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[172716_x_at] --- /// --- /// --- /// --- /// ---

Description F42F12.1_rc /REP_DB=WormBase Gene ID /WP=CE03312 /TR=Q20345 /GB=CAA92174.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /REVCOMP
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 85      4grp_highest_8_8 > 09      4grp_high_8_8 > 62      6grp_highest_nonorm > 79      6grp_total > 76      4grp_total > 58      6grp_highest_sub > In      6grp_cgc > 57      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1930
1 2 3 4 range
A 943.3
(-1.5)
P 		1847.3
(1.6)
P 		2230.9
(3)
P 		526.4
(-3)
P 		1705
B 996.9
(-0.7)
P 		1680.7
(1.5)
P 		2133.6
(3)
P 		301
(-3)
P 		1833
C 1158
(-0.4)
P 		1689.4
(2)
P 		1913.9
(3)
P 		561.2
(-3)
P 		1353
avr 1032.7
(-0.9) 		1739.1
(1.7) 		2092.8
(3) 		462.9
(-3) 		1630

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2434
1 2 3 4 5 6 range
A 916.5
(-3)
P 		1074.2
(-2.6)
P 		2002.5
(-0)
P 		1563.6
(-1.2)
P 		1541.5
(-1.3)
P 		3105.6
(3)
P 		2189
B 764.9
(-3)
P 		974.3
(-2.4)
P 		1672.5
(-0.5)
P 		1583.4
(-0.7)
P 		1207.9
(-1.8)
P 		2942.1
(3)
P 		2177
C 672
(-3)
P 		1267.2
(-1.3)
P 		1630.7
(-0.3)
P 		1509.5
(-0.7)
P 		1519.6
(-0.6)
P 		2822.1
(3)
P 		2150
avr 784.5
(-3) 		1105.2
(-2.1) 		1768.6
(-0.3) 		1552.2
(-0.9) 		1423
(-1.2) 		2956.6
(3) 		2172
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 603
1 2 3 4 range
A 343.5
(0.2)
P 		401
(0.8)
P 		583.2
(3)
P 		77
(-3)
P 		506
B 317.9
(0.5)
P 		415.1
(1.9)
P 		494.4
(3)
P 		64.1
(-3)
P 		430
C 383.3
(0)
P 		485.7
(1.1)
P 		667
(3)
P 		94.6
(-3)
P 		572
avr 348.2
(0.2) 		433.9
(1.2) 		581.5
(3) 		78.6
(-3) 		503

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 928
1 2 3 4 5 6 range
A 168.9
(-3)
P 		382
(-0.8)
P 		436.1
(-0.3)
P 		396.6
(-0.7)
P 		465.2
(0)
P 		756.1
(3)
P 		587
B 266.1
(-3)
P 		324.3
(-2.6)
P 		406.1
(-2)
P 		419.4
(-1.9)
P 		490.7
(-1.4)
P 		1097.1
(3)
P 		831
C 249.1
(-3)
P 		386.7
(-1.8)
P 		415
(-1.6)
P 		303.6
(-2.5)
P 		491.7
(-0.9)
P 		944.7
(3)
P 		696
avr 228
(-3) 		364.3
(-1.8) 		419.1
(-1.4) 		373.2
(-1.8) 		482.5
(-0.8) 		932.6
(3) 		705
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172716_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28161
Sequence Type Exemplar sequence
Representative Public ID F42F12.1 NCBI
Target Description F42F12.1_rc /REP_DB=WormBase Gene ID /WP=CE03312 /TR=Q20345 /GB=CAA92174.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /REVCOMP
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_077672, NM_001029176, NM_001029486, NM_077673, NM_182450
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000001338 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12340490:12343777:-1 None
GENEFINDER00000001336 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12356006:12361042:1 None
F42F12.9 ENSEMBL cdna:known chromosome:CEL140:X:12343550:12343906:1 gene:F42F12.9 None
NM_182450 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-10) (nspc-10) mRNA, complete cds. None
F42F12.9 ENSEMBL cdna:known chromosome:CEL140:X:12343550:12343906:1 gene:F42F12.9 None
NM_182450 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-10) (nspc-10) mRNA, complete cds. None
NM_077673 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-15) (nspc-15) mRNA, complete cds. None
NM_001029486 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-12) (nspc-12) mRNA, complete cds. None
F42F12.10 ENSEMBL cdna:known chromosome:CEL140:X:12356077:12356534:-1 gene:F42F12.10 None
GENEFINDER00000001336 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12356006:12361042:1 None
F42F12.8.2 ENSEMBL cdna:known chromosome:CEL140:X:12360665:12361142:1 gene:F42F12.8 None
F42F12.8.1 ENSEMBL cdna:known chromosome:CEL140:X:12360665:12361144:1 gene:F42F12.8 None
NM_001029176 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-3) (nspc-3) mRNA, complete cds. None
F42F12.6 ENSEMBL cdna:known chromosome:CEL140:X:12357429:12357779:1 gene:F42F12.6 A 
SNAP00000001333 ENSEMBL cdna:SNAP chromosome:CEL140:X:12356179:12356668:-1 None
NM_077672 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-13) (nspc-13) mRNA, complete cds. A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171744 1/11 Cross Hyb Matching Probes B 
NM_001029181 1/11 Cross Hyb Matching Probes None
NM_077669 4/11 Cross Hyb Matching Probes None
NM_182449 3/11 Cross Hyb Matching Probes None
SNAP00000001329 2/11 Cross Hyb Matching Probes None
GENEFINDER00000026296 2/11 Cross Hyb Matching Probes None
C03G5.8 1/11 Cross Hyb Matching Probes None
C03G5.2 1/11 Cross Hyb Matching Probes None
F42F12.1 4/11 Cross Hyb Matching Probes None
F42F12.7 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12342925-12343777(+) 100.0 100.0
chrX:12358585-12360913(+) 97.37 97.37
chrX:12356178-12357650(+) 95.15 95.15
chrX:12356307-12357779(-) 97.78 97.78
chrX:12343054-12343906(-) 94.75 94.75
chrX:12358714-12361042(-) 93.94 93.94
Public Domain and Genome References
Gene Title




Gene Symbol nspc-3
nspc-12
nspc-13
nspc-15
nspc-10
Ensembl F42F12.9
F42F12.10
F42F12.6
F42F12.8
Entrez Gene 181392 Entrez gene
181394 Entrez gene
181396 Entrez gene
185671 Entrez gene
3565449 Entrez gene
SwissProt Q8I4J1 EMBL-EBI
Q20342 EMBL-EBI
Q8I4J0 EMBL-EBI
WormBase CE38675 Wormbase
CE31940 Wormbase
CE31939 Wormbase
CE31940 Wormbase
CE31941 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA92170 Hypothetical protein F42F12.2 [Caenorhabditis elegans] ref|NP_510069.1| 2 (Zwei) IG-domain protein family member (zig-2) [Caenorhabditis elegans] gb|AAL59607.1| secreted 2-immunoglobulin-domain protein ZIG-2 [Caenorhabditis elegans] 1.0E-124
blast AAY55843 Nematode specific peptide family, group c protein 3 [Caenorhabditis elegans] ref|NP_001024347.1| Nematode Specific Peptide family, group C family member (nspc-3) [Caenorhabditis elegans] 4.0E-57
blast CAD54145 Hypothetical protein F42F12.9 [Caenorhabditis elegans] ref|NP_872250.1| Nematode Specific Peptide family, group C family member (nspc-10) [Caenorhabditis elegans] 5.0E-57
blast CAH60761 Hypothetical protein F42F12.10 [Caenorhabditis elegans] emb|CAD54144.1| Hypothetical protein F42F12.8 [Caenorhabditis elegans] ref|NP_510074.2| Nematode Specific Peptide family, group C family member (nspc-15) [Caenorhabditis elegans] ref|NP_001024657.1| Nematode Specific Peptide family, group C family member (nspc-12) [Caenorhabditis elegans] 9.0E-57
blast CAA92172 Hypothetical protein F42F12.6 [Caenorhabditis elegans] emb|CAA92171.2| Hypothetical protein F42F12.7 [Caenorhabditis elegans] ref|NP_510073.2| Nematode Specific Peptide family, group C family member (nspc-13) [Caenorhabditis elegans] ref|NP_872249.1| Nematode Specific Peptide family, group C family member (nspc-14) [Caenorhabditis elegans] 1.0E-56
Protein Domains
Database ID Description E-Value
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.043
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 0.0015
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000001333 1 15-37
Sequence
Target Sequence 
>C. ELEGANS:172716_X_AT
gtagagtttgttgcaaccgctcatcttgaattcttgcttcttagctggagtggttttcaa
gcagcatctgaagtcaggatcagttgtgcaggaaccatcatagacagcagcacagttatg
aacacagagattgtagcaagttttgttggtttgagtggcaaaactgatccatggagagca
gaatgcgtaagattcaccaccattgacaccagcacagaactcttgacagagttgcaaggt
gatggagctgatggcagaaaccaagcaaagggcaacgagggtgcgaagtaaaattgaata
tccttgcagttccttcgcaccctcgttgtcctttgccttgtttctgccatcagctccatc
accttgcaactctgtcaagagttctgtgctggtgtcaatggtggtgaatcttacgcattc
tgctctccatggatcagttttgccactcacaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAGAGTTTGTTGCAACCGCTCATC 413 455 25 Antisense
ACCGCTCATCTTGAATTCTTGCTTC 16 91 40 Antisense
GGAACCATCATAGACAGCAGCACAG 320 531 115 Antisense
GTAAGATTCACCACCATTGACACCA 87 463 211 Antisense
TTGACACCAGCACAGAACTCTTGAC 342 703 227 Antisense
TGAATATCCTTGCAGTTCCTTCGCA 123 577 319 Antisense
TCCATCACCTTGCAACTCTGTCAAG 389 591 379 Antisense
GTCAAGAGTTCTGTGCTGGTGTCAA 400 463 398 Antisense
GTGGTGAATCTTACGCATTCTGCTC 562 489 425 Antisense
CATTCTGCTCTCCATGGATCAGTTT 372 217 440 Antisense
ATGGATCAGTTTTGCCACTCACAGA 700 51 453 Antisense
Sequence Source Affymetrix Proprietary Database