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[189560_at] transport protein

Description C46C2.2 /REP_DB=WormBase Gene ID /WP=CE03081 /TR=Q18655 /GB=CAA92589.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=transport protein
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 13      6grp_total > 24      4grp_total > 54      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2956
1 2 3 4 range
A 4388.7
(3)
P 		3373.6
(0.3)
P 		2828.3
(-1.2)
P 		2133
(-3)
P 		2256
B 4685.4
(3)
P 		2486.3
(-1.9)
P 		2030.6
(-2.9)
P 		2006
(-3)
P 		2679
C 3848.9
(3)
P 		2719
(-0.2)
P 		2607.2
(-0.5)
P 		1729.8
(-3)
P 		2119
avr 4307.7
(3) 		2859.6
(-0.7) 		2488.7
(-1.6) 		1956.3
(-3) 		2351

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2359
1 2 3 4 5 6 range
A 3595.9
(3)
P 		3010.3
(1)
P 		2346.5
(-1.4)
P 		3028.4
(1)
P 		1881.6
(-3)
P 		2451.2
(-1)
P 		1714
B 3082.1
(1.9)
P 		3348.7
(3)
P 		2753.7
(0.5)
P 		2241.5
(-1.7)
P 		1931.2
(-3)
P 		2076.5
(-2.4)
P 		1418
C 3786.6
(3)
P 		3325.3
(1.8)
P 		3320.7
(1.8)
P 		2284.2
(-0.8)
P 		2226.2
(-1)
P 		1427.4
(-3)
P 		2359
avr 3488.2
(3) 		3228.1
(2) 		2807
(0.3) 		2518
(-0.9) 		2013
(-2.9) 		1985
(-3) 		1503
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1306
1 2 3 4 range
A 1597.9
(3)
P 		732.3
(-1)
P 		739.4
(-1)
P 		312.2
(-3)
P 		1286
B 1494.1
(3)
P 		614
(-2)
P 		470.5
(-2.8)
P 		427.5
(-3)
P 		1067
C 1274.1
(3)
P 		781.7
(-0)
P 		908.7
(0.8)
P 		291.7
(-3)
P 		982
avr 1455.4
(3) 		709.3
(-1) 		706.2
(-1) 		343.8
(-3) 		1112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 944
1 2 3 4 5 6 range
A 662.9
(-1.4)
P 		1070.6
(3)
P 		511
(-3)
P 		768.1
(-0.2)
P 		567.8
(-2.4)
P 		596.8
(-2.1)
P 		560
B 1072.4
(2.5)
P 		1114.7
(3)
P 		668.7
(-2.1)
P 		593.7
(-3)
P 		784.6
(-0.8)
P 		774.3
(-0.9)
P 		521
C 1403.5
(3)
P 		1014.7
(0.5)
P 		845.2
(-0.5)
P 		459.4
(-3)
P 		720.4
(-1.3)
P 		477.8
(-2.9)
P 		944
avr 1046.3
(2.7) 		1066.7
(3) 		675
(-2.1) 		607.1
(-3) 		690.9
(-1.9) 		616.3
(-2.9) 		460
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189560_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10283
Sequence Type Exemplar sequence
Representative Public ID C46C2.2 NCBI
Target Description C46C2.2 /REP_DB=WormBase Gene ID /WP=CE03081 /TR=Q18655 /GB=CAA92589.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=transport protein
Cluster Evidence This cluster is supported by a 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_069203(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069203 NCBI Caenorhabditis elegans C46C2.2 (C46C2.2) mRNA, complete cds. 10/11 None
SNAP00000024424 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9217732:9220151:1 10/11 None
GENEFINDER00000024431 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9217732:9220151:1 10/11 None
C46C2.2.4 ENSEMBL cdna:known chromosome:CEL140:IV:9216930:9220366:1 gene:C46C2.2 10/11 None
C46C2.2.3 ENSEMBL cdna:known chromosome:CEL140:IV:9217698:9220366:1 gene:C46C2.2 10/11 None
C46C2.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:9217702:9220366:1 gene:C46C2.2 10/11 None
C46C2.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:9217704:9220369:1 gene:C46C2.2 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
chrIV:9217737-9220157(+) 100.0 100.0
Public Domain and Genome References
Gene Title transport protein
Ensembl C46C2.2
Entrez Gene 177744 Entrez gene
SwissProt Q18655 EMBL-EBI
WormBase CE32832 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5215 transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92589 Hypothetical protein C46C2.2 [Caenorhabditis elegans] ref|NP_501604.2| C46C2.2 [Caenorhabditis elegans] 0.0
blast CAE74129 Hypothetical protein CBG21797 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005828 EMBL-EBI General substrate transporter 1.7E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501604.2 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
C46C2.2.4 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
C46C2.2.3 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
C46C2.2.2 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
C46C2.2.1 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
SNAP00000024424 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
GENEFINDER00000024431 9 15-37,112-134,138-160,162-184,219-241,306-323,334-353,366-388,459-478
Sequence
Target Sequence 
>C. ELEGANS:189560_AT
ggaatgaccgcttatttgaccgatttgtgtggaggagatatgacaaagaacttctgggtt
ggacaattcctttctggaattttgctttcagttatcatgggcttcgctgacggctacctt
ccatggatgggacgccgtttcgtacttctatgctctcaatctcttgctattgtcttcttc
ggatgtgtcattgccttcttgtttgccggagaaaaggggcaatggtattacacggcagtc
tatttggcatcattcgtgttcacatcaattgtttgggaaccatgctacttgtgtgcttct
gagctcatgccaacagatgttcgtgccacgtcaactgcttcatgctcaatcgtaggaaga
ttcgccaacattggagcatctatgctgagtggtctcaaaaccgtctacgagccaggagta
catatgatctcaatcagtctcggtcttac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAATGACCGCTTATTTGACCGATT 83 533 961 Antisense
GCTTTCAGTTATCATGGGCTTCGCT 179 305 1044 Antisense
GGCTACCTTCCATGGATGGGACGCC 646 537 1072 Antisense
GCTATTGTCTTCTTCGGATGTGTCA 542 303 1126 Antisense
ATTTGGCATCATTCGTGTTCACATC 622 17 1202 Antisense
GGAACCATGCTACTTGTGTGCTTCT 284 531 1236 Antisense
TTGTGTGCTTCTGAGCTCATGCCAA 379 709 1249 Antisense
AGATGTTCGTGCCACGTCAACTGCT 500 67 1275 Antisense
GTCAACTGCTTCATGCTCAATCGTA 49 465 1290 Antisense
GTGGTCTCAAAACCGTCTACGAGCC 235 487 1349 Antisense
TGATCTCAATCAGTCTCGGTCTTAC 409 565 1385 Antisense
Sequence Source Affymetrix Proprietary Database