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[193181_at] ubiquitin conjugating-protein

Description C35B1.1 /REP_DB=WormBase Gene ID /WP=CE27822 /GEN=ubc-1 /TR=O45062 /GB=AAC02561.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=ubiquitin conjugating-protein
Cluster 6grp_total > 56      4grp_total > 10      6grp_cgc > 37      6grp_cgc_sub > Cu      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 181
1 2 3 4 range
A 38.9
(-2.6)
A 		27.6
(-3)
A 		66.9
(-1.5)
A 		185.8
(3)
A 		158
B 13.3
(-3)
A 		56.8
(-1.5)
A 		32.5
(-2.4)
A 		192.5
(3)
A 		179
C 92.4
(0.1)
A 		81.6
(-0.3)
A 		11.4
(-3)
A 		166.6
(3)
A 		155
avr 48.2
(-2.5) 		55.3
(-2.2) 		36.9
(-3) 		181.6
(3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 15
(-1.6)
A 		31.2
(3)
A 		24.7
(1.2)
A 		16.6
(-1.1)
A 		10
(-3)
A 		31.2
(3)
A 		21
B 13
(-2)
A 		36.2
(0.2)
A 		11.2
(-2.2)
A 		4.5
(-2.8)
A 		2.4
(-3)
A 		65.3
(3)
A 		63
C 21
(-0.6)
A 		11
(-2)
A 		20.9
(-0.6)
A 		13.5
(-1.6)
A 		3.2
(-3)
A 		48.2
(3)
A 		45
avr 16.3
(-1.5) 		26.1
(-0.1) 		18.9
(-1.1) 		11.5
(-2.1) 		5.2
(-3) 		48.2
(3) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 14.2
(-0.7)
A 		6
(-3)
A 		17.5
(0.3)
A 		27.2
(3)
A 		21
B 4.2
(-3)
A 		14
(-1.4)
A 		7.5
(-2.5)
A 		41
(3)
A 		37
C 30.6
(3)
A 		23.5
(1.4)
A 		4
(-3)
A 		28.1
(2.4)
A 		27
avr 16.3
(-1.2) 		14.5
(-1.7) 		9.7
(-3) 		32.1
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 2.8
(-3)
A 		11.1
(3)
A 		5.4
(-1.1)
A 		4.2
(-2)
A 		3
(-2.9)
A 		7.6
(0.5)
A 		8
B 4.5
(-2.1)
A 		12.1
(-0.1)
A 		2.7
(-2.6)
A 		1.2
(-2.9)
A 		1
(-3)
A 		24.3
(3)
A 		23
C 7.8
(-0.3)
A 		3.4
(-2)
A 		5.3
(-1.3)
A 		2.7
(-2.3)
A 		1
(-3)
A 		16.1
(3)
A 		15
avr 5
(-1.6) 		8.9
(0) 		4.5
(-1.8) 		2.7
(-2.6) 		1.7
(-3) 		16
(3) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193181_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10391
Sequence Type Exemplar sequence
Representative Public ID C35B1.1 NCBI
Target Description C35B1.1 /REP_DB=WormBase Gene ID /WP=CE27822 /GEN=ubc-1 /TR=O45062 /GB=AAC02561.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=ubiquitin conjugating-protein
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_068079(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068079 NCBI Caenorhabditis elegans UBiquitin Conjugating enzyme family member (ubc-1) (ubc-1) mRNA, complete cds. 10/11 None
GENEFINDER00000043233 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:4103029:4105175:1 10/11 None
C35B1.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:4103011:4106256:1 gene:C35B1.1 10/11 None
C35B1.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:4103013:4106256:1 gene:C35B1.1 10/11 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
chrIV:4103034-4105181(+) 100.0 100.0
Public Domain and Genome References
Gene Title ubiquitin conjugating-protein
Gene Symbol ubc-1
Ensembl C35B1.1
Entrez Gene 177170 Entrez gene
SwissProt P52478 EMBL-EBI
WormBase CE27822 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:14674_AT ubiquitin-conjugating enzyme 2 (UBC2) at
ATH1-121501:267484_AT ubiquitin-conjugating enzyme 2 (UBC2) at
ATGENOME1:16917_AT ubiquitin-conjugating enzyme 2 (UBC2) at
CANINE:1601670_AT similar to Ubiquitin-conjugating enzyme E2 A (Ubiquitin-protein ligase A) (Ubiquitin carrier protein A) (HR6A) (mHR6A) cfa
CANINE_2:CFAAFFX.28164.1.S1_AT similar to Ubiquitin-conjugating enzyme E2 A (Ubiquitin-protein ligase A) (Ubiquitin carrier protein A) (HR6A) (mHR6A) cfa
DROSOPHILA_2:1630287_AT Ubiquitin conjugating enzyme dm
CHICKEN:GGA.1295.1.S1_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) gga
CHICKEN:GGA.1295.1.S2_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) gga
HG-U133A:201899_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U133_PLUS_2:201899_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-FOCUS:201899_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U133A_2:201899_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U95AV2:890_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HC-G110:890_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U133A:201898_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U133A_2:201898_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U133_PLUS_2:201898_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HU35KSUBD:RC_R20817_S_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HUGENEFL:M74524_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
U133_X3P:G4507768_3P_A_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
U133_X3P:HS.80612.0.S1_3P_A_AT ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HG-U95C:62232_AT Ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
HU35KSUBA:AA386291_AT Ubiquitin-conjugating enzyme E2A (RAD6 homolog) hs
MG-U74AV2:96695_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MOE430A:1417609_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MOUSE430A_2:1417609_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MOUSE430_2:1417609_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MOE430A:1448772_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MOUSE430A_2:1448772_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MOUSE430_2:1448772_AT ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae) mm
MU19KSUBB:TC30766_AT Ubiquitin-conjugating enzyme E2A, RAD6 homolog (S. cerevisiae), mRNA (cDNA clone MGC:13793 IMAGE:4012075) mm
RT-U34:RC_AA956114_AT similar to ubiquitin-conjugating enzyme HR6A rn
RG-U34A:RC_AA956114_AT similar to ubiquitin-conjugating enzyme HR6A rn
RAE230A:1388863_AT similar to ubiquitin-conjugating enzyme HR6A rn
RAT230_2:1388863_AT similar to ubiquitin-conjugating enzyme HR6A rn
RAE230B:1392573_AT similar to ubiquitin-conjugating enzyme HR6A rn
RAT230_2:1392573_AT similar to ubiquitin-conjugating enzyme HR6A rn
YEAST_2:1777718_AT Ubiquitin-conjugating enzyme (E2), involved in postreplication repair (with Rad18p), sporulation, telomere silencing, and ubiquitin-mediated N-end rule protein degradation (with Ubr1p) Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6464 protein modification inferred from electronic annotation QuickGO AmiGO
6512 ubiquitin cycle inferred from electronic annotation QuickGO AmiGO
6281 DNA repair inferred from direct assay QuickGO AmiGO
16567 protein ubiquitination inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4840 ubiquitin conjugating enzyme activity inferred from electronic annotation QuickGO AmiGO
4840 ubiquitin conjugating enzyme activity inferred from direct assay QuickGO AmiGO
4840 ubiquitin conjugating enzyme activity inferred from sequence similarity QuickGO AmiGO
3684 damaged DNA binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC02561 Ubiquitin conjugating enzyme protein 1 [Caenorhabditis elegans] ref|NP_500480.1| UBiquitin Conjugating enzyme family member (ubc-1) [Caenorhabditis elegans] sp|P52478|UBC1_CAEEL Ubiquitin-conjugating enzyme E2 1 (Ubiquitin-protein ligase 1) (Ubiquitin carrier protein 1) gb|AAA83388.1| similar to yeast RAD6 DNA repair protein, Swiss-Prot Accession Number P06104 1.0E-108
blast T32959 hypothetical protein C35B1.1 - Caenorhabditis elegans 1.0E-105
blast CAE56741 Hypothetical protein CBG24535 [Caenorhabditis briggsae] 2.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 2.8E-78
Sequence
Target Sequence 
>C. ELEGANS:193181_AT
cgcccagccgtagacgtttgatgagagattttaagaaacttcagaaaaaattagatattt
ttgggatttttgataaatttctcgaagatccaccagcaggagtatcaggtgcaccaacag
aagataatattctcacatgggaagcaataatttttggaccacaagaaaccccgtttgaag
atggaacattcaaattatcactggaatttactgaagaatatccaaataaaccgccaaccg
tcaaatttatttccaaaatgttccatccaaatgtgtatgcggacggatcaatttgtctgg
atattctacagaatcgatggtctccgacgtatgatgttgccgcaattctgacatcgattc
agtcgttgctcgacgagcccaatccaaattcaccggccaactcacttgccgcacagcttt
atcaagaaaatcgacgggaatatgagaaacgtgttcagcagattgttgagcagtcctggc
tcaatttcggcgaaaacgagggcgacgcagtgctcaaggatgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCCCAGCCGTAGACGTTTGATGAG 81 257 20 Antisense
AAATTTCTCGAAGATCCACCAGCAG 550 115 94 Antisense
TATCCAAATAAACCGCCAACCGTCA 137 657 238 Antisense
TCTACAGAATCGATGGTCTCCGACG 276 613 324 Antisense
GTCTCCGACGTATGATGTTGCCGCA 118 471 339 Antisense
TGTTGCCGCAATTCTGACATCGATT 473 563 354 Antisense
GACATCGATTCAGTCGTTGCTCGAC 90 371 369 Antisense
ACGAGCCCAATCCAAATTCACCGGC 508 93 392 Antisense
TCACTTGCCGCACAGCTTTATCAAG 409 627 421 Antisense
TGAGCAGTCCTGGCTCAATTTCGGC 157 569 486 Antisense
GGGCGACGCAGTGCTCAAGGATGAC 99 493 519 Antisense
Sequence Source Affymetrix Proprietary Database