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[172357_x_at] --- /// --- /// --- /// --- /// ---

Description F42F12.1 /REP_DB=WormBase Gene ID /WP=CE03312 /TR=Q20345 /GB=CAA92174.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 85      4grp_highest_8_8 > 17      4grp_high_8_8 > 61      6grp_highest_nonorm > 28      6grp_total > 75      4grp_total > 59      6grp_cgc > 57      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10994
1 2 3 4 range
A 7348.6
(0.7)
P 		7247.9
(0.7)
P 		11469
(3)
P 		657.6
(-3)
P 		10811
B 6722.6
(0.8)
P 		8086.8
(1.6)
P 		10417.3
(3)
P 		475.2
(-3)
P 		9942
C 5065.3
(-0.1)
P 		8245.5
(2.1)
P 		9507.2
(3)
P 		832.7
(-3)
P 		8675
avr 6378.8
(0.5) 		7860.1
(1.4) 		10464.5
(3) 		655.2
(-3) 		9809

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12991
1 2 3 4 5 6 range
A 5463.6
(-3)
P 		8211.1
(-1.6)
P 		14820.1
(1.8)
P 		11722.9
(0.2)
P 		9993.6
(-0.7)
P 		17094.9
(3)
P 		11631
B 4698.7
(-3)
P 		9000.3
(-0.5)
P 		12731.1
(1.6)
P 		10186.7
(0.2)
P 		9670.3
(-0.1)
P 		15143.7
(3)
P 		10445
C 4104.2
(-3)
P 		8601.4
(-0.8)
P 		10813.2
(0.3)
P 		11641.2
(0.7)
P 		9428
(-0.4)
P 		16305.8
(3)
P 		12202
avr 4755.5
(-3) 		8604.3
(-1) 		12788.1
(1.2) 		11183.6
(0.4) 		9697.3
(-0.4) 		16181.5
(3) 		11426
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3217
1 2 3 4 range
A 2675.6
(2.3)
P 		1573.3
(0.1)
P 		2998.2
(3)
P 		96.3
(-3)
P 		2902
B 2143.8
(2.3)
P 		1997.2
(1.9)
P 		2413.9
(3)
P 		101.3
(-3)
P 		2313
C 1676.7
(-0.1)
P 		2370.6
(1.2)
P 		3313.6
(3)
P 		140.4
(-3)
P 		3173
avr 2165.4
(1.4) 		1980.4
(1) 		2908.6
(3) 		112.7
(-3) 		2796

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4640
1 2 3 4 5 6 range
A 1007.2
(-3)
P 		2920.3
(0.6)
P 		3227.5
(1.2)
P 		2973.2
(0.7)
P 		3015.6
(0.8)
P 		4162.1
(3)
P 		3155
B 1634.9
(-3)
P 		2995.8
(-1)
P 		3091.5
(-0.8)
P 		2698.1
(-1.4)
P 		3928.9
(0.4)
P 		5647
(3)
P 		4012
C 1521.2
(-3)
P 		2624.6
(-1.3)
P 		2752.1
(-1.1)
P 		2341.1
(-1.8)
P 		3050.8
(-0.7)
P 		5458.5
(3)
P 		3937
avr 1387.8
(-3) 		2846.9
(-0.6) 		3023.7
(-0.3) 		2670.8
(-0.9) 		3331.8
(0.2) 		5089.2
(3) 		3701
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172357_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16328
Sequence Type Exemplar sequence
Representative Public ID F42F12.1 NCBI
Target Description F42F12.1 /REP_DB=WormBase Gene ID /WP=CE03312 /TR=Q20345 /GB=CAA92174.1 /SUBMIT=HINXTON /CHR=X /FEA=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_001029486, NM_077673, NM_182450, NM_077672, NM_001029176
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
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 
NM_077672 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-13) (nspc-13) mRNA, complete cds. A 
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
SNAP00000001333 ENSEMBL cdna:SNAP chromosome:CEL140:X:12356179:12356668:-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
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001029179 2/11 Cross Hyb Matching Probes None
NM_001029178 2/11 Cross Hyb Matching Probes None
NM_001029177 2/11 Cross Hyb Matching Probes None
NM_171744 2/11 Cross Hyb Matching Probes B 
NM_001029182 2/11 Cross Hyb Matching Probes None
NM_001029181 2/11 Cross Hyb Matching Probes None
NM_077669 8/11 Cross Hyb Matching Probes None
NM_182449 6/11 Cross Hyb Matching Probes None
SNAP00000001329 4/11 Cross Hyb Matching Probes None
GENEFINDER00000026294 2/11 Cross Hyb Matching Probes None
GENEFINDER00000026296 3/11 Cross Hyb Matching Probes None
GENEFINDER00000026297 2/11 Cross Hyb Matching Probes None
GENEFINDER00000026295 2/11 Cross Hyb Matching Probes None
C03G5.8 2/11 Cross Hyb Matching Probes None
C03G5.2 2/11 Cross Hyb Matching Probes None
F42F12.1 8/11 Cross Hyb Matching Probes None
F42F12.7 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12356307-12357779(+) 97.78 97.78
chrX:12343054-12343906(+) 94.75 94.75
chrX:12358714-12361042(+) 93.94 93.94
chrX:12342925-12343777(-) 100.0 100.0
chrX:12358585-12360913(-) 97.37 97.37
chrX:12356178-12357650(-) 95.15 95.15
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:172357_X_AT
gtaagattcaccaccattgacaccagcacagaactcttgacagagttgcaaggtgatgga
gctgatggcagaaacaaggcaaaggacaacgagggtgcgaaggaactgcaaggatattca
attttacttcgcaccctcgttgccctttgcttggtttctgccatcagctccatcaccttg
caactctgtcaagagttctgtgctggtgtcaatggtggtgaatcttacgcattctgctct
ccatggatcagttttgccactcaaaccaacaaaacttgctacaatctctgtgttcataac
tgtgctgctgtctatgatggttcctgcacaactgatcctgacttcagatgctgcttgaaa
accactcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAAGATTCACCACCATTGACACCA 90 463 82 Antisense
TTGACACCAGCACAGAACTCTTGAC 345 703 98 Antisense
GGATATTCAATTTTACTTCGCACCC 43 511 193 Antisense
TCCATCACCTTGCAACTCTGTCAAG 392 591 250 Antisense
GTCAAGAGTTCTGTGCTGGTGTCAA 403 463 269 Antisense
GTGGTGAATCTTACGCATTCTGCTC 564 489 296 Antisense
CATTCTGCTCTCCATGGATCAGTTT 374 217 311 Antisense
AACTTGCTACAATCTCTGTGTTCAT 329 139 354 Antisense
GTGTTCATAACTGTGCTGCTGTCTA 215 485 371 Antisense
TGCTGTCTATGATGGTTCCTGCACA 319 579 387 Antisense
CAGATGCTGCTTGAAAACCACTCCA 234 207 426 Antisense
Sequence Source Affymetrix Proprietary Database