[Home] | [Total List]

[176951_at]

Description Y54G2A.O /REP_DB=WormBase Gene ID /WP=CE25457 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59575.1
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      4grp_highest_8_8 > 12      4grp_high_8_8 > 31      6grp_highest_nonorm > 50      6grp_total > 27      4grp_total > 32      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 268
1 2 3 4 range
A 438.4
(-3)
P 		524.1
(-0.5)
P 		645.9
(3)
P 		584.8
(1.2)
P 		208
B 487.8
(-3)
P 		490.4
(-2.9)
P 		667
(1.9)
P 		706.5
(3)
P 		219
C 519.7
(-3)
P 		665.8
(3)
P 		658
(2.7)
P 		594.9
(0.1)
P 		146
avr 482
(-3) 		560.1
(-0.3) 		657
(3) 		628.7
(2) 		175

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 602
1 2 3 4 5 6 range
A 475
(1.1)
P 		521.6
(3)
P 		510.7
(2.6)
P 		373.7
(-3)
P 		374.8
(-3)
P 		454.7
(0.3)
P 		148
B 497.8
(3)
P 		492.5
(2.8)
P 		452.4
(1)
P 		364.9
(-3)
P 		433.1
(0.1)
P 		434
(0.1)
P 		133
C 926
(3)
P 		420.8
(-2)
P 		472.4
(-1.5)
P 		323.9
(-3)
P 		416
(-2.1)
P 		520.8
(-1)
P 		602
avr 632.9
(3) 		478.3
(-0.3) 		478.5
(-0.3) 		354.2
(-3) 		408
(-1.8) 		469.8
(-0.5) 		279
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 159.6
(2.3)
P 		113.8
(-1)
P 		168.9
(3)
P 		85.6
(-3)
P 		83
B 155.6
(3)
P 		121.1
(-3)
P 		154.6
(2.8)
P 		150.6
(2.1)
P 		35
C 172
(0.3)
P 		191.4
(1.2)
P 		229.3
(3)
P 		100.3
(-3)
P 		129
avr 162.4
(1.2) 		142.1
(-0.5) 		184.3
(3) 		112.2
(-3) 		72

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 278
1 2 3 4 5 6 range
A 87.6
(-3)
P 		185.5
(3)
P 		111.2
(-1.6)
P 		94.8
(-2.6)
P 		113.1
(-1.4)
P 		110.7
(-1.6)
P 		98
B 173.2
(2.8)
P 		163.9
(2.1)
P 		109.8
(-2)
P 		96.7
(-3)
P 		176
(3)
P 		161.9
(1.9)
P 		79
C 343.2
(3)
P 		128.4
(-1.6)
P 		120.2
(-1.8)
P 		65.1
(-3)
P 		134.6
(-1.5)
P 		174.3
(-0.6)
P 		278
avr 201.3
(3) 		159.3
(0.8) 		113.7
(-1.5) 		85.5
(-3) 		141.2
(-0.1) 		149
(0.3) 		116
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176951_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19217
Sequence Type Exemplar sequence
Representative Public ID Y54G2A.O NCBI
Target Description Y54G2A.O /REP_DB=WormBase Gene ID /WP=CE25457 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59575.1
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_067871(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067871 NCBI Caenorhabditis elegans UBiquitin Conjugating enzyme family member (ubc-13) (ubc-13) mRNA, complete cds. 11/11 None
SNAP00000036508 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2922997:2928415:-1 11/11 None
GENEFINDER00000036599 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2924193:2925687:-1 11/11 None
Y54G2A.31 ENSEMBL cdna:known chromosome:CEL140:IV:2922636:2925688:-1 gene:Y54G2A.31 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
chrIV:2924198-2928421(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ubc-13
Ensembl Y54G2A.31
Entrez Gene 177073 Entrez gene
SwissProt Q95XX0 EMBL-EBI
WormBase CE31652 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264303_S_AT ubiquitin-conjugating enzyme, putative at
ATGENOME1:13106_AT ubiquitin-conjugating enzyme, putative at
CANINE:1588240_AT similar to ubiquitin-conjugating enzyme E2N cfa
CANINE_2:CFAAFFX.10251.1.S1_X_AT similar to ubiquitin-conjugating enzyme E2N cfa
CANINE_2:CFAAFFX.12061.1.S1_X_AT similar to ubiquitin-conjugating enzyme E2N cfa
CANINE_2:CFAAFFX.14067.1.S1_X_AT similar to ubiquitin-conjugating enzyme E2N cfa
CANINE_2:CFAAFFX.1816.1.S1_AT similar to ubiquitin-conjugating enzyme E2N cfa
CANINE_2:CFAAFFX.799.1.S1_X_AT similar to ubiquitin-conjugating enzyme E2N cfa
DROSOPHILA_2:1641279_AT bendless dm
DROSGENOME1:154256_AT bendless dm
CHICKEN:GGA.14435.1.A1_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) gga
CHICKEN:GGA.2832.1.S1_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) gga
CHICKEN:GGA.4470.1.S1_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) gga
CHICKEN:GGAAFFX.20654.1.S1_S_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) gga
HG-U133A:212751_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133A_2:212751_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-FOCUS:212751_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133_PLUS_2:212751_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U95AV2:1660_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HC-G110:1660_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133A:201524_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133_PLUS_2:201524_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133A_2:201524_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HU35KSUBA:R16007_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HU35KSUBC:RC_N33288_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HUGENEFL:D83004_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
U133_X3P:G4507792_3P_A_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
U133_X3P:HS.75355.1.A1_3P_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
U133_X3P:HS.75355.0.A1_3P_S_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
U133_X3P:HS.75355.0.A1_3P_A_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
U133_X3P:201523_3P_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133A_2:201523_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133_PLUS_2:201523_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U133A:201523_X_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
HG-U95AV2:36604_AT ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) hs
MG-U74AV2:96959_AT ubiquitin-conjugating enzyme E2N mm
MG-U74BV2:107453_AT ubiquitin-conjugating enzyme E2N mm
MG-U74CV2:134082_AT ubiquitin-conjugating enzyme E2N mm
MOE430A:1422559_AT ubiquitin-conjugating enzyme E2N mm
MOUSE430A_2:1422559_AT ubiquitin-conjugating enzyme E2N mm
MOUSE430_2:1422559_AT ubiquitin-conjugating enzyme E2N mm
MOE430B:1435384_AT ubiquitin-conjugating enzyme E2N mm
MOUSE430_2:1435384_AT ubiquitin-conjugating enzyme E2N mm
RG-U34B:RC_AA925340_AT ubiquitin-conjugating enzyme E2N rn
RAE230A:1399143_AT ubiquitin-conjugating enzyme E2N rn
RAT230_2:1399143_AT ubiquitin-conjugating enzyme E2N rn
RAE230A:1369617_AT ubiquitin-conjugating enzyme E2N rn
RAT230_2:1369617_AT ubiquitin-conjugating enzyme E2N rn
YEAST_2:1775209_AT Ubiquitin-conjugating enzyme involved in the error-free DNA postreplication repair pathway; interacts with Mms2p to assemble ubiquitin chains at the Ub Lys-63 residue; DNA damage triggers redistribution from the cytoplasm to the nucleus 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
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 AAK93864 Hypothetical protein Y54G2A.23 [Caenorhabditis elegans] ref|NP_500273.2| Y54G2A.23 [Caenorhabditis elegans] sp|Q9N3B0|ARMET_CAEEL ARMET-like protein precursor 7.0E-84
blast AAK93865 Ubiquitin conjugating enzyme protein 13 [Caenorhabditis elegans] ref|NP_500272.2| UBiquitin Conjugating enzyme family member (ubc-13) [Caenorhabditis elegans] 2.0E-83
blast AAK93865 Ubiquitin conjugating enzyme protein 13 [Caenorhabditis elegans] ref|NP_500272.2| UBiquitin Conjugating enzyme family member (ubc-13) [Caenorhabditis elegans] 2.0E-82
blast CAE67928 Hypothetical protein CBG13528 [Caenorhabditis briggsae] 8.0E-82
blast AAK93865 Ubiquitin conjugating enzyme protein 13 [Caenorhabditis elegans] ref|NP_500272.2| UBiquitin Conjugating enzyme family member (ubc-13) [Caenorhabditis elegans] 1.0E-81
blast CAE67928 Hypothetical protein CBG13528 [Caenorhabditis briggsae] 7.0E-81
blast CAE67928 Hypothetical protein CBG13528 [Caenorhabditis briggsae] 6.0E-80
blast NP_542127 ubiquitin-conjugating enzyme E2N isoform 1 [Mus musculus] ref|NP_003339.1| ubiquitin-conjugating enzyme E2N [Homo sapiens] ref|XP_614688.1| PREDICTED: similar to ubiquitin-conjugating enzyme E2N isoform 1 [Bos taurus] gb|AAH34898.3| Ubiquitin-conjugating enzyme E2N [Mus musculus] gb|AAH67069.1| Ubiquitin-conjugating enzyme E2N [Mus musculus] gb|AAH00396.1| Ubiquitin-conjugating enzyme E2N [Homo sapiens] gb|AAH03365.1| Ubiquitin-conjugating enzyme E2N [Homo sapiens] emb|CAA71001.1| bendless-like ubiquitin conjugating enzyme [Mus musculus] emb|CAH92264.1| hypothetical protein [Pongo pygmaeus] dbj|BAB23941.1| unnamed protein product [Mus musculus] gb|AAP35519.1| ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast) [Homo sapiens] gb|AAK74128.1| E2 ubiquitin conjugating enzyme UBC13 [Mus musculus] gb|AAX41705.1| ubiquitin-conjugating enzyme E2N [synthetic construct] gb|AAX41704.1| ubiquitin-conjugating enzyme E2N [synthetic construct] sp|P61089|UBE2N_MOUSE Ubiquitin-conjugating enzyme E2 N (Ubiquitin-protein ligase N) (Ubiquitin carrier protein N) (Ubc13) (Bendless-like ubiquitin-conjugating enzyme) sp|P61088|UBE2N_HUMAN Ubiquitin-conjugating enzyme E2 N (Ubiquitin-protein ligase N) (Ubiquitin carrier protein N) (Ubc13) (Bendless-like ubiquitin-conjugating enzyme) sp|Q5R7J6|UBE2N_PONPY Ubiquitin-conjugating enzyme E2 N (Ubiquitin-protein ligase N) (Ubiquitin carrier protein N) pdb|1J7D|B Chain B, Crystal Structure Of Hmms2-Hubc13 dbj|BAA11675.1| ubiquitin-conjugating enzyme E2 UbcH-ben [Homo sapiens] 6.0E-72
Protein Domains
Database ID Description E-Value
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 5.2E-72
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 5.2E-72
Sequence
Target Sequence 
>C. ELEGANS:176951_AT
caacttccgcgtcgaatcatcaaagagacacaacgacttctcgcggatccggttcccgga
atatcggcaaatccagacgagagcaacgccagatacttccatgtcatgatagccgggcca
gacgattctccatttgctggtggtgtcttcaagttggagcttttccttccggaagagtat
ccgatggctgcaccgaaagttcgattcatgacaaagatctatcatccgaatattgataaa
ctcggcagaatttgtctcgatattctcaaggataaatggtcgccggctcttcaaattcgc
acggttcttctgtcgattcaggctcttctttcggctccaaatccggaagatccactggca
actgatgtcgccgagcaatgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACTTCCGCGTCGAATCATCAAAG 392 189 853 Antisense
AAGAGACACAACGACTTCTCGCGGA 452 153 875 Antisense
CAACGCCAGATACTTCCATGTCATG 308 187 936 Antisense
ATGATAGCCGGGCCAGACGATTCTC 30 47 958 Antisense
GACGATTCTCCATTTGCTGGTGGTG 457 377 973 Antisense
TGGAGCTTTTCCTTCCGGAAGAGTA 466 549 1007 Antisense
AGTATCCGATGGCTGCACCGAAAGT 432 61 1028 Antisense
CAAGGATAAATGGTCGCCGGCTCTT 527 183 1119 Antisense
TCAAATTCGCACGGTTCTTCTGTCG 661 627 1143 Antisense
TCTTCTTTCGGCTCCAAATCCGGAA 348 615 1176 Antisense
GCAACTGATGTCGCCGAGCAATGGA 29 321 1210 Antisense
Sequence Source Affymetrix Proprietary Database