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[183545_s_at]

Description C05D9.1 /REP_DB=WormBase Gene ID /WP=CE07927 /TR=Q9GYJ9 /GB=AAF98602.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 01      6grp_high1_10_10 > 0      4grp_highest_8_8 > 15      4grp_high_8_8 > 14      6grp_highest_nonorm > 81      6grp_total > 09      4grp_total > 09      6grp_cgc > 0      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 333
1 2 3 4 range
A 300.2
(-3)
P 		333.2
(-2.4)
P 		364.8
(-1.8)
P 		617.5
(3)
P 		317
B 324.1
(-1.8)
P 		285
(-3)
P 		319.6
(-1.9)
P 		479
(3)
P 		194
C 312.7
(-3)
P 		397.7
(-0.3)
P 		312.7
(-3)
P 		500.8
(3)
P 		188
avr 312.3
(-3) 		338.6
(-2.3) 		332.4
(-2.5) 		532.4
(3) 		220

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 168
1 2 3 4 5 6 range
A 346.3
(3)
P 		246.4
(-0.8)
P 		283.8
(0.6)
P 		335
(2.6)
P 		221.1
(-1.8)
P 		190.4
(-3)
P 		156
B 358.6
(3)
P 		211.8
(-3)
P 		337.9
(2.2)
P 		304.7
(0.8)
P 		269.6
(-0.6)
P 		238.9
(-1.9)
P 		147
C 301.4
(2)
P 		299
(1.8)
P 		270.6
(-0.7)
P 		313.2
(3)
P 		272.1
(-0.6)
P 		244.7
(-3)
P 		69
avr 335.4
(3) 		252.4
(-1.5) 		297.4
(0.9) 		317.6
(2) 		254.3
(-1.4) 		224.7
(-3) 		111
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 44
1 2 3 4 range
A 109.3
(3)
P 		72.3
(-3)
P 		95.4
(0.7)
P 		90.4
(-0.1)
P 		37
B 103.3
(3)
P 		70.4
(-3)
P 		74.1
(-2.3)
P 		102.1
(2.8)
P 		33
C 103.5
(0.8)
P 		114.4
(3)
P 		109
(1.9)
P 		84.4
(-3)
P 		30
avr 105.4
(3) 		85.7
(-3) 		92.8
(-0.8) 		92.3
(-1) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 63.8
(-0.5)
P 		87.6
(3)
P 		61.8
(-0.7)
P 		85
(2.6)
P 		66.7
(-0)
P 		46.3
(-3)
P 		41
B 124.8
(3)
P 		70.5
(-3)
P 		82.1
(-1.7)
P 		80.7
(-1.9)
P 		109.5
(1.3)
P 		89.1
(-0.9)
P 		54
C 111.7
(3)
P 		91.2
(0.5)
P 		68.9
(-2.3)
P 		63
(-3)
P 		88
(0.1)
P 		81.9
(-0.7)
P 		49
avr 100.1
(3) 		83.1
(-0.5) 		70.9
(-3) 		76.2
(-1.9) 		88.1
(0.5) 		72.4
(-2.7) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 183545_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18421
Sequence Type Exemplar sequence
Representative Public ID C05D9.1 NCBI
Target Description C05D9.1 /REP_DB=WormBase Gene ID /WP=CE07927 /TR=Q9GYJ9 /GB=AAF98602.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=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_075815(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075815 NCBI Caenorhabditis elegans Sorting NeXin family member (snx-1) (snx-1) mRNA, complete cds. 11/11 None
GENEFINDER00000015520 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1125760:1132408:1 11/11 None
SNAP00000015516 ENSEMBL cdna:SNAP chromosome:CEL140:X:1129008:1131887:1 11/11 None
C05D9.1.2 ENSEMBL cdna:known chromosome:CEL140:X:1128981:1132922:1 gene:C05D9.1 11/11 None
C05D9.1.1 ENSEMBL cdna:known chromosome:CEL140:X:1128983:1132699:1 gene:C05D9.1 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:1129007-1132408(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol snx-1
Ensembl C05D9.1
Entrez Gene 180468 Entrez gene
SwissProt Q9GYJ9 EMBL-EBI
WormBase CE07927 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:250714_AT phox (PX) domain-containing protein at
CANINE:1597104_AT similar to Sorting nexin-2 cfa
CANINE:1591201_AT similar to Sorting nexin-2 cfa
CANINE_2:CFA.20156.1.S1_S_AT similar to Sorting nexin-2 cfa
CANINE_2:CFAAFFX.1737.1.S1_S_AT similar to Sorting nexin-2 cfa
DROSOPHILA_2:1625722_AT dm
DROSGENOME1:145712_AT dm
HG-U133_PLUS_2:202114_AT sorting nexin 2 hs
HG-U133A:202114_AT sorting nexin 2 hs
HG-FOCUS:202114_AT sorting nexin 2 hs
HG-U133A_2:202114_AT sorting nexin 2 hs
HU35KSUBA:RC_AA035577_AT sorting nexin 2 hs
HU35KSUBC:RC_N59854_AT sorting nexin 2 hs
HG-U133A:202113_S_AT sorting nexin 2 hs
HG-U133_PLUS_2:202113_S_AT sorting nexin 2 hs
HG-U133A_2:202113_S_AT sorting nexin 2 hs
U133_X3P:G4507140_3P_AT sorting nexin 2 hs
U133_X3P:G2827433_3P_A_AT sorting nexin 2 hs
HG-U95AV2:41462_AT sorting nexin 2 hs
HG-U95B:49642_AT sorting nexin 2 hs
HG-U95C:64317_F_AT sorting nexin 2 hs
HG-U95C:64318_F_AT sorting nexin 2 hs
MOE430A:1460224_AT sorting nexin 2 mm
MOUSE430A_2:1460224_AT sorting nexin 2 mm
MOUSE430_2:1460224_AT sorting nexin 2 mm
MG-U74AV2:96332_AT sorting nexin 2 mm
MG-U74AV2:96333_G_AT sorting nexin 2 mm
MU11KSUBA:C78707_RC_AT sorting nexin 2 mm
MU11KSUBA:C78707_RC_G_AT sorting nexin 2 mm
MU11KSUBB:Z31297_S_AT sorting nexin 2 mm
MG-U74AV2:96331_AT sorting nexin 2 mm
MU19KSUBC:TC37773_AT Sorting nexin 2, mRNA (cDNA clone MGC:6322 IMAGE:2812557) mm
MU19KSUBC:TC40721_AT Sorting nexin 2, mRNA (cDNA clone MGC:6322 IMAGE:2812557) mm
MU19KSUBC:TC40721_G_AT Sorting nexin 2, mRNA (cDNA clone MGC:6322 IMAGE:2812557) mm
RG-U34B:RC_AI011851_AT sorting nexin 2 (predicted) rn
RG-U34C:RC_AI105185_AT sorting nexin 2 (predicted) rn
RAE230A:1374401_AT sorting nexin 2 (predicted) rn
RAT230_2:1374401_AT sorting nexin 2 (predicted) rn
RG-U34C:RC_AI172540_AT Sorting nexin 2 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF98602 Sorting nexin protein 1 [Caenorhabditis elegans] ref|NP_508216.1| Sorting NeXin family member (snx-1) [Caenorhabditis elegans] 0.0
blast CAE60517 Hypothetical protein CBG04136 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001683 EMBL-EBI Phox-like 5.2E-30
Pfam IPR002000 EMBL-EBI Lysosome-associated membrane glycoprotein (Lamp)/CD68 7.3E-10
Pfam IPR001683 EMBL-EBI Phox-like 5.2E-30
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000015520 1 236-258
Sequence
Target Sequence 
>C. ELEGANS:183545_S_AT
gatgagcttgatgaggcgttgcgcaagctgtacacggtcacggagacgctagtggcttct
cgtagagatatggcgaccagtggagagcaattggggaaggccctgtcaatgcttgctgct
tgtgaagagtccacatcactttcccgtgccctctcctcactgaccgacgtcactgagaac
gtctctgctgtgtatgggaaacaagccgaagttgacaactcgaagttctcggagtcgatc
tacgagtacatcatgctgatctcggcgctgaaggatgtgtttggtgagcgtgttcgtgct
tggcagcaatggcaggatgctcaacagacgttggctcgcaaacgcgatcagaagacgaag
attgacttgtcggcgggcggcagaaatgagcggtctgatcagttgaagggagagattgag
gatacggtgcaaaagatggatcagctggagcaacactttatcgagctgagcaaggcgatt
cgtgaggaggttgcgcgttttgatgccgatcgcaagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGAGCTTGATGAGGCGTTGCGCA 685 411 802 Antisense
CGTTGCGCAAGCTGTACACGGTCAC 548 247 818 Antisense
ACGGAGACGCTAGTGGCTTCTCGTA 381 95 841 Antisense
CCTGTCAATGCTTGCTGCTTGTGAA 39 267 903 Antisense
TCCTCACTGACCGACGTCACTGAGA 92 593 955 Antisense
AGAACGTCTCTGCTGTGTATGGGAA 593 73 977 Antisense
TGCTGATCTCGGCGCTGAAGGATGT 539 581 1055 Antisense
TTTGGTGAGCGTGTTCGTGCTTGGC 122 655 1081 Antisense
GATGCTCAACAGACGTTGGCTCGCA 703 413 1117 Antisense
ACTTGTCGGCGGGCGGCAGAAATGA 164 103 1166 Antisense
GCGCGTTTTGATGCCGATCGCAAGC 523 287 1294 Antisense
Sequence Source Affymetrix Proprietary Database