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[191894_at] Ubiquitin-conjugating enzymes

Description R09B3.4 /REP_DB=WormBase Gene ID /WP=CE16309 /TR=Q9XVK5 /GB=CAB03238.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ubiquitin-conjugating enzymes
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 98      4grp_highest_8_8 > 18      4grp_high_8_8 > 62      6grp_highest_nonorm > 68      6grp_total > 99      4grp_total > 56      6grp_highest_sub > In      6grp_cgc > 78      6grp_high1_sub > In      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S5      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1060
1 2 3 4 range
A 2023.5
(-0.6)
P 		2301.4
(1)
P 		2655.5
(3)
P 		1597.6
(-3)
P 		1058
B 1886.8
(-3)
P 		2198.4
(1.6)
P 		2295.2
(3)
P 		1994.8
(-1.4)
P 		408
C 1912.4
(-0.5)
P 		2100.6
(1)
P 		2357
(3)
P 		1595.5
(-3)
P 		762
avr 1940.9
(-1.2) 		2200.1
(1) 		2435.9
(3) 		1729.3
(-3) 		707

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 967
1 2 3 4 5 6 range
A 1982.2
(-1.9)
P 		1926.3
(-3)
P 		1947.8
(-2.6)
P 		2238
(3)
P 		2221.6
(2.7)
P 		2227.9
(2.8)
P 		312
B 1782.9
(-2.3)
P 		1670.4
(-3)
P 		1685
(-2.9)
P 		1842.5
(-1.9)
P 		2637.8
(3)
P 		2284.1
(0.8)
P 		967
C 1900.2
(-1.9)
P 		1766.1
(-3)
P 		2381.5
(2.2)
P 		1966.9
(-1.3)
P 		2420.6
(2.5)
P 		2478.5
(3)
P 		712
avr 1888.4
(-2.1) 		1787.6
(-3) 		2004.8
(-1) 		2015.8
(-0.9) 		2426.7
(3) 		2330.2
(2.1) 		639
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 588
1 2 3 4 range
A 736.8
(3)
P 		499.6
(0.2)
P 		694.2
(2.5)
P 		233.9
(-3)
P 		503
B 601.7
(3)
P 		543
(1)
P 		531.8
(0.6)
P 		425.1
(-3)
P 		177
C 633.1
(1)
P 		603.9
(0.6)
P 		821.5
(3)
P 		269
(-3)
P 		553
avr 657.2
(2.6) 		548.8
(0.9) 		682.5
(3) 		309.3
(-3) 		373

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 706
1 2 3 4 5 6 range
A 365.4
(-3)
P 		685.1
(3)
P 		424.2
(-1.9)
P 		567.6
(0.8)
P 		670.4
(2.7)
P 		542.4
(0.3)
P 		320
B 620.4
(-1.1)
P 		556
(-1.7)
P 		409.2
(-3)
P 		488
(-2.3)
P 		1071.7
(3)
P 		851.7
(1)
P 		663
C 704.3
(1.3)
P 		538.9
(-1)
P 		606.1
(-0.1)
P 		395.5
(-3)
P 		783.3
(2.4)
P 		829.7
(3)
P 		434
avr 563.4
(-1.6) 		593.3
(-1.1) 		479.8
(-3) 		483.7
(-2.9) 		841.8
(3) 		741.3
(1.3) 		362
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191894_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2473
Sequence Type Exemplar sequence
Representative Public ID R09B3.4 NCBI
Target Description R09B3.4 /REP_DB=WormBase Gene ID /WP=CE16309 /TR=Q9XVK5 /GB=CAB03238.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ubiquitin-conjugating enzymes
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_060623(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060623 NCBI Caenorhabditis elegans UBiquitin Conjugating enzyme family member (ubc-12) (ubc-12) mRNA, complete cds. 11/11 None
SNAP00000010422 ENSEMBL cdna:SNAP chromosome:CEL140:I:11919449:11920037:1 11/11 None
GENEFINDER00000010430 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:11919449:11920037:1 11/11 None
R09B3.4 ENSEMBL cdna:known chromosome:CEL140:I:11919449:11920171:1 gene:R09B3.4 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:11919379-11919968(+) 100.0 100.0
Public Domain and Genome References
Gene Title Ubiquitin-conjugating enzymes
Gene Symbol ubc-12
Ensembl R09B3.4
Entrez Gene 173072 Entrez gene
SwissProt Q9XVK5 EMBL-EBI
WormBase CE16309 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1583657_AT similar to NEDD8-conjugating enzyme cfa
CANINE_2:CFA.11997.1.A1_AT similar to NEDD8-conjugating enzyme cfa
CANINE_2:CFAAFFX.19181.1.S1_S_AT similar to NEDD8-conjugating enzyme cfa
CHICKEN:GGA.8400.1.S1_AT NEDD8-conjugating enzyme gga
CHICKEN:GGA.8400.3.S1_AT NEDD8-conjugating enzyme gga
CHICKEN:GGAAFFX.12061.1.S1_S_AT NEDD8-conjugating enzyme gga
CHICKEN:GGA.8400.2.S1_AT Similar to NEDD8-conjugating enzyme gga
HG-U133_PLUS_2:231948_S_AT NEDD8-conjugating enzyme hs
HG-U133B:231948_S_AT NEDD8-conjugating enzyme hs
HU35KSUBC:RC_N29537_AT NEDD8-conjugating enzyme hs
U133_X3P:HS.289051.1.S1_3P_A_AT NEDD8-conjugating enzyme hs
U133_X3P:HS.289051.0.A3_3P_AT NEDD8-conjugating enzyme hs
U133_X3P:HS.289051.0.A2_3P_AT NEDD8-conjugating enzyme hs
U133_X3P:HS.289051.0.A1_3P_X_AT NEDD8-conjugating enzyme hs
U133_X3P:HS.289051.0.A1_3P_A_AT NEDD8-conjugating enzyme hs
HG-U133_PLUS_2:225783_AT NEDD8-conjugating enzyme hs
HG-U133B:225783_AT NEDD8-conjugating enzyme hs
HG-U133_PLUS_2:225787_AT NEDD8-conjugating enzyme hs
HG-U133B:225787_AT NEDD8-conjugating enzyme hs
HG-U133_PLUS_2:225791_AT NEDD8-conjugating enzyme hs
HG-U133B:225791_AT NEDD8-conjugating enzyme hs
HG-U95C:49056_AT NEDD8-conjugating enzyme hs
HG-U95C:49057_G_AT NEDD8-conjugating enzyme hs
HG-U95B:57184_AT NEDD8-conjugating enzyme hs
MOUSE430_2:1450275_X_AT RIKEN cDNA 2510010F15 gene mm
MOE430A:1450275_X_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430A_2:1450275_X_AT RIKEN cDNA 2510010F15 gene mm
MG-U74AV2:160491_AT RIKEN cDNA 2510010F15 gene mm
MG-U74CV2:170353_R_AT RIKEN cDNA 2510010F15 gene mm
MOE430A:1451272_A_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430A_2:1451272_A_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430_2:1451272_A_AT RIKEN cDNA 2510010F15 gene mm
MOE430A:1429568_X_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430A_2:1429568_X_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430_2:1429568_X_AT RIKEN cDNA 2510010F15 gene mm
MOE430A:1432426_A_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430A_2:1432426_A_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430_2:1432426_A_AT RIKEN cDNA 2510010F15 gene mm
MOE430B:1436254_AT RIKEN cDNA 2510010F15 gene mm
MOUSE430_2:1436254_AT RIKEN cDNA 2510010F15 gene mm
MU19KSUBC:TC37440_AT RIKEN cDNA 2510010F15 gene, mRNA (cDNA clone MGC:28769 IMAGE:4486610) mm
RG-U34C:RC_AI232346_AT similar to RIKEN cDNA 2510010F15 (predicted) rn
RAE230A:1375663_AT similar to RIKEN cDNA 2510010F15 (predicted) rn
RAT230_2:1375663_AT similar to RIKEN cDNA 2510010F15 (predicted) rn
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
GO Molecular Function (view graph)
ID Description Evidence Links
4840 ubiquitin conjugating enzyme activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03238 Hypothetical protein R09B3.4 [Caenorhabditis elegans] ref|NP_493024.1| UBiquitin Conjugating enzyme family member (ubc-12) [Caenorhabditis elegans] 1.0E-85
blast CAE71714 Hypothetical protein CBG18691 [Caenorhabditis briggsae] 2.0E-67
blast CAE66616 Hypothetical protein CBG11949 [Caenorhabditis briggsae] 2.0E-49
Protein Domains
Database ID Description E-Value
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 7.1E-55
Sequence
Target Sequence 
>C. ELEGANS:191894_AT
gtcggtatcttgaaacccgcatcgccgtccgtgacaagctcctagctcaggaactccaac
agctggagactgctcttcgcgatcagaagcaaaagctgtggcatctcgaggtcccatcaa
catcgtgtcttcatgagttggaactcaccgtgacacctcaagaaggaatctatcgtggag
gcaaattccgattcaagatcaccgtcccgccagagtacaacaacgtgccgcccgttgtta
agtgcctgacaaaggtttggcatccaaatatcaacgaggacggatcgatttgtctatcga
ttttgcgtcaaaactcgttggatcaatacggatggcgtccaacgcgtaacctcaccgacg
tcgtccacggactcgtctcactgttcaacgatcttatggacttcaacgacgcgctgaaca
ttcaagccgcccagatgtggagtcaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCGGTATCTTGAAACCCGCATCGC 79 473 56 Antisense
GACAAGCTCCTAGCTCAGGAACTCC 510 363 88 Antisense
TCCCATCAACATCGTGTCTTCATGA 221 599 167 Antisense
AACTCACCGTGACACCTCAAGAAGG 127 141 197 Antisense
AAATTCCGATTCAAGATCACCGTCC 588 115 238 Antisense
CAACGTGCCGCCCGTTGTTAAGTGC 565 185 276 Antisense
TACGGATGGCGTCCAACGCGTAACC 354 643 382 Antisense
GACTCGTCTCACTGTTCAACGATCT 88 375 425 Antisense
GATCTTATGGACTTCAACGACGCGC 597 419 445 Antisense
AACGACGCGCTGAACATTCAAGCCG 627 143 460 Antisense
CAAGCCGCCCAGATGTGGAGTCAGA 707 185 478 Antisense
Sequence Source Affymetrix Proprietary Database