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[191157_s_at] integral membrane protein

Description T23H2.1 /REP_DB=WormBase Gene ID /WP=CE14106 /TR=P91495 /GB=AAC48199.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=integral membrane protein
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 77      6grp_total > 46      4grp_total > 52      6grp_highest_sub > Cu      6grp_cgc > 25      6grp_high1_sub > Cu      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1129
1 2 3 4 range
A 1703.9
(3)
P 		1365
(0.7)
P 		1428
(1.1)
P 		809.1
(-3)
P 		895
B 1615.2
(2.5)
P 		1703.9
(3)
P 		1411.2
(1.4)
P 		628
(-3)
P 		1076
C 1674.7
(2.5)
P 		1756.8
(3)
P 		1675.8
(2.5)
P 		786.8
(-3)
P 		970
avr 1664.6
(3) 		1608.6
(2.6) 		1505
(2) 		741.3
(-3) 		923

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 711
1 2 3 4 5 6 range
A 1287.8
(1.2)
P 		1422.3
(3)
P 		1053.7
(-1.9)
P 		1050.3
(-2)
P 		972.1
(-3)
P 		1366.5
(2.3)
P 		450
B 1549.6
(3)
P 		1523.3
(2.8)
P 		1228.6
(0.3)
P 		1070
(-1)
P 		838.3
(-3)
P 		1501.9
(2.6)
P 		711
C 1241.6
(0.6)
P 		1425.3
(3)
P 		1363.7
(2.2)
P 		1159.4
(-0.5)
P 		968.9
(-3)
P 		1341.7
(1.9)
P 		456
avr 1359.7
(1.9) 		1457
(3) 		1215.3
(0.3) 		1093.2
(-1.1) 		926.4
(-3) 		1403.4
(2.4) 		531
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 502
1 2 3 4 range
A 620.4
(3)
P 		296.3
(-0.9)
P 		373.3
(0)
P 		118.4
(-3)
P 		502
B 515.1
(3)
P 		420.8
(1.5)
P 		327
(0)
P 		133.8
(-3)
P 		381
C 554.4
(2.6)
P 		505.1
(1.9)
P 		584.1
(3)
P 		132.7
(-3)
P 		451
avr 563.3
(3) 		407.4
(0.8) 		428.1
(1.1) 		128.3
(-3) 		435

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 331
1 2 3 4 5 6 range
A 237.4
(-2.8)
P 		505.9
(3)
P 		229.5
(-3)
P 		266.4
(-2.2)
P 		293.3
(-1.6)
P 		332.7
(-0.8)
P 		276
B 539.2
(2.5)
P 		507
(1.9)
P 		298.3
(-2.7)
P 		283.4
(-3)
P 		340.6
(-1.8)
P 		560
(3)
P 		277
C 460.2
(3)
P 		434.9
(2.3)
P 		347.1
(0)
P 		233.2
(-3)
P 		313.5
(-0.9)
P 		449.1
(2.7)
P 		227
avr 412.3
(1.1) 		482.6
(3) 		291.6
(-2.2) 		261
(-3) 		315.8
(-1.5) 		447.3
(2) 		222
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191157_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2438
Sequence Type Exemplar sequence
Representative Public ID T23H2.1 NCBI
Target Description T23H2.1 /REP_DB=WormBase Gene ID /WP=CE14106 /TR=P91495 /GB=AAC48199.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=integral membrane protein
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_059454(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059454 NCBI Caenorhabditis elegans Nuclear Pore complex Protein family member (npp-12) (npp-12) mRNA, complete cds. 11/11 A 
GENEFINDER00000032988 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6454768:6461732:1 11/11 None
SNAP00000032985 ENSEMBL cdna:SNAP chromosome:CEL140:I:6455467:6461732:1 11/11 None
T23H2.1 ENSEMBL cdna:known chromosome:CEL140:I:6455467:6462077:1 gene:T23H2.1 11/11 A 
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:6455395-6461661(+) 100.0 100.0
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
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
GENEFINDER00000032988 1 1795-1817
SNAP00000032985 1 1749-1771
Sequence
Target Sequence 
>C. ELEGANS:191157_S_AT
gcgcctacatacgactcgaagcacatagtcgtttctggatgtgaaggagatattgtatcg
gtcgagaaaacctcaagatcaagtgataaacattctgcaaaggcaaatgtgttctataac
atccgtctcaacatcaaatcagcagctctgttcactgaacatgcaaagaaatgccaaatt
tctgttgagaacacgttgactggtcaagtgattcgtgttcctgtcactgttcagttgttg
gatgagactgctaaacaagtatacaacgcacttgaaagtcgtggggtagtagatgttctt
ctgattcttgcacataagtactctcacgctattccaacgttgctgtggacttgtcttgtc
ggaatcatcattctagttatcggaatttatgttaagatgaatgtattcgataaaactggc
tcatttggtgataatactctcaataacacgacacatcaaacatcgatggcgagctctttg
agtagcacaaatgtgagtcttcgcgaaccagtttttcgttcaacgccaattgctggatca
ccacaagtatcccttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCGCCTACATACGACTCGAAGCACA 638 285 4933 Antisense
ACATCCGTCTCAACATCAAATCAGC 357 107 5051 Antisense
TGGTCAAGTGATTCGTGTTCCTGTC 584 551 5133 Antisense
GTAGATGTTCTTCTGATTCTTGCAC 368 457 5221 Antisense
CTTGCACATAAGTACTCTCACGCTA 269 217 5239 Antisense
CTCACGCTATTCCAACGTTGCTGTG 310 229 5255 Antisense
GTTGCTGTGGACTTGTCTTGTCGGA 110 441 5271 Antisense
GATGGCGAGCTCTTTGAGTAGCACA 67 407 5397 Antisense
GAGTCTTCGCGAACCAGTTTTTCGT 703 397 5427 Antisense
GTTCAACGCCAATTGCTGGATCACC 190 445 5450 Antisense
GCTGGATCACCACAAGTATCCCTTC 196 295 5464 Antisense
Sequence Source Affymetrix Proprietary Database