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[189540_at] FYVE zinc finger

Description VT23B5.2 /REP_DB=WormBase Gene ID /WP=CE20122 /TR=O18116 /GB=CAA21780.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=FYVE zinc finger
Cluster 6grp_highest_10_10 > 50      6grp_high1_10_10 > 16      4grp_highest_8_8 > 51      4grp_high_8_8 > 32      6grp_highest_nonorm > 40      6grp_total > 16      4grp_total > 47      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 596
1 2 3 4 range
A 963.4
(3)
P 		470
(-2.2)
P 		399.3
(-3)
P 		573
(-1.2)
P 		564
B 869.2
(3)
P 		401.6
(-2.7)
P 		379.8
(-3)
P 		490.6
(-1.6)
P 		489
C 840.2
(3)
P 		530.5
(-0.9)
P 		444.2
(-2)
P 		367.1
(-3)
P 		473
avr 890.9
(3) 		467.4
(-2.3) 		407.8
(-3) 		476.9
(-2.1) 		483

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1028
1 2 3 4 5 6 range
A 905.8
(3)
P 		875.1
(2.6)
P 		454.6
(-2.5)
P 		534.3
(-1.5)
P 		412.8
(-3)
P 		548.7
(-1.3)
P 		493
B 1019.4
(3)
P 		849.6
(1.4)
P 		473.2
(-2.3)
P 		540.9
(-1.6)
P 		430.3
(-2.7)
P 		400.4
(-3)
P 		619
C 1428.7
(3)
P 		728.1
(-1.2)
P 		718.2
(-1.3)
P 		530.3
(-2.4)
P 		514.1
(-2.5)
P 		428.3
(-3)
P 		1000
avr 1118
(3) 		817.6
(0.3) 		548.7
(-2.1) 		535.2
(-2.3) 		452.4
(-3) 		459.1
(-2.9) 		666
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 289
1 2 3 4 range
A 350.8
(3)
P 		102
(-2.6)
P 		104.4
(-2.5)
P 		83.9
(-3)
P 		267
B 277.2
(3)
P 		99.2
(-2.6)
P 		88
(-3)
P 		104.5
(-2.5)
P 		189
C 278.1
(3)
P 		152.5
(-0.5)
P 		154.8
(-0.4)
P 		61.9
(-3)
P 		216
avr 302
(3) 		117.9
(-2.1) 		115.7
(-2.1) 		83.4
(-3) 		219

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 431
1 2 3 4 5 6 range
A 167
(-1.1)
P 		311.2
(3)
P 		99
(-3)
P 		135.5
(-2)
P 		124.6
(-2.3)
P 		133.6
(-2)
P 		212
B 354.7
(3)
P 		282.8
(1.2)
P 		114.9
(-3)
P 		143.3
(-2.3)
P 		174.8
(-1.5)
P 		149.3
(-2.1)
P 		240
C 529.6
(3)
P 		222.2
(-1.4)
P 		182.8
(-1.9)
P 		106.6
(-3)
P 		166.4
(-2.2)
P 		143.4
(-2.5)
P 		423
avr 350.4
(3) 		272.1
(0.9) 		132.2
(-2.9) 		128.5
(-3) 		155.3
(-2.3) 		142.1
(-2.6) 		222
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189540_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9188
Sequence Type Exemplar sequence
Representative Public ID VT23B5.2 NCBI
Target Description VT23B5.2 /REP_DB=WormBase Gene ID /WP=CE20122 /TR=O18116 /GB=CAA21780.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=FYVE zinc finger
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_070021(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070021 NCBI Caenorhabditis elegans VT23B5.2 (VT23B5.2) mRNA, complete cds. 11/11 None
SNAP00000002829 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12671521:12675937:1 11/11 None
GENEFINDER00000002837 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12671552:12674361:1 11/11 None
VT23B5.2 ENSEMBL cdna:known chromosome:CEL140:IV:12667934:12674744:1 gene:VT23B5.2 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
chrIV:12668272-12674367(+) 100.0 100.0
Public Domain and Genome References
Gene Title FYVE zinc finger
Ensembl VT23B5.2
Entrez Gene 3565736 Entrez gene
SwissProt O18116 EMBL-EBI
WormBase CE20122 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:263165_AT WD-40 repeat family protein / beige-related at
ATGENOME1:12308_AT WD-40 repeat family protein / beige-related at
CANINE:1596788_AT similar to WD repeat and FYVE domain containing 3 isoform 1 cfa
CANINE_2:CFA.13472.1.A1_AT similar to WD repeat and FYVE domain containing 3 isoform 1 cfa
CANINE_2:CFAAFFX.14627.1.S1_S_AT similar to WD repeat and FYVE domain containing 3 isoform 1 cfa
CANINE_2:CFAAFFX.14647.1.S1_S_AT similar to WD repeat and FYVE domain containing 3 isoform 1 cfa
DROSOPHILA_2:1632057_AT blue cheese dm
DROSGENOME1:145855_AT blue cheese dm
DROSGENOME1:145853_AT blue cheese dm
CHICKEN:GGAAFFX.7162.1.S1_S_AT similar to WD repeat and FYVE domain containing 3 isoform 1 gga
HU35KSUBC:RC_R12477_AT WD repeat and FYVE domain containing 3 hs
U133_X3P:HS.198135.0.S3_3P_AT WD repeat and FYVE domain containing 3 hs
U133_X3P:HS.198135.0.S2_3P_AT WD repeat and FYVE domain containing 3 hs
U133_X3P:HS.198135.0.S1_3P_AT WD repeat and FYVE domain containing 3 hs
U133_X3P:HS.181693.0.A1_3P_S_AT WD repeat and FYVE domain containing 3 hs
U133_X3P:HS.181693.0.A1_3P_AT WD repeat and FYVE domain containing 3 hs
HG-U133A_2:212598_AT WD repeat and FYVE domain containing 3 hs
HG-U133_PLUS_2:212598_AT WD repeat and FYVE domain containing 3 hs
HG-U133A:212598_AT WD repeat and FYVE domain containing 3 hs
HG-U133A_2:212602_AT WD repeat and FYVE domain containing 3 hs
HG-U133_PLUS_2:212602_AT WD repeat and FYVE domain containing 3 hs
HG-U133A:212602_AT WD repeat and FYVE domain containing 3 hs
HG-U133A_2:212606_AT WD repeat and FYVE domain containing 3 hs
HG-U133_PLUS_2:212606_AT WD repeat and FYVE domain containing 3 hs
HG-U133A:212606_AT WD repeat and FYVE domain containing 3 hs
HG-U133_PLUS_2:238660_AT WD repeat and FYVE domain containing 3 hs
HG-U133B:238660_AT WD repeat and FYVE domain containing 3 hs
HG-U95AV2:32769_AT WD repeat and FYVE domain containing 3 hs
HG-U95E:85044_AT WD repeat and FYVE domain containing 3 hs
HG-U95B:44509_AT WD repeat and FYVE domain containing 3 hs
HG-U95C:58540_R_AT WD repeat and FYVE domain containing 3 hs
HG-U95D:69419_AT WD repeat and FYVE domain containing 3 hs
HU35KSUBC:RC_N26993_AT WD repeat and FYVE domain containing 3 hs
HU35KSUBD:RC_R63920_AT WD repeat and FYVE domain containing 3 hs
MG-U74CV2:169002_R_AT WD repeat and FYVE domain containing 3 mm
MU11KSUBB:MSA.1792.0_AT WD repeat and FYVE domain containing 3 mm
MG-U74BV2:108367_AT WD repeat and FYVE domain containing 3 mm
MOE430A:1427456_AT WD repeat and FYVE domain containing 3 mm
MOUSE430A_2:1427456_AT WD repeat and FYVE domain containing 3 mm
MOUSE430_2:1427456_AT WD repeat and FYVE domain containing 3 mm
MOE430B:1428517_AT WD repeat and FYVE domain containing 3 mm
MOUSE430_2:1428517_AT WD repeat and FYVE domain containing 3 mm
MOE430B:1458952_AT WD repeat and FYVE domain containing 3 mm
MOUSE430_2:1458952_AT WD repeat and FYVE domain containing 3 mm
MOE430B:1446109_AT WD repeat and FYVE domain containing 3 mm
MOUSE430_2:1446109_AT WD repeat and FYVE domain containing 3 mm
MOE430B:1447433_AT WD repeat and FYVE domain containing 3 mm
MOUSE430_2:1447433_AT WD repeat and FYVE domain containing 3 mm
MOE430B:1445718_AT MKIAA0993 protein mm
MOUSE430_2:1445718_AT MKIAA0993 protein mm
MOE430B:1459287_AT MKIAA0993 protein mm
MOUSE430_2:1459287_AT MKIAA0993 protein mm
MOUSE430_2:1459414_AT MKIAA0993 protein mm
MOE430B:1459414_AT MKIAA0993 protein mm
MU19KSUBB:TC29954_AT MKIAA0993 protein mm
RAE230B:1394834_AT WD repeat and FYVE domain containing 3 (predicted) rn
RAT230_2:1394834_AT WD repeat and FYVE domain containing 3 (predicted) rn
RG-U34A:RC_AA859616_AT WD repeat and FYVE domain containing 3 (predicted) rn
RAE230A:1389128_AT WD repeat and FYVE domain containing 3 (predicted) rn
RAT230_2:1389128_AT WD repeat and FYVE domain containing 3 (predicted) rn
RG-U34B:RC_AI030838_AT WD repeat and FYVE domain containing 3 (predicted) rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA21780 Hypothetical protein VT23B5.2 [Caenorhabditis elegans] emb|CAB07677.1| Hypothetical protein VT23B5.2 [Caenorhabditis elegans] ref|NP_502422.1| VT23B5.2 [Caenorhabditis elegans] 0.0
blast CAE59991 Hypothetical protein CBG03484 [Caenorhabditis briggsae] 0.0
blast AAF52302 CG14001-PA [Drosophila melanogaster] ref|NP_608968.2| CG14001-PA [Drosophila melanogaster] 0.0
blast CAE59991 Hypothetical protein CBG03484 [Caenorhabditis briggsae] 1.0E-167
blast CAE59991 Hypothetical protein CBG03484 [Caenorhabditis briggsae] 1.0E-164
Protein Domains
Database ID Description E-Value
Pfam IPR000306 EMBL-EBI Zn-finger, FYVE type 1.7E-31
Pfam IPR000409 EMBL-EBI Beige/BEACH domain 1.0E-126
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.14
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.22
Pfam IPR000306 EMBL-EBI Zn-finger, FYVE type 1.1E-24
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.14
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.22
Pfam IPR000306 EMBL-EBI Zn-finger, FYVE type 1.7E-31
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 1.1E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.14
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.22
Sequence
Target Sequence 
>C. ELEGANS:189540_AT
gaatcacgatagatctgctgccatcgcagctcgtcttgaaaaacagcgaaaacgtctcaa
aaatagctctacaactgccacgtcatcaagtgtatcaggatccggatcggcatccctcac
ttctccaggtccggcgagtccttcagcaggtggaagtagagcaacaaatattgatgtcgg
tggagcacaatttgtgagagttcttgtacaacgaactgctctcacaatgcacacggcatt
caatcgacctgataatgtgcatcctgctccgattactgcaattgcgccgagcagagatca
tcgttcactgtatgtcggagatggaatcggccgtgtatggtgctggcagagtgcagaagg
tggtggaagagctgatcattgggtacaagatgttacaagacaacgatgtgatgattgtga
gcacaaattcacacttgccgatcgaaaacatcattgcagaaattgtggacaaattttctg
ttcaacatgttcccgattcgagtcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCACGATAGATCTGCTGCCATC 556 327 2211 Antisense
CCATCGCAGCTCGTCTTGAAAAACA 583 271 2231 Antisense
AAAATAGCTCTACAACTGCCACGTC 616 131 2270 Antisense
GTACAACGAACTGCTCTCACAATGC 358 461 2416 Antisense
TGCACACGGCATTCAATCGACCTGA 329 575 2438 Antisense
TGATAATGTGCATCCTGCTCCGATT 341 565 2460 Antisense
GCTCCGATTACTGCAATTGCGCCGA 187 299 2476 Antisense
GAGATCATCGTTCACTGTATGTCGG 273 397 2504 Antisense
TGGAATCGGCCGTGTATGGTGCTGG 55 547 2532 Antisense
GAGCACAAATTCACACTTGCCGATC 214 391 2629 Antisense
TTCAACATGTTCCCGATTCGAGTCC 399 683 2691 Antisense
Sequence Source Affymetrix Proprietary Database