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[180906_s_at]

Description Y38H6C.1 /REP_DB=WormBase Gene ID /WP=CE19095 /TR=Q9XX57 /GB=CAA20981.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 41      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 08      6grp_total > 42      4grp_total > 56      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23984
1 2 3 4 range
A 7850
(-1.1)
P 		19677.4
(1.8)
P 		24272.2
(3)
P 		522.1
(-3)
P 		23750
B 6833.5
(-1.2)
P 		17742.8
(1.8)
P 		22267.7
(3)
P 		288
(-3)
P 		21980
C 7482.9
(-0.9)
P 		13359.8
(0.8)
P 		20950.6
(3)
P 		440
(-3)
P 		20511
avr 7388.8
(-1.1) 		16926.7
(1.5) 		22496.8
(3) 		416.7
(-3) 		22080

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16703
1 2 3 4 5 6 range
A 15620.7
(-0.9)
P 		17004.6
(-0.2)
P 		24343.1
(3)
P 		18127.2
(0.3)
P 		14533.1
(-1.3)
P 		10757.1
(-3)
P 		13586
B 19825
(0.1)
P 		19752.1
(0.1)
P 		27460
(3)
P 		17060.9
(-1)
P 		15069.7
(-1.7)
P 		11700.5
(-3)
P 		15760
C 16161.1
(-0.8)
P 		19880.1
(1.7)
P 		21773.3
(3)
P 		20329.4
(2)
P 		16928
(-0.2)
P 		12803.6
(-3)
P 		8970
avr 17202.3
(-0.4) 		18878.9
(0.3) 		24525.5
(3) 		18505.8
(0.2) 		15510.3
(-1.2) 		11753.7
(-3) 		12772
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7241
1 2 3 4 range
A 2858.2
(-0.3)
P 		4271.4
(1)
P 		6345.2
(3)
P 		76.4
(-3)
P 		6269
B 2179.1
(-0.5)
P 		4382.1
(2.1)
P 		5159.9
(3)
P 		61.4
(-3)
P 		5099
C 2477
(-1)
P 		3841
(0.1)
P 		7301.9
(3)
P 		74.2
(-3)
P 		7228
avr 2504.8
(-0.6) 		4164.8
(1) 		6269
(3) 		70.7
(-3) 		6198

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4279
1 2 3 4 5 6 range
A 2879.5
(-2.5)
P 		6047.7
(3)
P 		5301.4
(1.7)
P 		4597.5
(0.5)
P 		4385.5
(0.1)
P 		2619
(-3)
P 		3429
B 6898.1
(3)
P 		6574.6
(2.2)
P 		6668.1
(2.5)
P 		4518.8
(-2.6)
P 		6122.6
(1.2)
P 		4363.1
(-3)
P 		2535
C 5990.2
(2.8)
P 		6066
(3)
P 		5541.7
(1.4)
P 		4088.3
(-3)
P 		5477.6
(1.2)
P 		4286.1
(-2.4)
P 		1978
avr 5255.9
(0.6) 		6229.4
(3) 		5837.1
(2) 		4401.5
(-1.4) 		5328.6
(0.8) 		3756.1
(-3) 		2473
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180906_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14173
Sequence Type Exemplar sequence
Representative Public ID Y38H6C.1 NCBI
Target Description Y38H6C.1 /REP_DB=WormBase Gene ID /WP=CE19095 /TR=Q9XX57 /GB=CAA20981.1 /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_075543(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075543 NCBI Caenorhabditis elegans Y38H6C.1 (Y38H6C.1) mRNA, complete cds. 11/11 None
SNAP00000041312 ENSEMBL cdna:SNAP chromosome:CEL140:V:20496034:20497059:-1 11/11 None
GENEFINDER00000041349 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20496034:20496273:-1 10/11 None
Y38H6C.1 ENSEMBL cdna:known chromosome:CEL140:V:20495971:20497108:-1 gene:Y38H6C.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:20496033-20496293(-) 95.24 95.24
Public Domain and Genome References
Gene Title
Ensembl Y38H6C.1
Entrez Gene 180345 Entrez gene
SwissProt Q9XX57 EMBL-EBI
WormBase CE19095 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA20981 Hypothetical protein Y38H6C.1 [Caenorhabditis elegans] ref|NP_507944.1| Y38H6C.1 [Caenorhabditis elegans] 1.0E-33
blast CAA20981 Hypothetical protein Y38H6C.1 [Caenorhabditis elegans] ref|NP_507944.1| Y38H6C.1 [Caenorhabditis elegans] 1.0E-27
blast CAE61658 Hypothetical protein CBG05594 [Caenorhabditis briggsae] 9.0E-25
blast CAE61658 Hypothetical protein CBG05594 [Caenorhabditis briggsae] 1.0E-20
blast CAE58259 Hypothetical protein CBG01360 [Caenorhabditis briggsae] 1.0E-9
Sequence
Target Sequence 
>C. ELEGANS:180906_S_AT
caaggaggagatgacagccgccggtctctcgccagaatccatcgagggaattctcaaaat
cgccgccacttacaagaagaaggacgatgagccagaacgtgatgctgccacttctttggc
aattatcacaaaaatgatcggagagaccaatgagtatattaagggacaatcggaagccga
tcagaagatctacgctgtcattattgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGGAGGAGATGACAGCCGCCGGT 617 181 36 Antisense
GTCTCTCGCCAGAATCCATCGAGGG 263 469 59 Antisense
GAATCCATCGAGGGAATTCTCAAAA 281 329 70 Antisense
TCAAAATCGCCGCCACTTACAAGAA 330 629 89 Antisense
ATCGCCGCCACTTACAAGAAGAAGG 280 37 94 Antisense
TGAGCCAGAACGTGATGCTGCCACT 469 569 123 Antisense
GTGATGCTGCCACTTCTTTGGCAAT 558 483 134 Antisense
GATCGGAGAGACCAATGAGTATATT 130 419 171 Antisense
TATTAAGGGACAATCGGAAGCCGAT 98 659 192 Antisense
AGCCGATCAGAAGATCTACGCTGTC 19 83 210 Antisense
GAAGATCTACGCTGTCATTATTGAG 684 335 219 Antisense
Sequence Source Affymetrix Proprietary Database