[Home] | [Total List]

[188706_at] MADS domain

Description D1081.2 /REP_DB=WormBase Gene ID /WP=CE05534 /TR=Q18955 /GB=CAB00023.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=MADS domain
Cluster 6grp_highest_10_10 > 32      6grp_high1_10_10 > 12      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 51      6grp_total > 13      4grp_total > 46      6grp_highest_sub > De      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 506
1 2 3 4 range
A 1113.9
(3)
P 		714.2
(-2.2)
P 		668.8
(-2.8)
P 		651.7
(-3)
P 		462
B 945.7
(3)
P 		752.3
(-0.4)
P 		607.8
(-3)
P 		649.7
(-2.3)
P 		338
C 1061.7
(3)
P 		747.3
(-2.2)
P 		715.1
(-2.7)
P 		696
(-3)
P 		366
avr 1040.4
(3) 		737.9
(-1.8) 		663.9
(-3) 		665.8
(-3) 		377

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 459
1 2 3 4 5 6 range
A 564.5
(-0.2)
P 		812.3
(3)
P 		581.6
(-0)
P 		545.7
(-0.5)
P 		431
(-2)
P 		353.8
(-3)
P 		459
B 708.4
(3)
P 		609.5
(0.8)
P 		644.2
(1.6)
P 		543.6
(-0.6)
P 		460.8
(-2.4)
P 		432.9
(-3)
P 		276
C 762.4
(3)
P 		660.6
(1.2)
P 		646.9
(0.9)
P 		642.5
(0.8)
P 		474.4
(-2.2)
P 		429.1
(-3)
P 		333
avr 678.4
(2.7) 		694.1
(3) 		624.2
(1.5) 		577.3
(0.6) 		455.4
(-2) 		405.3
(-3) 		289
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 310
1 2 3 4 range
A 405.6
(3)
P 		155
(-1.8)
P 		174.8
(-1.5)
P 		95.4
(-3)
P 		310
B 301.6
(3)
P 		185.8
(-1.3)
P 		140.9
(-2.9)
P 		138.5
(-3)
P 		163
C 351.4
(3)
P 		214.8
(-0.5)
P 		249.2
(0.4)
P 		117.4
(-3)
P 		234
avr 352.9
(3) 		185.2
(-1.3) 		188.3
(-1.2) 		117.1
(-3) 		236

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 203
1 2 3 4 5 6 range
A 104.1
(-2.5)
P 		288.9
(3)
P 		126.7
(-1.8)
P 		138.4
(-1.5)
P 		130.1
(-1.7)
P 		86.1
(-3)
P 		203
B 246.5
(3)
P 		202.9
(0.4)
P 		156.4
(-2.3)
P 		144
(-3)
P 		187.2
(-0.5)
P 		161.4
(-2)
P 		103
C 282.6
(3)
P 		201.6
(-0.2)
P 		164.7
(-1.6)
P 		129.2
(-3)
P 		153.5
(-2)
P 		143.6
(-2.4)
P 		153
avr 211.1
(1.8) 		231.1
(3) 		149.3
(-1.9) 		137.2
(-2.6) 		156.9
(-1.4) 		130.4
(-3) 		101
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188706_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2457
Sequence Type Exemplar sequence
Representative Public ID D1081.2 NCBI
Target Description D1081.2 /REP_DB=WormBase Gene ID /WP=CE05534 /TR=Q18955 /GB=CAB00023.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=MADS domain
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_059895(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059895 NCBI Caenorhabditis elegans UNCoordinated family member (unc-120) (unc-120) mRNA, complete cds. 11/11 None
GENEFINDER00000043206 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8468353:8470920:1 11/11 None
D1081.2 ENSEMBL cdna:known chromosome:CEL140:I:8468353:8470945:1 gene:D1081.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000043189 4/11 Cross Hyb Matching Probes None
SNAP00000043190 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:8468283-8470851(+) 100.0 100.0
Public Domain and Genome References
Gene Title MADS domain
Gene Symbol unc-120
Ensembl D1081.2
Entrez Gene 172636 Entrez gene
SwissProt Q18955 EMBL-EBI
WormBase CE05534 Wormbase
Functional Annotations
Ortholog
ID Title Organism
YEAST_2:1778752_AT Transcription factor involved in regulation of arginine-responsive genes; acts with Arg81p and Arg82p Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB00023 Hypothetical protein D1081.2 [Caenorhabditis elegans] ref|NP_492296.1| UNCoordinated family member (unc-120) [Caenorhabditis elegans] 1.0E-158
blast CAE67124 Hypothetical protein CBG12542 [Caenorhabditis briggsae] 1.0E-123
blast Q90718 Serum response factor (SRF) gb|AAB09753.1| serum response factor 3.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR002100 EMBL-EBI Transcription factor, MADS-box 1.2E-25
Sequence
Target Sequence 
>C. ELEGANS:188706_AT
gtgccttaatgctcctggtggagatggatcagatgttcagccaagtcgtaccgagttcac
atttgattctggaaatggtggaaacggaatgcgaaaacggaaaatgttgagcgatgttat
gtcagccgagtcgagcaacaacagcccatcgatgccaaacttcactccatttctcgcccc
atcaatggctccactgttctccacatttggagaggatgattataataatgatgaaagtgg
cgatgattcggattcagaagaagcttcaagtgatatcaaggaagaatatcaaggatcgcc
tacaatggttaagcaagaaacaacagaaattgatagtgtaacggcttcattacaacaaag
aataaaagaagcaatgaggcaggctgcatcaaataagcaggcaatcaaaaaggcaaaaat
tacacctccctcctcaaatatgaacaatgcggcatttttgaatccgtttcttcttcaagg
cggtgcaaatgcttcaaaccttctagcaacagctgcaagaaaaggtgacgatgcaggaag
cttaacatcaaatccatttctttcaatgggtctgaacttgcaacagctcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGCCTTAATGCTCCTGGTGGAGAT 448 477 375 Antisense
TCAGATGTTCAGCCAAGTCGTACCG 672 623 403 Antisense
AGTCGTACCGAGTTCACATTTGATT 305 61 418 Antisense
GATGTTATGTCAGCCGAGTCGAGCA 251 409 487 Antisense
AGTCGAGCAACAACAGCCCATCGAT 345 61 503 Antisense
GCTCCACTGTTCTCCACATTTGGAG 575 297 562 Antisense
GGATCGCCTACAATGGTTAAGCAAG 326 511 667 Antisense
GAATCCGTTTCTTCTTCAAGGCGGT 412 327 834 Antisense
GGCGGTGCAAATGCTTCAAACCTTC 304 539 853 Antisense
CTTCAAACCTTCTAGCAACAGCTGC 148 221 866 Antisense
GGGTCTGAACTTGCAACAGCTCATC 517 497 942 Antisense
Sequence Source Affymetrix Proprietary Database