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[176579_s_at]

Description C08C3.3 /REP_DB=WormBase Gene ID /WP=CE25765 /GEN=mab-5 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 40      6grp_high1_10_10 > 05      4grp_highest_8_8 > 56      4grp_high_8_8 > 35      6grp_highest_nonorm > 60      6grp_total > 04      4grp_total > 45      6grp_highest_sub > De      6grp_cgc > 22      6grp_high1_sub > De      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 395
1 2 3 4 range
A 523.8
(-1.4)
P 		684.8
(3)
P 		465.4
(-3)
P 		541.5
(-0.9)
P 		219
B 596.6
(3)
P 		387.8
(-1.1)
P 		289.5
(-3)
P 		388.9
(-1.1)
P 		307
C 511.1
(2.6)
P 		525.3
(3)
P 		380.5
(-1)
P 		309.6
(-3)
P 		216
avr 543.8
(3) 		532.6
(2.6) 		378.5
(-3) 		413.3
(-1.7) 		165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 520
1 2 3 4 5 6 range
A 705.6
(3)
P 		520.7
(0.8)
P 		351.6
(-1.2)
P 		345.7
(-1.3)
P 		324.8
(-1.6)
P 		204.9
(-3)
P 		501
B 587.8
(3)
P 		483.9
(1.2)
P 		316.2
(-1.6)
P 		443.8
(0.5)
P 		325.6
(-1.5)
P 		236
(-3)
P 		352
C 620.5
(3)
P 		481.4
(1.1)
P 		303
(-1.4)
P 		288.9
(-1.6)
P 		412.9
(0.1)
P 		185.2
(-3)
P 		435
avr 638
(3) 		495.3
(1) 		323.6
(-1.4) 		359.5
(-0.9) 		354.4
(-1) 		208.7
(-3) 		429
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 190.7
(3)
P 		148.7
(0.7)
P 		121.7
(-0.7)
P 		79.3
(-3)
P 		111
B 190.2
(3)
P 		95.8
(-1.6)
P 		67.1
(-3)
P 		82.9
(-2.2)
P 		123
C 169.2
(3)
P 		151
(2.1)
P 		132.6
(1.1)
P 		52.2
(-3)
P 		117
avr 183.4
(3) 		131.8
(0.2) 		107.1
(-1.1) 		71.5
(-3) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 180
1 2 3 4 5 6 range
A 130.1
(0.6)
P 		185.2
(3)
P 		76.6
(-1.8)
P 		87.7
(-1.3)
P 		98
(-0.9)
P 		49.9
(-3)
P 		135
B 204.5
(3)
P 		161.1
(1)
P 		76.8
(-3)
P 		117.6
(-1.1)
P 		132.3
(-0.4)
P 		88
(-2.5)
P 		128
C 230
(3)
P 		146.9
(0.1)
P 		77.1
(-2.3)
P 		58.1
(-3)
P 		133.6
(-0.4)
P 		62
(-2.9)
P 		172
avr 188.2
(3) 		164.4
(1.8) 		76.8
(-2.5) 		87.8
(-2) 		121.3
(-0.3) 		66.6
(-3) 		122
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176579_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6751
Sequence Type Exemplar sequence
Representative Public ID C08C3.3 NCBI
Target Description C08C3.3 /REP_DB=WormBase Gene ID /WP=CE25765 /GEN=mab-5 /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_066294(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066294 NCBI Caenorhabditis elegans Male ABnormal family member (mab-5) (mab-5) mRNA, complete cds. 11/11 A 
GENEFINDER00000010136 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7777192:7783947:-1 11/11 None
SNAP00000010130 ENSEMBL cdna:SNAP chromosome:CEL140:III:7782022:7783311:-1 9/11 None
C08C3.3 ENSEMBL cdna:known chromosome:CEL140:III:7776830:7783378:-1 gene:C08C3.3 11/11 A 
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:7777189-7783309(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol mab-5
Ensembl C08C3.3
Entrez Gene 176091 Entrez gene
SwissProt P10038 EMBL-EBI
WormBase CE25765 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1585156_AT similar to Homeobox protein Hox-B7 (Hox-2C) (HHO.C1) cfa
CANINE_2:CFA.15630.1.A1_AT similar to Homeobox protein Hox-B7 (Hox-2C) (HHO.C1) cfa
CANINE_2:CFAAFFX.25773.1.S1_AT similar to Homeobox protein Hox-B7 (Hox-2C) (HHO.C1) cfa
HG-U133_PLUS_2:204779_S_AT homeo box B7 hs
HG-U133A_2:204779_S_AT homeo box B7 hs
HG-U133A:204779_S_AT homeo box B7 hs
HUGENEFL:M16937_AT homeo box B7 hs
U133_X3P:HS.819.1.S1_3P_A_AT homeo box B7 hs
U133_X3P:HS.819.0.S1_3P_X_AT homeo box B7 hs
U133_X3P:HS.819.0.S1_3P_A_AT homeo box B7 hs
U133_X3P:204778_3P_X_AT homeo box B7 hs
HG-U133A_2:204778_X_AT homeo box B7 hs
HG-U133_PLUS_2:204778_X_AT homeo box B7 hs
HG-U133A:204778_X_AT homeo box B7 hs
HG-U133A_2:216973_S_AT homeo box B7 hs
HG-FOCUS:216973_S_AT homeo box B7 hs
HG-U133_PLUS_2:216973_S_AT homeo box B7 hs
HG-U133A:216973_S_AT homeo box B7 hs
HG-U95AV2:37618_AT homeo box B7 hs
MOUSE430A_2:1427494_AT homeo box B7 mm
MOE430A:1427494_AT homeo box B7 mm
MOUSE430_2:1427494_AT homeo box B7 mm
MU11KSUBB:X06762_S_AT homeo box B7 mm
MG-U74AV2:92914_AT homeo box B7 mm
MG-U74AV2:92915_S_AT homeo box B7 mm
MOE430A:1452493_S_AT homeo box B7 mm
MOUSE430A_2:1452493_S_AT homeo box B7 mm
MOUSE430_2:1452493_S_AT homeo box B7 mm
RAE230A:1388287_AT homeobox protein rn
RAT230_2:1388287_AT homeobox protein rn
RG-U34A:M37566CDS_AT homeobox protein rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA28106 DNA-binding protein mab5 7.0E-91
blast AAA28106 DNA-binding protein mab5 2.0E-84
blast AAA27945 Male abnormal protein 5 [Caenorhabditis elegans] ref|NP_498695.1| Male ABnormal family member (mab-5) [Caenorhabditis elegans] gb|AAG00458.1| MAB-5 [Caenorhabditis elegans] sp|P10038|MAB5_CAEEL Homeobox protein mab-5 (Male abnormal-5 protein) 2.0E-84
blast AAA27945 Male abnormal protein 5 [Caenorhabditis elegans] ref|NP_498695.1| Male ABnormal family member (mab-5) [Caenorhabditis elegans] gb|AAG00458.1| MAB-5 [Caenorhabditis elegans] sp|P10038|MAB5_CAEEL Homeobox protein mab-5 (Male abnormal-5 protein) 3.0E-84
blast AAG00457 MAB-5 [Caenorhabditis briggsae] emb|CAE57185.1| Hypothetical protein CBG00029 [Caenorhabditis briggsae] 5.0E-80
blast AAG00457 MAB-5 [Caenorhabditis briggsae] emb|CAE57185.1| Hypothetical protein CBG00029 [Caenorhabditis briggsae] 8.0E-80
blast AAA28106 DNA-binding protein mab5 7.0E-45
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.99999984132761E-21
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 6.99999977785866E-22
Pfam IPR001356 EMBL-EBI Homeobox 4.8E-30
Pfam IPR001356 EMBL-EBI Homeobox 4.8E-30
Sequence
Target Sequence 
>C. ELEGANS:176579_S_AT
gagcatgtatcctggatggacaggcgacgattcgtactgggcgggcgccggcacaacggc
ttcttctcaatccgcatcatccggcacatctgcttcagcatcgtctagtgctgccgctgc
tgctgctgccaataatttgaaaacctacgaactctacaatcacacctacatgaacaatat
gaaacatatgcttgctgccggttggatggataattcatcaaatccattcgcctataaccc
acttcaagcaacatctgcaaattttggtgaaactagaacttcaatgccagcaatctcgca
accagtatttccatggatgaagatgggcggtgcaaaaggtggagaatcaaaacgcactcg
tcagacatattcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCATGTATCCTGGATGGACAGGC 436 389 15 Antisense
GACAGGCGACGATTCGTACTGGGCG 683 367 33 Antisense
TTCAGCATCGTCTAGTGCTGCCGCT 632 687 108 Antisense
TACGAACTCTACAATCACACCTACA 104 649 160 Antisense
TGAAACATATGCTTGCTGCCGGTTG 576 571 194 Antisense
GCTTGCTGCCGGTTGGATGGATAAT 259 307 204 Antisense
TAACCCACTTCAAGCAACATCTGCA 277 637 249 Antisense
GAACTTCAATGCCAGCAATCTCGCA 624 349 290 Antisense
CAATCTCGCAACCAGTATTTCCATG 161 181 305 Antisense
GGTGGAGAATCAAAACGCACTCGTC 258 499 352 Antisense
AACGCACTCGTCAGACATATTCAAG 525 145 365 Antisense
Sequence Source Affymetrix Proprietary Database