[Home] | [Total List]

[181101_at]

Description F55F8.9 /REP_DB=WormBase Gene ID /WP=CE11204 /TR=P91348 /GB=AAB37814.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 58      4grp_total > 55      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 180.3
(3)
A 		149.7
(-0.3)
A 		173
(2.2)
A 		125.1
(-3)
A 		55
B 161.9
(3)
A 		122.5
(-1.2)
A 		106.1
(-3)
A 		106.4
(-3)
A 		56
C 169.3
(3)
A 		129.1
(-3)
A 		136.4
(-1.9)
A 		145.5
(-0.6)
A 		40
avr 170.5
(3) 		133.8
(-1.9) 		138.5
(-1.3) 		125.7
(-3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 215.9
(2.4)
A 		116.9
(-2.5)
A 		106.6
(-3)
A 		138.6
(-1.4)
A 		123.7
(-2.2)
A 		227.9
(3)
P 		121
B 163.2
(-0.8)
A 		173.9
(-0.3)
A 		113.5
(-3)
A 		130
(-2.3)
A 		152.1
(-1.3)
A 		249.2
(3)
P 		136
C 135.4
(-2.3)
A 		145
(-1.9)
A 		117.9
(-3)
A 		138.9
(-2.1)
A 		133.7
(-2.3)
A 		259.6
(3)
P 		142
avr 171.5
(-0.3) 		145.3
(-1.5) 		112.7
(-3) 		135.8
(-2) 		136.5
(-1.9) 		245.6
(3) 		133
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 47
1 2 3 4 range
A 65.6
(3)
A 		32.5
(-1.2)
A 		45.2
(0.4)
A 		18.3
(-3)
A 		47
B 51.6
(3)
A 		30.2
(-1.4)
A 		24.6
(-2.6)
A 		22.7
(-3)
A 		29
C 56
(3)
A 		37.1
(-0.6)
A 		47.6
(1.4)
A 		24.5
(-3)
A 		32
avr 57.7
(3) 		33.3
(-1.1) 		39.1
(-0.1) 		21.8
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 39.8
(0.1)
A 		41.6
(0.4)
A 		23.2
(-3)
A 		35.1
(-0.8)
A 		37.3
(-0.4)
A 		55.5
(3)
P 		32
B 56.8
(-0.3)
A 		57.9
(-0.2)
A 		27.6
(-3)
A 		34.4
(-2.4)
A 		61.8
(0.1)
A 		92.9
(3)
P 		65
C 50.2
(-0.7)
A 		44.2
(-1.3)
A 		30
(-2.8)
A 		27.9
(-3)
A 		43.2
(-1.4)
A 		86.9
(3)
P 		59
avr 48.9
(-0.4) 		47.9
(-0.6) 		26.9
(-3) 		32.5
(-2.3) 		47.4
(-0.6) 		78.4
(3) 		52
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181101_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.885
Sequence Type Exemplar sequence
Representative Public ID F55F8.9 NCBI
Target Description F55F8.9 /REP_DB=WormBase Gene ID /WP=CE11204 /TR=P91348 /GB=AAB37814.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_059259(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059259 NCBI Caenorhabditis elegans F55F8.9 (F55F8.9) mRNA, complete cds. 11/11 None
SNAP00000024474 ENSEMBL cdna:SNAP chromosome:CEL140:I:5670498:5673347:-1 11/11 None
GENEFINDER00000024483 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5670498:5673347:-1 11/11 None
F55F8.9 ENSEMBL cdna:known chromosome:CEL140:I:5669971:5673355:-1 gene:F55F8.9 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:5670497-5673347(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F55F8.9
Entrez Gene 172230 Entrez gene
SwissProt P91348 EMBL-EBI
WormBase CE11204 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.29627.1.S1_S_AT similar to solute carrier family 39 (zinc transporter), member 3 isoform a cfa
HG-U133_PLUS_2:223917_S_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U133B:223917_S_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBA:RC_AA432197_F_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBB:RC_H05464_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBD:RC_R49689_F_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBD:RC_N67815_F_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBD:RC_N59534_F_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBD:RC_N59534_R_AT solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBD:RC_AA450097_F_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U133_PLUS_2:232115_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U133B:232115_AT solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:G12652672_3P_A_AT solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:HS.306422.0.S1_3P_X_AT solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:HS.306422.0.S1_3P_AT solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:HS.174308.0.S1_3P_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U133_PLUS_2:229677_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U133B:229677_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U95B:53046_R_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U95B:59542_AT solute carrier family 39 (zinc transporter), member 3 hs
HG-U133_PLUS_2:232713_AT Solute carrier family 39 (zinc transporter), member 3 hs
HG-U133B:232713_AT Solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBA:RC_AA350268_AT Solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:HS.30901.0.S1_3P_S_AT Solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:HS.30901.0.S1_3P_AT Solute carrier family 39 (zinc transporter), member 3 hs
U133_X3P:232713_3P_AT Solute carrier family 39 (zinc transporter), member 3 hs
HG-U95B:53333_AT Solute carrier family 39 (zinc transporter), member 3 hs
HU35KSUBD:RC_T23724_F_AT Solute carrier family 39 (zinc transporter), member 3 hs
MG-U74AV2:93173_AT solute carrier family 39 (zinc transporter), member 3 mm
MG-U74CV2:165796_AT solute carrier family 39 (zinc transporter), member 3 mm
MOE430A:1417881_AT solute carrier family 39 (zinc transporter), member 3 mm
MOUSE430A_2:1417881_AT solute carrier family 39 (zinc transporter), member 3 mm
MOUSE430_2:1417881_AT solute carrier family 39 (zinc transporter), member 3 mm
MOE430A:1417882_AT solute carrier family 39 (zinc transporter), member 3 mm
MOUSE430A_2:1417882_AT solute carrier family 39 (zinc transporter), member 3 mm
MOUSE430_2:1417882_AT solute carrier family 39 (zinc transporter), member 3 mm
MU19KSUBC:TC41152_AT Solute carrier family 39 (zinc transporter), member 3 (Slc39a3), mRNA mm
MU11KSUBA:D18934_RC_AT Solute carrier family 39 (zinc transporter), member 3 (Slc39a3), mRNA mm
RAE230B:1377933_AT solute carrier family 39 (zinc transporter), member 3 (predicted) rn
RAT230_2:1377933_AT solute carrier family 39 (zinc transporter), member 3 (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
30001 metal ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
46873 metal ion transporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB37814 Hypothetical protein F55F8.9 [Caenorhabditis elegans] ref|NP_491660.1| F55F8.9 [Caenorhabditis elegans] 0.0
blast CAE68933 Hypothetical protein CBG14913 [Caenorhabditis briggsae] 0.0
blast T19018 hypothetical protein C06G8.3 - Caenorhabditis elegans 1.0E-28
Protein Domains
Database ID Description E-Value
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 3.2E-111
Pfam IPR003689 EMBL-EBI Zinc transporter ZIP 2.9E-111
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491660.1 8 10-29,50-72,92-114,301-323,333-355,362-384,399-421,428-450
F55F8.9 8 10-29,50-72,92-114,301-323,333-355,362-384,399-421,428-450
SNAP00000024474 8 10-29,50-72,92-114,292-314,324-346,353-375,390-412,419-441
GENEFINDER00000024483 8 10-29,50-72,92-114,301-323,333-355,362-384,399-421,428-450
Sequence
Target Sequence 
>C. ELEGANS:181101_AT
gcatttgccgagccagaacgatgtgaaacaaattgtgaagcaattgatgaggatcctcca
attctcatgaaatctcgcccacatgctcattctcatggagtacgatcaattacatttgta
ttggcactgggaattcattcaattattgaaggtctcgcatttggagttcaatcaggaaat
gatacgattattgctttattcctatcattaatggttcacaaattgattgtcgcattttct
gttggccttcaattgttcagaactcatgcacatcagattaaatgggtgatcatctcaatc
ttcacacttgcttcaatgactccacttggtgcactgattggccttgcagtcacatcagca
gctgataatgccctctggaaagatttgacgatcacgattctgcaaggtcttgcagtcgga
acattcatctatgtcactttcttcgaggttcttcttcacgaaagagacaacgagcatcca
aatcttttaaaacttttagtgatgtttattggatttgcattgattggagcattacgtgga
ttcgaatcgagtcatggtcattctcatagtggctcgacagaaccacatttccat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCATTTGCCGAGCCAGAACGATGTG 642 307 820 Antisense
GCATTTTCTGTTGGCCTTCAATTGT 335 307 1051 Antisense
TCTTCACACTTGCTTCAATGACTCC 189 617 1118 Antisense
CAATGACTCCACTTGGTGCACTGAT 158 183 1133 Antisense
GTGCACTGATTGGCCTTGCAGTCAC 566 479 1148 Antisense
TCAGCAGCTGATAATGCCCTCTGGA 388 625 1174 Antisense
ACGATCACGATTCTGCAAGGTCTTG 677 91 1207 Antisense
GGTCTTGCAGTCGGAACATTCATCT 361 501 1225 Antisense
CATTCATCTATGTCACTTTCTTCGA 79 217 1241 Antisense
GTCATGGTCATTCTCATAGTGGCTC 590 465 1370 Antisense
TGGCTCGACAGAACCACATTTCCAT 44 545 1389 Antisense
Sequence Source Affymetrix Proprietary Database