[Home] | [Total List]

[192214_s_at] high mobility group protein like

Description W02D9.3 /REP_DB=WormBase Gene ID /WP=CE14458 /TR=Q9XVG8 /GB=CAB03465.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=high mobility group protein like
Cluster 6grp_total > 98      4grp_total > 06      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 23.7
(-1.8)
A 		14.5
(-3)
A 		60.8
(3)
A 		45.2
(1)
A 		46
B 54.2
(3)
A 		28.3
(-0.1)
A 		3.5
(-3)
A 		17.9
(-1.3)
A 		51
C 38.5
(-1.8)
A 		29.2
(-3)
A 		34.7
(-2.3)
A 		75.7
(3)
A 		47
avr 38.8
(1) 		24
(-3) 		33
(-0.6) 		46.3
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 205
1 2 3 4 5 6 range
A 53.7
(-1.7)
A 		11.1
(-3)
A 		21.4
(-2.7)
A 		60.6
(-1.5)
A 		123.9
(0.4)
A 		210
(3)
P 		199
B 45.4
(-0.5)
A 		6.1
(-3)
A 		17.8
(-2.3)
A 		62.2
(0.6)
A 		90.3
(2.4)
A 		99.8
(3)
P 		94
C 33.8
(-1)
A 		43.4
(-0.3)
A 		18.8
(-2)
A 		5.1
(-3)
A 		90.2
(3)
A 		82.7
(2.5)
P 		85
avr 44.3
(-1.7) 		20.2
(-3) 		19.3
(-3) 		42.6
(-1.7) 		101.5
(1.4) 		130.8
(3) 		112
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 8.6
(-0.4)
A 		3.2
(-3)
A 		15.9
(3)
A 		6.6
(-1.4)
A 		13
B 17.3
(3)
A 		7
(-0.7)
A 		0.8
(-3)
A 		3.8
(-1.9)
A 		17
C 12.8
(3)
A 		8.4
(-3)
A 		12.1
(2)
A 		12.8
(3)
A 		4
avr 12.9
(3) 		6.2
(-3) 		9.6
(0) 		7.7
(-1.7) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 9.9
(-2.2)
A 		3.9
(-3)
A 		4.7
(-2.9)
A 		15.4
(-1.5)
A 		37.4
(1.3)
A 		51.1
(3)
P 		47
B 15.8
(-0.6)
A 		2
(-3)
A 		4.3
(-2.6)
A 		16.5
(-0.5)
A 		36.7
(2.9)
A 		37.2
(3)
P 		35
C 12.5
(-0.6)
A 		13.3
(-0.4)
A 		4.8
(-2.2)
A 		1
(-3)
A 		29.2
(3)
A 		27.7
(2.7)
P 		28
avr 12.7
(-1.6) 		6.4
(-2.7) 		4.6
(-3) 		11
(-1.9) 		34.4
(2.2) 		38.7
(3) 		34
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192214_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.523
Sequence Type Exemplar sequence
Representative Public ID W02D9.3 NCBI
Target Description W02D9.3 /REP_DB=WormBase Gene ID /WP=CE14458 /TR=Q9XVG8 /GB=CAB03465.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=high mobility group protein like
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_060777(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060777 NCBI Caenorhabditis elegans W02D9.3 (W02D9.3) mRNA, complete cds. 11/11 None
SNAP00000003931 ENSEMBL cdna:SNAP chromosome:CEL140:I:12543448:12545472:1 11/11 None
GENEFINDER00000003942 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12543448:12545472:1 11/11 None
W02D9.3 ENSEMBL cdna:known chromosome:CEL140:I:12543443:12545729:1 gene:W02D9.3 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
chrI:12543378-12545403(+) 100.0 100.0
Public Domain and Genome References
Gene Title high mobility group protein like
Ensembl W02D9.3
Entrez Gene 173124 Entrez gene
SwissProt Q9XVG8 EMBL-EBI
WormBase CE14458 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 CAB03465 Hypothetical protein W02D9.3 [Caenorhabditis elegans] ref|NP_493178.1| W02D9.3 [Caenorhabditis elegans] 0.0
blast CAE64110 Hypothetical protein CBG08719 [Caenorhabditis briggsae] 1.0E-109
blast NP_060670 high-mobility group 20A [Homo sapiens] gb|AAH21959.1| High-mobility group 20A [Homo sapiens] emb|CAB90816.1| HMG20A [Homo sapiens] gb|AAP35362.1| high-mobility group 20A [Homo sapiens] gb|AAF66706.1| HMG domain protein HMGX1 [Homo sapiens] dbj|BAA91782.1| unnamed protein product [Homo sapiens] gb|AAX41985.1| high-mobility group 20A [synthetic construct] gb|AAX41984.1| high-mobility group 20A [synthetic construct] 2.0E-14
Protein Domains
Database ID Description E-Value
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 3.3E-10
Sequence
Target Sequence 
>C. ELEGANS:192214_S_AT
aacgtgcaaaattcctgtcatctcagtcaaatggctcgaaaaatgcgaaaaaacgacggc
aagcagattctgacgacgacacgccaaacgtgcaaatccccttcccgaaaccatcagttt
tttgtccacttttgagcccagagcctgccacgtcatcatccacatcaggcctacagtact
ctgggccgatttttacgccggaatttatgacctacaacaagacacgggacacctaccgta
ggcagctggctattgagagatcccatgtggagcatgagctcgaggcgcttcatcagcacg
atatggacgttcgaattgagcaacaagagacacgaatccgagaagctgacgagaaaatcg
aggagacgatggcaaaaatgcgtacggtgctcgccgcggttcccggtgcaaaagatcacc
tgacctcaattgacgcactggccacgtggctcgagtctctgacccatctcggagcccaaa
attcgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACGTGCAAAATTCCTGTCATCTCA 193 145 623 Antisense
AAGCAGATTCTGACGACGACACGCC 413 151 683 Antisense
GACACGCCAAACGTGCAAATCCCCT 12 369 700 Antisense
GAAACCATCAGTTTTTTGTCCACTT 563 357 729 Antisense
CACATCAGGCCTACAGTACTCTGGG 33 193 783 Antisense
TACTCTGGGCCGATTTTTACGCCGG 624 643 799 Antisense
GACACCTACCGTAGGCAGCTGGCTA 181 367 850 Antisense
TGGAGCATGAGCTCGAGGCGCTTCA 474 547 890 Antisense
GGCGCTTCATCAGCACGATATGGAC 157 543 906 Antisense
CAAAAATGCGTACGGTGCTCGCCGC 399 191 995 Antisense
CCCATCTCGGAGCCCAAAATTCGAC 108 257 1085 Antisense
Sequence Source Affymetrix Proprietary Database