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[190448_at] tetraspanin

Description B0198.1 /REP_DB=WormBase Gene ID /WP=CE26461 /GEN=tsp-20 /TR=Q17441 /GB=CAA91527.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=tetraspanin
Cluster 6grp_highest_10_10 > 11      6grp_high1_10_10 > 0      4grp_highest_8_8 > 31      4grp_high_8_8 > 12      6grp_highest_nonorm > 80      6grp_total > 13      4grp_total > 12      6grp_cgc > 40      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 213
1 2 3 4 range
A 296.2
(-0.3)
P 		260.8
(-1.7)
P 		227.1
(-3)
P 		382.5
(3)
P 		155
B 180.6
(-2.1)
P 		176.8
(-2.4)
P 		169.6
(-3)
P 		244.5
(3)
P 		75
C 210.7
(-2.1)
P 		187.5
(-2.9)
P 		186.1
(-3)
P 		352.2
(3)
P 		166
avr 229.2
(-1.4) 		208.4
(-2.4) 		194.3
(-3) 		326.4
(3) 		132

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 174
1 2 3 4 5 6 range
A 253.2
(3)
P 		236.1
(1.4)
P 		224.1
(0.2)
P 		222.4
(0.1)
P 		190
(-3)
P 		250
(2.7)
P 		63
B 244.2
(2.4)
P 		256
(3)
P 		175
(-1)
P 		204.5
(0.5)
P 		134.6
(-3)
P 		191.6
(-0.2)
P 		121
C 254.7
(0.8)
P 		238.9
(0.1)
P 		226.6
(-0.4)
P 		308.3
(3)
P 		189.5
(-1.9)
P 		163.5
(-3)
P 		145
avr 250.7
(3) 		243.7
(2.5) 		208.6
(-0.2) 		245.1
(2.6) 		171.4
(-3) 		201.7
(-0.7) 		79
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 107.9
(3)
P 		56.6
(-2.9)
P 		59.4
(-2.6)
P 		56
(-3)
P 		52
B 57.6
(3)
P 		43.7
(-1.6)
P 		39.3
(-3)
P 		52.1
(1.2)
P 		18
C 69.7
(3)
P 		53.9
(-3)
P 		64.9
(1.2)
P 		59.4
(-0.9)
P 		16
avr 78.4
(3) 		51.4
(-3) 		54.5
(-2.3) 		55.8
(-2) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 46.7
(-3)
P 		84
(3)
P 		48.8
(-2.7)
P 		56.4
(-1.4)
P 		57.3
(-1.3)
P 		60.9
(-0.7)
P 		37
B 85
(3)
P 		85.2
(3)
P 		42.5
(-3)
P 		54.2
(-1.4)
P 		54.7
(-1.3)
P 		71.5
(1.1)
P 		43
C 94.4
(3)
P 		72.9
(-0.2)
P 		57.7
(-2.5)
P 		62
(-1.9)
P 		61.3
(-2)
P 		54.7
(-3)
P 		40
avr 75.4
(2) 		80.7
(3) 		49.7
(-3) 		57.5
(-1.5) 		57.8
(-1.4) 		62.4
(-0.5) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190448_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16302
Sequence Type Exemplar sequence
Representative Public ID B0198.1 NCBI
Target Description B0198.1 /REP_DB=WormBase Gene ID /WP=CE26461 /GEN=tsp-20 /TR=Q17441 /GB=CAA91527.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=tetraspanin
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_077613(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077613 NCBI Caenorhabditis elegans B0198.1 (tetraspanin) mRNA, complete cds. 11/11 None
SNAP00000037172 ENSEMBL cdna:SNAP chromosome:CEL140:X:12032074:12033974:-1 11/11 None
GENEFINDER00000037175 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12032074:12033974:-1 11/11 None
B0198.1 ENSEMBL cdna:known chromosome:CEL140:X:12032074:12033944:-1 gene:B0198.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12032073-12033944(-) 100.0 100.0
Public Domain and Genome References
Gene Title tetraspanin
Gene Symbol tsp-20
Ensembl B0198.1
Entrez Gene 181376 Entrez gene
SwissProt Q17441 EMBL-EBI
WormBase CE26461 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91527 Hypothetical protein B0198.1 [Caenorhabditis elegans] ref|NP_510014.1| B0198.1 [Caenorhabditis elegans] 1.0E-159
blast CAA91527 Hypothetical protein B0198.1 [Caenorhabditis elegans] ref|NP_510014.1| B0198.1 [Caenorhabditis elegans] 1.0E-156
blast CAE69866 Hypothetical protein CBG16197 [Caenorhabditis briggsae] 1.0E-144
blast CAE69866 Hypothetical protein CBG16197 [Caenorhabditis briggsae] 1.0E-141
blast CAE69866 Hypothetical protein CBG16197 [Caenorhabditis briggsae] 1.0E-138
blast AAH83372 Zgc:103425 [Danio rerio] ref|NP_001006041.1| hypothetical protein LOC450020 [Danio rerio] 7.0E-22
Protein Domains
Database ID Description E-Value
Pfam IPR000301 EMBL-EBI CD9/CD37/CD63 antigen 2.2E-51
Pfam IPR000301 EMBL-EBI CD9/CD37/CD63 antigen 2.2E-51
Pfam IPR000301 EMBL-EBI CD9/CD37/CD63 antigen 9.5E-49
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510014.1 4 30-52,67-89,96-118,230-252
B0198.1 4 30-52,67-89,96-118,230-252
SNAP00000037172 3 40-62,74-96,106-128
GENEFINDER00000037175 3 40-62,74-96,106-128
Sequence
Target Sequence 
>C. ELEGANS:190448_AT
ttggatttttggtacactccgctgtaagcaatcgatgtgctttagttttttatcttctca
tgctgatattctcaatgatcatggaaggttgcctcatttattttacattttcctatcatg
ccacttatgaacaagaactcaatgcgtctttgccaaatgatattctaaataattacaatt
tggacccaaatattgcaaaagctgtgaactacttgcaaagagattcaaaatgttgtggat
ctaatgcgttcaacgactggccaaaacctgaagtggaagatcactatcttccttatgcca
agacggttgtccaaagagttcaatacattcccgattcatgttgcaagagtacacatcaac
ggaagggctgtgctttgagtgatagccccaacaatattttctatagaggttgtcttccgt
ttttgaaagaagaagtctacaacaatctaaactttctgttcacagtgacggctgcttcgc
tggtgctacattttgcaaacttgatctttgggtgttgcacttgcttccgatcagatgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGATTTTTGGTACACTCCGCTGT 142 707 257 Antisense
GCTTTAGTTTTTTATCTTCTCATGC 180 305 295 Antisense
TACATTTTCCTATCATGCCACTTAT 445 643 360 Antisense
GAACTCAATGCGTCTTTGCCAAATG 352 349 391 Antisense
ATGCGTTCAACGACTGGCCAAAACC 487 41 500 Antisense
GATCACTATCTTCCTTATGCCAAGA 645 421 535 Antisense
TGTGCTTTGAGTGATAGCCCCAACA 370 557 625 Antisense
TATAGAGGTTGTCTTCCGTTTTTGA 181 651 658 Antisense
TCTGTTCACAGTGACGGCTGCTTCG 120 607 711 Antisense
GCTTCGCTGGTGCTACATTTTGCAA 634 305 730 Antisense
TTGCACTTGCTTCCGATCAGATGAA 671 701 771 Antisense
Sequence Source Affymetrix Proprietary Database