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[172032_x_at]

Description g5880860 /REP_DB=GenBank Identifier /GB=AF153275.1 /PROTEIN_GB=AAD54940.1 /CHR=1 /FEA=Mapped Transcript /DEF=transcription factor RUN
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 27      4grp_highest_8_8 > 31      4grp_high_8_8 > 20      6grp_highest_nonorm > 81      6grp_total > 17      4grp_total > 20      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > Cu      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 317
1 2 3 4 range
A 240.6
(-1.2)
P 		252.1
(-0.9)
P 		178.5
(-3)
P 		388.1
(3)
P 		210
B 244.7
(-1.2)
P 		249.7
(-1.1)
P 		178.2
(-3)
P 		404.5
(3)
P 		226
C 249.5
(-1.2)
P 		256
(-1)
P 		151.8
(-3)
P 		469
(3)
P 		317
avr 244.9
(-1.2) 		252.6
(-1) 		169.5
(-3) 		420.5
(3) 		251

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 180
1 2 3 4 5 6 range
A 374.1
(3)
P 		293.8
(-0.7)
P 		264.6
(-2)
P 		265.5
(-2)
P 		292.8
(-0.7)
P 		242.6
(-3)
P 		132
B 326.4
(3)
P 		266.4
(0)
P 		206.3
(-3)
P 		277.9
(0.6)
P 		217.4
(-2.4)
P 		293.8
(1.4)
P 		120
C 283.1
(3)
P 		282.2
(2.9)
P 		247.5
(0.6)
P 		221.3
(-1.2)
P 		193.9
(-3)
P 		222.8
(-1.1)
P 		89
avr 327.9
(3) 		280.8
(-0) 		239.5
(-2.7) 		254.9
(-1.7) 		234.7
(-3) 		253.1
(-1.8) 		93
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 87.6
(3)
P 		54.7
(-1.8)
P 		46.7
(-3)
P 		56.8
(-1.5)
P 		41
B 78
(1.9)
P 		61.7
(-0.3)
P 		41.3
(-3)
P 		86.2
(3)
P 		45
C 82.6
(3)
P 		73.6
(1.2)
P 		52.9
(-3)
P 		79.1
(2.3)
P 		30
avr 82.7
(3) 		63.3
(-0.3) 		47
(-3) 		74
(1.5) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 69
(-1.5)
P 		104.5
(3)
P 		57.6
(-3)
P 		67.3
(-1.8)
P 		88.3
(0.9)
P 		59.1
(-2.8)
P 		47
B 113.6
(3)
P 		88.7
(0.6)
P 		50.1
(-3)
P 		73.6
(-0.8)
P 		88.3
(0.6)
P 		109.5
(2.6)
P 		64
C 104.9
(3)
P 		86.1
(1.1)
P 		63
(-1.2)
P 		44.5
(-3)
P 		62.7
(-1.2)
P 		74.6
(-0)
P 		60
avr 95.8
(3) 		93.1
(2.6) 		56.9
(-3) 		61.8
(-2.2) 		79.8
(0.5) 		81.1
(0.7) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172032_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19689
Sequence Type Exemplar sequence
Representative Public ID 5880860 NCBI
Target Description g5880860 /REP_DB=GenBank Identifier /GB=AF153275.1 /PROTEIN_GB=AAD54940.1 /CHR=1 /FEA=Mapped Transcript /DEF=transcription factor RUN
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_059278(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059278 NCBI Caenorhabditis elegans RuNT related family member (rnt-1) (rnt-1) mRNA, complete cds. 11/11 A 
B0414.2 ENSEMBL cdna:known chromosome:CEL140:I:5784233:5796744:1 gene:B0414.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000011711 8/11 Cross Hyb Matching Probes None
GENEFINDER00000011719 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:5784289-5796744(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol rnt-1
Ensembl B0414.2
Entrez Gene 172243 Entrez gene
SwissProt O01834 EMBL-EBI
WormBase CE24772 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1627618_AT dm
DROSGENOME1:145432_AT dm
CHICKEN:GGA.157.1.S1_AT runt-related transcription factor 2 gga
HG-U133_PLUS_2:216994_S_AT runt-related transcription factor 2 hs
HG-U133A_2:216994_S_AT runt-related transcription factor 2 hs
HG-FOCUS:216994_S_AT runt-related transcription factor 2 hs
HG-U133A:216994_S_AT runt-related transcription factor 2 hs
HG-U133_PLUS_2:232231_AT runt-related transcription factor 2 hs
HG-U133B:232231_AT runt-related transcription factor 2 hs
HG-U95AV2:39187_AT runt-related transcription factor 2 hs
HG-U95AV2:34501_AT runt-related transcription factor 2 hs
HG-U133_PLUS_2:221282_X_AT runt-related transcription factor 2 hs
HG-U133A:221282_X_AT runt-related transcription factor 2 hs
HG-U133A_2:221282_X_AT runt-related transcription factor 2 hs
HU35KSUBA:AA287840_AT runt-related transcription factor 2 hs
HU35KSUBC:RC_N67149_AT runt-related transcription factor 2 hs
HUGENEFL:L40992_AT runt-related transcription factor 2 hs
U133_X3P:G10863884_3P_A_AT runt-related transcription factor 2 hs
U133_X3P:HS.50115.0.S1_3P_AT runt-related transcription factor 2 hs
U133_X3P:HS.122116.0.A1_3P_AT runt-related transcription factor 2 hs
HG-U133_PLUS_2:236858_S_AT runt-related transcription factor 2 hs
HG-U133B:236858_S_AT runt-related transcription factor 2 hs
HG-U133_PLUS_2:236859_AT runt-related transcription factor 2 hs
HG-U133B:236859_AT runt-related transcription factor 2 hs
HG-U95AV2:34502_G_AT runt-related transcription factor 2 hs
HG-U95C:53261_AT runt-related transcription factor 2 hs
HG-U95E:73682_AT runt-related transcription factor 2 hs
HG-U133_PLUS_2:221283_AT runt-related transcription factor 2 hs
HG-U133A_2:221283_AT runt-related transcription factor 2 hs
HG-U133A:221283_AT runt-related transcription factor 2 hs
HG-U95D:87778_AT Runt-related transcription factor 2 hs
MG-U74AV2:92676_AT runt related transcription factor 2 mm
MOE430A:1424704_AT runt related transcription factor 2 mm
MOUSE430A_2:1424704_AT runt related transcription factor 2 mm
MOUSE430_2:1424704_AT runt related transcription factor 2 mm
MU11KSUBA:D14636_S_AT runt related transcription factor 2 mm
MG-U74AV2:92677_S_AT runt related transcription factor 2 mm
MG-U74AV2:161378_R_AT runt related transcription factor 2 mm
MG-U74CV2:169237_I_AT runt related transcription factor 2 mm
MOE430A:1426034_A_AT runt related transcription factor 2 mm
MOUSE430A_2:1426034_A_AT runt related transcription factor 2 mm
MOUSE430_2:1426034_A_AT runt related transcription factor 2 mm
MOE430A:1425389_A_AT runt related transcription factor 2 mm
MOUSE430A_2:1425389_A_AT runt related transcription factor 2 mm
MOUSE430_2:1425389_A_AT runt related transcription factor 2 mm
RAE230A:1376614_AT Runt related transcription factor 2 rn
RAT230_2:1376614_AT Runt related transcription factor 2 rn
RAE230B:1396592_AT Runt related transcription factor 2 rn
RAT230_2:1396592_AT Runt related transcription factor 2 rn
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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB57715 Runt related protein 1 [Caenorhabditis elegans] ref|NP_491679.1| RuNT related family member (rnt-1) [Caenorhabditis elegans] gb|AAD54940.1| transcription factor RUN [Caenorhabditis elegans] dbj|BAA77765.1| RNT-1 [Caenorhabditis elegans] 1.0E-145
blast CAE60460 Hypothetical protein CBG04068 [Caenorhabditis briggsae] 1.0E-112
blast AAM51942 GH02614p [Drosophila melanogaster] 3.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR000040 EMBL-EBI Acute myeloid leukemia 1 protein (AML 1)/Runt 3.0E-93
Sequence
Target Sequence 
>C. ELEGANS:172032_X_AT
tgccaatgacaatgattccaccaccatggtttcctttaccaatgactcaaactttccccc
catcattttttccgcttatctctccaggaccacatccttctatctcagctgcactttgga
aaattcacagcgaatcgatgaaaactccgattaaacaaaaagttgaacaggaaaatgtat
cccttaatacgtctacatgcctatcatctccatcaatttttataactccaacttctgatg
atcggaagttaaaacgaccatcttctcctcgttcaatcacaaaatcatcagaaacttcaa
ttaatttaattcaagaaactccggaatctgtagaatcaaaaagacgaagaaatgtatcaa
taacttcatcgaatagttcttctccgactatttggaggcctttttaatcttaaaaatatt
cattattttaccacaacacaccaaatttctctcaatttccaaatctcaattgtttcctac
ctcttcagtcacttttctcaatattctcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCAATGACAATGATTCCACCACC 438 587 898 Antisense
ACCACCATGGTTTCCTTTACCAATG 500 85 917 Antisense
CTTCTATCTCAGCTGCACTTTGGAA 590 219 994 Antisense
ATCCCTTAATACGTCTACATGCCTA 511 37 1076 Antisense
GCCTATCATCTCCATCAATTTTTAT 602 281 1096 Antisense
AGTTAAAACGACCATCTTCTCCTCG 100 63 1144 Antisense
TCTTCTCCTCGTTCAATCACAAAAT 398 617 1158 Antisense
TTCATCGAATAGTTCTTCTCCGACT 443 687 1262 Antisense
TACCACAACACACCAAATTTCTCTC 32 651 1326 Antisense
TCCAAATCTCAATTGTTTCCTACCT 121 587 1355 Antisense
CAGTCACTTTTCTCAATATTCTCGT 310 207 1383 Antisense
Sequence Source GenBank