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[188550_at]

Description T20G5.6 /REP_DB=WormBase Gene ID /WP=CE25119 /GEN=unc-47 /TR=SW:P34579 /GB=CAA83006.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 34      6grp_high1_10_10 > 32      4grp_high_8_8 > 42      6grp_highest_nonorm > 61      6grp_total > 21      4grp_total > 53      6grp_highest_sub > 02_03      6grp_cgc > 62      6grp_high1_sub > 02_03      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 316
1 2 3 4 range
A 446.9
(3)
P 		283.6
(-0.4)
P 		259.1
(-1)
P 		162.7
(-3)
A 		284
B 478.4
(3)
P 		457.3
(2.6)
P 		296.6
(-0.7)
P 		184.4
(-3)
A 		294
C 463.8
(3)
P 		400.7
(1.7)
P 		288.6
(-0.5)
P 		166.4
(-3)
P 		297
avr 463
(3) 		380.5
(1.3) 		281.4
(-0.7) 		171.2
(-3) 		292

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 496
1 2 3 4 5 6 range
A 356.6
(0.9)
P 		467.4
(3)
P 		432.5
(2.3)
P 		306.3
(-0)
P 		295.5
(-0.2)
P 		146.5
(-3)
P 		321
B 352.6
(-0.5)
P 		618.2
(3)
P 		468.2
(1)
P 		382.2
(-0.1)
P 		295.3
(-1.2)
P 		158
(-3)
P 		460
C 348.7
(0.5)
P 		513.5
(3)
P 		490.6
(2.6)
P 		420.5
(1.6)
P 		234.4
(-1.3)
P 		122
(-3)
P 		392
avr 352.6
(0.2) 		533
(3) 		463.8
(1.9) 		369.7
(0.5) 		275.1
(-1) 		142.2
(-3) 		391
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 139
1 2 3 4 range
A 162.7
(3)
P 		61.6
(-1.4)
P 		67.7
(-1.1)
P 		23.8
(-3)
A 		139
B 152.6
(3)
P 		112.9
(0.9)
P 		68.7
(-1.4)
P 		39.3
(-3)
A 		113
C 153.5
(3)
P 		115.2
(1.2)
P 		100.6
(0.5)
P 		28.1
(-3)
P 		125
avr 156.3
(3) 		96.6
(0.2) 		79
(-0.7) 		30.4
(-3) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 170
1 2 3 4 5 6 range
A 65.7
(-1.6)
P 		166.2
(3)
P 		94.2
(-0.3)
P 		77.7
(-1.1)
P 		89.2
(-0.5)
P 		35.7
(-3)
P 		131
B 122.7
(-0.4)
P 		205.8
(3)
P 		113.7
(-0.8)
P 		101.2
(-1.3)
P 		120
(-0.5)
P 		58.9
(-3)
P 		147
C 129.2
(1.6)
P 		156.7
(3)
P 		124.9
(1.4)
P 		84.6
(-0.7)
P 		75.8
(-1.2)
P 		40.8
(-3)
P 		116
avr 105.9
(-0.2) 		176.2
(3) 		110.9
(0) 		87.8
(-1) 		95
(-0.7) 		45.1
(-3) 		131
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188550_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7627
Sequence Type Exemplar sequence
Representative Public ID T20G5.6 NCBI
Target Description T20G5.6 /REP_DB=WormBase Gene ID /WP=CE25119 /GEN=unc-47 /TR=SW:P34579 /GB=CAA83006.2 /SUBMIT=HINXTON /CHR=3 /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_066854(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066854 NCBI Caenorhabditis elegans UNCoordinated family member (unc-47) (unc-47) mRNA, complete cds. 11/11 None
SNAP00000033296 ENSEMBL cdna:SNAP chromosome:CEL140:III:10183760:10186149:-1 11/11 None
GENEFINDER00000033342 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10183760:10186149:-1 11/11 None
T20G5.6 ENSEMBL cdna:known chromosome:CEL140:III:10183653:10186149:-1 gene:T20G5.6 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
chrIII:10183755-10186145(-) 99.93 100.0
Public Domain and Genome References
Gene Title
Gene Symbol unc-47
Ensembl T20G5.6
Entrez Gene 176431 Entrez gene
SwissProt P34579 EMBL-EBI
WormBase CE25119 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:257543_AT amino acid transporter family protein at
CANINE:1600140_AT similar to vesicular inhibitory amino acid transporter cfa
CANINE_2:CFAAFFX.14174.1.S1_AT similar to vesicular inhibitory amino acid transporter cfa
DROSOPHILA_2:1625228_AT dm
DROSGENOME1:147191_AT dm
CHICKEN:GGA.8039.1.S1_AT similar to MGC68938 protein gga
U133_X3P:HS.179080.0.A1_3P_AT solute carrier family 32 (GABA vesicular transporter), member 1 hs
HG-U133_PLUS_2:240532_AT solute carrier family 32 (GABA vesicular transporter), member 1 hs
HG-U133B:240532_AT solute carrier family 32 (GABA vesicular transporter), member 1 hs
HG-U95E:67042_AT solute carrier family 32 (GABA vesicular transporter), member 1 hs
MOUSE430_2:1422756_AT solute carrier family 32 (GABA vesicular transporter), member 1 mm
MOE430A:1422756_AT solute carrier family 32 (GABA vesicular transporter), member 1 mm
MOUSE430A_2:1422756_AT solute carrier family 32 (GABA vesicular transporter), member 1 mm
MU11KSUBA:AJ001598_AT solute carrier family 32 (GABA vesicular transporter), member 1 mm
MU11KSUBA:AA028280_AT solute carrier family 32 (GABA vesicular transporter), member 1 mm
MG-U74AV2:101420_AT solute carrier family 32 (GABA vesicular transporter), member 1 mm
MOE430A:1456457_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
MOUSE430A_2:1456457_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
MOUSE430_2:1456457_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
MOE430B:1447574_S_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
MOUSE430_2:1447574_S_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
MOE430B:1447573_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
MOUSE430_2:1447573_AT Solute carrier family 32 (GABA vesicular transporter), member 1 (Slc32a1), mRNA mm
RN-U34:AF030253_AT vesicular inhibitory amino acid transporter rn
RG-U34A:AF030253_AT vesicular inhibitory amino acid transporter rn
RN-U34:RC_AA996551_S_AT vesicular inhibitory amino acid transporter rn
RG-U34A:RC_AA996551_S_AT vesicular inhibitory amino acid transporter rn
RAE230A:1387380_AT vesicular inhibitory amino acid transporter rn
RAT230_2:1387380_AT vesicular inhibitory amino acid transporter rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6865 amino acid transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5279 amino acid-polyamine transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA83006 Hypothetical protein T20G5.6 [Caenorhabditis elegans] ref|NP_499255.1| UNCoordinated family member (unc-47) [Caenorhabditis elegans] sp|P34579|UNC47_CAEEL Vesicular GABA transporter (Uncoordinated protein 47) (Protein unc-47) gb|AAB87066.1| UNC-47 [Caenorhabditis elegans] 0.0
blast CAE64966 Hypothetical protein CBG09800 [Caenorhabditis briggsae] 0.0
blast EAL26340 GA21042-PA [Drosophila pseudoobscura] 1.0E-100
Protein Domains
Database ID Description E-Value
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.0E-126
Pfam IPR002422 EMBL-EBI Amino acid/polyamine transporter II 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499255.1 9 122-144,165-187,227-249,262-284,299-321,342-364,393-415,420-442,457-474
T20G5.6 9 122-144,165-187,227-249,262-284,299-321,342-364,393-415,420-442,457-474
SNAP00000033296 9 163-185,206-228,268-290,303-325,340-362,383-405,434-456,461-483,498-515
GENEFINDER00000033342 9 122-144,165-187,227-249,262-284,299-321,342-364,393-415,420-442,457-474
Sequence
Target Sequence 
>C. ELEGANS:188550_AT
acatctcatatattccttccaaatttagaaggaaatatgaaaaatcctgctcaattcaac
gtaatgttaaaatggtcacacatcgccgctgctgtgttcaaagttgtttttggaatgctc
ggatttctcacatttggagagcttacacaggaggaaatttcaaattctctgcctaatcaa
tcatttaaaattctggtgaacctgattttagtggtcaaggctcttctatcatatccgttg
ccattctatgcagctgttcaacttttgaagaacaatttgttccttggatatcctcagaca
ccattcacaagttgttattcaccggataaatctttacgtgaatgggccgttactttaaga
attattctagtgcttttcacacttttcgttgcattatcagttccatatttggtagagttg
atgggattagttggaaatattacaggaacaatgttatcatttatctggccggcactattc
cacctttatatcaaagaaaaaactctcaataattttgaaaaacgatttgatcaaggaatt
ataataatgggatgtagtgtgtgcatttctggtgtctacttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACATCTCATATATTCCTTCCAAATT 103 107 847 Antisense
GTTAAAATGGTCACACATCGCCGCT 677 445 912 Antisense
GCCGCTGCTGTGTTCAAAGTTGTTT 248 285 931 Antisense
CAAATTCTCTGCCTAATCAATCATT 76 195 1007 Antisense
GTCAAGGCTCTTCTATCATATCCGT 504 463 1060 Antisense
ATCCGTTGCCATTCTATGCAGCTGT 189 39 1079 Antisense
ATATCCTCAGACACCATTCACAAGT 479 21 1134 Antisense
TTCACACTTTTCGTTGCATTATCAG 114 687 1222 Antisense
ATCATTTATCTGGCCGGCACTATTC 551 29 1302 Antisense
GCACTATTCCACCTTTATATCAAAG 666 315 1318 Antisense
TGTGTGCATTTCTGGTGTCTACTTC 369 555 1404 Antisense
Sequence Source Affymetrix Proprietary Database