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[189516_at] aminotransferase

Description B0205.6 /REP_DB=WormBase Gene ID /WP=CE17320 /TR=O61741 /GB=AAC16992.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=aminotransferase
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 20      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 77      6grp_total > 34      4grp_total > 48      6grp_highest_sub > 01_02_03      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 774
1 2 3 4 range
A 1497.9
(1.3)
P 		1103.3
(-3)
P 		1660.2
(3)
P 		1581.3
(2.1)
P 		557
B 1469.7
(-3)
P 		1877
(3)
P 		1689.6
(0.2)
P 		1553.4
(-1.8)
P 		407
C 1433.3
(-1)
P 		1745.2
(3)
P 		1576.9
(0.8)
P 		1282.6
(-3)
P 		463
avr 1467
(-3) 		1575.2
(0.7) 		1642.2
(3) 		1472.4
(-2.8) 		175

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 858
1 2 3 4 5 6 range
A 1564.2
(2.1)
P 		1329
(-0.2)
P 		1663
(3)
P 		1249.5
(-1)
P 		1038.2
(-3)
P 		1104.4
(-2.4)
P 		625
B 1429.4
(2)
P 		1493
(3)
P 		1477.4
(2.8)
P 		1267.6
(-0.5)
P 		1110.6
(-3)
P 		1303.1
(0)
P 		382
C 1306.6
(1.3)
P 		1501.7
(3)
P 		1374.2
(1.9)
P 		1395.4
(2.1)
P 		805
(-3)
P 		1382.9
(2)
P 		697
avr 1433.4
(2.2) 		1441.2
(2.3) 		1504.9
(3) 		1304.2
(0.7) 		984.6
(-3) 		1263.5
(0.2) 		520
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 333
1 2 3 4 range
A 545.4
(3)
P 		239.5
(-2.8)
P 		434
(0.9)
P 		231.5
(-3)
P 		314
B 468.7
(3)
P 		463.6
(2.8)
P 		391.5
(-0.4)
P 		331
(-3)
P 		138
C 474.5
(1.6)
P 		501.8
(2.1)
P 		549.6
(3)
P 		216.3
(-3)
P 		333
avr 496.2
(3) 		401.6
(0.6) 		458.4
(2) 		259.6
(-3) 		237

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 237
1 2 3 4 5 6 range
A 288.4
(-2.4)
P 		472.7
(3)
P 		362.2
(-0.3)
P 		316.9
(-1.6)
P 		313.3
(-1.7)
P 		268.9
(-3)
P 		204
B 497.4
(3)
P 		497
(3)
P 		358.8
(-2.1)
P 		335.7
(-3)
P 		451.2
(1.3)
P 		485.9
(2.6)
P 		162
C 484.3
(3)
P 		458.2
(2.3)
P 		349.8
(-0.6)
P 		280.6
(-2.5)
P 		260.5
(-3)
P 		462.9
(2.4)
P 		224
avr 423.4
(1.1) 		476
(3) 		356.9
(-1.3) 		311.1
(-3) 		341.7
(-1.9) 		405.9
(0.4) 		165
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189516_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1943
Sequence Type Exemplar sequence
Representative Public ID B0205.6 NCBI
Target Description B0205.6 /REP_DB=WormBase Gene ID /WP=CE17320 /TR=O61741 /GB=AAC16992.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=aminotransferase
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_060411(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060411 NCBI Caenorhabditis elegans B0205.6 (aminotransferase) mRNA, complete cds. 11/11 None
SNAP00000024671 ENSEMBL cdna:SNAP chromosome:CEL140:I:10744825:10747895:1 11/11 None
GENEFINDER00000024679 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10744825:10748516:1 11/11 None
B0205.6 ENSEMBL cdna:known chromosome:CEL140:I:10744818:10748053:1 gene:B0205.6 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
chrI:10744800-10747826(+) 99.63 100.0
Public Domain and Genome References
Gene Title aminotransferase
Ensembl B0205.6
Entrez Gene 172979 Entrez gene
SwissProt O61741 EMBL-EBI
WormBase CE30405 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247164_AT cysteine desulfurase, mitochondrial (NIFS) at
ATGENOME1:15941_AT cysteine desulfurase, mitochondrial (NIFS) at
CANINE:1604643_AT similar to NFS1 nitrogen fixation 1 isoform a precursor cfa
CANINE_2:CFA.2659.1.S1_AT similar to NFS1 nitrogen fixation 1 isoform a precursor cfa
CANINE_2:CFAAFFX.13200.1.S1_AT similar to NFS1 nitrogen fixation 1 isoform a precursor cfa
CANINE_2:CFAAFFX.13200.1.S1_S_AT similar to NFS1 nitrogen fixation 1 isoform a precursor cfa
DROSOPHILA_2:1640977_AT dm
DROSGENOME1:154115_AT dm
DROSGENOME1:146264_S_AT dm
CHICKEN:GGA.4792.2.S1_S_AT NFS1 nitrogen fixation 1 (S. cerevisiae) gga
CHICKEN:GGAAFFX.12142.1.S1_S_AT NFS1 nitrogen fixation 1 (S. cerevisiae) gga
CHICKEN:GGA.4792.2.S1_AT Similar to Cysteine desulfurase, mitochondrial precursor (HUSSY-08) gga
HG-U133_PLUS_2:218455_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
HG-U133A:218455_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
HG-FOCUS:218455_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
HG-U133A_2:218455_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
HU35KSUBA:RC_AA291657_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
U133_X3P:G10864078_3P_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
U133_X3P:HS2.194692.2.S1_3P_X_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
U133_X3P:1554321_3P_A_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
HG-U133_PLUS_2:1554321_A_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
HG-U95B:56240_AT NFS1 nitrogen fixation 1 (S. cerevisiae) hs
MOE430A:1431431_A_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOUSE430_2:1431431_A_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOUSE430A_2:1431431_A_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MG-U74AV2:95065_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MG-U74BV2:105328_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MG-U74BV2:165285_I_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MG-U74CV2:169597_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOE430A:1416373_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOUSE430A_2:1416373_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOUSE430_2:1416373_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOE430B:1442017_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MOUSE430_2:1442017_AT nitrogen fixation gene 1 (S. cerevisiae) mm
MU19KSUBA:TC24160_AT Nitrogen fixation gene 1 (S. cerevisiae), mRNA (cDNA clone MGC:11683 IMAGE:3711352) mm
MU19KSUBA:TC24160_G_AT Nitrogen fixation gene 1 (S. cerevisiae), mRNA (cDNA clone MGC:11683 IMAGE:3711352) mm
MU19KSUBB:TC28643_AT Nitrogen fixation gene 1 (S. cerevisiae), mRNA (cDNA clone MGC:11683 IMAGE:3711352) mm
MU19KSUBC:TC38072_AT Nitrogen fixation gene 1 (S. cerevisiae), mRNA (cDNA clone MGC:11683 IMAGE:3711352) mm
RAE230A:1387859_AT nitrogen fixation gene 1 (S. cerevisiae) rn
RAT230_2:1387859_AT nitrogen fixation gene 1 (S. cerevisiae) rn
YEAST_2:1774204_AT Cysteine desulfurase involved in iron-sulfur cluster (Fe/S) biogenesis; required for the post-transcriptional thio-modification of mitochondrial and cytoplasmic tRNAs; essential protein located predominantly in mitochondria Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8483 transaminase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC16992 Hypothetical protein B0205.6 [Caenorhabditis elegans] ref|NP_492812.2| B0205.6 [Caenorhabditis elegans] 0.0
blast CAE67358 Hypothetical protein CBG12821 [Caenorhabditis briggsae] 0.0
blast AAF53143 CG12264-PA [Drosophila melanogaster] gb|AAM29368.1| LD22661p [Drosophila melanogaster] ref|NP_609533.1| CG12264-PA [Drosophila melanogaster] sp|Q9VKD3|NFS1_DROME Probable cysteine desulfurase, mitochondrial precursor 1.0E-170
Protein Domains
Database ID Description E-Value
scop a.2.11.Fe,Mn superoxide dismutase (SOD), N-terminal domain All alpha proteins; Long alpha-hairpin; Fe,Mn superoxide dismutase (SOD), N-terminal domain; Fe,Mn superoxide dismutase (SOD), N-terminal domain 4.0
Pfam IPR000192 EMBL-EBI Aminotransferase, class V 1.0E-126
Pfam IPR000192 EMBL-EBI Aminotransferase, class V 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:189516_AT
gtcgtccacgtgttcgtattgaagctcaaatgtctggtggaggacaggaaagaggattac
gatctggtactgtagctgctccattgtgcattggacttggggaagctgctaaaattgctg
ataaggagatggcaatggataaagctcatgttgaacgattatctcaaatgcttatcaacg
gaatcagtgataaattgccacatattatcagaaatggagatgctaggcatgcttatcccg
gttgtgtcaatctctcatttgcatatgttgaaggtgagtcccttctgatggctctaaaat
cgattgctctttcttctggaagtgcttgtacatctgcttcattggaaccttcatacgtac
ttcgtgcaatcggatccgaagaagacttggctcattcttcgattcgattcggattgggaa
gatttacaactgacgaggaggtgaagcatacaattgatctatgcattcgtgaaacaaatc
ggctccgtgatttgagtcctctctggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCGTCCACGTGTTCGTATTGAAGC 547 471 794 Antisense
GTACTGTAGCTGCTCCATTGTGCAT 405 459 860 Antisense
CATGCTTATCCCGGTTGTGTCAATC 170 211 1021 Antisense
GTTGTGTCAATCTCTCATTTGCATA 154 437 1034 Antisense
TGAGTCCCTTCTGATGGCTCTAAAA 10 569 1068 Antisense
ATCGATTGCTCTTTCTTCTGGAAGT 183 37 1092 Antisense
GGAAGTGCTTGTACATCTGCTTCAT 588 531 1111 Antisense
CTGCTTCATTGGAACCTTCATACGT 662 235 1127 Antisense
TACGTACTTCGTGCAATCGGATCCG 316 237 1147 Antisense
TTGGCTCATTCTTCGATTCGATTCG 550 705 1180 Antisense
TCCGTGATTTGAGTCCTCTCTGGGA 44 595 1277 Antisense
Sequence Source Affymetrix Proprietary Database