[Home] | [Total List]

[191816_at] ABC transporters (2 domains)

Description F55G11.9 /REP_DB=WormBase Gene ID /WP=CE19900 /TR=Q9XUD4 /GB=CAB05222.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ABC transporters (2 domains)
Cluster 6grp_total > 70      4grp_total > 26      6grp_cgc > 95      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 2
(-3)
A 		3.8
(-1.1)
A 		4.4
(-0.4)
A 		7.6
(3)
A 		6
B 4.6
(1.9)
A 		5.1
(3)
A 		2.3
(-3)
A 		2.4
(-2.8)
A 		3
C 2.6
(-3)
A 		2.9
(-0.8)
A 		3.4
(3)
A 		3.4
(3)
A 		1
avr 3.1
(-3) 		3.9
(0.4) 		3.4
(-1.7) 		4.5
(3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 3.2
(0.2)
A 		3.3
(0.7)
A 		3.8
(3)
A 		3.6
(2.1)
A 		3.1
(-0.2)
A 		2.5
(-3)
A 		1
B 3.1
(-2.2)
A 		2.3
(-2.8)
A 		3
(-2.3)
A 		10.2
(3)
A 		2.4
(-2.7)
A 		2
(-3)
A 		8
C 2.1
(-2.7)
A 		3.6
(-1)
A 		2.7
(-2)
A 		7.3
(3)
A 		3.6
(-1)
A 		1.8
(-3)
A 		6
avr 2.8
(-2.1) 		3.1
(-1.8) 		3.2
(-1.7) 		7
(3) 		3
(-1.9) 		2.1
(-3) 		5
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1
1 2 3 4 range
A 0.7
(-3)
A 		0.8
(-1.5)
A 		1.1
(3)
A 		1.1
(3)
A 		0
B 1.5
(3)
A 		1.3
(1.8)
A 		0.5
(-3)
A 		0.5
(-3)
A 		1
C 0.9
(0)
A 		0.8
(-1)
A 		1.2
(3)
A 		0.6
(-3)
A 		1
avr 1
(3) 		1
(3) 		0.9
(1) 		0.7
(-3) 		0

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 0.6
(-3)
A 		1.2
(3)
A 		0.8
(-1)
A 		0.9
(0)
A 		0.9
(0)
A 		0.6
(-3)
A 		1
B 1.1
(-1.8)
A 		0.8
(-2.7)
A 		0.7
(-3)
A 		2.7
(3)
A 		1
(-2.1)
A 		0.7
(-3)
A 		2
C 0.8
(-1.7)
A 		1.1
(0.3)
A 		0.7
(-2.3)
A 		1.5
(3)
A 		1.2
(1)
A 		0.6
(-3)
A 		1
avr 0.8
(-1.9) 		1
(-0.8) 		0.7
(-2.5) 		1.7
(3) 		1
(-0.8) 		0.6
(-3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191816_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9439
Sequence Type Exemplar sequence
Representative Public ID F55G11.9 NCBI
Target Description F55G11.9 /REP_DB=WormBase Gene ID /WP=CE19900 /TR=Q9XUD4 /GB=CAB05222.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ABC transporters (2 domains)
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_070077(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070077 NCBI Caenorhabditis elegans ABC Transporter family member (abt-3) (abt-3) mRNA, complete cds. 11/11 None
SNAP00000016140 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12950287:12957098:-1 11/11 None
GENEFINDER00000016157 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12950287:12957098:-1 11/11 None
F55G11.9 ENSEMBL cdna:known chromosome:CEL140:IV:12950287:12957098:-1 gene:F55G11.9 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:12950292-12957104(-) 100.0 100.0
Public Domain and Genome References
Gene Title ABC transporters (2 domains)
Gene Symbol abt-3
Ensembl F55G11.9
Entrez Gene 186341 Entrez gene
SwissProt Q9XUD4 EMBL-EBI
WormBase CE19900 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
166 nucleotide binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05222 Hypothetical protein F55G11.9 [Caenorhabditis elegans] ref|NP_502478.1| ABC Transporter family member (abt-3) [Caenorhabditis elegans] 0.0
blast CAA22142 Hypothetical protein Y53C10A.9 [Caenorhabditis elegans] ref|NP_493041.1| ABC Transporter family member (abt-5) [Caenorhabditis elegans] 0.0
blast CAE72956 Hypothetical protein CBG20290 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003439 EMBL-EBI ABC transporter 7.1E-50
Pfam IPR003439 EMBL-EBI ABC transporter 2.9E-48
Pfam IPR003439 EMBL-EBI ABC transporter 2.9E-48
Pfam IPR003439 EMBL-EBI ABC transporter 2.9E-48
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502478.1 11 21-43,192-214,235-257,272-294,306-328,338-360,367-389,944-966,979-1001,1011-1033,1054-1076
F55G11.9 11 21-43,192-214,235-257,272-294,306-328,338-360,367-389,944-966,979-1001,1011-1033,1054-1076
SNAP00000016140 12 21-43,192-214,235-257,272-294,306-328,338-360,367-389,926-948,955-977,983-1005,1018-1040,1060-1082
GENEFINDER00000016157 10 21-43,192-214,235-257,272-294,306-328,338-360,367-389,941-963,976-998,1018-1040
Sequence
Target Sequence 
>C. ELEGANS:191816_AT
aagtcgtcgatttagttctggattgtgtaggaatggcagatttcgggaataagctagtca
aaaattgcagtggtggtcaaaagcgcaaaatctccgttggcatcgctttgatgtctcgtg
ccacgtgtatcattcttgacgaaccgactgctggaatcgatccacgtgctcgtcgtgaaa
tttgggatattattcatgagatgagagaacaagcgaaatgctcaattgtgctcacgtctc
actcgatggaagaatgtgaagccttgtgcactcgaatcggaattcttagaaatggagaga
tgatcgcgttgggaaccagtcagtcattgaagtcacagtacgggaacacttatatgatga
cacttattctgaacaagttggaggataggaagtctgtctgtcaaattgtcaaagcagata
tgccgtatgcaacgctgaaaactcccgaatccagtttgactactagcattgtttgggaga
ttcccaagaaaaagtcggataaatggtcggtaaagtatgatcaagtggaggcgctcgcca
ga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTCGTCGATTTAGTTCTGGATTG 98 157 3704 Antisense
GCGCAAAATCTCCGTTGGCATCGCT 48 289 3786 Antisense
TGGCATCGCTTTGATGTCTCGTGCC 149 547 3801 Antisense
ATCATTCTTGACGAACCGACTGCTG 84 31 3832 Antisense
CTCACGTCTCACTCGATGGAAGAAT 102 223 3934 Antisense
AGCCTTGTGCACTCGAATCGGAATT 132 85 3963 Antisense
GATCGCGTTGGGAACCAGTCAGTCA 528 417 4005 Antisense
GGAAGTCTGTCTGTCAAATTGTCAA 388 531 4091 Antisense
GTATGCAACGCTGAAAACTCCCGAA 84 455 4128 Antisense
ACTCCCGAATCCAGTTTGACTACTA 65 3 4144 Antisense
TGATCAAGTGGAGGCGCTCGCCAGA 622 563 4221 Antisense
Sequence Source Affymetrix Proprietary Database