[Home] | [Total List]

[190550_at] TSP type-1 repeats (13)

Description C02B4.1 /REP_DB=WormBase Gene ID /WP=CE02110 /TR=Q17591 /GB=CAA90302.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=TSP type-1 repeats (13)
Cluster 6grp_total > 66      4grp_total > 16      6grp_cgc > 37      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 33.6
(-2.4)
A 		29.4
(-3)
A 		39.8
(-1.5)
A 		71.8
(3)
A 		42
B 55.8
(1.7)
A 		48.5
(-0.7)
A 		41.3
(-3)
A 		59.7
(3)
A 		18
C 11.7
(-3)
A 		38.4
(2.1)
A 		43.4
(3)
A 		19.2
(-1.6)
A 		32
avr 33.7
(-3) 		38.8
(-1.1) 		41.5
(-0.2) 		50.2
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 5.5
(-3)
A 		43.1
(1.2)
A 		15.1
(-1.9)
A 		30.8
(-0.2)
A 		12.6
(-2.2)
A 		59.7
(3)
A 		54
B 10.8
(-2.8)
A 		42.8
(-0.3)
A 		29.2
(-1.4)
A 		8.2
(-3)
A 		26.4
(-1.6)
A 		85.5
(3)
A 		77
C 35.7
(1)
A 		44.1
(2.2)
A 		9.4
(-2.5)
A 		25.8
(-0.3)
A 		5.9
(-3)
A 		50.4
(3)
A 		45
avr 17.3
(-2.7) 		43.3
(0.4) 		17.9
(-2.7) 		21.6
(-2.2) 		15
(-3) 		65.2
(3) 		50
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 12.2
(3)
A 		6.4
(-3)
A 		10.4
(1.1)
A 		10.5
(1.2)
A 		6
B 17.8
(3)
A 		12
(-1.2)
A 		9.6
(-3)
A 		12.7
(-0.7)
A 		8
C 3.9
(-2.6)
A 		11
(0.9)
A 		15.1
(3)
A 		3.2
(-3)
A 		12
avr 11.3
(2.2) 		9.8
(-0.9) 		11.7
(3) 		8.8
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 1
(-3)
A 		15.3
(3)
A 		3.3
(-2)
A 		7.8
(-0.1)
A 		3.8
(-1.8)
A 		14.5
(2.7)
A 		14
B 3.7
(-2.7)
A 		14.2
(-0.6)
A 		7.1
(-2)
A 		2.2
(-3)
A 		10.7
(-1.3)
A 		31.9
(3)
A 		30
C 13.2
(1.5)
A 		13.5
(1.6)
A 		2.4
(-2.8)
A 		5.2
(-1.7)
A 		1.9
(-3)
A 		16.9
(3)
A 		15
avr 6
(-2.4) 		14.3
(0.6) 		4.3
(-3) 		5.1
(-2.7) 		5.5
(-2.6) 		21.1
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190550_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17435
Sequence Type Exemplar sequence
Representative Public ID C02B4.1 NCBI
Target Description C02B4.1 /REP_DB=WormBase Gene ID /WP=CE02110 /TR=Q17591 /GB=CAA90302.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=TSP type-1 repeats (13)
Cluster Evidence This cluster is supported by a 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_077715(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077715 NCBI Caenorhabditis elegans ADAMTS family member (adt-1) (adt-1) mRNA, complete cds. 11/11 None
GENEFINDER00000042495 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12681095:12689100:1 11/11 None
C02B4.1 ENSEMBL cdna:known chromosome:CEL140:X:12678749:12689100:1 gene:C02B4.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000042489 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12679291-12689100(+) 100.0 100.0
Public Domain and Genome References
Gene Title TSP type-1 repeats (13)
Gene Symbol adt-1
Ensembl C02B4.1
Entrez Gene 181412 Entrez gene
SwissProt Q8MYA8 EMBL-EBI
WormBase CE31872 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
4222 metalloendopeptidase activity inferred from electronic annotation QuickGO AmiGO
8237 metallopeptidase activity inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90302 Hypothetical protein C02B4.1 [Caenorhabditis elegans] emb|CAA90293.2| Hypothetical protein C02B4.1 [Caenorhabditis elegans] ref|NP_510116.2| ADAMTS family member (adt-1) [Caenorhabditis elegans] dbj|BAC05514.1| ADT-1 [Caenorhabditis elegans] 0.0
blast T18856 angiogenesis inhibitor homolog - Caenorhabditis elegans 0.0
blast CAE57226 Hypothetical protein CBG00091 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001590 EMBL-EBI Peptidase M12B, ADAM/reprolysin 4.7E-12
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 6.6E-9
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 4.5E-5
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 7.8E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 2.1E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 4.4E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 3.4E-13
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 3.6E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 3.6E-13
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 1.4E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 4.7E-17
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 7.2E-6
Pfam IPR001590 EMBL-EBI Peptidase M12B, ADAM/reprolysin 4.7E-12
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 6.6E-9
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 4.5E-5
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 7.8E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 2.1E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 4.4E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 3.4E-13
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 3.6E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 3.6E-13
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 1.4E-11
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 4.7E-17
Pfam IPR000884 EMBL-EBI Thrombospondin, type I 7.2E-6
Sequence
Target Sequence 
>C. ELEGANS:190550_AT
tgccaaccctaaaccttcacaaggtggtgctcaatgtactggctcagattttgagctcaa
tccatgttttgatccggctagatgtcatttgagagatggcggctggtcgacatggtcaga
ctggacaccttgttcggcttcgtgcggatttggagttcagactcgagaccgatcgtgtag
ctcgccagagcctaaaggcggacaatcatgctcaggattagcgcatcagacatcgctgtg
tgatctgcctgcatgtgaccacgaaagcgacggcgaatggtcagcatggaacgagtggtc
gggttgtatgggtaactgtggcattggtacaagaacaagagtacgagcttgtgtcagccc
accagtcagcgacggagggcaaccatgttttggaagatcgtcagaaatcaccgagtgccg
tcaatcaccgtccaccgctctgtgctcctcgttcattacctcgtcacatttagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCAACCCTAAACCTTCACAAGGT 62 587 3837 Antisense
TGGTGCTCAATGTACTGGCTCAGAT 404 553 3861 Antisense
GACATGGTCAGACTGGACACCTTGT 177 369 3945 Antisense
GGCTTCGTGCGGATTTGGAGTTCAG 315 537 3972 Antisense
TCGAGACCGATCGTGTAGCTCGCCA 243 603 3999 Antisense
GCGCATCAGACATCGCTGTGTGATC 557 287 4057 Antisense
TGTGTGATCTGCCTGCATGTGACCA 201 553 4073 Antisense
AAGAGTACGAGCTTGTGTCAGCCCA 58 155 4173 Antisense
AGCCCACCAGTCAGCGACGGAGGGC 554 81 4192 Antisense
AGAAATCACCGAGTGCCGTCAATCA 254 73 4239 Antisense
GTTCATTACCTCGTCACATTTAGCA 233 445 4287 Antisense
Sequence Source Affymetrix Proprietary Database