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[188765_at] trans-membrane protein

Description C18C4.2 /REP_DB=WormBase Gene ID /WP=CE25783 /GB=AAK52175.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=trans-membrane protein
Cluster 6grp_high1_10_10 > 03      4grp_high_8_8 > 42      6grp_total > 24      4grp_total > 45      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_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.
4 190
1 2 3 4 range
A 262.8
(1.6)
P 		294.7
(3)
P 		173.6
(-2.2)
P 		155.5
(-3)
A 		139
B 305.4
(3)
P 		196.4
(-0.4)
P 		183.1
(-0.9)
P 		115.3
(-3)
P 		190
C 286.3
(3)
P 		176.9
(-1.9)
P 		198.5
(-0.9)
P 		152.5
(-3)
P 		134
avr 284.8
(3) 		222.7
(0.4) 		185.1
(-1.2) 		141.1
(-3) 		144

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 309
1 2 3 4 5 6 range
A 160.9
(0)
P 		242.6
(3)
P 		156.1
(-0.1)
P 		117.3
(-1.6)
P 		125.2
(-1.3)
A 		77.6
(-3)
A 		165
B 236.3
(3)
P 		193.5
(1.3)
P 		221.4
(2.4)
P 		120.2
(-1.7)
P 		87.6
(-3)
P 		90
(-2.9)
P 		149
C 320.8
(3)
P 		193.6
(0.5)
P 		127.5
(-0.8)
P 		138.8
(-0.5)
P 		12.1
(-3)
A 		82.9
(-1.6)
P 		309
avr 239.3
(3) 		209.9
(1.9) 		168.3
(0.4) 		125.4
(-1.2) 		75
(-3) 		83.5
(-2.7) 		164
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 75
1 2 3 4 range
A 95.7
(3)
P 		64
(0.4)
P 		45.4
(-1.1)
P 		22.8
(-3)
A 		73
B 97.4
(3)
P 		48.5
(-1)
P 		42.4
(-1.5)
P 		24.6
(-3)
P 		73
C 94.8
(3)
P 		50.9
(-0.8)
P 		69.2
(0.8)
P 		25.7
(-3)
P 		69
avr 96
(3) 		54.5
(-0.5) 		52.3
(-0.7) 		24.4
(-3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 29.7
(-2)
P 		86.3
(3)
P 		34
(-1.7)
P 		29.8
(-2)
P 		37.8
(-1.3)
A 		18.9
(-3)
A 		67
B 82.2
(3)
P 		64.4
(0.9)
P 		53.8
(-0.4)
P 		31.8
(-3)
P 		35.6
(-2.5)
P 		33.6
(-2.8)
P 		50
C 118.9
(3)
P 		59.1
(-0.1)
P 		32.4
(-1.5)
P 		27.9
(-1.7)
P 		3.9
(-3)
A 		27.8
(-1.8)
P 		115
avr 76.9
(3) 		69.9
(2.2) 		40.1
(-1.3) 		29.8
(-2.5) 		25.8
(-3) 		26.8
(-2.9) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188765_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11932
Sequence Type Exemplar sequence
Representative Public ID C18C4.2 NCBI
Target Description C18C4.2 /REP_DB=WormBase Gene ID /WP=CE25783 /GB=AAK52175.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=trans-membrane 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_072062(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072062 NCBI Caenorhabditis elegans Cystic Fibrosis Transmembrane conductance regulator homolog family member (cft-1) (cft-1) mRNA, complete cds. 11/11 None
SNAP00000035597 ENSEMBL cdna:SNAP chromosome:CEL140:V:5546010:5548247:1 11/11 None
C18C4.2 ENSEMBL cdna:known chromosome:CEL140:V:5541395:5548970:1 gene:C18C4.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000035610 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:5541394-5548247(+) 100.0 100.0
Public Domain and Genome References
Gene Title trans-membrane protein
Gene Symbol cft-1
Ensembl C18C4.2
Entrez Gene 178939 Entrez gene
SwissProt Q95QV2 EMBL-EBI
WormBase CE25783 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
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK52175 Cystic fibrosis transmembrane conductance regulator homolog protein 1 [Caenorhabditis elegans] ref|NP_504463.1| Cystic Fibrosis Transmembrane conductance regulator homolog family member (cft-1) [Caenorhabditis elegans] 0.0
blast CAE64616 Hypothetical protein CBG09374 [Caenorhabditis briggsae] 0.0
blast CAE57520 Hypothetical protein CBG00495 [Caenorhabditis briggsae] 1.0E-125
blast CAA22110 Hypothetical protein Y75B8A.26 [Caenorhabditis elegans] ref|NP_499598.1| Multidrug Resistance Protein family member (mrp-8) [Caenorhabditis elegans] 5.0E-43
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504463.1 10 92-114,121-139,199-221,228-250,311-333,691-713,733-755,767-784,818-849,917-939
C18C4.2 10 92-114,121-139,199-221,228-250,311-333,691-713,733-755,767-784,818-849,917-939
SNAP00000035597 1 47-69
Sequence
Target Sequence 
>C. ELEGANS:188765_AT
ggatcgggaaaatctcaactggcaaagacattggtcatgatgagctcagcagacaaagag
agccatatcgttgtagatgatttggacattttcgagatgagtgtaaaaactttgagatca
aggatcacagttataccacagaaagcaaaaatattctcggacactctccgtagcaacatt
gacccatgttgccagtttgctgatagtgatatttggttggcaattgaggcatgtcaactc
agagaatatgtgaaaagtctaccggatggtttgcatcaaatggtgtctcctgaaaaaatg
agtaatgagcagaaatgtcaggtgaatgtttgccgagcacttctaaaaggtggtcagatc
tttgtgattgatcaatcgacgaagatgatgaaagaaccaatcaagtctttggtgaatgag
gcaataagaaatagtttgaaacaaagtactacaatttggattggtgaagacttttccgat
gttgaacattgtgatagagtcgttgtaattgagaatggtgtaattctcacaacggacact
ccacaaaacttgatttcggaattcggatccctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATCGGGAAAATCTCAACTGGCAA 680 505 3154 Antisense
GCAAAAATATTCTCGGACACTCTCC 380 317 3298 Antisense
CGGACACTCTCCGTAGCAACATTGA 178 243 3311 Antisense
GACCCATGTTGCCAGTTTGCTGATA 593 381 3334 Antisense
AAAAGTCTACCGGATGGTTTGCATC 248 131 3406 Antisense
TTGCATCAAATGGTGTCTCCTGAAA 660 699 3424 Antisense
ATGTCAGGTGAATGTTTGCCGAGCA 275 49 3468 Antisense
GGTGAAGACTTTTCCGATGTTGAAC 62 501 3616 Antisense
TAATTCTCACAACGGACACTCCACA 266 635 3674 Antisense
GGACACTCCACAAAACTTGATTTCG 78 525 3687 Antisense
CTTGATTTCGGAATTCGGATCCCTT 615 213 3702 Antisense
Sequence Source Affymetrix Proprietary Database