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[175807_s_at]

Description g3702827 /REP_DB=GenBank Identifier /GB=AF056577.1 /PROTEIN_GB=AAC78599.1 /CHR=3 /FEA=Mapped Transcript /DEF=high mobility group protein 1.2
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 18      4grp_highest_8_8 > 41      4grp_high_8_8 > 42      6grp_highest_nonorm > 20      6grp_total > 07      4grp_total > 54      6grp_highest_sub > De      6grp_cgc > 12      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 619
1 2 3 4 range
A 1134.2
(3)
P 		1007.6
(1.2)
P 		861.1
(-1)
P 		722.8
(-3)
P 		411
B 1205.1
(3)
P 		907.3
(-0.6)
P 		872
(-1)
P 		706.6
(-3)
P 		499
C 1325.9
(3)
P 		989.8
(-0.4)
P 		1025.1
(-0)
P 		730.4
(-3)
P 		596
avr 1221.7
(3) 		968.2
(-0) 		919.4
(-0.6) 		719.9
(-3) 		502

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 894
1 2 3 4 5 6 range
A 1403.9
(3)
P 		1032.9
(0.3)
P 		918.1
(-0.5)
P 		570.2
(-3)
P 		1004
(0.1)
P 		631.1
(-2.6)
P 		834
B 1376.3
(3)
P 		1051.8
(-0.4)
P 		800.6
(-3)
P 		934.8
(-1.6)
P 		841.7
(-2.6)
P 		821.8
(-2.8)
P 		576
C 1464.1
(3)
P 		905.2
(-1.4)
P 		704.3
(-3)
P 		798
(-2.3)
P 		895.8
(-1.5)
P 		799
(-2.3)
P 		760
avr 1414.8
(3) 		996.6
(-0.8) 		807.7
(-2.5) 		767.7
(-2.8) 		913.8
(-1.5) 		750.6
(-3) 		664
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 333
1 2 3 4 range
A 413
(3)
P 		218.7
(-0.8)
P 		225.1
(-0.7)
P 		105.8
(-3)
P 		307
B 384.3
(3)
P 		224.1
(-1.1)
P 		202.1
(-1.7)
P 		150.6
(-3)
P 		234
C 438.9
(3)
P 		284.6
(0.1)
P 		357.3
(1.4)
P 		123.2
(-3)
P 		316
avr 412.1
(3) 		242.5
(-0.6) 		261.5
(-0.2) 		126.5
(-3) 		286

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 398
1 2 3 4 5 6 range
A 258.8
(0.1)
P 		367.3
(3)
P 		199.9
(-1.5)
P 		144.6
(-3)
P 		303
(1.3)
P 		153.7
(-2.8)
P 		223
B 478.9
(3)
P 		350.1
(0.3)
P 		194.4
(-3)
P 		247.6
(-1.9)
P 		342
(0.1)
P 		306.5
(-0.6)
P 		285
C 542.7
(3)
P 		276.2
(-1.2)
P 		179.3
(-2.7)
P 		160.5
(-3)
P 		289.9
(-1)
P 		267.5
(-1.3)
P 		382
avr 426.8
(3) 		331.2
(0.6) 		191.2
(-2.8) 		184.2
(-3) 		311.6
(0.2) 		242.6
(-1.6) 		243
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175807_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19762
Sequence Type Exemplar sequence
Representative Public ID 3702827 NCBI
Target Description g3702827 /REP_DB=GenBank Identifier /GB=AF056577.1 /PROTEIN_GB=AAC78599.1 /CHR=3 /FEA=Mapped Transcript /DEF=high mobility group protein 1.2
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_065974(11), NM_001027428(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065974 NCBI Caenorhabditis elegans HMG family member (hmg-1.2) (hmg-1.2) mRNA, complete cds. 11/11 A 
NM_001027428 NCBI Caenorhabditis elegans HMG family member (hmg-1.2) (hmg-1.2) mRNA, complete cds. 11/11 None
F47D12.4a ENSEMBL cdna:known chromosome:CEL140:III:6280341:6282354:1 gene:F47D12.4 11/11 A 
F47D12.4b ENSEMBL cdna:known chromosome:CEL140:III:6280421:6282359:1 gene:F47D12.4 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175890 3 2 NM_001027428 175806_at (11), 175807_s_at (11)
NM_065974 175806_at (11), 175807_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6280369-6282354(+) 100.0 100.0
Public Domain and Genome References
Ensembl F47D12.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK20071 Hmg protein 1.2, isoform a [Caenorhabditis elegans] ref|NP_498375.1| HMG family member (hmg-1.2) [Caenorhabditis elegans] sp|Q09390|HG12_CAEEL High mobility group protein 1.2 gb|AAC78599.1| high mobility group protein 1.2 [Caenorhabditis elegans] 1.0E-132
blast AAK67237 Hmg protein 1.2, isoform b [Caenorhabditis elegans] ref|NP_001022599.1| HMG family member (hmg-1.2) [Caenorhabditis elegans] 1.0E-132
blast AAK67237 Hmg protein 1.2, isoform b [Caenorhabditis elegans] ref|NP_001022599.1| HMG family member (hmg-1.2) [Caenorhabditis elegans] 1.0E-130
blast AAK67238 Hmg protein 1.2, isoform c [Caenorhabditis elegans] ref|NP_001022600.1| HMG family member (hmg-1.2) [Caenorhabditis elegans] 1.0E-130
blast AAK20071 Hmg protein 1.2, isoform a [Caenorhabditis elegans] ref|NP_498375.1| HMG family member (hmg-1.2) [Caenorhabditis elegans] sp|Q09390|HG12_CAEEL High mobility group protein 1.2 gb|AAC78599.1| high mobility group protein 1.2 [Caenorhabditis elegans] 1.0E-130
Protein Domains
Database ID Description E-Value
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 1.2E-10
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 9.2E-27
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 1.2E-10
Pfam IPR000910 EMBL-EBI HMG1/2 (high mobility group) box 9.2E-27
Sequence
Target Sequence 
>C. ELEGANS:175807_S_AT
taacacacaagcgcaaatcattcactttaccagtcaacaggaattcaaatgatttctttt
ttgtttctgtactccataaaacaccaaacacctcgctgaaccttcccactccacatcgcc
ctcccccaccgttttagatctacaattttatttcacaagtaggccgagaatgagatacct
gtaaataatcgctattgtcgattgaactttattttcaaaatccgtatgcaacccttgtat
tc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAACACACAAGCGCAAATCATTCAC 102 639 955 Antisense
AATCATTCACTTTACCAGTCAACAG 31 171 970 Antisense
TTCTTTTTTGTTTCTGTACTCCATA 134 691 1008 Antisense
TACTCCATAAAACACCAAACACCTC 695 633 1024 Antisense
ATAAAACACCAAACACCTCGCTGAA 588 23 1030 Antisense
ATTTTATTTCACAAGTAGGCCGAGA 10 15 1099 Antisense
GGCCGAGAATGAGATACCTGTAAAT 645 539 1116 Antisense
GAGATACCTGTAAATAATCGCTATT 168 397 1126 Antisense
CGCTATTGTCGATTGAACTTTATTT 577 253 1144 Antisense
ATTTTCAAAATCCGTATGCAACCCT 238 13 1165 Antisense
AAATCCGTATGCAACCCTTGTATTC 695 117 1172 Antisense
Sequence Source GenBank