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[180300_at]

Description F41E6.3 /REP_DB=WormBase Gene ID /WP=CE10248 /TR=O16461 /GB=AAB65953.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 26      4grp_highest_8_8 > 61      4grp_high_8_8 > 18      6grp_highest_nonorm > 31      6grp_total > 26      4grp_total > 30      6grp_highest_sub > Cu      6grp_high1_sub > De      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 719
1 2 3 4 range
A 1285.9
(3)
P 		1034.7
(-0)
P 		786.5
(-3)
P 		1179
(1.7)
P 		499
B 1360.8
(3)
P 		995.5
(-1)
P 		815
(-3)
P 		1265.5
(2)
P 		546
C 1505.1
(3)
P 		1042.7
(-1.3)
P 		857
(-3)
P 		1187.3
(0.1)
P 		648
avr 1383.9
(3) 		1024.3
(-0.8) 		819.5
(-3) 		1210.6
(1.2) 		564

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 692
1 2 3 4 5 6 range
A 1121.3
(2.6)
P 		1150.4
(3)
P 		699.2
(-2.9)
P 		755.7
(-2.1)
P 		690.3
(-3)
P 		1026.9
(1.4)
P 		460
B 914.8
(1.7)
P 		1001.7
(3)
P 		782.1
(-0.4)
P 		825.7
(0.3)
P 		609.9
(-3)
P 		726.1
(-1.2)
P 		392
C 1301.4
(3)
P 		900
(-1.2)
P 		969.2
(-0.4)
P 		789
(-2.3)
P 		788.4
(-2.3)
P 		721.7
(-3)
P 		580
avr 1112.5
(3) 		1017.4
(1.6) 		816.8
(-1.3) 		790.1
(-1.6) 		696.2
(-3) 		824.9
(-1.1) 		416
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 326
1 2 3 4 range
A 468.2
(3)
P 		224.6
(-1.9)
P 		205.6
(-2.3)
P 		172.6
(-3)
P 		296
B 434
(3)
P 		245.9
(-1.6)
P 		188.9
(-3)
P 		269.7
(-1)
P 		245
C 498.2
(3)
P 		299.8
(-1)
P 		298.7
(-1)
P 		200.2
(-3)
P 		298
avr 466.8
(3) 		256.8
(-2) 		231.1
(-2.6) 		214.2
(-3) 		253

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 330
1 2 3 4 5 6 range
A 206.7
(-1.7)
P 		409.1
(3)
P 		152.3
(-3)
P 		191.7
(-2.1)
P 		208.3
(-1.7)
P 		250
(-0.7)
P 		257
B 318.3
(2.4)
P 		333.4
(3)
P 		189.9
(-3)
P 		218.7
(-1.8)
P 		247.8
(-0.6)
P 		270.8
(0.4)
P 		144
C 482.4
(3)
P 		274.6
(-0.9)
P 		246.7
(-1.4)
P 		158.7
(-3)
P 		255.1
(-1.2)
P 		241.6
(-1.5)
P 		324
avr 335.8
(2.9) 		339
(3) 		196.3
(-2.7) 		189.7
(-3) 		237.1
(-1.1) 		254.1
(-0.4) 		149
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180300_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11779
Sequence Type Exemplar sequence
Representative Public ID F41E6.3 NCBI
Target Description F41E6.3 /REP_DB=WormBase Gene ID /WP=CE10248 /TR=O16461 /GB=AAB65953.1 /SUBMIT=ST.LOUIS /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_001028738(11), NM_001028739(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028738 NCBI Caenorhabditis elegans F41E6.4a (F41E6.4) mRNA, complete cds. 11/11 None
NM_001028739 NCBI Caenorhabditis elegans F41E6.4b (F41E6.4) mRNA, complete cds. 11/11 None
SNAP00000009426 ENSEMBL cdna:SNAP chromosome:CEL140:V:8613880:8617667:1 11/11 None
GENEFINDER00000009444 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8610390:8617667:1 11/11 None
F41E6.4a ENSEMBL cdna:known chromosome:CEL140:V:8610390:8618429:1 gene:F41E6.4 11/11 A 
F41E6.4b ENSEMBL cdna:known chromosome:CEL140:V:8613612:8617667:1 gene:F41E6.4 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
179243 3 2 NM_001028738 180300_at (11), 181218_at (9)
NM_001028739 180300_at (11)
NM_001028740 181218_at (9)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:8614003-8617668(+) 100.0 100.0
Public Domain and Genome References
Ensembl F41E6.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAW30664 Hypothetical protein F41E6.4a [Caenorhabditis elegans] ref|NP_001023909.1| F41E6.4a [Caenorhabditis elegans] 0.0
blast AAP13780 Hypothetical protein F41E6.4b [Caenorhabditis elegans] ref|NP_001023910.1| F41E6.4b [Caenorhabditis elegans] 0.0
blast T31878 hypothetical protein F41E6.3 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006887 EMBL-EBI Protein of unknown function DUF625 1.0E-126
Pfam IPR006887 EMBL-EBI Protein of unknown function DUF625 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:180300_AT
agcccatgtttccatcattactgaagcgcaaaaatgcatttgatgacgacgaagctccag
tattcggtggaggatctgctgctgttattaataataccgaaaagaaaattgttataaagg
ttaacagcgatcgttctccgtctcgtacaccgtctcctgcatcgtcgccccgagcaagtt
cctcaccaggaccatccagagacgatgaagtaacttcatctcaaaacaacaaagaaagca
gtccgactcctacggtcaagtcgctggtcgattacgacgaatcggatgattctgatgatg
atccaccatctcctgacgcagttccctcatcttcaactggaagtcctgaaaaagaaggag
actccgctgatggaaagaaaggagattcgccagaatataacgatgtatcgtcaactagca
acgaagagaagttcgactcacgaaacggagcgccagtcactaatgaaaacggaggagtag
aagctgcggcaccaacagttgaaatcagccgtaaacgcactagtgacggtattgatcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCCCATGTTTCCATCATTACTGAA 241 83 1907 Antisense
GACGACGAAGCTCCAGTATTCGGTG 478 379 1951 Antisense
GGAGGATCTGCTGCTGTTATTAATA 6 517 1975 Antisense
AAGGTTAACAGCGATCGTTCTCCGT 621 159 2023 Antisense
CTCACCAGGACCATCCAGAGACGAT 544 227 2088 Antisense
AGTCCGACTCCTACGGTCAAGTCGC 301 49 2146 Antisense
CGGTCAAGTCGCTGGTCGATTACGA 447 1 2159 Antisense
CTGATGATGATCCACCATCTCCTGA 88 239 2198 Antisense
ACGAAACGGAGCGCCAGTCACTAAT 700 91 2346 Antisense
GAGGAGTAGAAGCTGCGGCACCAAC 240 403 2378 Antisense
AACGCACTAGTGACGGTATTGATCC 96 145 2420 Antisense
Sequence Source Affymetrix Proprietary Database