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[173805_at]

Description AU111034 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C52E12.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AU111034 /WB_GENE_ID=C52E12.3 /WP=CE04263 /CHR=2 /FEA=Genomic Cluster /GEN=sqv-7 /DEF=Caenorhabditis elegans cDNA clone:yk723b12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 99      4grp_highest_8_8 > 04      4grp_high_8_8 > 37      6grp_highest_nonorm > 92      6grp_total > 99      4grp_total > 42      6grp_highest_sub > In      6grp_cgc > 79      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 193
1 2 3 4 range
A 163.2
(-2.3)
P 		291.6
(3)
P 		147.3
(-3)
P 		179.9
(-1.6)
P 		144
B 152.4
(-3)
P 		198.7
(1.6)
P 		191.7
(0.9)
P 		212.8
(3)
P 		60
C 98.3
(-3)
P 		263.9
(2.2)
P 		291
(3)
P 		205.5
(0.3)
P 		193
avr 138
(-3) 		251.4
(3) 		210
(0.8) 		199.4
(0.2) 		113

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 251
1 2 3 4 5 6 range
A 255.5
(0.3)
P 		176.4
(-3)
P 		195.3
(-2.2)
P 		240.8
(-0.3)
P 		318.5
(3)
P 		249.2
(0.1)
P 		142
B 185
(-3)
P 		328.9
(0.9)
P 		230.7
(-1.8)
P 		284.8
(-0.3)
P 		326.9
(0.8)
P 		406.8
(3)
P 		222
C 211.1
(-2)
P 		275.1
(-0.4)
P 		168.2
(-3)
P 		249.4
(-1.1)
P 		392.4
(2.4)
P 		419
(3)
P 		251
avr 217.2
(-2.3) 		260.1
(-0.7) 		198.1
(-3) 		258.3
(-0.7) 		345.9
(2.5) 		358.3
(3) 		160
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 59.4
(2.4)
P 		63.3
(3)
P 		38.5
(-1)
P 		26.3
(-3)
P 		37
B 48.6
(2.4)
P 		49.1
(3)
P 		44.4
(-3)
P 		45.4
(-1.7)
P 		5
C 32.6
(-3)
P 		75.9
(0.8)
P 		101.4
(3)
P 		34.6
(-2.8)
P 		69
avr 46.9
(-0.5) 		62.8
(3) 		61.4
(2.7) 		35.4
(-3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 47.1
(-2.5)
P 		62.7
(-0.7)
P 		42.5
(-3)
P 		61.1
(-0.9)
P 		96.1
(3)
P 		60.7
(-1)
P 		54
B 64.4
(-2.5)
P 		109.5
(0.4)
P 		56
(-3)
P 		75.4
(-1.8)
P 		132.8
(1.8)
P 		151.7
(3)
P 		96
C 78.2
(-0.8)
P 		83.9
(-0.5)
P 		42.8
(-3)
P 		50.2
(-2.5)
P 		127
(2.2)
P 		140.3
(3)
P 		98
avr 63.2
(-1.6) 		85.4
(0.2) 		47.1
(-3) 		62.2
(-1.7) 		118.6
(3) 		117.6
(2.9) 		72
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173805_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23771
Sequence Type Exemplar sequence
Representative Public ID AU111034 NCBI
Target Description AU111034 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C52E12.3 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AU111034 /WB_GENE_ID=C52E12.3 /WP=CE04263 /CHR=2 /FEA=Genomic Cluster /GEN=sqv-7 /DEF=Caenorhabditis elegans cDNA clone:yk723b12 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_063035(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063035 NCBI Caenorhabditis elegans SQuashed Vulva family member (sqv-7) (sqv-7) mRNA, complete cds. 11/11 None
C52E12.3 ENSEMBL cdna:known chromosome:CEL140:II:7010759:7012621:-1 gene:C52E12.3 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
chrII:7010767-7012618(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol sqv-7
Ensembl C52E12.3
Entrez Gene 174145 Entrez gene
SwissProt Q18779 EMBL-EBI
WormBase CE04263 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:14008_AT UDP-glucuronic acid/UDP-N-acetylgalactosamine transporter-related at
ATH1-121501:253486_AT UDP-glucuronic acid/UDP-N-acetylgalactosamine transporter-related at
DROSOPHILA_2:1626038_AT fringe connection dm
DROSGENOME1:148950_AT fringe connection dm
HG-U133A:209713_S_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133A_2:209713_S_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133_PLUS_2:209713_S_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HUGENEFL:D87449_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
U133_X3P:G11463948_3P_A_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
U133_X3P:HS.82635.0.S3_3P_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
U133_X3P:HS.82635.0.S2_3P_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133A_2:209711_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133_PLUS_2:209711_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133A:209711_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133A_2:209712_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133_PLUS_2:209712_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U133A:209712_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U95AV2:37888_AT solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HG-U95D:71405_AT Solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
HU35KSUBD:RC_R33229_F_AT Solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 hs
MG-U74CV2:140836_AT MKIAA0260 protein mm
MOUSE430_2:1445629_AT MKIAA0260 protein mm
MOE430B:1445629_AT MKIAA0260 protein mm
Protein Similarities
Method ID Description E-Value
blast AAA93454 Squashed vulva protein 7 [Caenorhabditis elegans] ref|NP_495436.1| SQuashed Vulva family member (sqv-7) [Caenorhabditis elegans] sp|Q18779|SQV7_CAEEL UDP-sugar transporter sqv-7 (Squashed vulva protein 7) 0.0
blast CAE66011 Hypothetical protein CBG11203 [Caenorhabditis briggsae] 1.0E-176
blast NP_001003877 solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1 [Danio rerio] gb|AAT68140.1| UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter [Danio rerio] 6.0E-90
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495436.1 9 15-34,41-63,86-108,129-151,155-174,187-209,224-246,253-275,280-302
C52E12.3 9 15-34,41-63,86-108,129-151,155-174,187-209,224-246,253-275,280-302
Sequence
Target Sequence 
>C. ELEGANS:173805_AT
attcttacatttatctatttatcataattcttcatgtcgaatgtttcaactctatcaatc
acttcatagctttataacgcatccttataatacgtattttgtcttgctattttctcacaa
acatctgtgttatcacaattgcctttaccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCTTACATTTATCTATTTATCAT 459 11 1045 Antisense
TATTTATCATAATTCTTCATGTCGA 111 663 1060 Antisense
ATAATTCTTCATGTCGAATGTTTCA 172 25 1068 Antisense
ATGTTTCAACTCTATCAATCACTTC 663 47 1085 Antisense
AACTCTATCAATCACTTCATAGCTT 503 141 1092 Antisense
TTCATAGCTTTATAACGCATCCTTA 76 685 1107 Antisense
AACGCATCCTTATAATACGTATTTT 210 129 1120 Antisense
TACGTATTTTGTCTTGCTATTTTCT 702 647 1135 Antisense
TTGCTATTTTCTCACAAACATCTGT 443 703 1148 Antisense
TTCTCACAAACATCTGTGTTATCAC 33 693 1156 Antisense
TGTGTTATCACAATTGCCTTTACCC 57 555 1170 Antisense
Sequence Source Affymetrix Proprietary Database