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Cluster Members Consensus/Exemplar |
GeneChip Array Information |
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188240_at |
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C. elegans Genome Array |
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Nematode |
Probe Design Information |
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affy.Ce.5119
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Exemplar sequence
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C54A12.1 NCBI
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C54A12.1 /REP_DB=WormBase Gene ID /WP=CE01865 /GEN=ptr-6 /TR=Q09938 /GB=AAA68302.1 /SUBMIT=ST.LOUIS /CHR=2 /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_062585(11) |
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NM_062585 NCBI |
Caenorhabditis elegans PaTched Related family member (ptr-6) (ptr-6) mRNA, complete cds. |
11/11 |
A |
SNAP00000020500 ENSEMBL |
cdna:SNAP chromosome:CEL140:II:5242541:5246810:-1 |
11/11 |
None |
GENEFINDER00000020506 ENSEMBL |
cdna:GeneFinder chromosome:CEL140:II:5242541:5246810:-1 |
11/11 |
None |
C54A12.1 ENSEMBL |
cdna:known chromosome:CEL140:II:5242440:5247544:-1 gene:C54A12.1 |
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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chrII:5242538-5247542(-) |
97.97 |
100.0 |
| |
Public Domain and Genome References |
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ptr-6
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C54A12.1
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173898 Entrez gene
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Q09938 EMBL-EBI
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CE01865 Wormbase
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Functional Annotations |
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16020 |
membrane |
inferred from electronic annotation |
QuickGO AmiGO |
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8158 |
hedgehog receptor activity |
inferred from electronic annotation |
QuickGO AmiGO | |
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blast |
AAA68302 |
Hypothetical protein C54A12.1 [Caenorhabditis elegans] ref|NP_494986.1| PaTched Related family member (ptr-6) [Caenorhabditis elegans] |
0.0 |
blast |
CAE59072 |
Hypothetical protein CBG02358 [Caenorhabditis briggsae] |
0.0 |
blast |
CAE63242 |
Hypothetical protein CBG07607 [Caenorhabditis briggsae] |
1.0E-124 |
blast |
CAE63242 |
Hypothetical protein CBG07607 [Caenorhabditis briggsae] |
1.0E-123 | |
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Pfam |
IPR003392 EMBL-EBI |
Patched family |
1.0E-126 |
Pfam |
IPR003392 EMBL-EBI |
Patched family |
1.0E-126 |
Pfam |
IPR003392 EMBL-EBI |
Patched family |
1.0E-126 |
NP_494986.1 |
11 |
60-82,333-355,375-397,404-426,446-468,475-497,618-637,838-860,880-902,923-942,957-979 |
C54A12.1 |
11 |
60-82,333-355,375-397,404-426,446-468,475-497,618-637,838-860,880-902,923-942,957-979 |
SNAP00000020500 |
11 |
27-49,296-318,338-360,367-389,409-431,438-460,581-600,801-823,843-865,886-905,920-942 |
GENEFINDER00000020506 |
11 |
27-49,300-322,342-364,371-393,413-435,442-464,585-604,805-827,847-869,890-909,924-946 | |
Sequence |
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>C. ELEGANS:188240_AT
cagagtcgagcaatcgccgatcagttgaatgtgatcttaagttcaacaatcacaaatgac
acgctggcaatgttttgtatgttctgtgtagctctcatcttcattccaaatccaatttgt
gcacttttcattacatttgcgatggttactattgatattggtgtaattggatttttatca
ttatggagtgttaagctggatccgatttcaatgattacaattattatgtccattggattt
tcaattgaattttccgctcatattactcatggatttgttagtaatgatagtaatctgtcg
gcttttgatcgatgcgtagatgctatggaaaagttggcttggccagtggtccatg
BLASTn GenBank NR |
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CAGAGTCGAGCAATCGCCGATCAGT |
637 |
205 |
2440 |
Antisense |
AATGACACGCTGGCAATGTTTTGTA |
603 |
165 |
2494 |
Antisense |
TGTATGTTCTGTGTAGCTCTCATCT |
260 |
561 |
2515 |
Antisense |
CTCTCATCTTCATTCCAAATCCAAT |
74 |
231 |
2531 |
Antisense |
AAATCCAATTTGTGCACTTTTCATT |
666 |
117 |
2547 |
Antisense |
GTGCACTTTTCATTACATTTGCGAT |
396 |
481 |
2558 |
Antisense |
GGAGTGTTAAGCTGGATCCGATTTC |
495 |
515 |
2624 |
Antisense |
TGAATTTTCCGCTCATATTACTCAT |
23 |
571 |
2685 |
Antisense |
GATAGTAATCTGTCGGCTTTTGATC |
418 |
425 |
2725 |
Antisense |
GGCTTTTGATCGATGCGTAGATGCT |
126 |
513 |
2739 |
Antisense |
AAGTTGGCTTGGCCAGTGGTCCATG |
351 |
155 |
2770 |
Antisense | |
|
Affymetrix Proprietary Database |