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[192954_at] non-histone chromosomal protein HMG-1

Description T04A8.10 /REP_DB=WormBase Gene ID /WP=CE01065 /TR=Q22139 /GB=CAA84729.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=non-histone chromosomal protein HMG-1
Cluster 6grp_highest_10_10 > 76      6grp_high1_10_10 > 66      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_highest_nonorm > 85      6grp_total > 76      4grp_total > 14      6grp_highest_sub > Da      6grp_cgc > 38      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 360
1 2 3 4 range
A 737.3
(2.5)
P 		551.1
(-3)
P 		576.7
(-2.2)
P 		755.3
(3)
P 		204
B 804.8
(1.1)
P 		577.8
(-3)
P 		591.3
(-2.8)
P 		910.7
(3)
P 		333
C 796.5
(2.8)
P 		688.4
(-0)
P 		574.6
(-3)
P 		804.2
(3)
P 		230
avr 779.5
(1.9) 		605.8
(-2.4) 		580.9
(-3) 		823.4
(3) 		243

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 499
1 2 3 4 5 6 range
A 799.3
(0.4)
P 		804.4
(0.4)
P 		533
(-3)
P 		669.1
(-1.3)
P 		564.7
(-2.6)
P 		1005.2
(3)
P 		472
B 666.9
(-0.8)
P 		534.9
(-3)
P 		725.9
(0.2)
P 		800.3
(1.4)
P 		783.8
(1.1)
P 		898.2
(3)
P 		363
C 731.6
(-1.3)
P 		611.8
(-3)
P 		633.6
(-2.7)
P 		999.7
(2.5)
P 		668.3
(-2.2)
P 		1032.2
(3)
P 		420
avr 732.6
(-1.2) 		650.4
(-2.7) 		630.8
(-3) 		823
(0.3) 		672.3
(-2.3) 		978.5
(3) 		348
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 268.4
(3)
P 		119.6
(-2.7)
P 		150.8
(-1.5)
P 		110.6
(-3)
P 		158
B 256.7
(3)
P 		142.7
(-2.7)
P 		137
(-3)
P 		194.1
(-0.1)
P 		120
C 263.7
(3)
P 		197.9
(-0.1)
P 		200.3
(0)
P 		135.6
(-3)
P 		128
avr 262.9
(3) 		153.4
(-2.7) 		162.7
(-2.2) 		146.8
(-3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 229
1 2 3 4 5 6 range
A 147.3
(-1.9)
P 		286.1
(3)
P 		116.1
(-3)
P 		169.7
(-1.1)
P 		170.4
(-1.1)
P 		244.7
(1.5)
P 		170
B 232
(-0.9)
P 		178
(-2.9)
P 		176.3
(-3)
P 		212
(-1.6)
P 		318.5
(2.4)
P 		334.9
(3)
P 		159
C 271.2
(0.6)
P 		186.7
(-2.2)
P 		161.3
(-3)
P 		201
(-1.7)
P 		216.3
(-1.2)
P 		345.5
(3)
P 		184
avr 216.8
(-0.5) 		216.9
(-0.5) 		151.2
(-3) 		194.2
(-1.4) 		235.1
(0.2) 		308.4
(3) 		157
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192954_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7007
Sequence Type Exemplar sequence
Representative Public ID T04A8.10 NCBI
Target Description T04A8.10 /REP_DB=WormBase Gene ID /WP=CE01065 /TR=Q22139 /GB=CAA84729.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=non-histone chromosomal protein HMG-1
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_065562(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065562 NCBI Caenorhabditis elegans Suppressor/Enhancer of Lin-12 family member (sel-13) (sel-13) mRNA, complete cds. 11/11 None
SNAP00000041097 ENSEMBL cdna:SNAP chromosome:CEL140:III:4699435:4700171:-1 11/11 None
GENEFINDER00000041114 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4699435:4700186:-1 11/11 None
T04A8.10 ENSEMBL cdna:known chromosome:CEL140:III:4699382:4700186:-1 gene:T04A8.10 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
chrIII:4699434-4700186(-) 100.0 100.0
Public Domain and Genome References
Gene Title non-histone chromosomal protein HMG-1
Gene Symbol sel-13
Ensembl T04A8.10
Entrez Gene 175617 Entrez gene
SwissProt Q22139 EMBL-EBI
WormBase CE01065 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA84729 Hypothetical protein T04A8.10 [Caenorhabditis elegans] ref|NP_497963.1| Suppressor/Enhancer of Lin-12 family member (sel-13) [Caenorhabditis elegans] 1.0E-113
blast CAA84729 Hypothetical protein T04A8.10 [Caenorhabditis elegans] ref|NP_497963.1| Suppressor/Enhancer of Lin-12 family member (sel-13) [Caenorhabditis elegans] 1.0E-110
blast CAE71152 Hypothetical protein CBG18008 [Caenorhabditis briggsae] 3.0E-93
blast CAE71152 Hypothetical protein CBG18008 [Caenorhabditis briggsae] 3.0E-90
blast AAF56392 CG11839-PA [Drosophila melanogaster] ref|NP_733077.2| CG11839-PA [Drosophila melanogaster] 2.0E-10
Sequence
Target Sequence 
>C. ELEGANS:192954_AT
aaatctggacggcacatgttaatggaaagaagcacagagatagtattgaaaagttgaaga
caagtgctcagaagcgtggaaaggagagttcaaccagaaatacagatgaaccaccgaata
agaaacaaaaggaagtaccaaatcagggaccaacgactctacccacagactttttcgatg
atgaaagcactccgttccgtaaagatgattcaaaaactgccactgtaggccacaactcta
acctgattgaaggtgttcctgccggatttttcgatgataagcggttggatggaaatgttc
gtgaaactcgtgaaagaaatgccgaactcgatgccgaatacgagcgatggaaagaggaga
ttggcgaagagcaagtcgaattggatacaaaagccgaagaactcgaagctgctgtgcaac
gagagctgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAATCTGGACGGCACATGTTAATGG 574 89 95 Antisense
AATCAGGGACCAACGACTCTACCCA 91 167 235 Antisense
ACTCTACCCACAGACTTTTTCGATG 171 101 250 Antisense
CGATGATGAAAGCACTCCGTTCCGT 194 245 270 Antisense
GCACTCCGTTCCGTAAAGATGATTC 528 313 281 Antisense
AAACTGCCACTGTAGGCCACAACTC 316 127 308 Antisense
AGGCCACAACTCTAACCTGATTGAA 575 51 321 Antisense
CCTGATTGAAGGTGTTCCTGCCGGA 15 265 336 Antisense
TGTTCCTGCCGGATTTTTCGATGAT 164 563 348 Antisense
AATGCCGAACTCGATGCCGAATACG 362 167 412 Antisense
GAAGCTGCTGTGCAACGAGAGCTGG 331 343 499 Antisense
Sequence Source Affymetrix Proprietary Database