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[192841_at] vacuolar biogenesis protein (pep5)

Description R06F6.2 /REP_DB=WormBase Gene ID /WP=CE01618 /TR=SW:Q09600 /GB=CAA86774.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=vacuolar biogenesis protein (pep5)
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 02      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 90      6grp_total > 34      4grp_total > 39      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 193.5
(3)
P 		191.5
(2.8)
P 		120.3
(-3)
P 		160.1
(0.3)
P 		73
B 204.5
(3)
P 		129.1
(-3)
P 		151.3
(-1.2)
P 		146.8
(-1.6)
P 		75
C 206
(3)
P 		150.9
(-3)
P 		193.8
(1.7)
P 		178.8
(0)
P 		55
avr 201.3
(3) 		157.2
(-2.7) 		155.1
(-3) 		161.9
(-2.1) 		46

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 112
1 2 3 4 5 6 range
A 188.8
(3)
P 		143.6
(0.3)
P 		139.8
(0)
P 		93.4
(-2.7)
P 		106.4
(-2)
P 		89.2
(-3)
P 		100
B 165.8
(1.4)
P 		146
(0.2)
P 		190.3
(3)
P 		113.2
(-1.9)
P 		96.1
(-3)
P 		108.6
(-2.2)
P 		94
C 157.4
(2.3)
P 		168.3
(3)
P 		126.8
(0.2)
P 		148.9
(1.7)
P 		78
(-3)
P 		108.6
(-1)
P 		90
avr 170.7
(3) 		152.6
(1.6) 		152.3
(1.6) 		118.5
(-1.1) 		93.5
(-3) 		102.1
(-2.3) 		77
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 70.5
(3)
P 		41.6
(-0.7)
P 		31.5
(-2)
P 		23.4
(-3)
P 		47
B 65.2
(3)
P 		31.9
(-2.9)
P 		35.1
(-2.3)
P 		31.3
(-3)
P 		34
C 68.2
(3)
P 		43.4
(-0.9)
P 		67.6
(2.9)
P 		30.1
(-3)
P 		38
avr 68
(3) 		39
(-1.4) 		44.7
(-0.5) 		28.3
(-3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 34.8
(-0.3)
P 		51.1
(3)
P 		30.5
(-1.2)
P 		23.7
(-2.6)
P 		32.1
(-0.9)
P 		21.7
(-3)
P 		29
B 57.7
(3)
P 		48.6
(1)
P 		46.2
(0.5)
P 		30
(-3)
P 		39
(-1.1)
P 		40.5
(-0.7)
P 		28
C 58.3
(3)
P 		51.3
(1.7)
P 		32.3
(-1.7)
P 		29.9
(-2.2)
P 		25.3
(-3)
P 		36.3
(-1)
P 		33
avr 50.3
(3) 		50.3
(3) 		36.3
(-0.8) 		27.9
(-3) 		32.1
(-1.9) 		32.8
(-1.7) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192841_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3503
Sequence Type Exemplar sequence
Representative Public ID R06F6.2 NCBI
Target Description R06F6.2 /REP_DB=WormBase Gene ID /WP=CE01618 /TR=SW:Q09600 /GB=CAA86774.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=vacuolar biogenesis protein (pep5)
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_063921(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063921 NCBI Caenorhabditis elegans R06F6.2 (R06F6.2) mRNA, complete cds. 11/11 None
GENEFINDER00000015447 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10788316:10793403:-1 11/11 None
R06F6.2 ENSEMBL cdna:known chromosome:CEL140:II:10787843:10793404:-1 gene:R06F6.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000015428 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:10788312-10793400(-) 100.0 100.0
Public Domain and Genome References
Gene Title vacuolar biogenesis protein (pep5)
Ensembl R06F6.2
Entrez Gene 174661 Entrez gene
SwissProt Q09600 EMBL-EBI
WormBase CE01618 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA86774 Hypothetical protein R06F6.2 [Caenorhabditis elegans] ref|NP_496322.1| R06F6.2 [Caenorhabditis elegans] sp|Q09600|YRM2_CAEEL Hypothetical RING finger protein R06F6.2 in chromosome II 0.0
blast CAE59607 Hypothetical protein CBG03015 [Caenorhabditis briggsae] 0.0
blast XP_883435 PREDICTED: similar to vacuolar protein sorting 11 (yeast homolog) isoform 5 [Bos taurus] 9.0E-95
blast XP_883435 PREDICTED: similar to vacuolar protein sorting 11 (yeast homolog) isoform 5 [Bos taurus] 6.0E-93
Sequence
Target Sequence 
>C. ELEGANS:192841_AT
gtaaccaagtgctcggcgtgtgatacacctctacaacttccaactgtacactttttatgc
aaacacgcatatcatgtacactgcttcgaatcgtataatatggatggaagtgacaagtgt
cctgcatgtcagacaactcgtgacaccactcgagatgaggagattagttatcacaagttt
caaaaggagttggcagaagcttcgaatggaatggaacttattgcgatgtatctacaaaga
ggactttttgatgagaaaacgaagaaaactaagaaatctgaggctaaaaaagacccattc
tccaccggcagagcctctaccacaacaaatccgttcgacgacgatgaagtaacgacaatc
tcgagaacaatgtcaacagtatccagtaatatggcaacaccgtcccgacagagatcaatc
acacggaaagacgatgattcaacgaatccattcttcaattctgattctggaactcggctg
agcacat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTAACCAAGTGCTCGGCGTGTGATA 260 463 2320 Antisense
GCGTGTGATACACCTCTACAACTTC 228 293 2335 Antisense
CAACTTCCAACTGTACACTTTTTAT 144 189 2353 Antisense
TATCATGTACACTGCTTCGAATCGT 32 661 2389 Antisense
GTGTCCTGCATGTCAGACAACTCGT 277 487 2436 Antisense
GACAACTCGTGACACCACTCGAGAT 203 365 2451 Antisense
GCTAAAAAAGACCCATTCTCCACCG 436 299 2602 Antisense
ACCACAACAAATCCGTTCGACGACG 152 85 2638 Antisense
CAGTAATATGGCAACACCGTCCCGA 479 207 2703 Antisense
CCGTCCCGACAGAGATCAATCACAC 455 265 2719 Antisense
GATTCTGGAACTCGGCTGAGCACAT 152 433 2782 Antisense
Sequence Source Affymetrix Proprietary Database