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[175315_at] Ubiquitin conjugating enzyme

Description AV181645_rc /REP_DB=TREMBL Accession /GB=AV181645 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk623a4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 99      4grp_highest_8_8 > 20      4grp_high_8_8 > 31      6grp_highest_nonorm > 65      6grp_total > 94      4grp_total > 32      6grp_highest_sub > In      6grp_cgc > 89      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 851
1 2 3 4 range
A 1107.1
(0.6)
P 		831.9
(-3)
P 		1287.9
(3)
P 		1268.5
(2.7)
P 		456
B 664
(-3)
P 		995.1
(-0.5)
P 		1257.2
(1.4)
P 		1464.5
(3)
P 		801
C 1031.1
(-3)
P 		1111.1
(-2)
P 		1514.5
(3)
P 		1297.7
(0.3)
P 		483
avr 934.1
(-3) 		979.4
(-2.4) 		1353.2
(3) 		1343.6
(2.9) 		419

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 798
1 2 3 4 5 6 range
A 674.2
(-3)
P 		986.5
(-0.5)
P 		1047.9
(0)
P 		1231.6
(1.5)
P 		1413.4
(3)
P 		1091.8
(0.4)
P 		739
B 1203.5
(-2.1)
P 		1171.4
(-2.7)
P 		1341.5
(0.5)
P 		1157.8
(-3)
P 		1471.8
(3)
P 		1342.4
(0.5)
P 		314
C 1284.5
(1.3)
P 		1129.5
(-1.9)
P 		1075.7
(-3)
P 		1100.3
(-2.5)
P 		1234.2
(0.3)
P 		1367
(3)
P 		291
avr 1054.1
(-3) 		1095.8
(-2.2) 		1155
(-1.1) 		1163.2
(-0.9) 		1373.1
(3) 		1267.1
(1) 		319
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 347
1 2 3 4 range
A 403.1
(3)
P 		180.6
(-3)
P 		336.7
(1.2)
P 		185.7
(-2.9)
P 		223
B 211.8
(-3)
P 		245.8
(-1)
P 		291.3
(1.8)
P 		312.1
(3)
P 		100
C 341.3
(-0.6)
P 		319.4
(-1)
P 		527.9
(3)
P 		218.8
(-3)
P 		309
avr 318.7
(0.3) 		248.6
(-2.6) 		385.3
(3) 		238.9
(-3) 		146

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 474
1 2 3 4 5 6 range
A 124.3
(-3)
P 		350.8
(1.5)
P 		228.2
(-0.9)
P 		312.4
(0.7)
P 		426.5
(3)
P 		265.8
(-0.2)
P 		302
B 418.8
(-0.7)
P 		389.9
(-1.3)
P 		325.8
(-2.6)
P 		306.7
(-3)
P 		598
(3)
P 		500.6
(1)
P 		291
C 476.1
(3)
P 		344.6
(-0.1)
P 		273.8
(-1.8)
P 		221.3
(-3)
P 		399.4
(1.2)
P 		457.6
(2.6)
P 		255
avr 339.7
(-1.1) 		361.8
(-0.4) 		275.9
(-3) 		280.1
(-2.9) 		474.6
(3) 		408
(1) 		199
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175315_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21202
Sequence Type Exemplar sequence
Representative Public ID AV181645 NCBI
Target Description AV181645_rc /REP_DB=TREMBL Accession /GB=AV181645 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk623a4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_066732(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066732 NCBI Caenorhabditis elegans UBiquitin Conjugating enzyme family member (ubc-7) (ubc-7) mRNA, complete cds. 11/11 None
F58A4.10.1 ENSEMBL cdna:known chromosome:CEL140:III:9630002:9631065:-1 gene:F58A4.10 11/11 A 
F58A4.10.2 ENSEMBL cdna:known chromosome:CEL140:III:9630086:9631063:-1 gene:F58A4.10 11/11 A 
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:9630174-9630328(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ubiquitin conjugating enzyme
Gene Symbol ubc-7
Ensembl F58A4.10
Entrez Gene 176363 Entrez gene
SwissProt P34477 EMBL-EBI
WormBase CE00216 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17852_G_AT ubiquitin-conjugating enzyme 14 (UBC14) at
ATGENOME1:17851_AT ubiquitin-conjugating enzyme 14 (UBC14) at
ATH1-121501:251802_AT ubiquitin-conjugating enzyme 14 (UBC14) at
DROSOPHILA_2:1633683_AT dm
DROSGENOME1:149858_AT dm
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 CAA80166 Hypothetical protein F58A4.10 [Caenorhabditis elegans] ref|NP_499133.1| UBiquitin Conjugating enzyme family member (ubc-7) [Caenorhabditis elegans] sp|P34477|UBC7_CAEEL Probable ubiquitin-conjugating enzyme E2 7 (Ubiquitin-protein ligase 7) (Ubiquitin carrier protein 7) pdb|1PZV|A Chain A, Crystal Structures Of Two Ubc (E2) Enzymes Of The Ubiquitin- Conjugating System In Caenorhabditis Elegans 1.0E-93
blast CAE65167 Hypothetical protein CBG10037 [Caenorhabditis briggsae] 5.0E-93
blast AAF54982 CG9602-PA [Drosophila melanogaster] ref|NP_650309.1| CG9602-PA [Drosophila melanogaster] 3.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR000608 EMBL-EBI Ubiquitin-conjugating enzymes 1.4E-82
Sequence
Target Sequence 
>C. ELEGANS:175315_AT
actcgtcgttcatatgaaactatccactttgatcttctttttcttactcattcaccccat
tttttgacaccacgtgtttctaatttctttcctcataagcgttggactcgttactttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTCGTCGTTCATATGAAACTATCC 48 99 13 Antisense
GAAACTATCCACTTTGATCTTCTTT 699 355 28 Antisense
TCCACTTTGATCTTCTTTTTCTTAC 361 589 35 Antisense
TGATCTTCTTTTTCTTACTCATTCA 304 565 42 Antisense
CCATTTTTTGACACCACGTGTTTCT 627 265 69 Antisense
GACACCACGTGTTTCTAATTTCTTT 516 367 78 Antisense
CACGTGTTTCTAATTTCTTTCCTCA 343 199 83 Antisense
GTTTCTAATTTCTTTCCTCATAAGC 138 451 88 Antisense
TAATTTCTTTCCTCATAAGCGTTGG 79 635 93 Antisense
TCCTCATAAGCGTTGGACTCGTTAC 568 583 102 Antisense
CATAAGCGTTGGACTCGTTACTTTT 453 211 106 Antisense
Sequence Source Affymetrix Proprietary Database