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[193301_at] nuclear phosphoprotein (weak)

Description T05A7.4 /REP_DB=WormBase Gene ID /WP=CE04890 /GEN=hmg-11 /TR=Q22204 /GB=AAA81116.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=nuclear phosphoprotein (weak)
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 02      4grp_highest_8_8 > 0      4grp_high_8_8 > 37      6grp_highest_nonorm > 12      6grp_total > 24      4grp_total > 43      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1521
1 2 3 4 range
A 2107.8
(-3)
P 		3287.5
(3)
P 		2441.9
(-1.3)
P 		2453.7
(-1.2)
P 		1180
B 2284.8
(-2.5)
P 		3512.4
(3)
P 		2693.3
(-0.7)
P 		2176.5
(-3)
P 		1336
C 2249.1
(-1.3)
P 		2910.2
(3)
P 		2244.4
(-1.3)
P 		1991
(-3)
P 		919
avr 2213.9
(-3) 		3236.7
(3) 		2459.9
(-1.5) 		2207.1
(-3) 		1030

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1505
1 2 3 4 5 6 range
A 2951.7
(3)
P 		2435.2
(0.9)
P 		2258
(0.2)
P 		2113.1
(-0.3)
P 		1446.3
(-3)
P 		1989.3
(-0.8)
P 		1505
B 2506.7
(2.2)
P 		2646.9
(3)
P 		2256.8
(0.7)
P 		2061.1
(-0.4)
P 		1624.1
(-3)
P 		1617.5
(-3)
P 		1029
C 2512.4
(2.9)
P 		2521.8
(3)
P 		2191.9
(1.1)
P 		2038.2
(0.2)
P 		1486.9
(-3)
P 		2056
(0.3)
P 		1035
avr 2656.9
(3) 		2534.6
(2.4) 		2235.6
(0.8) 		2070.8
(-0.1) 		1519.1
(-3) 		1887.6
(-1.1) 		1138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 532
1 2 3 4 range
A 767.5
(3)
P 		713.6
(2.2)
P 		638.4
(1.1)
P 		359.2
(-3)
P 		408
B 728.6
(0.9)
P 		867.5
(3)
P 		624.1
(-0.6)
P 		463.8
(-3)
P 		404
C 744.5
(1.9)
P 		836.7
(3)
P 		782.2
(2.3)
P 		335.7
(-3)
P 		501
avr 746.9
(2.2) 		805.9
(3) 		681.6
(1.2) 		386.2
(-3) 		420

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 521
1 2 3 4 5 6 range
A 544.1
(-1.5)
P 		866.1
(3)
P 		491.8
(-2.2)
P 		535.9
(-1.6)
P 		436.4
(-3)
P 		484.3
(-2.3)
P 		430
B 872.2
(2.8)
P 		881
(3)
P 		548
(-3)
P 		545.9
(-3)
P 		659.9
(-1)
P 		603.2
(-2)
P 		335
C 931.2
(3)
P 		769.5
(1.1)
P 		557.9
(-1.3)
P 		409.9
(-3)
P 		481.1
(-2.2)
P 		688.3
(0.2)
P 		521
avr 782.5
(2) 		838.9
(3) 		532.6
(-2.4) 		497.2
(-3) 		525.8
(-2.5) 		591.9
(-1.3) 		342
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193301_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5552
Sequence Type Exemplar sequence
Representative Public ID T05A7.4 NCBI
Target Description T05A7.4 /REP_DB=WormBase Gene ID /WP=CE04890 /GEN=hmg-11 /TR=Q22204 /GB=AAA81116.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=nuclear phosphoprotein (weak)
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_062424(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062424 NCBI Caenorhabditis elegans HMG family member (hmg-11) (hmg-11) mRNA, complete cds. 11/11 None
SNAP00000043916 ENSEMBL cdna:SNAP chromosome:CEL140:II:4673073:4673588:1 11/11 None
GENEFINDER00000043929 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4673073:4673588:1 11/11 None
T05A7.4.1 ENSEMBL cdna:known chromosome:CEL140:II:4672785:4673733:1 gene:T05A7.4 11/11 None
T05A7.4.2 ENSEMBL cdna:known chromosome:CEL140:II:4673070:4673733:1 gene:T05A7.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:4673071-4673587(+) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear phosphoprotein (weak)
Gene Symbol hmg-11
Ensembl T05A7.4
Entrez Gene 173805 Entrez gene
SwissProt Q22204 EMBL-EBI
WormBase CE04890 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 Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus 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 NP_494825 HMG family member (hmg-11) [Caenorhabditis elegans] gb|AAA81116.1| Hmg protein 11 [Caenorhabditis elegans] gb|AAC78600.1| high mobility group protein I alpha [Caenorhabditis elegans] 6.0E-41
Sequence
Target Sequence 
>C. ELEGANS:193301_AT
aacgaatgccttgtttctaccaatgaagttcaagaagattctccagctgtgaccgagtca
tcaagcgccaacggatcttcaccagttcgtcgcggacgcggacgtccaccaaagggaacc
aaggtcccaaaagtcaagccggctccaaagccgtattctggagcaccacgtggccgccca
cgcaagtctgaccaagttgccaagtctccagttgccaagtcgccagttgcttcatcgtcc
gccgatgcttctccaaagcgttctcgtggagcaccaaagagctacgctgaggatgttgct
gcaacgaagccagccaagactgatgtcgccacaccggctcttgctgctttgactggagag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACGAATGCCTTGTTTCTACCAATG 254 145 34 Antisense
CAAGAAGATTCTCCAGCTGTGACCG 650 185 64 Antisense
GCTGTGACCGAGTCATCAAGCGCCA 587 295 79 Antisense
CAAGGTCCCAAAAGTCAAGCCGGCT 228 107 153 Antisense
CAAAGCCGTATTCTGGAGCACCACG 4 193 179 Antisense
GCCCACGCAAGTCTGACCAAGTTGC 539 287 209 Antisense
TCCAAAGCGTTCTCGTGGAGCACCA 707 583 285 Antisense
GTGGAGCACCAAAGAGCTACGCTGA 283 489 299 Antisense
GCTACGCTGAGGATGTTGCTGCAAC 288 303 314 Antisense
GAAGCCAGCCAAGACTGATGTCGCC 373 345 339 Antisense
GGCTCTTGCTGCTTTGACTGGAGAG 533 537 369 Antisense
Sequence Source Affymetrix Proprietary Database