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[172866_x_at] transmembrane transporter

Description T01B11.6 /REP_DB=WormBase Gene ID /WP=CE12902 /TR=P91412 /GB=AAB38003.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=transmembrane transporter
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 12      4grp_highest_8_8 > 33      4grp_high_8_8 > 50      6grp_highest_nonorm > 51      6grp_total > 23      4grp_total > 61      6grp_highest_sub > De      6grp_cgc > 30      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.
4 864
1 2 3 4 range
A 1023.4
(3)
P 		711.5
(0.8)
P 		701.7
(0.7)
P 		184
(-3)
P 		839
B 1004.1
(3)
P 		839.2
(1.8)
P 		883.6
(2.1)
P 		159.8
(-3)
P 		844
C 1012.2
(3)
P 		746.1
(0.9)
P 		761.4
(1)
P 		253.3
(-3)
P 		759
avr 1013.2
(3) 		765.6
(1.2) 		782.2
(1.3) 		199
(-3) 		814

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 602
1 2 3 4 5 6 range
A 770.8
(3)
P 		575.5
(0.8)
P 		746.1
(2.7)
P 		425.3
(-0.9)
P 		297.9
(-2.3)
P 		233.4
(-3)
P 		537
B 659.6
(2.6)
P 		694.9
(3)
P 		554.7
(1.4)
P 		455
(0.3)
P 		294.7
(-1.6)
P 		169.2
(-3)
P 		526
C 570.2
(2.3)
P 		619.8
(3)
P 		524.3
(1.7)
P 		407.9
(0.1)
P 		185.2
(-3)
P 		209.5
(-2.7)
P 		435
avr 666.9
(3) 		630.1
(2.5) 		608.4
(2.2) 		429.4
(-0.1) 		259.3
(-2.3) 		204
(-3) 		463
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 346
1 2 3 4 range
A 372.6
(3)
P 		154.4
(-0.8)
P 		183.4
(-0.3)
P 		26.9
(-3)
P 		346
B 320.2
(3)
P 		207.3
(0.6)
P 		204.8
(0.6)
P 		34.1
(-3)
P 		286
C 335.1
(3)
P 		214.5
(0.5)
P 		265.4
(1.6)
P 		42.7
(-3)
P 		292
avr 342.6
(3) 		192.1
(0.1) 		217.9
(0.6) 		34.6
(-3) 		308

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 175
1 2 3 4 5 6 range
A 142.1
(0.5)
P 		204.7
(3)
P 		162.5
(1.3)
P 		107.9
(-0.9)
P 		89.9
(-1.7)
P 		56.8
(-3)
P 		148
B 229.5
(2.9)
P 		231.3
(3)
P 		134.7
(-0.4)
P 		120.5
(-1)
P 		119.7
(-1)
P 		63.1
(-3)
P 		168
C 211.3
(3)
P 		189.1
(2.1)
P 		133.5
(-0.1)
P 		82
(-2.1)
P 		59.9
(-3)
P 		70.1
(-2.6)
P 		151
avr 194.3
(2.4) 		208.4
(3) 		143.6
(0.3) 		103.5
(-1.3) 		89.8
(-1.9) 		63.3
(-3) 		145
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172866_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9298
Sequence Type Exemplar sequence
Representative Public ID T01B11.6 NCBI
Target Description T01B11.6 /REP_DB=WormBase Gene ID /WP=CE12902 /TR=P91412 /GB=AAB38003.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=transmembrane transporter
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_069041(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069041 NCBI Caenorhabditis elegans Organic Anion Transporter family member (oat-1) (oat-1) mRNA, complete cds. 9/11 A 
SNAP00000008420 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8464834:8472571:-1 9/11 None
GENEFINDER00000008422 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8464834:8466557:-1 9/11 None
T01B11.7.2 ENSEMBL cdna:known chromosome:CEL140:IV:8464742:8472575:-1 gene:T01B11.7 9/11 None
T01B11.7.1 ENSEMBL cdna:known chromosome:CEL140:IV:8464750:8472577:-1 gene:T01B11.7 9/11 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:8464839-8466720(-) 94.68 100.0
Public Domain and Genome References
Gene Title transmembrane transporter
Gene Symbol oat-1
Ensembl T01B11.7
Entrez Gene 177649 Entrez gene
SwissProt Q9NJF1 EMBL-EBI
WormBase CE30160 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 AAB38003 Organic anion transporter protein 1 [Caenorhabditis elegans] ref|NP_501442.2| Organic Anion Transporter family member (oat-1) [Caenorhabditis elegans] gb|AAF73198.1| multispecific organic anion transporter [Caenorhabditis elegans] 0.0
blast CAE71545 Hypothetical protein CBG18488 [Caenorhabditis briggsae] 0.0
blast T25851 hypothetical protein T01B11.5 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005828 EMBL-EBI General substrate transporter 2.8E-9
Pfam IPR005828 EMBL-EBI General substrate transporter 1.6E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501442.2 10 49-71,155-172,179-201,211-233,238-257,328-350,357-379,394-413,418-437,478-500
T01B11.7.2 10 49-71,155-172,179-201,211-233,238-257,328-350,357-379,394-413,418-437,478-500
T01B11.7.1 10 49-71,155-172,179-201,211-233,238-257,328-350,357-379,394-413,418-437,478-500
SNAP00000008420 10 49-71,155-172,179-201,211-233,238-257,328-350,357-379,394-413,418-437,478-500
Sequence
Target Sequence 
>C. ELEGANS:172866_X_AT
gttctcaaatttctcttgtatccacttatagactataatccctataatccaatttacagt
atctgcacaaatttcatcgtctacgcactattgtacaatatggaaaagttgtcaggatca
ctgtactggaacagtgcgattattggggccgctcgctgggtagtcaacattgttgtgagc
attgctgattatcagctcccatggtttggacgtcggttgattaatcatatatcaatgata
ttcacattagccagtttggcaattgttgccggatatgtttacattggaaatggtggatat
gttgttgcaattggaactactgtagctcttgctatgtgctcacaacttttcattgcaaaa
tatttgatggttaatgagctgtatccaacggctgtaagaaatttggcagtatctgctgtt
tcaacaatgagcagagttggaggaatgttttcaccacagttgttttacttgagtgacata
gctgagtggatcccgtacgcagttctagttggattccaacttgttgacctagtcttgttc
tgtataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTCTCAAATTTCTCTTGTATCCAC 226 443 325 Antisense
GTATCTGCACAAATTTCATCGTCTA 355 455 383 Antisense
TCATCGTCTACGCACTATTGTACAA 325 621 398 Antisense
CAGTGCGATTATTGGGGCCGCTCGC 475 207 456 Antisense
CGCTCGCTGGGTAGTCAACATTGTT 563 255 474 Antisense
TATCAGCTCCCATGGTTTGGACGTC 259 651 514 Antisense
GTAGCTCTTGCTATGTGCTCACAAC 337 457 646 Antisense
GGAGGAATGTTTTCACCACAGTTGT 322 515 763 Antisense
GTGACATAGCTGAGTGGATCCCGTA 612 479 797 Antisense
GATCCCGTACGCAGTTCTAGTTGGA 96 381 813 Antisense
GTTGACCTAGTCTTGTTCTGTATAA 43 439 847 Antisense
Sequence Source Affymetrix Proprietary Database