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Cluster Members Consensus/Exemplar Group Members |
GeneChip Array Information |
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183865_s_at |
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C. elegans Genome Array |
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Nematode |
Probe Design Information |
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affy.Ce.8578
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Exemplar sequence
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Y43D4A.1 NCBI
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Y43D4A.1 /REP_DB=WormBase Gene ID /WP=CE21874 /TR=Q9NF30 /GB=CAB60342.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
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Annotation Method Description |
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This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s). |
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This is a grade A annotation. |
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NM_070582(11), NM_070676(11) |
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NM_070582 NCBI |
Caenorhabditis elegans Y43D4A.1 (Y43D4A.1) mRNA, complete cds. |
11/11 |
None |
NM_070676 NCBI |
Caenorhabditis elegans Sodium:Neurotransmitter symporter Family family member (snf-9) (snf-9) mRNA, complete cds. |
11/11 |
A |
SNAP00000037216 ENSEMBL |
cdna:SNAP chromosome:CEL140:IV:16743789:16744120:1 |
11/11 |
None |
GENEFINDER00000037223 ENSEMBL |
cdna:GeneFinder chromosome:CEL140:IV:16743810:16744438:1 |
11/11 |
None |
SNAP00000040191 ENSEMBL |
cdna:SNAP chromosome:CEL140:IV:17312379:17315384:1 |
11/11 |
None |
GENEFINDER00000040210 ENSEMBL |
cdna:GeneFinder chromosome:CEL140:IV:17312400:17315384:1 |
11/11 |
None |
Y43D4A.1 ENSEMBL |
cdna:known chromosome:CEL140:IV:16743810:16744438:1 gene:Y43D4A.1 |
11/11 |
None |
C49C3.1 ENSEMBL |
cdna:known chromosome:CEL140:IV:17312115:17315393:1 gene:C49C3.1 |
11/11 |
A | |
There are no noteworthy cross hybridizing mRNAs found for this probe set. | |
Genomic Alignment of Consensus/Exemplar Sequence |
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Wormbase March 2004 |
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chrIV:16743815-16744444(+) |
77.99 |
100.0 |
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Public Domain and Genome References |
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Sodium:neurotransmitter symporter family (2 domains)
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snf-9
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Y43D4A.1 C49C3.1
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178512 Entrez gene 189850 Entrez gene
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Q9XUG5 EMBL-EBI Q9NF30 EMBL-EBI
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CE18554 Wormbase CE21874 Wormbase
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Functional Annotations |
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6836 |
neurotransmitter transport |
inferred from electronic annotation |
QuickGO AmiGO |
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5887 |
integral to plasma membrane |
inferred from electronic annotation |
QuickGO AmiGO |
16020 |
membrane |
inferred from electronic annotation |
QuickGO AmiGO |
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5328 |
neurotransmitter:sodium symporter activity |
inferred from electronic annotation |
QuickGO AmiGO | |
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blast |
CAB05153 |
Hypothetical protein C49C3.1 [Caenorhabditis elegans] ref|NP_503077.1| Sodium:Neurotransmitter symporter Family family member (snf-9) [Caenorhabditis elegans] |
0.0 |
blast |
CAE57482 |
Hypothetical protein CBG00451 [Caenorhabditis briggsae] |
0.0 |
blast |
CAE59375 |
Hypothetical protein CBG02728 [Caenorhabditis briggsae] |
0.0 | |
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Pfam |
IPR000175 EMBL-EBI |
Sodium:neurotransmitter symporter |
5.8E-17 |
Pfam |
IPR000175 EMBL-EBI |
Sodium:neurotransmitter symporter |
5.7E-40 |
Pfam |
IPR000175 EMBL-EBI |
Sodium:neurotransmitter symporter |
7.8E-71 |
Pfam |
IPR000175 EMBL-EBI |
Sodium:neurotransmitter symporter |
5.8E-17 |
Pfam |
IPR000175 EMBL-EBI |
Sodium:neurotransmitter symporter |
5.7E-40 |
Pfam |
IPR000175 EMBL-EBI |
Sodium:neurotransmitter symporter |
7.8E-71 |
NP_503077.1 |
12 |
53-72,82-104,125-147,261-280,285-307,335-357,369-391,429-451,472-494,499-521,551-573,593-615 |
C49C3.1 |
12 |
53-72,82-104,125-147,261-280,285-307,335-357,369-391,429-451,472-494,499-521,551-573,593-615 |
SNAP00000040191 |
12 |
60-79,89-111,132-154,268-287,292-314,342-364,376-398,436-458,479-501,506-528,558-580,600-622 |
GENEFINDER00000040210 |
12 |
53-72,82-104,125-147,261-280,285-307,335-357,369-391,429-451,472-494,499-521,551-573,593-615 | |
Sequence |
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>C. ELEGANS:183865_S_AT
acgcaacggagatcaccttccgactcgtcggctgcagaagatcagcgaattgcgacaact
attgtcagggactcgggaagttcgaaagagattgaggagagccaagcggatccgtgcaga
ggagcatggggaaatcagattgagtttctactttccacattaggaatggctgttggactt
ggaaatatctggagatttccgacgagagcttataat
BLASTn GenBank NR |
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ACGCAACGGAGATCACCTTCCGACT |
197 |
91 |
25 |
Antisense |
CCTTCCGACTCGTCGGCTGCAGAAG |
61 |
271 |
40 |
Antisense |
CGACTCGTCGGCTGCAGAAGATCAG |
285 |
251 |
45 |
Antisense |
GAAGATCAGCGAATTGCGACAACTA |
386 |
337 |
61 |
Antisense |
GACAACTATTGTCAGGGACTCGGGA |
697 |
361 |
78 |
Antisense |
GTCAGGGACTCGGGAAGTTCGAAAG |
330 |
433 |
88 |
Antisense |
TGAGGAGAGCCAAGCGGATCCGTGC |
520 |
567 |
117 |
Antisense |
GCGGATCCGTGCAGAGGAGCATGGG |
145 |
293 |
130 |
Antisense |
TTGAGTTTCTACTTTCCACATTAGG |
379 |
703 |
164 |
Antisense |
ATATCTGGAGATTTCCGACGAGAGC |
289 |
21 |
209 |
Antisense |
GAGATTTCCGACGAGAGCTTATAAT |
248 |
395 |
216 |
Antisense | |
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Affymetrix Proprietary Database |