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[190290_at] single minded protein

Description T01D3.2 /REP_DB=WormBase Gene ID /WP=CE12956 /TR=P90953 /GB=CAB03258.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=single minded protein
Cluster 6grp_total > 03      4grp_total > 22      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 76
1 2 3 4 range
A 49.8
(-0.6)
A 		21.8
(-3)
A 		22.3
(-3)
A 		90.9
(3)
A 		69
B 49.1
(3)
A 		21.2
(-3)
A 		25.3
(-2.1)
A 		36.5
(0.3)
A 		28
C 67.4
(2.5)
A 		35.3
(-0.9)
A 		15.2
(-3)
A 		72.4
(3)
A 		57
avr 55.4
(1.5) 		26.1
(-2.3) 		20.9
(-3) 		66.6
(3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 75.8
(3)
A 		57.9
(1.4)
A 		45.1
(0.2)
A 		33
(-0.8)
A 		51.8
(0.8)
A 		9
(-3)
A 		67
B 51.6
(1.6)
A 		49.8
(1.3)
A 		57.1
(2.7)
A 		52.8
(1.8)
A 		58.9
(3)
A 		27.1
(-3)
A 		32
C 8.4
(-3)
A 		38.9
(2.7)
A 		8.9
(-2.9)
A 		40.5
(3)
A 		10.2
(-2.7)
A 		29.9
(1)
A 		32
avr 45.3
(2.2) 		48.9
(3) 		37
(0.3) 		42.1
(1.5) 		40.3
(1.1) 		22
(-3) 		27
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18
1 2 3 4 range
A 18.1
(3)
A 		4.7
(-3)
A 		5.8
(-2.5)
A 		13.3
(0.9)
A 		13
B 15.7
(3)
A 		5.2
(-3)
A 		5.9
(-2.6)
A 		7.8
(-1.5)
A 		11
C 22.3
(3)
A 		10.2
(-1.3)
A 		5.3
(-3)
A 		12.2
(-0.6)
A 		17
avr 18.7
(3) 		6.7
(-2.5) 		5.7
(-3) 		11.1
(-0.5) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 14
(0.8)
A 		20.6
(3)
A 		9.8
(-0.5)
A 		8.4
(-1)
A 		15.6
(1.4)
A 		2.2
(-3)
A 		18
B 17.9
(0.4)
A 		16.6
(-0.2)
A 		13.9
(-1.3)
A 		14
(-1.3)
A 		23.9
(3)
A 		10.1
(-3)
A 		14
C 3.1
(-2.5)
A 		11.9
(3)
A 		2.3
(-3)
A 		8.1
(0.6)
A 		3.3
(-2.4)
A 		10
(1.8)
A 		10
avr 11.7
(-0.1) 		16.4
(3) 		8.7
(-2.1) 		10.2
(-1.1) 		14.3
(1.6) 		7.4
(-3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190290_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14114
Sequence Type Exemplar sequence
Representative Public ID T01D3.2 NCBI
Target Description T01D3.2 /REP_DB=WormBase Gene ID /WP=CE12956 /TR=P90953 /GB=CAB03258.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=single minded protein
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_073990(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073990 NCBI Caenorhabditis elegans T01D3.2 (T01D3.2) mRNA, complete cds. 11/11 None
SNAP00000036021 ENSEMBL cdna:SNAP chromosome:CEL140:V:13708577:13709945:-1 11/11 None
GENEFINDER00000036029 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13708577:13709945:-1 11/11 None
T01D3.2 ENSEMBL cdna:known chromosome:CEL140:V:13708571:13709950:-1 gene:T01D3.2 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
chrV:13708576-13709829(-) 100.0 100.0
Public Domain and Genome References
Gene Title single minded protein
Ensembl T01D3.2
Entrez Gene 179860 Entrez gene
SwissProt P90953 EMBL-EBI
WormBase CE30446 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CHICKEN:GGAAFFX.23091.1.S1_AT similar to basic-helix-loop-helix-PAS protein gga
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7165 signal transduction inferred from electronic annotation QuickGO AmiGO
9401 phosphoenolpyruvate-dependent sugar phosphotransferase system inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4871 signal transducer activity inferred from electronic annotation QuickGO AmiGO
5351 sugar porter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03258 Hypothetical protein T01D3.2 [Caenorhabditis elegans] ref|NP_506391.2| T01D3.2 [Caenorhabditis elegans] gb|AAK52515.1| putative transcription factor T01D3.2 [Caenorhabditis elegans] sp|P90953|SIM_CAEEL Single-minded homolog 1.0E-175
blast CAE66261 Hypothetical protein CBG11505 [Caenorhabditis briggsae] 1.0E-153
blast AAH65360 Single-minded homolog 2 [Danio rerio] gb|AAL58099.1| single-minded protein [Danio rerio] ref|NP_571911.1| single-minded homolog 2 [Danio rerio] 8.0E-26
Protein Domains
Database ID Description E-Value
Pfam IPR000014 EMBL-EBI PAS domain 3.6E-7
Sequence
Target Sequence 
>C. ELEGANS:190290_AT
tatcaattgctttaactcggcccttaactattgtgaccttaattggcctcaaatgtgcaa
cgtacgtgttaaatctagtctcacaaagcgagcaaacaaggatgcagttcgtgcttcacc
tggatacaaggttcttcgtctagaaattacaatgggtccaaatacaaatactagaatgat
tgcatgttatccaatgcctactccagttctttctacagtaaccattccttctaattcatt
tgttatcattacatccatcgatcttcatataacatttgctgatgaaaaagctcatcagtt
gcttaataacccattttacccagattcaaatatcaaaggaatgtcattatattcactgat
tgatatctcagattctgaagttatatcaaaaatgcatttcgatattttcaacctgggcgc
ttataaaaccccgtactatcgaatgatcttgaatcaaacaagtgaaactttttacgtcga
gtcaaatatttttcgtcatacttcgatttcctctaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATCAATTGCTTTAACTCGGCCCTT 297 657 357 Antisense
CTCGGCCCTTAACTATTGTGACCTT 132 233 372 Antisense
AGTTCGTGCTTCACCTGGATACAAG 621 63 462 Antisense
GCATGTTATCCAATGCCTACTCCAG 236 311 538 Antisense
ACTCCAGTTCTTTCTACAGTAACCA 152 97 556 Antisense
GTAACCATTCCTTCTAATTCATTTG 160 463 574 Antisense
GTTATCATTACATCCATCGATCTTC 335 447 598 Antisense
TAATAACCCATTTTACCCAGATTCA 573 635 660 Antisense
TCGATATTTTCAACCTGGGCGCTTA 447 603 755 Antisense
AAAACCCCGTACTATCGAATGATCT 78 131 781 Antisense
CGTCATACTTCGATTTCCTCTAAAC 173 247 850 Antisense
Sequence Source Affymetrix Proprietary Database