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[189908_at] NH(4+) transporter

Description M195.3 /REP_DB=WormBase Gene ID /WP=CE03516 /TR=SW:Q21565 /GB=CAA91293.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=NH(4+) transporter
Cluster 6grp_total > 47      4grp_total > 15      6grp_cgc > 19      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 174
1 2 3 4 range
A 158
(3)
P
66.1
(-1.6)
A
37.5
(-3)
A
110.3
(0.6)
P
121
B 157.3
(3)
P
15.4
(-3)
A
90.1
(0.2)
A
152.6
(2.8)
P
142
C 142.7
(1)
P
58.3
(-2.8)
A
52.8
(-3)
A
189.2
(3)
P
136
avr 152.7
(3)
46.6
(-3)
60.1
(-2.2)
150.7
(2.9)
106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 80.3
(-0.9)
A
90.3
(0.4)
A
65.4
(-2.8)
A
111.4
(3)
A
63.6
(-3)
A
102.4
(1.9)
A
48
B 96.7
(0.7)
A
95.8
(0.6)
A
45.4
(-3)
A
69.7
(-1.3)
A
71.6
(-1.1)
A
129.5
(3)
A
84
C 76.8
(-0.2)
M
122.5
(3)
A
35.9
(-3)
A
116
(2.5)
A
79
(-0)
A
104.2
(1.7)
A
87
avr 84.6
(0.4)
102.9
(2.1)
48.9
(-3)
99
(1.8)
71.4
(-0.9)
112
(3)
63
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 57.5
(3)
P
14.3
(-2.4)
A
9.8
(-3)
A
16.1
(-2.2)
P
48
B 50.2
(3)
P
3.8
(-3)
A
20.9
(-0.8)
A
32.5
(0.7)
P
46
C 47.2
(3)
P
16.8
(-3)
A
18.4
(-2.7)
A
31.9
(-0)
P
30
avr 51.6
(3)
11.6
(-3)
16.4
(-2.3)
26.8
(-0.7)
40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 14.8
(-2.8)
A
32.1
(3)
A
14.2
(-3)
A
28.3
(1.7)
A
19.2
(-1.3)
A
24.9
(0.6)
A
18
B 33.6
(0.6)
A
31.9
(0.4)
A
11
(-3)
A
18.5
(-1.8)
A
29.1
(-0.1)
A
48.3
(3)
A
37
C 28.5
(1.1)
M
37.4
(3)
A
9.1
(-3)
A
23.3
(0)
A
25.6
(0.5)
A
34.9
(2.5)
A
28
avr 25.6
(0.5)
33.8
(2.5)
11.4
(-3)
23.4
(-0.1)
24.6
(0.2)
36
(3)
25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189908_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2875
Sequence Type Exemplar sequence
Representative Public ID M195.3 NCBI
Target Description M195.3 /REP_DB=WormBase Gene ID /WP=CE03516 /TR=SW:Q21565 /GB=CAA91293.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=NH(4+) 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_063360(11)
Transcript Assignments
Representative
Transcript
Description Matching Probes Related Probesets by Grade
NM_063360 NCBI Caenorhabditis elegans AMmonium Transporter homolog family member (amt-3) (amt-3) mRNA, complete cds. 11/11 None
SNAP00000004361 ENSEMBL cdna:SNAP chromosome:CEL140:II:8363694:8367993:-1 10/11 None
GENEFINDER00000004363 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8363338:8369005:-1 11/11 None
M195.3.2 ENSEMBL cdna:known chromosome:CEL140:II:8363082:8369005:-1 gene:M195.3 11/11 A 
M195.3.1 ENSEMBL cdna:known chromosome:CEL140:II:8363118:8369081:-1 gene:M195.3 11/11 A 
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
chrII:8363690-8369002(-) 100.0 100.0
Public Domain and Genome References
Gene Title NH(4+) transporter
Gene Symbol amt-3
Ensembl M195.3
Entrez Gene 174338 Entrez gene
SwissProt Q21565 EMBL-EBI
WormBase CE32912 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20369_S_AT ammonium transporter 1, member 1 (AMT1.1) at
ATH1-121501:254723_AT ammonium transporter 1, member 1 (AMT1.1) at
DROSOPHILA_2:1633393_AT dm
DROSGENOME1:149943_AT dm
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
8519 ammonium transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91293 Hypothetical protein M195.3 [Caenorhabditis elegans] ref|NP_495761.2| AMmonium Transporter homolog family member (amt-3) [Caenorhabditis elegans] sp|Q21565|AMT3_CAEEL Putative ammonium transporter 0.0
blast CAE57701 Hypothetical protein CBG00705 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR010256 EMBL-EBI Rh-like protein/ammonium transporter 1.0E-126
Pfam IPR010256 EMBL-EBI Rh-like protein/ammonium transporter 2.1E-8
Pfam IPR010256 EMBL-EBI Rh-like protein/ammonium transporter 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495761.2 11 42-64,77-99,133-155,162-181,196-217,238-260,270-292,299-318,322-344,351-373,399-421
M195.3.2 11 42-64,77-99,133-155,162-181,196-217,238-260,270-292,299-318,322-344,351-373,399-421
M195.3.1 11 42-64,77-99,133-155,162-181,196-217,238-260,270-292,299-318,322-344,351-373,399-421
SNAP00000004361 8 47-69,82-104,138-160,167-186,201-222,243-265,275-297,306-328
GENEFINDER00000004363 11 42-64,77-99,133-155,162-181,196-217,238-260,270-292,299-318,322-344,351-373,399-421
Sequence
Target Sequence
>C. ELEGANS:189908_AT
ccacaggatttttagctctttttctaatcagcaagagtccacttggtcttcgtgttaccg
attacgaagaacaaattggtgctgacgtcattgaacatggtttggctggaacaaatgtag
caagatatgtattagaaaaaccattatccacaagaacatttcaaacagtcacaaaagcca
tcacaaaatggaaaatgttggctaaaaagaagagccgccagaaaagaatggaagctgcaa
aattaaagagacaagaagagcaggagacattcacaaatggaactgccatagcaaatggca
atggaaatgttctccaccatcgcacaaatgcaaccgagagtaatggaacgggtgctccca
aacgatccaatggtcctgcattcaataatcaaattacacctttagcagttagcagtactg
tatctactgctagaaatggtccaagtacgggcagaagaacagagtctacagctattgaga
ttgaacaaccaatagaagctgttcctccggaagtagttgctgctgctgtacttcctccag
aagaacggcctggtccctctacaaattcaaacgtatcgatcgaggctagtgtggag


BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position
Strandedness
CCACAGGATTTTTAGCTCTTTTTCT 471 275 1253 Antisense
CAGCAAGAGTCCACTTGGTCTTCGT 217 205 1281 Antisense
CTTGGTCTTCGTGTTACCGATTACG 66 217 1294 Antisense
TTCTCCACCATCGCACAAATGCAAC 207 691 1562 Antisense
ATGGAACGGGTGCTCCCAAACGATC 386 39 1595 Antisense
AACGATCCAATGGTCCTGCATTCAA 195 145 1613 Antisense
ACCAATAGAAGCTGTTCCTCCGGAA 333 25 1740 Antisense
AAGTAGTTGCTGCTGCTGTACTTCC 167 155 1763 Antisense
TCCTCCAGAAGAACGGCCTGGTCCC 565 591 1785 Antisense
CCTGGTCCCTCTACAAATTCAAACG 604 265 1801 Antisense
CGTATCGATCGAGGCTAGTGTGGAG 494 247 1824 Antisense
Sequence Source Affymetrix Proprietary Database