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[187929_s_at]

Description F56F3.2 /REP_DB=WormBase Gene ID /WP=CE01015 /GEN=ndg-4 /TR=Q20900 /GB=CAA83607.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 91      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 73      6grp_total > 93      4grp_total > 16      6grp_highest_sub > 05      6grp_cgc > 99      6grp_high1_sub > 05      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 570
1 2 3 4 range
A 588.8
(-2.9)
P 		583
(-3)
P 		659.3
(-1.8)
P 		965
(3)
P 		382
B 394.8
(-3)
P 		602.6
(1.7)
P 		564.8
(0.8)
P 		661.5
(3)
P 		267
C 525.5
(-3)
P 		544.6
(-2.5)
P 		566.9
(-2)
P 		765.6
(3)
P 		240
avr 503
(-3) 		576.7
(-1.5) 		597
(-1.1) 		797.4
(3) 		294

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 462
1 2 3 4 5 6 range
A 524.8
(0.9)
P 		372.3
(-3)
P 		501.8
(0.3)
P 		481
(-0.2)
P 		500.2
(0.3)
P 		604.6
(3)
P 		232
B 435.5
(-2.8)
P 		472.1
(-2.3)
P 		444
(-2.7)
P 		424.2
(-3)
P 		823.5
(3)
P 		478.9
(-2.2)
P 		399
C 361.2
(-3)
P 		542.9
(0.2)
P 		655.3
(2.2)
P 		412.6
(-2.1)
P 		700.9
(3)
P 		392.4
(-2.4)
P 		340
avr 440.5
(-3) 		462.4
(-2.4) 		533.7
(-0.6) 		439.3
(-3) 		674.9
(3) 		492
(-1.7) 		236
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 214.4
(3)
P 		126.6
(-3)
P 		172.4
(0.1)
P 		141.3
(-2)
P 		88
B 125.9
(-3)
P 		148.8
(3)
P 		130.9
(-1.7)
P 		141
(1)
P 		23
C 174
(0.9)
P 		156.6
(-0.6)
P 		197.6
(3)
P 		129.1
(-3)
P 		69
avr 171.4
(3) 		144
(-1.8) 		167
(2.2) 		137.1
(-3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 252
1 2 3 4 5 6 range
A 96.7
(-3)
P 		132.4
(1)
P 		109.3
(-1.6)
P 		122
(-0.2)
P 		150.9
(3)
P 		147.2
(2.6)
P 		54
B 151.5
(-1.8)
P 		157.1
(-1.7)
P 		107.8
(-3)
P 		112.4
(-2.9)
P 		334.6
(3)
P 		178.6
(-1.1)
P 		227
C 133.9
(-0.9)
P 		165.7
(0.5)
P 		166.8
(0.5)
P 		83
(-3)
P 		226.8
(3)
P 		131.4
(-1)
P 		144
avr 127.4
(-2) 		151.7
(-0.9) 		128
(-2) 		105.8
(-3) 		237.4
(3) 		152.4
(-0.9) 		132
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187929_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6815
Sequence Type Exemplar sequence
Representative Public ID F56F3.2 NCBI
Target Description F56F3.2 /REP_DB=WormBase Gene ID /WP=CE01015 /GEN=ndg-4 /TR=Q20900 /GB=CAA83607.1 /SUBMIT=HINXTON /CHR=3 /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_001027448(10), NM_001027447(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027448 NCBI Caenorhabditis elegans NorDiHydroGuaiaretic acid resistant family member (ndg-4) (ndg-4) mRNA, complete cds. 10/11 None
NM_001027447 NCBI Caenorhabditis elegans NorDiHydroGuaiaretic acid resistant family member (ndg-4) (ndg-4) mRNA, complete cds. 11/11 None
SNAP00000037229 ENSEMBL cdna:SNAP chromosome:CEL140:III:4462936:4467341:-1 10/11 None
GENEFINDER00000037234 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4462936:4467341:-1 11/11 None
F56F3.2b ENSEMBL cdna:known chromosome:CEL140:III:4462822:4467341:-1 gene:F56F3.2 10/11 None
F56F3.2a ENSEMBL cdna:known chromosome:CEL140:III:4462835:4467343:-1 gene:F56F3.2 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
chrIII:4462935-4467341(-) 100.0 100.0
Public Domain and Genome References
Ensembl F56F3.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD88217 Hypothetical protein F56F3.2b [Caenorhabditis elegans] ref|NP_001022619.1| NorDiHydroGuaiaretic acid resistant family member (ndg-4) [Caenorhabditis elegans] 0.0
blast CAA83607 Hypothetical protein F56F3.2a [Caenorhabditis elegans] ref|NP_001022618.1| NorDiHydroGuaiaretic acid resistant family member (ndg-4) [Caenorhabditis elegans] gb|AAD51973.1| transmembrane protein NDG-4 [Caenorhabditis elegans] 0.0
blast CAE71199 Hypothetical protein CBG18058 [Caenorhabditis briggsae] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022619.1 11 215-237,271-293,319-341,354-376,412-434,441-463,489-508,529-551,571-593,600-622,637-659
NP_001022618.1 11 215-237,271-293,319-341,354-376,412-434,441-463,489-508,529-551,566-588,601-623,638-660
F56F3.2b 11 215-237,271-293,319-341,354-376,412-434,441-463,489-508,529-551,571-593,600-622,637-659
F56F3.2a 11 215-237,271-293,319-341,354-376,412-434,441-463,489-508,529-551,566-588,601-623,638-660
SNAP00000037229 11 215-237,271-293,319-341,354-376,412-434,441-463,489-508,529-551,571-593,600-622,637-659
GENEFINDER00000037234 11 215-237,271-293,345-367,380-402,438-460,467-489,515-534,555-577,592-614,627-649,664-686
Sequence
Target Sequence 
>C. ELEGANS:187929_S_AT
gtattcgatcagttgttgctctcattatttgccagaagtagcaattattgtttgggattc
atttttggaattggatgtgctacggcttctgatgagctccgggaatctgggctttcttat
tgtatgcacaaattgctggcaatcatatgcattgcatttgcagttgttccatttgttgga
gcattcccatattcagcatatgcctgggtttctaactttgaaatcatgaatgcatcctac
gcagcacttcatcgtccgatgtggtcatttgcgttgctctcattcgtttatctctgtcat
catggtgcttttagtaaggaatggctgaatgctcttctcgaatggagagtatttgctcca
ttgtccaaagtcacctggattgcacttgtcgtcgctgagccaatcattctatatttcttc
tcgtccctcaataaacccgcatacgcaacacattggagtacgatgtacaccgccatttca
accgctcttctcgcctatttcgtcgcaatgttccttgacattttcgtgacgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATTCGATCAGTTGTTGCTCTCAT 390 453 1465 Antisense
GTGCTACGGCTTCTGATGAGCTCCG 33 481 1541 Antisense
ATGAGCTCCGGGAATCTGGGCTTTC 185 43 1556 Antisense
GTCCGATGTGGTCATTTGCGTTGCT 117 477 1718 Antisense
CGTTTATCTCTGTCATCATGGTGCT 356 247 1749 Antisense
GGAATGGCTGAATGCTCTTCTCGAA 260 533 1782 Antisense
TGCTCCATTGTCCAAAGTCACCTGG 7 583 1818 Antisense
TGTCGTCGCTGAGCCAATCATTCTA 51 559 1851 Antisense
AATCATTCTATATTTCTTCTCGTCC 324 171 1866 Antisense
TAAACCCGCATACGCAACACATTGG 684 639 1896 Antisense
TGTTCCTTGACATTTTCGTGACGAG 298 563 1973 Antisense
Sequence Source Affymetrix Proprietary Database