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[184408_at]

Description Y48B6A.14 /REP_DB=WormBase Gene ID /WP=CE22130 /TR=Q9U2A0 /GB=CAB54448.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 42      4grp_total > 07      6grp_cgc > 70      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 4.4
(-2.4)
A 		4
(-3)
A 		8
(3)
A 		5.3
(-1.1)
A 		4
B 5.7
(-0)
A 		5.4
(-0.3)
A 		3
(-3)
A 		8.4
(3)
A 		5
C 8.9
(3)
A 		4
(-3)
A 		6.8
(0.4)
A 		6.4
(-0.1)
A 		5
avr 6.3
(1.9) 		4.5
(-3) 		5.9
(0.8) 		6.7
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6
1 2 3 4 5 6 range
A 4.6
(3)
A 		4.2
(2.1)
A 		1.9
(-2.8)
A 		3.2
(0)
A 		1.8
(-3)
A 		3.3
(0.2)
A 		3
B 2.7
(-2.3)
A 		4.3
(0.6)
A 		5.6
(3)
A 		2.6
(-2.5)
A 		2.3
(-3)
A 		2.3
(-3)
A 		3
C 4
(-0.7)
A 		1.9
(-3)
A 		5.5
(0.9)
A 		5
(0.4)
A 		7.4
(3)
A 		2.3
(-2.6)
A 		6
avr 3.8
(1.2) 		3.5
(0.2) 		4.3
(3) 		3.6
(0.5) 		3.8
(1.2) 		2.6
(-3) 		2
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2
1 2 3 4 range
A 1.6
(0.7)
A 		0.9
(-2.5)
A 		2.1
(3)
A 		0.8
(-3)
A 		1
B 1.8
(3)
A 		1.3
(0.3)
A 		0.7
(-3)
A 		1.8
(3)
A 		1
C 2.9
(3)
A 		1.1
(-3)
A 		2.4
(1.3)
A 		1.1
(-3)
A 		2
avr 2.1
(3) 		1.1
(-3) 		1.7
(0.6) 		1.2
(-2.4) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2
1 2 3 4 5 6 range
A 0.8
(-0.8)
A 		1.5
(3)
A 		0.4
(-3)
A 		0.8
(-0.8)
A 		0.5
(-2.5)
A 		0.8
(-0.8)
A 		1
B 1
(-0.4)
A 		1.4
(3)
A 		1.4
(3)
A 		0.7
(-3)
A 		0.9
(-1.3)
A 		0.9
(-1.3)
A 		1
C 1.5
(0)
A 		0.6
(-3)
A 		1.4
(-0.3)
A 		1
(-1.7)
A 		2.4
(3)
A 		0.8
(-2.3)
A 		2
avr 1.1
(0.6) 		1.2
(1.8) 		1.1
(0.6) 		0.8
(-3) 		1.3
(3) 		0.8
(-3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184408_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3467
Sequence Type Exemplar sequence
Representative Public ID Y48B6A.14 NCBI
Target Description Y48B6A.14 /REP_DB=WormBase Gene ID /WP=CE22130 /TR=Q9U2A0 /GB=CAB54448.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Consensus/Exemplar Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade C annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_064569
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y48B6A.14.1 ENSEMBL cdna:known chromosome:CEL140:II:14250584:14251343:1 gene:Y48B6A.14 None
Y48B6A.14.2 ENSEMBL cdna:known chromosome:CEL140:II:14250586:14251343:1 gene:Y48B6A.14 None
GENEFINDER00000022976 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14250609:14250958:1 None
SNAP00000022970 ENSEMBL cdna:SNAP chromosome:CEL140:II:14250609:14250958:1 None
NM_064569 NCBI Caenorhabditis elegans HMG family member (hmg-1.1) (hmg-1.1) mRNA, complete cds. 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
chrII:14249410-14250955(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol hmg-1.1
Ensembl Y48B6A.14
Entrez Gene 175081 Entrez gene
SwissProt Q9U2A0 EMBL-EBI
WormBase CE29377 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 CAB54448 Hypothetical protein Y48B6A.14 [Caenorhabditis elegans] ref|NP_496970.1| HMG family member (hmg-1.1) [Caenorhabditis elegans] gb|AAC78598.1| high mobility group protein 1.1 [Caenorhabditis elegans] 3.0E-49
blast CAE73247 Hypothetical protein CBG20663 [Caenorhabditis briggsae] 8.0E-42
Protein Domains
Database ID Description E-Value
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 8.9E-23
Sequence
Target Sequence 
>C. ELEGANS:184408_AT
ttcattcgacccaacttgtcaacctattttttcgatcgatatttacctaggggttactgt
agattttggtctatttttgtggatttttgtgaattttcaatttttccagtgtctagaaat
ctctacaagacatttgtccagttccttaaggtccctgttccctggcccctggtcccatga
ctctgcaaagatcatcgttttccatctcacatctcatcattcgcatctccctccagcctt
caccccaaagcagtcattcattgcctcggacagcagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCATTCGACCCAACTTGTCAACCT 664 687 357 Antisense
TTGTCAACCTATTTTTTCGATCGAT 124 709 372 Antisense
TTCGATCGATATTTACCTAGGGGTT 557 591 387 Antisense
GATTTTGGTCTATTTTTGTGGATTT 655 429 418 Antisense
TTTTCAATTTTTCCAGTGTCTAGAA 117 677 450 Antisense
GAAATCTCTACAAGACATTTGTCCA 112 363 472 Antisense
GACATTTGTCCAGTTCCTTAAGGTC 400 369 485 Antisense
TGGTCCCATGACTCTGCAAAGATCA 414 551 526 Antisense
AAAGATCATCGTTTTCCATCTCACA 116 123 543 Antisense
CTTCACCCCAAAGCAGTCATTCATT 678 219 594 Antisense
TCATTCATTGCCTCGGACAGCAGCA 4 619 610 Antisense
Sequence Source Affymetrix Proprietary Database