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[175806_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 > 71      6grp_high1_10_10 > 18      4grp_highest_8_8 > 48      4grp_high_8_8 > 43      6grp_highest_nonorm > 76      6grp_total > 18      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 01      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 724
1 2 3 4 range
A 1438.4
(3)
P 		1324.8
(1.9)
P 		969.7
(-1.6)
P 		826.7
(-3)
P 		612
B 1268.7
(3)
P 		1031.5
(0.1)
P 		1004.7
(-0.2)
P 		779.8
(-3)
P 		489
C 1253.9
(2.9)
P 		1266.4
(3)
P 		1017.7
(0.3)
P 		714.2
(-3)
P 		552
avr 1320.3
(3) 		1207.6
(1.8) 		997.4
(-0.5) 		773.6
(-3) 		547

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 651
1 2 3 4 5 6 range
A 1463.8
(3)
P 		1130.7
(-0.1)
P 		813.3
(-3)
P 		969
(-1.6)
P 		1097.9
(-0.4)
P 		869.9
(-2.5)
P 		651
B 1331.5
(3)
P 		1038.6
(-0.9)
P 		881.3
(-3)
P 		1068.7
(-0.5)
P 		915.4
(-2.5)
P 		1070.1
(-0.5)
P 		450
C 1314.4
(3)
P 		951.3
(-1.4)
P 		1001.6
(-0.8)
P 		937.7
(-1.5)
P 		817.5
(-3)
P 		1025.7
(-0.5)
P 		497
avr 1369.9
(3) 		1040.2
(-1.2) 		898.7
(-3) 		991.8
(-1.8) 		943.6
(-2.4) 		988.6
(-1.9) 		471
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 403
1 2 3 4 range
A 523.7
(3)
P 		287.6
(-0.5)
P 		253.5
(-1)
P 		121
(-3)
P 		403
B 404.6
(3)
P 		254.8
(-0.8)
P 		232.8
(-1.3)
P 		166.2
(-3)
P 		238
C 415.1
(3)
P 		364.1
(2)
P 		354.7
(1.8)
P 		120.4
(-3)
P 		295
avr 447.8
(3) 		302.2
(0.2) 		280.3
(-0.2) 		135.9
(-3) 		312

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 310
1 2 3 4 5 6 range
A 269.8
(-0.5)
P 		402.1
(3)
P 		177.1
(-3)
P 		245.8
(-1.2)
P 		331.3
(1.1)
P 		211.8
(-2.1)
P 		225
B 463.3
(3)
P 		345.7
(0.2)
P 		214
(-3)
P 		283.1
(-1.3)
P 		371.9
(0.8)
P 		399
(1.5)
P 		249
C 487.2
(3)
P 		290.3
(-1)
P 		254.9
(-1.7)
P 		188.6
(-3)
P 		264.5
(-1.5)
P 		343.4
(0.1)
P 		299
avr 406.8
(3) 		346
(1.1) 		215.3
(-3) 		239.2
(-2.3) 		322.6
(0.4) 		318.1
(0.2) 		192
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175806_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:175806_AT
aatatctcgtaatcattccaatttgttcgatttttgtaccccttatcgattcgctcttca
taatttttctttaacacacaagcgcaaatcattcactttaccagtcaacaggaattcaaa
tgatttcttttttgtttctgtactccataaaacaccaaacacctcgctgaaccttcccac
tccacatcgccctcccccaccgttttagatctacaattttatttcacaagtaggccgaga
atgagatacctgtaaataatcgctattgtcgattgaactttattttcaaaatccgtatgc
aacccttgtattcccgtttgtcgttttatgattggtttactttattttatgttctgataa
ttttttccacatcagcacaatgataaatgtcgcgattagtttcctctttcttttttgtct
cttttccccttatatgttccatgtttccccgaaacaccatct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATATCTCGTAATCATTCCAATTTG 416 173 884 Antisense
ATCATTCCAATTTGTTCGATTTTTG 142 31 895 Antisense
TGTTCGATTTTTGTACCCCTTATCG 74 559 907 Antisense
CCTTATCGATTCGCTCTTCATAATT 403 269 924 Antisense
GATTCGCTCTTCATAATTTTTCTTT 462 433 931 Antisense
TTGTCGTTTTATGATTGGTTTACTT 175 687 1201 Antisense
ATAATTTTTTCCACATCAGCACAAT 341 25 1240 Antisense
AAATGTCGCGATTAGTTTCCTCTTT 616 119 1268 Antisense
TTTTCCCCTTATATGTTCCATGTTT 170 677 1305 Antisense
TTATATGTTCCATGTTTCCCCGAAA 655 679 1313 Antisense
TCCATGTTTCCCCGAAACACCATCT 641 589 1321 Antisense
Sequence Source GenBank