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[180957_s_at] Retroviral aspartyl proteases, Zinc finger, CCHC class

Description C31H1.3 /REP_DB=WormBase Gene ID /WP=CE04124 /TR=Q18338 /GB=AAA83607.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 10      4grp_total > 02      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 173
1 2 3 4 range
A 21.8
(-3)
A 		29.2
(-2.6)
A 		75
(-0.4)
A 		143.3
(3)
A 		122
B 34
(-3)
A 		63.2
(-0.4)
A 		45.6
(-2)
A 		100.6
(3)
M 		67
C 79
(-1.1)
A 		53
(-2)
A 		24.9
(-3)
A 		194.6
(3)
P 		170
avr 44.9
(-3) 		48.5
(-2.8) 		48.5
(-2.8) 		146.2
(3) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 68
1 2 3 4 5 6 range
A 11.6
(-3)
A 		45.3
(0.8)
A 		49.4
(1.2)
A 		15.4
(-2.6)
A 		65.1
(3)
A 		36.9
(-0.2)
A 		54
B 26.3
(-3)
A 		71.9
(3)
A 		53.5
(0.6)
A 		31
(-2.4)
A 		65.3
(2.1)
A 		37.4
(-1.5)
A 		46
C 8.6
(-2.5)
A 		46.7
(2)
A 		54.7
(3)
A 		4.2
(-3)
A 		30.2
(0.1)
A 		47
(2.1)
M 		51
avr 15.5
(-3) 		54.6
(3) 		52.5
(2.7) 		16.9
(-2.8) 		53.5
(2.8) 		40.4
(0.8) 		39
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 7.9
(-2.3)
A 		6.3
(-3)
A 		19.6
(2.4)
A 		21
(3)
A 		15
B 10.8
(-2.9)
A 		15.6
(-0.2)
A 		10.6
(-3)
A 		21.4
(3)
M 		11
C 26.1
(1.3)
A 		15.2
(-1.4)
A 		8.7
(-3)
A 		32.8
(3)
P 		24
avr 14.9
(-1.8) 		12.4
(-3) 		13
(-2.7) 		25.1
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 2.1
(-3)
A 		16.1
(1.8)
A 		10.8
(-0)
A 		3.9
(-2.4)
A 		19.6
(3)
A 		9
(-0.6)
A 		18
B 9.1
(-2.7)
A 		23.9
(2.1)
A 		13
(-1.4)
A 		8.2
(-3)
A 		26.5
(3)
A 		14
(-1.1)
A 		18
C 3.2
(-2)
A 		14.3
(2.4)
A 		13.9
(2.3)
A 		0.8
(-3)
A 		9.8
(0.6)
A 		15.7
(3)
M 		15
avr 4.8
(-2.8) 		18.1
(2.8) 		12.6
(0.5) 		4.3
(-3) 		18.6
(3) 		12.9
(0.6) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180957_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11124
Sequence Type Exemplar sequence
Representative Public ID C31H1.3 NCBI
Target Description C31H1.3 /REP_DB=WormBase Gene ID /WP=CE04124 /TR=Q18338 /GB=AAA83607.1 /SUBMIT=ST.LOUIS /CHR=4 /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_060119(11), NM_061895(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060119 NCBI Caenorhabditis elegans F30A10.7 (F30A10.7) mRNA, complete cds. 11/11 A 
NM_061895 NCBI Caenorhabditis elegans K02F6.1 (K02F6.1) mRNA, complete cds. 11/11 A 
GENEFINDER00000038402 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13985267:13986076:1 11/11 None
SNAP00000038378 ENSEMBL cdna:SNAP chromosome:CEL140:I:13985342:13986076:1 11/11 None
SNAP00000021994 ENSEMBL cdna:SNAP chromosome:CEL140:I:9505868:9508218:1 11/11 None
GENEFINDER00000022004 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9505868:9508218:1 11/11 None
SNAP00000019494 ENSEMBL cdna:SNAP chromosome:CEL140:II:2553963:2556314:1 11/11 None
GENEFINDER00000019500 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2553963:2556314:1 11/11 None
SNAP00000016607 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5793824:5794264:1 11/11 None
GENEFINDER00000016614 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5793824:5794656:1 11/11 None
SNAP00000024126 ENSEMBL cdna:SNAP chromosome:CEL140:V:5670409:5672051:-1 10/11 None
GENEFINDER00000024138 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5670409:5676198:-1 11/11 None
SNAP00000039412 ENSEMBL cdna:SNAP chromosome:CEL140:V:5146807:5150277:-1 11/11 None
GENEFINDER00000039414 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5145992:5150277:-1 11/11 None
F30A10.7 ENSEMBL cdna:known chromosome:CEL140:I:9505896:9508218:1 gene:F30A10.7 11/11 A 
K02F6.1 ENSEMBL cdna:known chromosome:CEL140:II:2553963:2556314:1 gene:K02F6.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000002150 3/11 Cross Hyb Matching Probes None
SNAP00000002151 3/11 Cross Hyb Matching Probes None
SNAP00000033482 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9507674-9508149(+) 65.08 94.78
chrI:13985532-13986007(+) 65.08 94.33
chrII:2555838-2556313(+) 65.31 94.33
chrIV:5793829-5794270(+) 70.29 100.0
chrV:5146806-5147281(-) 65.31 94.56
chrV:5670408-5670883(-) 65.08 94.33
Public Domain and Genome References
Gene Title Retroviral aspartyl proteases, Zinc finger, CCHC class

Ensembl F30A10.7
K02F6.1
Entrez Gene 185125 Entrez gene
186906 Entrez gene
SwissProt Q93645 EMBL-EBI
O16635 EMBL-EBI
WormBase CE09808 Wormbase
CE11656 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
4190 aspartic-type endopeptidase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03024 Hypothetical protein F30A10.7 [Caenorhabditis elegans] ref|NP_492520.1| F30A10.7 [Caenorhabditis elegans] 0.0
blast AAB66101 Hypothetical protein K02F6.1 [Caenorhabditis elegans] ref|NP_494296.1| K02F6.1 [Caenorhabditis elegans] 0.0
blast D89042 protein F14F9.6 [imported] - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 1.1E-6
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 1.1E-6
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 1.1E-6
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 1.1E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000016607 1 7-25
GENEFINDER00000016614 1 7-25
Sequence
Target Sequence 
>C. ELEGANS:180957_S_AT
tttagtgctccagatttgtcagcttgtgattctgttggttctcgatctgctcgtgaagtc
gtctcgtcggttgccagcaaagagttcgttgaagaaaagccacagaagacgtcgccgtgt
ggctaagagtcgccaatcatatactgctggaagttcgccaatcaaagaaacccatctgga
ccccctgctggaatccgatgttgcgagtgacggcgagcgtttccaacccggcatcctcct
gtgtcattctcttcgacagagccacccacgacaagttgtgcgaggatcagccccaaacac
tgatcatgcctccactcgccgcagaggtcgatataccgcctctggtcgtgatgcccctag
cccaggcataatttctggctttttgtcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTAGTGCTCCAGATTTGTCAGCTT 52 675 33 Antisense
GTGCTCCAGATTTGTCAGCTTGTGA 394 479 37 Antisense
CAATCAAAGAAACCCATCTGGACCC 625 169 191 Antisense
CCCCTGCTGGAATCCGATGTTGCGA 323 261 214 Antisense
GCTGGAATCCGATGTTGCGAGTGAC 243 295 219 Antisense
GATGTTGCGAGTGACGGCGAGCGTT 44 407 229 Antisense
CACCCACGACAAGTTGTGCGAGGAT 300 201 295 Antisense
ACAAGTTGTGCGAGGATCAGCCCCA 533 113 303 Antisense
GGATCAGCCCCAAACACTGATCATG 12 511 316 Antisense
GCCCCTAGCCCAGGCATAATTTCTG 462 285 385 Antisense
GGCATAATTTCTGGCTTTTTGTCAT 510 537 397 Antisense
Sequence Source Affymetrix Proprietary Database