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[192981_at] HMG box transcription factor

Description T22H6.6 /REP_DB=WormBase Gene ID /WP=CE18280 /GEN=gei-3 /TR=Q22691 /GB=CAA90676.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=HMG box transcription factor
Cluster 6grp_highest_10_10 > 80      6grp_high1_10_10 > 18      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 90      6grp_total > 05      4grp_total > 47      6grp_cgc > 03      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 201.4
(3)
P 		130.8
(-2)
P 		116
(-3)
P 		125.3
(-2.3)
P 		85
B 215.7
(3)
P 		101.2
(-3)
P 		105.6
(-2.8)
P 		140.7
(-0.9)
P 		115
C 181.4
(3)
P 		152.2
(0.9)
P 		114.2
(-1.7)
P 		96.1
(-3)
P 		85
avr 199.5
(3) 		128.1
(-1.9) 		111.9
(-3) 		120.7
(-2.4) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 277
1 2 3 4 5 6 range
A 187.8
(0.8)
P 		237
(3)
P 		110.8
(-2.8)
P 		105.8
(-3)
P 		191.5
(0.9)
P 		163
(-0.4)
P 		131
B 170.2
(2.3)
P 		179.9
(3)
P 		156.7
(1.3)
P 		97.8
(-3)
P 		123.9
(-1.1)
P 		98.4
(-3)
P 		82
C 374.3
(3)
P 		178.3
(-1.5)
P 		151.2
(-2.1)
P 		127.2
(-2.7)
P 		194.2
(-1.1)
P 		113.9
(-3)
P 		260
avr 244.1
(3) 		198.4
(1) 		139.6
(-1.7) 		110.3
(-3) 		169.9
(-0.3) 		125.1
(-2.3) 		134
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 73.3
(3)
P 		28.4
(-1.9)
P 		30.3
(-1.7)
P 		18.3
(-3)
P 		55
B 68.8
(3)
P 		25
(-2.9)
P 		24.5
(-3)
P 		30
(-2.3)
P 		44
C 60
(3)
P 		43.7
(0.8)
P 		39.8
(0.2)
P 		16.2
(-3)
P 		44
avr 67.4
(3) 		32.4
(-1.6) 		31.5
(-1.7) 		21.5
(-3) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 115
1 2 3 4 5 6 range
A 34.6
(-2)
P 		84.3
(3)
P 		24.1
(-3)
P 		26.8
(-2.7)
P 		57.8
(0.4)
P 		39.7
(-1.4)
P 		60
B 59.2
(2.9)
P 		59.9
(3)
P 		38
(-0.9)
P 		25.9
(-3)
P 		50.3
(1.3)
P 		36.7
(-1.1)
P 		34
C 138.7
(3)
P 		54.4
(-1.5)
P 		38.5
(-2.3)
P 		25.6
(-3)
P 		62.9
(-1)
P 		38.1
(-2.3)
P 		113
avr 77.5
(3) 		66.2
(1.7) 		33.5
(-2.1) 		26.1
(-3) 		57
(0.6) 		38.2
(-1.6) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192981_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17849
Sequence Type Exemplar sequence
Representative Public ID T22H6.6 NCBI
Target Description T22H6.6 /REP_DB=WormBase Gene ID /WP=CE18280 /GEN=gei-3 /TR=Q22691 /GB=CAA90676.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=HMG box transcription factor
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_077736(11)
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. 11/11 A 
SNAP00000019112 ENSEMBL cdna:SNAP chromosome:CEL140:X:12796229:12797483:-1 11/11 None
GENEFINDER00000019116 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12796229:12797507:-1 11/11 None
T22H6.6 ENSEMBL cdna:known chromosome:CEL140:X:12795135:12813866:-1 gene:T22H6.6 11/11 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:12796228-12802835(-) 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 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-164
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-160
blast CAE57210 Hypothetical protein CBG00068 [Caenorhabditis briggsae] 1.0E-81
blast CAE57210 Hypothetical protein CBG00068 [Caenorhabditis briggsae] 3.0E-77
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:192981_AT
caccgagaaattcgcacagcttccggaatttacgcctaagatttacaacgagattccggc
ctcgccgaatttgccgactccattcaagactccgggtcaagaccaatccatcttttttgg
agcgaacttcaatccagaccaacaattcttatcaagagacaatgtgacgccacaatccgc
ttgtactccaatgactcctatgatgtctgggcagacaactccaatgtttggcgaaagatc
ttcgatcaagaaattgctggaagaacgcagaaggctggtagccacgtttttggatgatca
aggactcttcccaaataatcacactatcaacgagttccaagagctccacaaagaagtgtt
ccctaccagaaatgctctgattctaaaaatccgagaagtacgccaaagaagaatgtcaac
tggcagtgaagctgagccaagctacaaaccaaccatcgaaaacataattagcgcgctcta
cgacaaatacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCGAGAAATTCGCACAGCTTCCG 244 201 1896 Antisense
CAGCTTCCGGAATTTACGCCTAAGA 306 195 1912 Antisense
GAATTTGCCGACTCCATTCAAGACT 95 325 1962 Antisense
GACTCCGGGTCAAGACCAATCCATC 486 373 1983 Antisense
GGAGCGAACTTCAATCCAGACCAAC 647 519 2014 Antisense
CTTGTACTCCAATGACTCCTATGAT 69 217 2075 Antisense
AAGGCTGGTAGCCACGTTTTTGGAT 134 159 2166 Antisense
AGGACTCTTCCCAAATAATCACACT 618 55 2196 Antisense
GAAGTGTTCCCTACCAGAAATGCTC 366 335 2248 Antisense
TGAGCCAAGCTACAAACCAACCATC 184 569 2328 Antisense
ATTAGCGCGCTCTACGACAAATACC 356 11 2362 Antisense
Sequence Source Affymetrix Proprietary Database