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[184409_s_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_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 48      4grp_high_8_8 > 42      6grp_highest_nonorm > 58      6grp_total > 48      4grp_total > 45      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1404
1 2 3 4 range
A 4055
(1.7)
P 		4222.3
(3)
P 		3792.2
(-0.4)
P 		3473.3
(-3)
P 		749
B 4827.2
(3)
P 		4170.6
(0.1)
P 		3709.2
(-2)
P 		3472.5
(-3)
P 		1355
C 4202.8
(3)
P 		3929.3
(0.9)
P 		3476.9
(-2.6)
P 		3423.4
(-3)
P 		779
avr 4361.7
(3) 		4107.4
(1.3) 		3659.4
(-1.7) 		3456.4
(-3) 		905

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2879
1 2 3 4 5 6 range
A 2177.9
(-2.4)
P 		4029.6
(2)
P 		2047.6
(-2.7)
P 		3463.3
(0.6)
P 		1922.7
(-3)
P 		4470.5
(3)
P 		2548
B 2623
(1.5)
P 		2765.7
(3)
P 		2324.1
(-1.6)
P 		2187.6
(-3)
P 		2524.2
(0.5)
P 		2722.2
(2.5)
P 		578
C 4713.3
(3)
P 		2632.8
(-1.3)
P 		3093.9
(-0.4)
P 		1833.9
(-3)
P 		3837.1
(1.2)
P 		3231.6
(-0.1)
P 		2879
avr 3171.4
(1.2) 		3142.7
(1) 		2488.5
(-3) 		2494.9
(-3) 		2761.3
(-1.3) 		3474.8
(3) 		986
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1031
1 2 3 4 range
A 1476.4
(3)
P 		916.5
(-0.5)
P 		991.4
(-0)
P 		508.4
(-3)
P 		968
B 1539.4
(3)
P 		1030
(-0.8)
P 		859.5
(-2.1)
P 		740
(-3)
P 		799
C 1391.2
(3)
P 		1129.7
(1.1)
P 		1211.8
(1.7)
P 		577.2
(-3)
P 		814
avr 1469
(3) 		1025.4
(-0.1) 		1020.9
(-0.1) 		608.5
(-3) 		861

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1378
1 2 3 4 5 6 range
A 401.5
(-3)
P 		1433.1
(3)
P 		445.9
(-2.7)
P 		878.4
(-0.2)
P 		580.2
(-2)
P 		1088.4
(1)
P 		1032
B 912.7
(1.5)
P 		920.6
(1.6)
P 		564.4
(-3)
P 		579.4
(-2.8)
P 		1025.5
(3)
P 		1015.1
(2.9)
P 		461
C 1747
(3)
P 		803.4
(-1.1)
P 		787.4
(-1.2)
P 		368.8
(-3)
P 		1241.6
(0.8)
P 		1081.8
(0.1)
P 		1378
avr 1020.4
(2.5) 		1052.4
(2.9) 		599.2
(-3) 		608.9
(-2.9) 		949.1
(1.5) 		1061.8
(3) 		463
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 184409_s_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 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_064569(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064569 NCBI Caenorhabditis elegans HMG family member (hmg-1.1) (hmg-1.1) mRNA, complete cds. 11/11 A 
SNAP00000022970 ENSEMBL cdna:SNAP chromosome:CEL140:II:14250609:14250958:1 10/11 None
GENEFINDER00000022976 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14250609:14250958:1 10/11 None
Y48B6A.14.1 ENSEMBL cdna:known chromosome:CEL140:II:14250584:14251343:1 gene:Y48B6A.14 11/11 None
Y48B6A.14.2 ENSEMBL cdna:known chromosome:CEL140:II:14250586:14251343:1 gene:Y48B6A.14 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
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:184409_S_AT
ctaacgatggctaaggctgccgccggaaagaaggcttccccagtgaagcgagtcaagaag
ggaggaaaggccaaggacccgaacgccccgaagcgcgccatgtccgccttcttcttctgg
atgcaggagaaccgtgagcgcatcaagaagccaggtatgggagtcgccgatgtcgccaag
gccgccggagtcgaatggggaaaactcaccgacaaatctagatgggagaagaaggccgcc
gacgataagaagag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTAACGATGGCTAAGGCTGCCGCCG 67 227 658 Antisense
TGCCGCCGGAAAGAAGGCTTCCCCA 617 283 675 Antisense
GAAGGCTTCCCCAGTGAAGCGAGTC 118 333 687 Antisense
CGCCTTCTTCTTCTGGATGCAGGAG 180 257 762 Antisense
GCAGGAGAACCGTGAGCGCATCAAG 536 309 780 Antisense
GTGAGCGCATCAAGAAGCCAGGTAT 661 481 791 Antisense
GCCAGGTATGGGAGTCGCCGATGTC 623 279 807 Antisense
CCAAGGCCGCCGGAGTCGAATGGGG 33 261 833 Antisense
GAATGGGGAAAACTCACCGACAAAT 420 331 850 Antisense
ACTCACCGACAAATCTAGATGGGAG 708 99 861 Antisense
AGAAGGCCGCCGACGATAAGAAGAG 212 75 887 Antisense
Sequence Source Affymetrix Proprietary Database