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[176601_at]

Description F41C6.1 /REP_DB=WormBase Gene ID /WP=CE04538 /GEN=unc-6 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 33      4grp_highest_8_8 > 0      4grp_high_8_8 > 44      6grp_highest_nonorm > 71      6grp_total > 31      4grp_total > 51      6grp_highest_sub > 02      6grp_cgc > 62      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 387
1 2 3 4 range
A 236.7
(-0.6)
P 		396.5
(3)
P 		272.2
(0.2)
P 		133.8
(-3)
P 		263
B 264.9
(0.3)
P 		378.5
(3)
P 		292.3
(0.9)
P 		130.4
(-3)
P 		248
C 315.9
(-0.8)
P 		517.5
(3)
P 		305.6
(-1)
P 		198.3
(-3)
P 		319
avr 272.5
(-0.4) 		430.8
(3) 		290
(-0.1) 		154.2
(-3) 		277

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 332
1 2 3 4 5 6 range
A 331.2
(-0.7)
P 		484.3
(3)
P 		322.9
(-0.9)
P 		342.7
(-0.4)
P 		324.8
(-0.8)
P 		235
(-3)
P 		249
B 312.7
(-0.6)
P 		469.8
(3)
P 		444
(2.4)
P 		328
(-0.2)
P 		269.3
(-1.6)
P 		206.7
(-3)
P 		263
C 381.2
(1.6)
P 		448.1
(3)
P 		393.1
(1.9)
P 		422.7
(2.5)
P 		297.3
(-0.1)
P 		152.2
(-3)
P 		296
avr 341.7
(0.2) 		467.4
(3) 		386.7
(1.2) 		364.5
(0.7) 		297.1
(-0.8) 		198
(-3) 		269
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 129
1 2 3 4 range
A 86.2
(3)
P 		86.1
(3)
P 		71.2
(1.6)
P 		19.6
(-3)
P 		67
B 84.5
(2.2)
P 		93.5
(3)
P 		67.7
(0.6)
P 		27.8
(-3)
P 		66
C 104.6
(0.7)
P 		148.8
(3)
P 		106.5
(0.8)
P 		33.4
(-3)
P 		115
avr 91.8
(1.7) 		109.5
(3) 		81.8
(1) 		26.9
(-3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 61.1
(-2.8)
P 		172.2
(3)
P 		70.3
(-2.3)
P 		86.9
(-1.5)
P 		98
(-0.9)
P 		57.2
(-3)
P 		115
B 108.8
(-0.6)
P 		156.4
(3)
P 		107.8
(-0.7)
P 		86.9
(-2.3)
P 		109.4
(-0.6)
P 		77.1
(-3)
P 		79
C 141.3
(3)
P 		136.7
(2.7)
P 		100.1
(0.3)
P 		85
(-0.7)
P 		96.2
(0)
P 		51
(-3)
P 		90
avr 103.7
(-0.3) 		155.1
(3) 		92.7
(-1) 		86.3
(-1.4) 		101.2
(-0.5) 		61.8
(-3) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176601_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16665
Sequence Type Exemplar sequence
Representative Public ID F41C6.1 NCBI
Target Description F41C6.1 /REP_DB=WormBase Gene ID /WP=CE04538 /GEN=unc-6 /SUBMIT=ST.LOUIS /CHR=X /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_076764(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076764 NCBI Caenorhabditis elegans UNCoordinated family member (unc-6) (unc-6) mRNA, complete cds. 11/11 None
GENEFINDER00000012733 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6889823:6896580:1 11/11 None
SNAP00000012726 ENSEMBL cdna:SNAP chromosome:CEL140:X:6894674:6896580:1 10/11 None
F41C6.1.1 ENSEMBL cdna:known chromosome:CEL140:X:6889641:6897088:1 gene:F41C6.1 11/11 A 
F41C6.1.2 ENSEMBL cdna:known chromosome:CEL140:X:6889655:6897092:1 gene:F41C6.1 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
chrX:6889691-6896580(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol unc-6
Ensembl F41C6.1
Entrez Gene 180961 Entrez gene
SwissProt P34710 EMBL-EBI
WormBase CE04538 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.26630.1.S1_S_AT similar to Netrin-1 precursor cfa
CANINE_2:CFAAFFX.26634.1.S1_AT similar to Netrin-1 precursor cfa
DROSOPHILA_2:1624408_AT Netrin-A dm
DROSGENOME1:143841_AT Netrin-A dm
DROSGENOME1:142249_AT Netrin-A dm
HG-U133_PLUS_2:208005_AT netrin 1 hs
HG-U133A:208005_AT netrin 1 hs
HG-FOCUS:208005_AT netrin 1 hs
HG-U133A_2:208005_AT netrin 1 hs
U133_X3P:G4758839_3P_AT netrin 1 hs
HG-U95C:51296_AT Netrin 1 hs
HG-U95D:77278_AT Netrin 1 hs
HG-U95E:80152_AT Netrin 1 hs
MOUSE430A_2:1422987_AT netrin 1 mm
MOUSE430_2:1422987_AT netrin 1 mm
MOE430A:1422987_AT netrin 1 mm
MU11KSUBA:AA270913_S_AT netrin 1 mm
MU11KSUBB:MSA.3316.0_S_AT netrin 1 mm
MG-U74AV2:97977_AT netrin 1 mm
MG-U74AV2:97728_AT netrin 1 mm
MOE430A:1454974_AT netrin 1 mm
MOUSE430A_2:1454974_AT netrin 1 mm
MOUSE430_2:1454974_AT netrin 1 mm
MU19KSUBC:TC40217_AT Netrin 1 (Ntn1), mRNA mm
RAE230A:1398269_AT netrin 1 rn
RAT230_2:1398269_AT netrin 1 rn
RAE230A:1368880_AT netrin 1 rn
RAT230_2:1368880_AT netrin 1 rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5578 extracellular matrix (sensu Metazoa) inferred from electronic annotation QuickGO AmiGO
5737 cytoplasm inferred from direct assay QuickGO AmiGO
30424 axon inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5198 structural molecule activity inferred from electronic annotation QuickGO AmiGO
5102 receptor binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA80449 Uncoordinated protein 6 [Caenorhabditis elegans] ref|NP_509165.1| UNCoordinated family member (unc-6) [Caenorhabditis elegans] sp|P34710|UNC6_CAEEL Netrin unc-6 precursor (Uncoordinated protein 6) gb|AAA28157.1| unc-6 0.0
blast CAE65814 Hypothetical protein CBG10925 [Caenorhabditis briggsae] 0.0
blast NP_571104 netrin 1a [Danio rerio] gb|AAC60252.1| netrin-1a [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008211 EMBL-EBI Laminin, N-terminal 2.7E-51
Pfam IPR001134 EMBL-EBI Netrin, C-terminal 5.1E-39
Pfam IPR002049 EMBL-EBI Laminin-type EGF-like domain 4.4E-19
Pfam IPR002049 EMBL-EBI Laminin-type EGF-like domain 1.2E-18
Pfam IPR008211 EMBL-EBI Laminin, N-terminal 2.7E-51
Pfam IPR001134 EMBL-EBI Netrin, C-terminal 5.1E-39
Pfam IPR002049 EMBL-EBI Laminin-type EGF-like domain 4.4E-19
Pfam IPR002049 EMBL-EBI Laminin-type EGF-like domain 1.2E-18
Pfam IPR001134 EMBL-EBI Netrin, C-terminal 5.1E-39
Pfam IPR002049 EMBL-EBI Laminin-type EGF-like domain 1.2E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509165.1 1 5-24
F41C6.1.1 1 5-24
F41C6.1.2 1 5-24
Sequence
Target Sequence 
>C. ELEGANS:176601_AT
ggatgtcatccagtcggatcacttggaaaaagctgcaaccaatcatcgggtcagtgcgtc
tgcaagcctggagtcactggaacaacctgtaatcgttgtgccaaaggataccaacaaagc
cgttctacagttactccgtgtatcaaaattccgaccaaagctgatttcattggatcatca
cattcagaagagcaagatcagtgttcgaagtgcagaattgttccgaagagactcaaccag
aagaagttctgcaagcgggatcatgctgtccagatggttgtggtcagccgtgagatggtt
gatggatgggccaagtacaagattgtggttgaatcagttttcaaacgaggcaccgagaac
atgcaacgtggcgaaacatcattgtggatttcccctcaaggtgtcatttgcaagtgccca
aagctccgcgtcggacgccgttatctcctccttggcaagaatgattccgatcacgagcgc
gatggattgatggtcaatccacagactgtattggtggaatgggaggacgatattatggat
aaggtactacgcttctcgaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATGTCATCCAGTCGGATCACTTG 618 513 1243 Antisense
CAATCATCGGGTCAGTGCGTCTGCA 417 181 1282 Antisense
GTCTGCAAGCCTGGAGTCACTGGAA 413 471 1300 Antisense
ACAAAGCCGTTCTACAGTTACTCCG 138 111 1356 Antisense
ACTCCGTGTATCAAAATTCCGACCA 515 97 1375 Antisense
GCAAGCGGGATCATGCTGTCCAGAT 431 319 1493 Antisense
GAAACATCATTGTGGATTTCCCCTC 265 355 1615 Antisense
GATTTCCCCTCAAGGTGTCATTTGC 537 427 1629 Antisense
CATTTGCAAGTGCCCAAAGCTCCGC 266 213 1647 Antisense
GATTCCGATCACGAGCGCGATGGAT 518 431 1705 Antisense
GGATAAGGTACTACGCTTCTCGAAA 185 509 1779 Antisense
Sequence Source Affymetrix Proprietary Database