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[172713_x_at] --- /// --- /// --- /// --- /// --- /// --- /// --- /// ---

Description F42F12.6_rc /REP_DB=WormBase Gene ID /WP=CE03317 /TR=Q20343 /GB=CAA92172.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /REVCOMP
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 85      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 79      6grp_total > 76      4grp_total > 57      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 2118
1 2 3 4 range
A 1022.6
(-1.3)
P 		1705
(1.5)
P 		2053.9
(3)
P 		617.5
(-3)
P 		1436
B 759.3
(-1.8)
P 		1620
(0.6)
P 		2468.5
(3)
P 		350.1
(-3)
P 		2118
C 1193.7
(0.1)
P 		1647.7
(2.5)
P 		1730.3
(3)
P 		630.5
(-3)
P 		1100
avr 991.9
(-1.2) 		1657.6
(1.4) 		2084.2
(3) 		532.7
(-3) 		1552

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2135
1 2 3 4 5 6 range
A 912.6
(-3)
P 		1058.4
(-2.5)
P 		1905.3
(0.1)
P 		1552.9
(-1)
P 		1326.9
(-1.7)
P 		2831.7
(3)
P 		1919
B 821.9
(-3)
P 		1019.2
(-2.4)
P 		1653.2
(-0.3)
P 		1338.1
(-1.3)
P 		1202.3
(-1.7)
P 		2644.9
(3)
P 		1823
C 696.8
(-3)
P 		1281.3
(-1.3)
P 		1581.7
(-0.5)
P 		1336.6
(-1.2)
P 		1555.1
(-0.6)
P 		2814.2
(3)
P 		2117
avr 810.4
(-3) 		1119.6
(-2.1) 		1713.4
(-0.2) 		1409.2
(-1.2) 		1361.4
(-1.3) 		2763.6
(3) 		1953
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 529
1 2 3 4 range
A 372.3
(0.8)
P 		370.1
(0.8)
P 		536.9
(3)
P 		90.4
(-3)
P 		447
B 242.1
(-1)
P 		400.1
(0.9)
P 		572
(3)
P 		74.6
(-3)
P 		497
C 395.1
(0.5)
P 		473.7
(1.4)
P 		603.1
(3)
P 		106.3
(-3)
P 		497
avr 336.5
(0.1) 		414.6
(1) 		570.7
(3) 		90.4
(-3) 		480

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 818
1 2 3 4 5 6 range
A 168.2
(-3)
P 		376.4
(-0.6)
P 		414.9
(-0.2)
P 		393.9
(-0.4)
P 		400.4
(-0.3)
P 		689.4
(3)
P 		521
B 286
(-3)
P 		339.3
(-2.5)
P 		401.4
(-2)
P 		354.4
(-2.4)
P 		488.5
(-1.3)
P 		986.3
(3)
P 		700
C 258.3
(-3)
P 		391
(-1.8)
P 		402.6
(-1.7)
P 		268.8
(-2.9)
P 		503.2
(-0.9)
P 		942.1
(3)
P 		684
avr 237.5
(-3) 		368.9
(-1.8) 		406.3
(-1.4) 		339
(-2) 		464
(-0.9) 		872.6
(3) 		635
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172713_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28163
Sequence Type Exemplar sequence
Representative Public ID F42F12.6 NCBI
Target Description F42F12.6_rc /REP_DB=WormBase Gene ID /WP=CE03317 /TR=Q20343 /GB=CAA92172.1 /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_001029177, NM_001029178, NM_001029176, NM_001029179, NM_077672, NM_182450, NM_001029486, NM_077673
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000001336 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12356006:12361042:1 None
GENEFINDER00000001338 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12340490:12343777:-1 None
GENEFINDER00000026294 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8534545:8535756:1 None
GENEFINDER00000026295 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8541083:8542013:-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
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
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_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 
NM_077672 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-13) (nspc-13) mRNA, complete cds. A 
NM_001029179 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-6) (nspc-6) mRNA, complete cds. None
NM_001029176 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-3) (nspc-3) mRNA, complete cds. None
GENEFINDER00000026294 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8534545:8535756:1 None
GENEFINDER00000026296 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8536921:8537395:1 None
F42F12.6 ENSEMBL cdna:known chromosome:CEL140:X:12357429:12357779:1 gene:F42F12.6 A 
GENEFINDER00000026297 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8538064:8539200:1 None
GENEFINDER00000026295 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8541083:8542013:-1 None
NM_001029178 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-5) (nspc-5) mRNA, complete cds. None
NM_001029177 NCBI Caenorhabditis elegans Nematode Specific Peptide family, group C family member (nspc-4) (nspc-4) mRNA, complete cds. None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171744 1/11 Cross Hyb Matching Probes None
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
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:12358585-12360913(+) 98.78 98.78
chrX:12342925-12343777(+) 98.17 98.17
chrX:12356178-12357650(+) 96.14 96.14
chrX:8534662-8537265(+) 91.87 91.87
chrX:12356307-12357779(-) 100.0 100.0
chrX:12358714-12361042(-) 95.73 95.73
chrX:12343054-12343906(-) 95.33 95.33
chrX:8534791-8537394(-) 91.87 91.87
Public Domain and Genome References
Gene Title







Gene Symbol nspc-3
nspc-4
nspc-5
nspc-6
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
3564795 Entrez gene
3565092 Entrez gene
3565449 Entrez gene
3566000 Entrez gene
SwissProt Q8I4J1 EMBL-EBI
Q20342 EMBL-EBI
Q8I4J0 EMBL-EBI
WormBase CE38675 Wormbase
CE38676 Wormbase
CE38677 Wormbase
CE38677 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 AAY55844 Nematode specific peptide family, group c protein 4 [Caenorhabditis elegans] ref|NP_001024348.1| Nematode Specific Peptide family, group C family member (nspc-4) [Caenorhabditis elegans] 7.0E-57
blast AAY55847 Nematode specific peptide family, group c protein 2 [Caenorhabditis elegans] gb|AAY55846.1| Nematode specific peptide family, group c protein 6 [Caenorhabditis elegans] gb|AAY55845.1| Nematode specific peptide family, group c protein 5 [Caenorhabditis elegans] ref|NP_001024350.1| Nematode Specific Peptide family, group C family member (nspc-6) [Caenorhabditis elegans] ref|NP_001024353.1| Nematode Specific Peptide family, group C family member (nspc-2) [Caenorhabditis elegans] ref|NP_001024349.1| Nematode Specific Peptide family, group C family member (nspc-5) [Caenorhabditis elegans] 9.0E-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
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:172713_X_AT
gtagagtttgttgcaaccgctcatcttgaactcttgtttcttagctggagtagttttcaa
gcagcatctgaagtcagggtcagttgtgcaggaaccatcatagacagcagcacaattatg
aacacagagattgtagcaagttttgttggtttgagtggcaaaactgatccatggagagca
gaatgcgtaagattcaccaccattgacaccagcacagaactcttgacagagttgcaaggt
gatggagctgatggcagaaacaaggcaaagggcaacgagggtgcgaaggaatgaatatcc
ttgcagttccttcgcaccctcgttgccctttgccttgtttctgccatcagctccatcacc
ttgcaactctgtcaagagttctgtgctggtgtcaatggtggtgaatcttacgcattctgc
tctccatggatcagttttgccactcacaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAGAGTTTGTTGCAACCGCTCATC 414 455 25 Antisense
CGCTCATCTTGAACTCTTGTTTCTT 479 255 42 Antisense
GGAACCATCATAGACAGCAGCACAA 318 531 115 Antisense
GTAAGATTCACCACCATTGACACCA 89 463 211 Antisense
TTGACACCAGCACAGAACTCTTGAC 344 703 227 Antisense
TGAATATCCTTGCAGTTCCTTCGCA 125 577 316 Antisense
TCCATCACCTTGCAACTCTGTCAAG 391 591 376 Antisense
GTCAAGAGTTCTGTGCTGGTGTCAA 402 463 395 Antisense
GTGGTGAATCTTACGCATTCTGCTC 563 489 422 Antisense
CATTCTGCTCTCCATGGATCAGTTT 373 217 437 Antisense
ATGGATCAGTTTTGCCACTCACAGA 701 51 450 Antisense
Sequence Source Affymetrix Proprietary Database