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[183824_s_at]

Description F38A6.3B /REP_DB=WormBase Gene ID /WP=CE18672 /TR=Q9TVM0 /GB=CAA19521.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 27      4grp_highest_8_8 > 61      4grp_high_8_8 > 18      6grp_highest_nonorm > 03      6grp_total > 17      4grp_total > 30      6grp_highest_sub > Cu      6grp_cgc > 15      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3806
1 2 3 4 range
A 6019.6
(3)
P 		4232
(-1)
P 		3363.3
(-3)
P 		5711.7
(2.3)
P 		2656
B 6661.4
(3)
P 		3780.2
(-1.5)
P 		2855.6
(-3)
P 		5590.8
(1.3)
P 		3806
C 5688.7
(3)
P 		4060.4
(-0.7)
P 		3014.2
(-3)
P 		4310.9
(-0.1)
P 		2675
avr 6123.2
(3) 		4024.2
(-1.1) 		3077.7
(-3) 		5204.5
(1.2) 		3046

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2908
1 2 3 4 5 6 range
A 4675.3
(3)
P 		3807.9
(1)
P 		2099.5
(-3)
P 		2518.2
(-2)
P 		2569.1
(-1.9)
P 		3485.4
(0.2)
P 		2576
B 4221.7
(3)
P 		3288.6
(0.3)
P 		2887.8
(-0.8)
P 		2570.3
(-1.7)
P 		2122.6
(-3)
P 		2893.5
(-0.8)
P 		2099
C 5007.9
(3)
P 		3267.3
(-1.4)
P 		3345.2
(-1.2)
P 		2699.7
(-2.9)
P 		2658.9
(-3)
P 		2776.6
(-2.7)
P 		2349
avr 4635
(3) 		3454.6
(-0.2) 		2777.5
(-2.1) 		2596.1
(-2.6) 		2450.2
(-3) 		3051.8
(-1.3) 		2185
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1530
1 2 3 4 range
A 2191.7
(3)
P 		918.7
(-2.6)
P 		879.2
(-2.8)
P 		836.1
(-3)
P 		1356
B 2124.3
(3)
P 		933.6
(-1.9)
P 		661.7
(-3)
P 		1191.4
(-0.8)
P 		1463
C 1883.1
(3)
P 		1167.4
(-0.7)
P 		1050.6
(-1.3)
P 		726.9
(-3)
P 		1156
avr 2066.4
(3) 		1006.6
(-2.3) 		863.8
(-3) 		918.1
(-2.7) 		1203

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1399
1 2 3 4 5 6 range
A 861.9
(-0.3)
P 		1354.3
(3)
P 		457.2
(-3)
P 		638.7
(-1.8)
P 		775.3
(-0.9)
P 		848.6
(-0.4)
P 		897
B 1468.9
(3)
P 		1094.6
(0.2)
P 		701.2
(-2.8)
P 		680.8
(-3)
P 		862.4
(-1.6)
P 		1079
(0)
P 		788
C 1856.2
(3)
P 		997
(-0.9)
P 		851.4
(-1.6)
P 		542.9
(-3)
P 		860.4
(-1.5)
P 		929.5
(-1.2)
P 		1313
avr 1395.7
(3) 		1148.6
(1.1) 		669.9
(-2.6) 		620.8
(-3) 		832.7
(-1.4) 		952.4
(-0.4) 		775
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183824_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14276
Sequence Type Exemplar sequence
Representative Public ID F38A6.3B NCBI
Target Description F38A6.3B /REP_DB=WormBase Gene ID /WP=CE18672 /TR=Q9TVM0 /GB=CAA19521.1 /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_075607(11), NM_001028720(11), NM_001028723(11), NM_001028721(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075607 NCBI Caenorhabditis elegans HIF (hypoxia inducible factor) homolog family member (hif-1) (hif-1) mRNA, complete cds. 11/11 None
NM_001028720 NCBI Caenorhabditis elegans HIF (hypoxia inducible factor) homolog family member (hif-1) (hif-1) mRNA, complete cds. 11/11 None
NM_001028723 NCBI Caenorhabditis elegans HIF (hypoxia inducible factor) homolog family member (hif-1) (hif-1) mRNA, complete cds. 11/11 None
NM_001028721 NCBI Caenorhabditis elegans HIF (hypoxia inducible factor) homolog family member (hif-1) (hif-1) mRNA, complete cds. 11/11 None
SNAP00000040626 ENSEMBL cdna:SNAP chromosome:CEL140:V:20780730:20782912:1 11/11 None
GENEFINDER00000040633 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20780189:20782912:1 11/11 None
F38A6.3a ENSEMBL cdna:known chromosome:CEL140:V:20776568:20783313:1 gene:F38A6.3 11/11 None
F38A6.3b ENSEMBL cdna:known chromosome:CEL140:V:20776568:20782912:1 gene:F38A6.3 11/11 None
F38A6.3d.2 ENSEMBL cdna:known chromosome:CEL140:V:20778462:20782912:1 gene:F38A6.3 11/11 None
F38A6.3d.1 ENSEMBL cdna:known chromosome:CEL140:V:20778464:20782912:1 gene:F38A6.3 11/11 None
F38A6.3c ENSEMBL cdna:known chromosome:CEL140:V:20780523:20782912:1 gene:F38A6.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028722 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
180359 5 4 NM_001028720 183824_s_at (11)
NM_001028721 183824_s_at (11)
NM_001028723 183824_s_at (11)
NM_075607 183824_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:20776567-20782912(+) 100.0 100.0
Public Domain and Genome References
Ensembl F38A6.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB07380 Hypothetical protein F38A6.3a [Caenorhabditis elegans] emb|CAA19520.1| Hypothetical protein F38A6.3a [Caenorhabditis elegans] ref|NP_508008.3| HIF (hypoxia inducible factor) homolog family member (hif-1) [Caenorhabditis elegans] 0.0
blast CAB07381 Hypothetical protein F38A6.3b [Caenorhabditis elegans] emb|CAA19521.1| Hypothetical protein F38A6.3b [Caenorhabditis elegans] ref|NP_001023891.1| HIF (hypoxia inducible factor) homolog family member (hif-1) [Caenorhabditis elegans] 0.0
blast CAI70417 Hypothetical protein F38A6.3e [Caenorhabditis elegans] emb|CAI70400.1| Hypothetical protein F38A6.3e [Caenorhabditis elegans] ref|NP_001023894.1| HIF (hypoxia inducible factor) homolog family member (hif-1) [Caenorhabditis elegans] gb|AAK62778.1| hypoxia-induced factor 1 [Caenorhabditis elegans] 0.0
blast CAD54167 Hypothetical protein F38A6.3c [Caenorhabditis elegans] ref|NP_001023892.1| HIF (hypoxia inducible factor) homolog family member (hif-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000014 EMBL-EBI PAS domain 7.4E-6
Pfam IPR000014 EMBL-EBI PAS domain 7.4E-6
Sequence
Target Sequence 
>C. ELEGANS:183824_S_AT
gtacggagacgctcgatctatgggacgtagctgcgatccgtccgattcgtcacgacgctt
ttccgccctttcaccatcagatactctcaatgtgtcgtccactagaggcatcaacccagt
catcggaagcaatgatgtgttctccactatgccttttgccgattctatcgccattgccga
aaggatcgattcgtcgccaacattaacctctggcgaaccaatactttgtgacgatcttca
atgggaagagcctgatttatcgtgcttggcaccattcgttgacacttatgatatgatgca
aatggacgaggggttaccaccagagcttcaagctctttacgacttgcctgactttacacc
tgcggtacctcaagccccagctgctcggcctgtgcacattgacagaagcccaccagcgaa
gcgaatgcaccaatcaggtccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACGGAGACGCTCGATCTATGGGA 456 459 1920 Antisense
TGGGACGTAGCTGCGATCCGTCCGA 182 543 1940 Antisense
CAGATACTCTCAATGTGTCGTCCAC 175 207 1997 Antisense
TGTCGTCCACTAGAGGCATCAACCC 109 559 2012 Antisense
GCATCAACCCAGTCATCGGAAGCAA 370 309 2027 Antisense
AATGATGTGTTCTCCACTATGCCTT 255 165 2050 Antisense
CCGATTCTATCGCCATTGCCGAAAG 121 263 2078 Antisense
ATCGATTCGTCGCCAACATTAACCT 578 33 2104 Antisense
TTGGCACCATTCGTTGACACTTATG 636 707 2185 Antisense
TCTTTACGACTTGCCTGACTTTACA 1 615 2253 Antisense
AAGCGAATGCACCAATCAGGTCCCT 703 149 2338 Antisense
Sequence Source Affymetrix Proprietary Database