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[189277_at] ABC transporters

Description C24F3.5 /REP_DB=WormBase Gene ID /WP=CE19700 /TR=Q21213 /GB=CAA93518.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ABC transporters
Cluster 6grp_total > 87      4grp_total > 18      6grp_cgc > 68      6grp_cgc_sub > In      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 18.9
(-2.6)
A 		56.8
(0.6)
A 		14.3
(-3)
A 		85.5
(3)
A 		71
B 38
(-3)
A 		64.5
(3)
A 		46.1
(-1.2)
A 		44.7
(-1.5)
A 		27
C 49.8
(1.3)
A 		11.2
(-3)
A 		43.5
(0.6)
A 		65.4
(3)
A 		54
avr 35.6
(-2.8) 		44.2
(-1.1) 		34.6
(-3) 		65.2
(3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 59.6
(2.3)
A 		44
(-1.2)
P 		35.7
(-3)
A 		44.4
(-1.1)
A 		63
(3)
A 		62
(2.8)
P 		27
B 18.9
(-3)
A 		56.7
(0.5)
A 		52.6
(0.1)
A 		33.2
(-1.7)
A 		72.5
(2)
M 		83.4
(3)
P 		65
C 40.2
(-1.1)
A 		44.4
(-0.9)
M 		3.3
(-3)
A 		86.5
(1.3)
A 		63.1
(0.1)
P 		118.8
(3)
P 		116
avr 39.6
(-2.1) 		48.4
(-1.1) 		30.5
(-3) 		54.7
(-0.5) 		66.2
(0.7) 		88.1
(3) 		58
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 6.9
(-0.8)
A 		12.3
(2.9)
A 		3.7
(-3)
A 		12.5
(3)
A 		9
B 12.1
(-0.6)
A 		15.9
(3)
A 		10.7
(-1.9)
A 		9.5
(-3)
A 		6
C 16.5
(3)
A 		3.2
(-3)
A 		15.2
(2.4)
A 		11
(0.5)
A 		13
avr 11.8
(3) 		10.5
(-1.1) 		9.9
(-3) 		11
(0.5) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 11
(-1.3)
A 		15.7
(1.2)
P 		7.8
(-3)
A 		11.2
(-1.2)
A 		19
(3)
A 		15.1
(0.9)
P 		11
B 6.6
(-3)
A 		18.9
(0)
A 		12.8
(-1.5)
A 		8.8
(-2.5)
A 		29.5
(2.6)
M 		31.1
(3)
P 		25
C 14.9
(-0.8)
A 		13.5
(-1)
M 		0.8
(-3)
A 		17.4
(-0.4)
A 		20.4
(0)
P 		39.8
(3)
P 		39
avr 10.8
(-2) 		16
(-0.5) 		7.1
(-3) 		12.5
(-1.5) 		23
(1.4) 		28.7
(3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189277_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10248
Sequence Type Exemplar sequence
Representative Public ID C24F3.5 NCBI
Target Description C24F3.5 /REP_DB=WormBase Gene ID /WP=CE19700 /TR=Q21213 /GB=CAA93518.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ABC transporters
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_069464(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069464 NCBI Caenorhabditis elegans ABC Transporter family member (abt-1) (abt-1) mRNA, complete cds. 11/11 None
GENEFINDER00000009549 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10206202:10207274:-1 10/11 None
C24F3.5 ENSEMBL cdna:known chromosome:CEL140:IV:10206202:10213731:-1 gene:C24F3.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000009546 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:10206207-10213737(-) 100.0 100.0
Public Domain and Genome References
Gene Title ABC transporters
Gene Symbol abt-1
Ensembl C24F3.5
Entrez Gene 182849 Entrez gene
SwissProt Q21213 EMBL-EBI
WormBase CE19700 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
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 CAA93518 Hypothetical protein C24F3.5 [Caenorhabditis elegans] emb|CAA18775.1| Hypothetical protein C24F3.5 [Caenorhabditis elegans] emb|CAA16510.1| Hypothetical protein C24F3.5 [Caenorhabditis elegans] ref|NP_501865.1| ABC Transporter family member (abt-1) [Caenorhabditis elegans] 0.0
blast CAE59910 Hypothetical protein CBG03394 [Caenorhabditis briggsae] 0.0
blast CAE59911 Hypothetical protein CBG03395 [Caenorhabditis briggsae] 0.0
blast CAA93518 Hypothetical protein C24F3.5 [Caenorhabditis elegans] emb|CAA18775.1| Hypothetical protein C24F3.5 [Caenorhabditis elegans] emb|CAA16510.1| Hypothetical protein C24F3.5 [Caenorhabditis elegans] ref|NP_501865.1| ABC Transporter family member (abt-1) [Caenorhabditis elegans] 3.0E-94
blast CAE59911 Hypothetical protein CBG03395 [Caenorhabditis briggsae] 9.0E-55
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501865.1 11 123-140,168-190,197-219,229-251,272-294,721-743,881-903,923-954,961-983,993-1015,1063-1085
C24F3.5 11 123-140,168-190,197-219,229-251,272-294,721-743,881-903,923-954,961-983,993-1015,1063-1085
Sequence
Target Sequence 
>C. ELEGANS:189277_AT
gttattgccctgcatagatcgtcgaattctgatgctcctggccaaactagttatcaagcc
caatatcgtaatcattgaccaacttgaaatgtttcttcctcattcgaaaatgatgactgt
ctggtctttttgtgcacgtcttcgtaaaaacggactcggtatcatatatacttctcatca
cagtggatttgcagagcacactgctacatgttgtgctcacatgtacaaaggccagtttgt
aagaaatcttttaccaacatcaatcaaagcaaagtgtactgtgctggaagttgttccgaa
aactgcatcggatccgaaagtgttgcttcatatgcttcaaaaagaaatggaagaatcagt
caaactgccatccacttcaagaaatattacattggccatgtacaaagacggagtggaaac
aattgagaagattcttgaacttcttcgtatgctcagcccacagattaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTATTGCCCTGCATAGATCGTCGA 386 447 3774 Antisense
AGATCGTCGAATTCTGATGCTCCTG 453 67 3789 Antisense
ATGCTCCTGGCCAAACTAGTTATCA 623 41 3805 Antisense
GAAATGTTTCTTCCTCATTCGAAAA 691 361 3859 Antisense
ATGACTGTCTGGTCTTTTTGTGCAC 352 45 3886 Antisense
GCAGAGCACACTGCTACATGTTGTG 309 311 3964 Antisense
GTGCTCACATGTACAAAGGCCAGTT 592 479 3986 Antisense
ATCGGATCCGAAAGTGTTGCTTCAT 703 33 4080 Antisense
TCAAACTGCCATCCACTTCAAGAAA 410 629 4133 Antisense
GATTCTTGAACTTCTTCGTATGCTC 652 431 4203 Antisense
CGTATGCTCAGCCCACAGATTAAAC 616 245 4219 Antisense
Sequence Source Affymetrix Proprietary Database