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[171843_x_at] integral membrane protein

Description CEC9183_rc /REP_DB=TREMBL Accession /GB=C10918 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk159h8 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 45      4grp_high_8_8 > 44      6grp_total > 03      4grp_total > 51      6grp_cgc > 40      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 83
1 2 3 4 range
A 68.1
(-1.4)
P 		129.3
(3)
P 		60.7
(-1.9)
P 		45.9
(-3)
P 		83
B 75.1
(1.2)
P 		71.3
(0.5)
P 		85.7
(3)
P 		50.5
(-3)
A 		35
C 83
(1)
P 		71.6
(-3)
P 		78
(-0.8)
P 		88.8
(3)
P 		17
avr 75.4
(-0.2) 		90.7
(3) 		74.8
(-0.3) 		61.7
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 71.1
(3)
P 		68.8
(2.7)
P 		33.9
(-2.3)
A 		56.8
(1)
A 		28.9
(-3)
P 		52.2
(0.3)
A 		42
B 46
(-3)
A 		57.4
(-0.4)
P 		60.2
(0.2)
A 		72.3
(3)
P 		53.6
(-1.3)
A 		64.1
(1.1)
P 		26
C 61.3
(1)
P 		71.9
(3)
P 		64.5
(1.6)
P 		47.3
(-1.6)
A 		63.1
(1.4)
P 		39.9
(-3)
A 		32
avr 59.5
(0.8) 		66
(3) 		52.9
(-1.5) 		58.8
(0.5) 		48.5
(-3) 		52.1
(-1.8) 		18
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 24.8
(2.1)
P 		28.1
(3)
P 		15.9
(-0.4)
P 		6.7
(-3)
P 		21
B 24
(3)
P 		17.6
(0.1)
P 		19.9
(1.1)
P 		10.8
(-3)
A 		13
C 27.5
(3)
P 		20.6
(-0.3)
P 		27.2
(2.9)
P 		15
(-3)
P 		13
avr 25.4
(3) 		22.1
(1.6) 		21
(1.2) 		10.8
(-3) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 13.1
(-1)
P 		24.5
(3)
P 		7.4
(-3)
A 		14.4
(-0.5)
A 		8.7
(-2.5)
P 		12.7
(-1.1)
A 		17
B 16
(-2.1)
A 		19.1
(-0.1)
P 		14.6
(-3)
A 		19.2
(-0)
P 		21.8
(1.6)
A 		23.9
(3)
P 		9
C 22.7
(3)
P 		21.9
(2.6)
P 		16.4
(0.1)
P 		9.5
(-3)
A 		20.4
(2)
P 		13.4
(-1.2)
A 		13
avr 17.3
(0) 		21.8
(3) 		12.8
(-3) 		14.4
(-1.9) 		17
(-0.2) 		16.7
(-0.4) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171843_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27807
Sequence Type Exemplar sequence
Representative Public ID CEC9183 NCBI
Target Description CEC9183_rc /REP_DB=TREMBL Accession /GB=C10918 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk159h8 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059454
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
T23H2.1 ENSEMBL cdna:known chromosome:CEL140:I:6455467:6462077:1 gene:T23H2.1 A 
NM_059454 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-12) (npp-12) mRNA, complete cds. 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
chrI:6461715-6461920(+) 63.04 63.04
Public Domain and Genome References
Gene Title integral membrane protein
Gene Symbol npp-12
Ensembl T23H2.1
Entrez Gene 172348 Entrez gene
SwissProt P91495 EMBL-EBI
WormBase CE14106 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249354_AT expressed protein at
CANINE:1600355_AT similar to nucleoporin 210 cfa
CANINE_2:CFA.13989.1.A1_AT similar to nucleoporin 210 cfa
CANINE_2:CFAAFFX.7449.1.S1_AT similar to nucleoporin 210 cfa
CANINE_2:CFAAFFX.7509.1.S1_AT similar to nucleoporin 210 cfa
CANINE_2:CFAAFFX.7516.1.S1_AT similar to nucleoporin 210 cfa
CANINE_2:CFAAFFX.7516.1.S1_S_AT similar to nucleoporin 210 cfa
DROSGENOME1:151321_AT dm
DROSOPHILA_2:1629125_AT dm
DROSOPHILA_2:1628986_AT dm
DROSGENOME1:154094_AT dm
CHICKEN:GGAAFFX.3178.1.S1_AT similar to Nup210 protein gga
CHICKEN:GGAAFFX.3178.2.S1_S_AT similar to Nup210 protein gga
HG-U133_PLUS_2:220035_AT nucleoporin 210kDa hs
HG-U133A:220035_AT nucleoporin 210kDa hs
HG-U133A_2:220035_AT nucleoporin 210kDa hs
HU35KSUBA:RC_AA279841_AT nucleoporin 210kDa hs
HU35KSUBA:AA250870_S_AT nucleoporin 210kDa hs
HU35KSUBC:RC_AA478999_AT nucleoporin 210kDa hs
U133_X3P:G13376397_3P_AT nucleoporin 210kDa hs
U133_X3P:HS.56966.1.S1_3P_A_AT nucleoporin 210kDa hs
U133_X3P:HS.56966.0.S1_3P_X_AT nucleoporin 210kDa hs
U133_X3P:HS.56966.0.S1_3P_A_AT nucleoporin 210kDa hs
HG-U133A_2:212315_S_AT nucleoporin 210kDa hs
HG-U133_PLUS_2:212315_S_AT nucleoporin 210kDa hs
HG-U133A:212315_S_AT nucleoporin 210kDa hs
HG-U133A_2:212316_AT nucleoporin 210kDa hs
HG-U133_PLUS_2:212316_AT nucleoporin 210kDa hs
HG-U133A:212316_AT nucleoporin 210kDa hs
HG-U133A_2:213947_S_AT nucleoporin 210kDa hs
HG-U133_PLUS_2:213947_S_AT nucleoporin 210kDa hs
HG-U133A:213947_S_AT nucleoporin 210kDa hs
HG-U95AV2:41812_S_AT nucleoporin 210kDa hs
HG-U95D:90651_AT nucleoporin 210kDa hs
U133_X3P:HS2.385676.1.S1_3P_AT Nucleoporin 210kDa hs
HG-U133_PLUS_2:1562723_AT Nucleoporin 210kDa hs
HG-U95C:54754_R_AT Nucleoporin 210kDa hs
MG-U74BV2:108076_AT nucleoporin 210 mm
MOE430A:1417585_AT nucleoporin 210 mm
MOUSE430A_2:1417585_AT nucleoporin 210 mm
MOUSE430_2:1417585_AT nucleoporin 210 mm
MOE430B:1443310_AT nucleoporin 210 mm
MOUSE430_2:1443310_AT nucleoporin 210 mm
MG-U74BV2:117230_AT Nucleoporin 210 (Nup210), mRNA mm
MU19KSUBA:TC23639_AT Nucleoporin 210 (Nup210), mRNA mm
MU19KSUBA:TC23639_G_AT Nucleoporin 210 (Nup210), mRNA mm
MU19KSUBB:TC33364_AT Nucleoporin 210 (Nup210), mRNA mm
MU19KSUBC:TC40310_AT Nucleoporin 210 (Nup210), mRNA mm
RG-U34A:Y00826_AT nuclear pore membrane glycoprotein 210 rn
RAE230A:1367919_AT nuclear pore membrane glycoprotein 210 rn
RAT230_2:1367919_AT nuclear pore membrane glycoprotein 210 rn
RAE230B:1384596_AT Nuclear pore membrane glycoprotein 210 rn
RAT230_2:1384596_AT Nuclear pore membrane glycoprotein 210 rn
RG-U34C:RC_AI073013_AT Nuclear pore membrane glycoprotein 210 rn
Protein Similarities
Method ID Description E-Value
blast AAC48199 Nuclear pore complex protein protein 12 [Caenorhabditis elegans] ref|NP_491855.1| Nuclear Pore complex Protein family member (npp-12) [Caenorhabditis elegans] 0.0
blast CAE67193 Hypothetical protein CBG12629 [Caenorhabditis briggsae] 0.0
blast CAC51060 Hypothetical protein Y39B6A.47 [Caenorhabditis elegans] ref|NP_741681.2| Y39B6A.47 [Caenorhabditis elegans] 1.0E-162
Protein Domains
Database ID Description E-Value
Pfam IPR003343 EMBL-EBI Bacterial Ig-like, group 2 5.3E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491855.1 1 1749-1771
T23H2.1 1 1749-1771
Sequence
Target Sequence 
>C. ELEGANS:171843_X_AT
ttccctggtgggtctacttatatctccacacatatttcaagtcccacccatccactttca
ggaagttttagggntatttctttcgtctctttccacccctaaannnnnnnnnnnnnnnnn
nnnnnnnnntatcatgattgtgaactctaatttggttaatttccg

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCCTGGTGGGTCTACTTATATCT 9 697 84 Antisense
CCCTGGTGGGTCTACTTATATCTCC 210 261 86 Antisense
GGTGGGTCTACTTATATCTCCACAC 11 501 90 Antisense
TGGGTCTACTTATATCTCCACACAT 671 553 92 Antisense
GTCTACTTATATCTCCACACATATT 620 469 95 Antisense
ACTTATATCTCCACACATATTTCAA 443 103 99 Antisense
TCTCCACACATATTTCAAGTCCCAC 107 611 106 Antisense
CCACCCATCCACTTTCAGGAAGTTT 645 271 127 Antisense
CATCCACTTTCAGGAAGTTTTAGGG 175 211 132 Antisense
ATCATGATTGTGAACTCTAATTTGG 122 27 214 Antisense
TGAACTCTAATTTGGTTAATTTCCG 65 573 224 Antisense
Sequence Source Affymetrix Proprietary Database