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[181020_at]

Description F55G1.4 /REP_DB=WormBase Gene ID /WP=CE07281 /TR=Q20849 /GB=AAB00646.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      4grp_highest_8_8 > 09      4grp_high_8_8 > 61      6grp_highest_nonorm > 93      6grp_total > 77      4grp_total > 58      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 393
1 2 3 4 range
A 327.6
(-1.1)
P 		461.3
(3)
P 		366.2
(0.1)
P 		265.7
(-3)
P 		196
B 220
(-0.7)
P 		345.8
(1.7)
P 		415.8
(3)
P 		97.4
(-3)
P 		318
C 292.5
(-0.4)
P 		314.2
(-0)
P 		490.3
(3)
P 		143.8
(-3)
P 		347
avr 280
(-0.4) 		373.8
(1.8) 		424.1
(3) 		169
(-3) 		255

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 770
1 2 3 4 5 6 range
A 329.8
(-2.3)
P 		337.4
(-2.2)
P 		234.4
(-3)
P 		347
(-2.1)
P 		482
(-1.1)
P 		1004.5
(3)
P 		770
B 327.6
(-2.3)
P 		363.2
(-1.9)
P 		262.2
(-3)
P 		508.6
(-0.4)
P 		368
(-1.9)
P 		832.1
(3)
P 		570
C 384.3
(-1.2)
P 		359.7
(-1.7)
P 		303.3
(-3)
P 		459.8
(0.5)
P 		409.6
(-0.6)
P 		571.3
(3)
P 		268
avr 347.2
(-2.1) 		353.4
(-2) 		266.6
(-3) 		438.5
(-1.1) 		419.9
(-1.3) 		802.6
(3) 		536
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 150
1 2 3 4 range
A 119.3
(3)
P 		100.1
(1.6)
P 		95.7
(1.2)
P 		38.9
(-3)
P 		80
B 70.1
(0.9)
P 		85.4
(2.1)
P 		96.3
(3)
P 		20.8
(-3)
P 		76
C 96.8
(-0)
P 		90.3
(-0.3)
P 		170.9
(3)
P 		24.2
(-3)
P 		147
avr 95.4
(1.3) 		91.9
(1.1) 		121
(3) 		28
(-3) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 259
1 2 3 4 5 6 range
A 60.8
(-2.7)
P 		120
(-0.9)
P 		51
(-3)
P 		88
(-1.9)
P 		145.4
(-0.1)
P 		244.6
(3)
P 		194
B 114
(-1.8)
P 		120.9
(-1.6)
P 		63.7
(-3)
P 		134.7
(-1.3)
P 		149.5
(-0.9)
P 		310.3
(3)
P 		247
C 142.4
(0.4)
P 		109.8
(-1.3)
P 		77.2
(-3)
P 		92.5
(-2.2)
P 		132.5
(-0.1)
P 		191.3
(3)
P 		114
avr 105.7
(-1.6) 		116.9
(-1.3) 		64
(-3) 		105.1
(-1.7) 		142.5
(-0.4) 		248.7
(3) 		185
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181020_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9910
Sequence Type Exemplar sequence
Representative Public ID F55G1.4 NCBI
Target Description F55G1.4 /REP_DB=WormBase Gene ID /WP=CE07281 /TR=Q20849 /GB=AAB00646.1 /SUBMIT=ST.LOUIS /CHR=4 /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_068799(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068799 NCBI Caenorhabditis elegans ROD (Drosophila RoughDeal) homolog family member (rod-1) (rod-1) mRNA, complete cds. 11/11 None
SNAP00000005170 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7478437:7485311:1 11/11 None
GENEFINDER00000005187 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7478437:7485311:1 11/11 None
F55G1.4 ENSEMBL cdna:known chromosome:CEL140:IV:7478436:7485493:1 gene:F55G1.4 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
chrIV:7478442-7485317(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rod-1
Ensembl F55G1.4
Entrez Gene 177520 Entrez gene
SwissProt Q20849 EMBL-EBI
WormBase CE07281 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB00646 Rod (drosophila roughdeal) homolog protein 1 [Caenorhabditis elegans] ref|NP_501200.1| ROD (Drosophila RoughDeal) homolog family member (rod-1) [Caenorhabditis elegans] 0.0
blast CAE70091 Hypothetical protein CBG16533 [Caenorhabditis briggsae] 0.0
blast AAY54263 putative RoughDeal [Caenorhabditis remanei] 2.0E-81
Sequence
Target Sequence 
>C. ELEGANS:181020_AT
atggactcgatttgactgctttgcatgaacagcttgtcttctcgtgggttgaggatacgc
agactatcatttcaattaatcatgttgatatgaacgagtcaattggtggaacttctttct
tggatcacaaagatgaaacagacgatcaaaatgatttgagaattccattatttgacggga
ttctcgacaaagttgttgttctctgccaaagaattgataaaaagcgtcttctgacaagac
tcggaagtattctgatgagaggaggtcgcaaagcgacgggcggttatactgctgtagttc
gtgctacatgtataattctgcgttcttttactgatactgaagtctctgaattgctgtctg
gagctgacatgtttgcattatgcagtacacttgaaaatcaactctacgaacgattgtttg
agaaggctgaagttaagggagattgtaaaacagacaaaatgcaattaatcaagtctcttc
ttcaatgtccatcacgaacacacccaatgactgcacttattgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGACTCGATTTGACTGCTTTGCA 1 53 5537 Antisense
GACTGCTTTGCATGAACAGCTTGTC 427 375 5550 Antisense
AGCTTGTCTTCTCGTGGGTTGAGGA 553 75 5567 Antisense
GACGGGATTCTCGACAAAGTTGTTG 367 377 5710 Antisense
CAAAGTTGTTGTTCTCTGCCAAAGA 319 193 5724 Antisense
CGACGGGCGGTTATACTGCTGTAGT 216 57 5810 Antisense
AATTCTGCGTTCTTTTACTGATACT 442 177 5850 Antisense
TGAAGTCTCTGAATTGCTGTCTGGA 155 575 5874 Antisense
TAATCAAGTCTCTTCTTCAATGTCC 50 635 6002 Antisense
TTCAATGTCCATCACGAACACACCC 178 683 6017 Antisense
CACACCCAATGACTGCACTTATTGC 635 195 6035 Antisense
Sequence Source Affymetrix Proprietary Database