGTATTAGCGTCGGA 689 551 2622 Antisense
GCATCCTCTGGGAACGGTAGTCTCC 622 301 2671 Antisense
GTAGTCTCCCACAGTGTACGGTAGA 130 451 2687 Antisense
GGTAGATCAATTGTCCAACTGCCCG 41 505 2706 Antisense
ACCGGCGGGATCTACGCTACAGTAA 247 87 2731 Antisense
Sequence Source Affymetrix Proprietary Database