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[188535_s_at]

Description F57B9.6 /REP_DB=WormBase Gene ID /WP=CE01341 /GEN=inf-1 /TR=SW:P27639 /GB=AAA21170.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 04      4grp_highest_8_8 > 16      4grp_high_8_8 > 52      6grp_highest_nonorm > 05      6grp_total > 24      4grp_total > 59      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10022
1 2 3 4 range
A 10315.3
(0.6)
P 		13429.5
(2.5)
P 		14180.3
(3)
P 		4344.2
(-3)
P 		9836
B 10872.6
(0.9)
P 		13659.2
(2.6)
P 		14276.9
(3)
P 		4637
(-3)
P 		9640
C 9721.5
(0.6)
P 		13271.2
(3)
P 		11857.1
(2.1)
P 		4254.6
(-3)
P 		9017
avr 10303.1
(0.9) 		13453.3
(3) 		13438.1
(3) 		4411.9
(-3) 		9041

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3884
1 2 3 4 5 6 range
A 7401.1
(2.1)
P 		7820.1
(3)
P 		5630.1
(-1.6)
P 		5948.8
(-0.9)
P 		4943.8
(-3)
P 		5667.3
(-1.5)
P 		2876
B 6289.3
(3)
P 		6222.6
(2.8)
P 		5288.4
(0)
P 		5334.3
(0.2)
P 		4379.4
(-2.7)
P 		4266.9
(-3)
P 		2022
C 8150.8
(3)
P 		6277.8
(-0.2)
P 		7690.8
(2.2)
P 		4730.4
(-2.9)
P 		6470.2
(0.1)
P 		4642.8
(-3)
P 		3508
avr 7280.4
(3) 		6773.5
(1.7) 		6203.1
(0.3) 		5337.8
(-1.8) 		5264.5
(-2) 		4859
(-3) 		2421
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3497
1 2 3 4 range
A 3755.8
(3)
P 		2915.2
(1.4)
P 		3707
(2.9)
P 		635.9
(-3)
P 		3120
B 3467.2
(3)
P 		3373.5
(2.8)
P 		3308.3
(2.6)
P 		988.1
(-3)
P 		2479
C 3218.1
(1.4)
P 		3815.5
(2.4)
P 		4132.6
(3)
P 		717.4
(-3)
P 		3415
avr 3480.4
(2.5) 		3368.1
(2.3) 		3716
(3) 		780.5
(-3) 		2936

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2070
1 2 3 4 5 6 range
A 1364.3
(-2.5)
P 		2781.2
(3)
P 		1226.1
(-3)
P 		1508.8
(-1.9)
P 		1491.8
(-2)
P 		1379.8
(-2.4)
P 		1555
B 2188.4
(3)
P 		2071.2
(2.2)
P 		1284.2
(-3)
P 		1412.9
(-2.1)
P 		1779.3
(0.3)
P 		1591.1
(-1)
P 		904
C 3021.2
(3)
P 		1915.6
(-0.2)
P 		1957.4
(-0.1)
P 		951.3
(-3)
P 		2093.7
(0.3)
P 		1554.2
(-1.3)
P 		2070
avr 2191.3
(2.6) 		2256
(3) 		1489.2
(-1.8) 		1291
(-3) 		1788.3
(0.1) 		1508.4
(-1.6) 		965
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188535_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7197
Sequence Type Exemplar sequence
Representative Public ID F57B9.6 NCBI
Target Description F57B9.6 /REP_DB=WormBase Gene ID /WP=CE01341 /GEN=inf-1 /TR=SW:P27639 /GB=AAA21170.1 /SUBMIT=ST.LOUIS /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_001027452(11), NM_001027453(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027452 NCBI Caenorhabditis elegans INitiation Factor family member (inf-1) (inf-1) mRNA, complete cds. 11/11 None
NM_001027453 NCBI Caenorhabditis elegans INitiation Factor family member (inf-1) (inf-1) mRNA, complete cds. 11/11 None
SNAP00000019896 ENSEMBL cdna:SNAP chromosome:CEL140:III:6930068:6931516:1 11/11 None
GENEFINDER00000019912 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6930068:6931516:1 11/11 None
F57B9.6.1 ENSEMBL cdna:known chromosome:CEL140:III:6929970:6931884:1 gene:F57B9.6 11/11 None
F57B9.6.2 ENSEMBL cdna:known chromosome:CEL140:III:6930016:6931884:1 gene:F57B9.6 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:6930066-6931515(+) 100.0 100.0
Public Domain and Genome References
Ensembl F57B9.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA78102 unnamed protein product [Caenorhabditis elegans] gb|AAA21170.1| Initiation factor protein 1, isoform a [Caenorhabditis elegans] ref|NP_001022623.1| INitiation Factor family member (inf-1) [Caenorhabditis elegans] sp|P27639|IF4A_CAEEL Eukaryotic initiation factor 4A (eIF4A) (eIF-4A) 0.0
blast CAE70046 Hypothetical protein CBG16478 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.8E-37
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 4.3E-83
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 2.1E-35
Sequence
Target Sequence 
>C. ELEGANS:188535_S_AT
tgcgcaatccaatccgcattcttgtcaagaaggacgagctcacccttgaaggtatcagac
agttctacatcaacgttcaaaaggatgagtggaagtttgactgcctctgtgatctctaca
acgttgtcaatgttactcaagccgtcatcttctgtaacactcgcaggaaggtcgacacac
tcaccgagaaaatgactgaaaatcagttcacagtctcttgcctccacggagacatggatc
aagctgagcgtgatacaattatgcgagagttccgttcaggatcttcccgtgttctcatca
ccacagacatcttggctcgtggtattgacgtacaacaggtctcacttgttatcaactatg
atctcccatccaatcgtgagaactacatccatcgtatcggacgttctggacgtttcggtc
gtaagggagttgccatcaacttcgtcaccgagaacgatgctcgtcagctcaaggaaattg
aaagctactacaccactcaaatcgaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCGCAATCCAATCCGCATTCTTGT 410 583 683 Antisense
AGTGGAAGTTTGACTGCCTCTGTGA 169 59 770 Antisense
CCGTCATCTTCTGTAACACTCGCAG 192 265 824 Antisense
TCGCAGGAAGGTCGACACACTCACC 305 601 843 Antisense
AAAATCAGTTCACAGTCTCTTGCCT 349 133 881 Antisense
TCTCTTGCCTCCACGGAGACATGGA 265 613 896 Antisense
CGAGAGTTCCGTTCAGGATCTTCCC 26 251 946 Antisense
ATCACCACAGACATCTTGGCTCGTG 263 29 979 Antisense
TATCAACTATGATCTCCCATCCAAT 273 659 1032 Antisense
GAACGATGCTCGTCAGCTCAAGGAA 25 349 1134 Antisense
AGCTACTACACCACTCAAATCGAAG 140 71 1165 Antisense
Sequence Source Affymetrix Proprietary Database