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[176411_s_at]

Description Y71G12B.T /REP_DB=WormBase Gene ID /WP=CE26258 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 15      4grp_high_8_8 > 14      6grp_highest_nonorm > 88      6grp_total > 89      4grp_total > 09      6grp_highest_sub > Da      6grp_cgc > 59      6grp_high1_sub > Da      6grp_cgc_sub > Da      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4274
1 2 3 4 range
A 1041.5
(-3)
P 		1844.5
(-1.9)
P 		1436.5
(-2.4)
P 		5315.4
(3)
P 		4274
B 1160.4
(-3)
P 		1540.1
(-2.4)
P 		1488.4
(-2.5)
P 		5075.4
(3)
P 		3915
C 1117.2
(-3)
P 		1722.5
(-1.8)
P 		1521.9
(-2.2)
P 		4274.6
(3)
P 		3157
avr 1106.4
(-3) 		1702.4
(-2.1) 		1482.3
(-2.4) 		4888.5
(3) 		3782

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 915
1 2 3 4 5 6 range
A 1299
(0.2)
P 		1078.8
(-1.5)
P 		887.6
(-3)
P 		1009.5
(-2)
P 		1394.7
(1)
P 		1650
(3)
P 		762
B 984.3
(-3)
P 		997.1
(-2.9)
P 		1151
(-1.5)
P 		1103.6
(-1.9)
P 		1555.6
(2.2)
P 		1639.7
(3)
P 		655
C 1198.5
(-1.3)
P 		1170.2
(-1.5)
P 		958.8
(-3)
P 		1176.7
(-1.4)
P 		1360.7
(-0.1)
P 		1802.2
(3)
P 		843
avr 1160.6
(-1.6) 		1082
(-2.3) 		999.1
(-3) 		1096.6
(-2.2) 		1437
(0.8) 		1697.3
(3) 		698
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 737
1 2 3 4 range
A 379.2
(-2.9)
P 		400.4
(-2.6)
P 		375.5
(-3)
P 		778.1
(3)
P 		403
B 370
(-2.8)
P 		380.4
(-2.7)
P 		344.9
(-3)
P 		1081.6
(3)
P 		737
C 369.8
(-3)
P 		495.2
(-0.9)
P 		530.4
(-0.3)
P 		720.8
(3)
P 		351
avr 373
(-3) 		425.3
(-2.4) 		416.9
(-2.5) 		860.2
(3) 		487

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 439
1 2 3 4 5 6 range
A 239.5
(-1.8)
P 		383.7
(2)
P 		193.3
(-3)
P 		256
(-1.3)
P 		420.9
(3)
P 		401.7
(2.5)
P 		228
B 342.5
(-1.9)
P 		331.9
(-2.1)
P 		279.5
(-3)
P 		292.3
(-2.8)
P 		632
(3)
P 		611.4
(2.6)
P 		353
C 444.2
(0.4)
P 		357.1
(-1)
P 		244
(-2.9)
P 		236.6
(-3)
P 		440.3
(0.3)
P 		603.3
(3)
P 		367
avr 342.1
(-0.9) 		357.6
(-0.6) 		238.9
(-3) 		261.6
(-2.5) 		497.7
(2.2) 		538.8
(3) 		300
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176411_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18713
Sequence Type Exemplar sequence
Representative Public ID Y71G12B.T NCBI
Target Description Y71G12B.T /REP_DB=WormBase Gene ID /WP=CE26258 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_058481(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058481 NCBI Caenorhabditis elegans UBiquitin Conjugating enzyme family member (ubc-3) (ubc-3) mRNA, complete cds. 11/11 None
GENEFINDER00000001821 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1697897:1700788:1 11/11 None
SNAP00000001783 ENSEMBL cdna:SNAP chromosome:CEL140:I:1698352:1700788:1 11/11 None
Y71G12B.15 ENSEMBL cdna:known chromosome:CEL140:I:1698094:1701199:1 gene:Y71G12B.15 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
chrI:1697896-1700788(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ubc-3
Ensembl Y71G12B.15
Entrez Gene 171734 Entrez gene
SwissProt Q95XN7 EMBL-EBI
WormBase CE38573 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1604847_AT similar to ubiquitin-conjugating enzyme E2R 2 cfa
CANINE:1603947_AT similar to ubiquitin-conjugating enzyme E2R 2 cfa
CANINE_2:CFA.20900.1.S1_S_AT similar to ubiquitin-conjugating enzyme E2R 2 cfa
DROSOPHILA_2:1634652_A_AT dm
DROSGENOME1:154900_AT dm
CHICKEN:GGAAFFX.12938.13.S1_AT ubiquitin-conjugating enzyme E2R 2 gga
HG-U133_PLUS_2:223014_AT ubiquitin-conjugating enzyme E2R 2 hs
HG-U133B:223014_AT ubiquitin-conjugating enzyme E2R 2 hs
HU35KSUBA:AA093725_AT ubiquitin-conjugating enzyme E2R 2 hs
HU35KSUBA:R80083_AT ubiquitin-conjugating enzyme E2R 2 hs
HU35KSUBC:RC_AA598455_AT ubiquitin-conjugating enzyme E2R 2 hs
U133_X3P:G13436070_3P_S_AT ubiquitin-conjugating enzyme E2R 2 hs
U133_X3P:G13436070_3P_AT ubiquitin-conjugating enzyme E2R 2 hs
U133_X3P:HS.66817.0.A1_3P_AT ubiquitin-conjugating enzyme E2R 2 hs
U133_X3P:223014_3P_AT ubiquitin-conjugating enzyme E2R 2 hs
HG-U133_PLUS_2:226954_AT ubiquitin-conjugating enzyme E2R 2 hs
HG-U133B:226954_AT ubiquitin-conjugating enzyme E2R 2 hs
HG-U95B:46616_AT ubiquitin-conjugating enzyme E2R 2 hs
HG-U95B:56479_AT ubiquitin-conjugating enzyme E2R 2 hs
HG-U95D:69928_AT Ubiquitin-conjugating enzyme E2R 2 hs
HG-U95D:91393_AT Ubiquitin-conjugating enzyme E2R 2 hs
HU35KSUBA:W28045_AT Ubiquitin-conjugating enzyme E2R 2 hs
MOE430B:1415768_A_AT ubiquitin-conjugating enzyme E2R 2 mm
MOE430A:1415768_A_AT ubiquitin-conjugating enzyme E2R 2 mm
MOUSE430A_2:1415768_A_AT ubiquitin-conjugating enzyme E2R 2 mm
MOUSE430_2:1415768_A_AT ubiquitin-conjugating enzyme E2R 2 mm
MU11KSUBA:AA260736_S_AT ubiquitin-conjugating enzyme E2R 2 mm
MU11KSUBB:MSA.17848.0_F_AT ubiquitin-conjugating enzyme E2R 2 mm
MU11KSUBB:MSA.5840.0_S_AT ubiquitin-conjugating enzyme E2R 2 mm
MG-U74AV2:97460_AT ubiquitin-conjugating enzyme E2R 2 mm
MG-U74CV2:171434_AT ubiquitin-conjugating enzyme E2R 2 mm
MOE430B:1444460_AT ubiquitin-conjugating enzyme E2R 2 mm
MOUSE430_2:1444460_AT ubiquitin-conjugating enzyme E2R 2 mm
MU19KSUBA:TC22696_AT Ubiquitin coniugating enzyme 3b mm
MU19KSUBC:TC35491_S_AT Ubiquitin coniugating enzyme 3b mm
RG-U34B:RC_AA924030_AT ubiquitin-conjugating enzyme E2R 2 (predicted) rn
RG-U34B:RC_AA924310_AT ubiquitin-conjugating enzyme E2R 2 (predicted) rn
RAE230A:1372703_AT ubiquitin-conjugating enzyme E2R 2 (predicted) rn
RAT230_2:1372703_AT ubiquitin-conjugating enzyme E2R 2 (predicted) rn
RG-U34C:RC_AI228257_AT Ubiquitin-conjugating enzyme E2R 2 (predicted) rn
YEAST_2:1774288_AT Ubiquitin-conjugating enzyme or E2; together with Skp1p, Rbx1p, Cdc53p, and an F-box protein, forms a ubiquitin-protein ligase called the SCF complex which regulates cell cycle progression by targeting key substrates for degradation Sc
Protein Similarities
Method ID Description E-Value
blast AAK73914 Ubiquitin conjugating enzyme protein 3 [Caenorhabditis elegans] ref|NP_490882.3| UBiquitin Conjugating enzyme family member (ubc-3) [Caenorhabditis elegans] 1.0E-118
blast CAE74417 Hypothetical protein CBG22149 [Caenorhabditis briggsae] 1.0E-109
blast CAE74417 Hypothetical protein CBG22149 [Caenorhabditis briggsae] 1.0E-108
blast XP_394314 PREDICTED: similar to ENSANGP00000014351 [Apis mellifera] 1.0E-76
Protein Domains
Database ID Description E-Value
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 8.0E-74
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 8.0E-74
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 8.0E-74
Sequence
Target Sequence 
>C. ELEGANS:176411_S_AT
acaatctcttcgtctggactgtagggatctatgggccaccgaagacgctctaccagggcg
gatactttaaggcttccatcagatttccgtccaactacccgtactcgccaccgtcgatga
agttcaccacgaaagtttggcatccgaatgtctacgagaacggtgacctctgtatcagca
tccttcactcgccaatcgacgatccacaaagtggagagctcgcgtgtgaacgctggaacc
cgactcaaagcgtccgaaccatccttctctcggtcatctcactgctcaacgagccgaaca
cctcgtcaccggccaacgtcgacgcgtcagtgatgtaccgtaaatggaaggaggatcagg
acccggaatacgcgaaaatcgtcacgaagcaggtggaagagtcgaagaaagtcgcacaga
aagatggaattcaagtgcccgaaacgattgaggagtactgtgtgaaatgggctccaccac
aacagga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACAATCTCTTCGTCTGGACTGTAGG 218 113 527 Antisense
GGACTGTAGGGATCTATGGGCCACC 479 523 542 Antisense
AAGACGCTCTACCAGGGCGGATACT 500 151 568 Antisense
TTAAGGCTTCCATCAGATTTCCGTC 162 683 593 Antisense
TACTCGCCACCGTCGATGAAGTTCA 684 645 628 Antisense
GAGCTCGCGTGTGAACGCTGGAACC 165 387 742 Antisense
CGCTGGAACCCGACTCAAAGCGTCC 341 253 757 Antisense
TCATCTCACTGCTCAACGAGCCGAA 267 621 800 Antisense
GTCGACGCGTCAGTGATGTACCGTA 326 473 844 Antisense
GAGGATCAGGACCCGGAATACGCGA 413 403 877 Antisense
TGAAATGGGCTCCACCACAACAGGA 55 573 989 Antisense
Sequence Source Affymetrix Proprietary Database