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[190414_at] transpanin

Description C25G6.2 /REP_DB=WormBase Gene ID /WP=CE04083 /GEN=tsp-9 /TR=Q18177 /GB=AAA82355.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=transpanin
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 21      4grp_highest_8_8 > 24      4grp_high_8_8 > 44      6grp_highest_nonorm > 61      6grp_total > 32      4grp_total > 52      6grp_highest_sub > De      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 389
1 2 3 4 range
A 521.3
(3)
P 		473
(1.6)
P 		449.1
(0.9)
P 		311.1
(-3)
P 		210
B 410.4
(-0.1)
P 		597.1
(3)
P 		519.3
(1.7)
P 		235.3
(-3)
P 		362
C 526.2
(1.3)
P 		624
(3)
P 		425.9
(-0.5)
P 		287.6
(-3)
P 		336
avr 486
(1.4) 		564.7
(3) 		464.8
(0.9) 		278
(-3) 		287

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 281
1 2 3 4 5 6 range
A 492.1
(2.9)
P 		498.3
(3)
P 		446.7
(1.8)
P 		402.2
(0.7)
P 		356.2
(-0.4)
P 		249.1
(-3)
P 		249
B 479.7
(1.6)
P 		396
(-0.8)
P 		530.5
(3)
P 		347.3
(-2.2)
P 		325.5
(-2.8)
P 		317.4
(-3)
P 		213
C 442.8
(0.9)
P 		464.5
(1.4)
P 		523.4
(3)
P 		498.1
(2.3)
P 		344
(-1.8)
P 		298.4
(-3)
P 		225
avr 471.5
(2.2) 		452.9
(1.7) 		500.2
(3) 		415.9
(0.6) 		341.9
(-1.5) 		288.3
(-3) 		212
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 189.8
(3)
P 		102.7
(-0.6)
P 		117.4
(-0)
P 		45.5
(-3)
P 		144
B 130.9
(2)
P 		147.5
(3)
P 		120.3
(1.3)
P 		50.1
(-3)
P 		97
C 174.2
(2.8)
P 		179.4
(3)
P 		148.4
(1.6)
P 		48.5
(-3)
P 		131
avr 165
(3) 		143.2
(1.9) 		128.7
(1.1) 		48
(-3) 		117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 90.7
(-1.5)
P 		177.2
(3)
P 		97.3
(-1.1)
P 		102
(-0.9)
P 		107.5
(-0.6)
P 		60.6
(-3)
P 		117
B 166.9
(3)
P 		131.8
(0.2)
P 		128.8
(-0.1)
P 		92
(-3)
P 		132.3
(0.2)
P 		118.3
(-0.9)
P 		75
C 164.1
(3)
P 		141.7
(0.9)
P 		133.2
(0.1)
P 		100.2
(-3)
P 		111.3
(-1.9)
P 		99.9
(-3)
P 		64
avr 140.6
(2) 		150.2
(3) 		119.8
(-0.2) 		98.1
(-2.5) 		117
(-0.5) 		92.9
(-3) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190414_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18490
Sequence Type Exemplar sequence
Representative Public ID C25G6.2 NCBI
Target Description C25G6.2 /REP_DB=WormBase Gene ID /WP=CE04083 /GEN=tsp-9 /TR=Q18177 /GB=AAA82355.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=transpanin
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_075831(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075831 NCBI Caenorhabditis elegans C25G6.2 (transpanin) mRNA, complete cds. 11/11 None
SNAP00000031323 ENSEMBL cdna:SNAP chromosome:CEL140:X:1246021:1247494:1 11/11 None
GENEFINDER00000031334 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1246021:1247494:1 11/11 None
C25G6.2 ENSEMBL cdna:known chromosome:CEL140:X:1246012:1247494:1 gene:C25G6.2 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:1246020-1247494(+) 100.0 100.0
Public Domain and Genome References
Gene Title transpanin
Gene Symbol tsp-9
Ensembl C25G6.2
Entrez Gene 180472 Entrez gene
SwissProt Q18177 EMBL-EBI
WormBase CE04083 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.15270.1.S1_AT similar to tetraspan 2 cfa
CANINE_2:CFAAFFX.15271.1.S1_AT similar to tetraspan 2 cfa
CANINE_2:CFAAFFX.15271.1.S1_S_AT similar to tetraspan 2 cfa
CHICKEN:GGA.14155.1.S1_AT tetraspanin 2 gga
HG-U133_PLUS_2:214606_AT tetraspanin 2 hs
HG-U133A_2:214606_AT tetraspanin 2 hs
HG-FOCUS:214606_AT tetraspanin 2 hs
HG-U133A:214606_AT tetraspanin 2 hs
HG-U95AV2:35497_AT tetraspanin 2 hs
HU35KSUBA:RC_AA142919_AT tetraspanin 2 hs
HU35KSUBD:RC_AA449071_AT tetraspanin 2 hs
U133_X3P:HS.234863.0.S2_3P_AT tetraspanin 2 hs
U133_X3P:HS.234863.0.S1_3P_AT tetraspanin 2 hs
U133_X3P:HS.122540.0.S2_3P_S_AT tetraspanin 2 hs
U133_X3P:HS.122540.0.S2_3P_AT tetraspanin 2 hs
HG-U133_PLUS_2:227233_AT tetraspanin 2 hs
HG-U133B:227233_AT tetraspanin 2 hs
HG-U133_PLUS_2:227236_AT tetraspanin 2 hs
HG-U133B:227236_AT tetraspanin 2 hs
HG-U95B:53693_AT tetraspanin 2 hs
HG-U95C:54792_AT tetraspanin 2 hs
HG-U95C:57331_AT tetraspanin 2 hs
HG-U95D:74712_AT tetraspanin 2 hs
MOUSE430A_2:1432417_A_AT tetraspan 2 mm
MOE430A:1432417_A_AT tetraspan 2 mm
MOUSE430_2:1432417_A_AT tetraspan 2 mm
MG-U74BV2:107592_AT tetraspan 2 mm
MG-U74CV2:138078_AT tetraspan 2 mm
MOE430A:1424568_AT tetraspan 2 mm
MOUSE430A_2:1424568_AT tetraspan 2 mm
MOUSE430_2:1424568_AT tetraspan 2 mm
MOE430A:1424567_AT tetraspan 2 mm
MOUSE430A_2:1424567_AT tetraspan 2 mm
MOUSE430_2:1424567_AT tetraspan 2 mm
MU19KSUBC:TC36040_AT Tetraspan 2 (Tspan2), mRNA mm
RAE230A:1368105_AT tetraspan 2 rn
RAT230_2:1368105_AT tetraspan 2 rn
RG-U34B:RC_AA899764_AT tetraspan 2 rn
RG-U34C:RC_AI228231_AT tetraspan 2 rn
RAE230A:1368104_AT tetraspan 2 rn
RAT230_2:1368104_AT tetraspan 2 rn
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 AAA82355 Tetraspanin family protein 9 [Caenorhabditis elegans] ref|NP_508232.1| C25G6.2 [Caenorhabditis elegans] 2.0E-97
blast CAE63564 Hypothetical protein CBG08051 [Caenorhabditis briggsae] 2.0E-82
Protein Domains
Database ID Description E-Value
Pfam IPR000301 EMBL-EBI CD9/CD37/CD63 antigen 1.9E-49
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508232.1 4 13-35,66-88,95-117,198-220
C25G6.2 4 13-35,66-88,95-117,198-220
SNAP00000031323 4 13-35,66-88,95-117,198-220
GENEFINDER00000031334 4 13-35,66-88,95-117,198-220
Sequence
Target Sequence 
>C. ELEGANS:190414_AT
ttatctgcggattctcgttgtgggcaaacttggacaaaaactttggaagccacttgtcgg
actttgttcggcaaattgaaggaattgaccagaaattggttaatgagattgctgaatacc
aagcgtctctctggattctggttgctgttggagcccttctcttccttgtcggattttttg
gatgctgtggagccggatgtgaaagcccagtacttctcggacttttcatcttcatcattg
tcattctcaccgctgtcgagctcggagcaactgtgttcgcaatgactaaccgggaagaat
ttgtgtcctcgattcaacaagtccttaagaagtcctcggcaacttatgaactccgcaaaa
acatcaagccaatccaaaacgtgttccagtgctgtggagcaactgctcagactcagaatc
gttacattcaagatggtttatgtggtcctgaaccgctcagtgccccggtcaactgcttcg
accgaatctcacatatggtacaatcatggggcgaatccattgtggtggtcgctttcctgc
ttctagcaatcgagctgttcgcaatcctgttctcttgcattttgtgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTATCTGCGGATTCTCGTTGTGGGC 156 679 86 Antisense
GGAAGCCACTTGTCGGACTTTGTTC 266 531 130 Antisense
TCTCTGGATTCTGGTTGCTGTTGGA 461 611 213 Antisense
ATGTGAAAGCCCAGTACTTCTCGGA 449 11 282 Antisense
ACTTTTCATCTTCATCATTGTCATT 339 103 306 Antisense
AGCTCGGAGCAACTGTGTTCGCAAT 270 81 344 Antisense
GTCCTCGGCAACTTATGAACTCCGC 466 475 417 Antisense
TCAACTGCTTCGACCGAATCTCACA 314 631 554 Antisense
GCTTTCCTGCTTCTAGCAATCGAGC 220 305 616 Antisense
AATCGAGCTGTTCGCAATCCTGTTC 357 169 633 Antisense
ATCCTGTTCTCTTGCATTTTGTGCA 544 39 649 Antisense
Sequence Source Affymetrix Proprietary Database