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[190518_at] tetraspanin

Description Y39E4B.4 /REP_DB=WormBase Gene ID /WP=CE21716 /GEN=tsp-3 /TR=Q9U2K6 /GB=CAB54426.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=tetraspanin
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 01      4grp_highest_8_8 > 40      4grp_high_8_8 > 42      6grp_highest_nonorm > 80      6grp_total > 04      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 296
1 2 3 4 range
A 358.2
(3)
P 		309.5
(1.6)
P 		207.8
(-1.3)
P 		149.7
(-3)
P 		209
B 346
(3)
P 		269.4
(0.8)
P 		254.9
(0.4)
P 		134.2
(-3)
P 		212
C 319.4
(3)
P 		272.3
(1.9)
P 		212.5
(0.5)
P 		62.3
(-3)
P 		257
avr 341.2
(3) 		283.7
(1.5) 		225.1
(-0.1) 		115.4
(-3) 		226

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 326.7
(3)
P 		220.4
(-0.4)
P 		232.4
(0)
P 		180.2
(-1.6)
P 		202.3
(-0.9)
P 		137.4
(-3)
P 		189
B 272.2
(2.7)
P 		278.4
(3)
P 		263.8
(2.3)
P 		191.3
(-1)
P 		197.9
(-0.7)
P 		148.2
(-3)
P 		130
C 315.9
(3)
P 		230
(0.1)
P 		191.9
(-1.2)
P 		276.9
(1.7)
P 		169.8
(-2)
P 		139.9
(-3)
P 		176
avr 304.9
(3) 		242.9
(0.7) 		229.4
(0.2) 		216.1
(-0.3) 		190
(-1.2) 		141.8
(-3) 		163
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 130.4
(3)
P 		67.2
(-0.5)
P 		54.3
(-1.2)
P 		21.9
(-3)
P 		109
B 110.3
(3)
P 		66.5
(-0.2)
P 		59.1
(-0.8)
P 		28.6
(-3)
P 		82
C 105.7
(3)
P 		78.3
(1.3)
P 		74.1
(1)
P 		10.5
(-3)
P 		95
avr 115.5
(3) 		70.7
(0.2) 		62.5
(-0.3) 		20.3
(-3) 		95

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 84
1 2 3 4 5 6 range
A 60.2
(0.6)
P 		78.4
(3)
P 		50.6
(-0.7)
P 		45.7
(-1.4)
P 		61.1
(0.7)
P 		33.4
(-3)
P 		45
B 94.7
(3)
P 		92.7
(2.7)
P 		64.1
(-1.2)
P 		50.7
(-3)
P 		80.4
(1.1)
P 		55.2
(-2.4)
P 		44
C 117.1
(3)
P 		70.2
(-1)
P 		48.8
(-2.8)
P 		55.7
(-2.2)
P 		55
(-2.3)
P 		46.8
(-3)
P 		70
avr 90.7
(3) 		80.4
(1.6) 		54.5
(-1.8) 		50.7
(-2.3) 		65.5
(-0.3) 		45.1
(-3) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190518_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7780
Sequence Type Exemplar sequence
Representative Public ID Y39E4B.4 NCBI
Target Description Y39E4B.4 /REP_DB=WormBase Gene ID /WP=CE21716 /GEN=tsp-3 /TR=Q9U2K6 /GB=CAB54426.1 /SUBMIT=HINXTON /CHR=3 /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_067323(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067323 NCBI Caenorhabditis elegans Y39E4B.4 (tetraspanin) mRNA, complete cds. 11/11 None
GENEFINDER00000012035 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13212215:13213859:1 11/11 None
Y39E4B.4 ENSEMBL cdna:known chromosome:CEL140:III:13212215:13213863:1 gene:Y39E4B.4 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
chrIII:13212210-13213859(+) 100.0 100.0
Public Domain and Genome References
Gene Title tetraspanin
Gene Symbol tsp-3
Ensembl Y39E4B.4
Entrez Gene 192059 Entrez gene
SwissProt Q9U2K6 EMBL-EBI
WormBase CE21716 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 CAB54426 Hypothetical protein Y39E4B.4 [Caenorhabditis elegans] ref|NP_499724.1| Y39E4B.4 [Caenorhabditis elegans] 1.0E-109
blast CAB54426 Hypothetical protein Y39E4B.4 [Caenorhabditis elegans] ref|NP_499724.1| Y39E4B.4 [Caenorhabditis elegans] 1.0E-108
blast CAE60044 Hypothetical protein CBG03555 [Caenorhabditis briggsae] 2.0E-92
blast CAE56065 Hypothetical protein CBG23641 [Caenorhabditis briggsae] 2.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR000301 EMBL-EBI CD9/CD37/CD63 antigen 7.0E-38
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499724.1 4 10-32,69-91,101-123,191-213
Y39E4B.4 4 10-32,69-91,101-123,191-213
GENEFINDER00000012035 4 10-32,69-91,101-123,191-213
Sequence
Target Sequence 
>C. ELEGANS:190518_AT
gaacttggcgcaaacgcttgtcggttttacagtaatcgctctcacactttggattcgttt
tgataaaggcttcgaatcggaaattcggactaatatattgagggataatgatccggagcc
attggctggtgtgaagtcggatattagaacagggatcattgtctctttctggataatcat
cggatttgccattgctaatgtgataatcggatttgttggcgttattggagcagttatccg
gagcaagtatctattggctccatactttctgtttatggttatcttgtttcttttggaaat
tgcaattggtattaccgtgttggtgaagagaagatccgttagaagaactgtcaaggaata
tgttttcgattcgttcaacatgaatgcccaggctgatatttctgcgtttaattttagata
caactgctgtggagccgaaaatctgccaaatttgaactgtttcgccggccagccaacatg
ttcgtcagctgtctgggatcgtctcgattttacaatgatgatcttcggaatctgtatgct
gattatagttgtgttacaaatgttcacagcatttctcactgttccaattatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACTTGGCGCAAACGCTTGTCGGT 49 351 57 Antisense
CGCTCTCACACTTTGGATTCGTTTT 374 255 93 Antisense
GCCATTGGCTGGTGTGAAGTCGGAT 274 279 174 Antisense
CAGGGATCATTGTCTCTTTCTGGAT 145 209 206 Antisense
GAGCAGTTATCCGGAGCAAGTATCT 110 389 284 Antisense
ATCTATTGGCTCCATACTTTCTGTT 83 33 305 Antisense
ATGCCCAGGCTGATATTTCTGCGTT 580 41 440 Antisense
GCCAAATTTGAACTGTTTCGCCGGC 407 277 501 Antisense
CCAACATGTTCGTCAGCTGTCTGGG 195 277 529 Antisense
GCTGTCTGGGATCGTCTCGATTTTA 8 295 544 Antisense
AGCATTTCTCACTGTTCCAATTATT 17 79 624 Antisense
Sequence Source Affymetrix Proprietary Database