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[178044_at] HMG box transcription factor

Description C52G5.1 /REP_DB=WormBase Gene ID /WP=CE03085 /TR=Q18792 /GB=CAA91796.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 10      4grp_total > 17      6grp_cgc > 54      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 244
1 2 3 4 range
A 24.5
(-2.6)
A 		109.1
(-0.5)
A 		9.2
(-3)
A 		253.2
(3)
P 		244
B 88.3
(-3)
A 		94.3
(-2.2)
A 		133.6
(3)
A 		106.1
(-0.6)
P 		45
C 103
(-3)
A 		117
(-2.2)
A 		140.4
(-0.8)
A 		206.2
(3)
P 		103
avr 71.9
(-3) 		106.8
(-1.2) 		94.4
(-1.8) 		188.5
(3) 		117

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 123
1 2 3 4 5 6 range
A 103.3
(0.7)
A 		143.9
(3)
A 		115.9
(1.4)
A 		72.7
(-1)
A 		37.4
(-3)
A 		105.5
(0.8)
A 		107
B 76
(-3)
A 		127.8
(0.7)
A 		114.4
(-0.3)
A 		96.3
(-1.6)
A 		160.7
(3)
A 		111.8
(-0.5)
A 		85
C 51.5
(-3)
A 		113.9
(3)
A 		102.5
(1.9)
A 		64.8
(-1.7)
A 		92
(0.9)
A 		62.4
(-2)
A 		62
avr 76.9
(-3) 		128.5
(3) 		110.9
(1) 		77.9
(-2.9) 		96.7
(-0.7) 		93.2
(-1.1) 		52
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 8.9
(-1.9)
A 		23.7
(0.7)
A 		2.4
(-3)
A 		37.1
(3)
P 		35
B 28.2
(1)
A 		23.3
(-2.5)
A 		31
(3)
A 		22.6
(-3)
P 		8
C 34.1
(-2.8)
A 		33.6
(-3)
A 		48.9
(3)
A 		34.8
(-2.5)
P 		15
avr 23.7
(-3) 		26.9
(-0.5) 		27.4
(-0.2) 		31.5
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 19
(-1.8)
A 		51.2
(3)
A 		25.2
(-0.9)
A 		18.5
(-1.9)
A 		11.3
(-3)
A 		25.7
(-0.8)
A 		40
B 26.4
(-2.9)
A 		42.5
(-0.4)
A 		27.8
(-2.7)
A 		25.5
(-3)
A 		65.3
(3)
A 		41.7
(-0.6)
A 		40
C 19.1
(-1.3)
A 		34.8
(3)
A 		26.1
(0.6)
A 		13
(-3)
A 		29.8
(1.6)
A 		20.9
(-0.8)
A 		22
avr 21.5
(-2.4) 		42.8
(3) 		26.4
(-1.1) 		19
(-3) 		35.5
(1.2) 		29.4
(-0.4) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178044_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17995
Sequence Type Exemplar sequence
Representative Public ID C52G5.1 NCBI
Target Description C52G5.1 /REP_DB=WormBase Gene ID /WP=CE03085 /TR=Q18792 /GB=CAA91796.1 /SUBMIT=HINXTON /CHR=X /FEA=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_077736(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077736 NCBI Caenorhabditis elegans GEX Interacting protein family member (gei-3) (gei-3) mRNA, complete cds. 10/11 A 
GENEFINDER00000002179 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12806275:12815028:-1 10/11 None
SNAP00000002171 ENSEMBL cdna:SNAP chromosome:CEL140:X:12808112:12810701:-1 10/11 None
T22H6.6 ENSEMBL cdna:known chromosome:CEL140:X:12795135:12813866:-1 gene:T22H6.6 10/11 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
chrX:12808574-12812939(-) 100.0 100.0
Public Domain and Genome References
Gene Title HMG box transcription factor
Gene Symbol gei-3
Ensembl T22H6.6
Entrez Gene 181419 Entrez gene
SwissProt Q22691 EMBL-EBI
WormBase CE31625 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAD44099 Hypothetical protein T22H6.6 [Caenorhabditis elegans] emb|CAA90676.2| Hypothetical protein T22H6.6 [Caenorhabditis elegans] ref|NP_510137.2| GEX Interacting protein family member (gei-3) [Caenorhabditis elegans] 0.0
blast CAE57210 Hypothetical protein CBG00068 [Caenorhabditis briggsae] 0.0
blast T20158 hypothetical protein C52G5.1 - Caenorhabditis elegans 0.0
blast CAE57209 Hypothetical protein CBG00066 [Caenorhabditis briggsae] 1.0E-122
blast CAD44099 Hypothetical protein T22H6.6 [Caenorhabditis elegans] emb|CAA90676.2| Hypothetical protein T22H6.6 [Caenorhabditis elegans] ref|NP_510137.2| GEX Interacting protein family member (gei-3) [Caenorhabditis elegans] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 1.7E-19
Sequence
Target Sequence 
>C. ELEGANS:178044_AT
tcattaatatcactcccataccgacacccatttcaacaggtcagattgttactcacgcat
caccggctggtacggtgatcgtgccagtgttaccgttacaacctggcacctcaaatcagg
aatcgagctcaaaaactgtttcaatagattctgacgaagagcttccagagtcgtcaaatc
aggaccagtcgggtgaaccatcaccaaccaccgtatcatctgctgcttcacggtcactgt
ttgtgaatccatcgcaagattccggaatattcgaggccgacgtagatacgccgcagtcaa
gtatgtttcacagtatcaacgctccagtttgtgctacgaaagccatgttagatcagcaac
gtttcaaaaaaggtgaaatcgtgacgacgcatatcgggcttactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATTAATATCACTCCCATACCGAC 421 619 1028 Antisense
TACCGACACCCATTTCAACAGGTCA 688 647 1046 Antisense
GTCAGATTGTTACTCACGCATCACC 185 467 1067 Antisense
GTACGGTGATCGTGCCAGTGTTACC 424 457 1097 Antisense
CAGTGTTACCGTTACAACCTGGCAC 81 207 1112 Antisense
GAAGAGCTTCCAGAGTCGTCAAATC 500 337 1183 Antisense
CAGGACCAGTCGGGTGAACCATCAC 681 207 1207 Antisense
ACCGTATCATCTGCTGCTTCACGGT 407 89 1237 Antisense
ACGCCGCAGTCAAGTATGTTTCACA 442 91 1315 Antisense
GTATCAACGCTCCAGTTTGTGCTAC 637 449 1340 Antisense
GTGACGACGCATATCGGGCTTACTT 533 481 1408 Antisense
Sequence Source Affymetrix Proprietary Database