[Home] | [Total List]

[188038_s_at]

Description F26G5.9 /REP_DB=WormBase Gene ID /WP=CE09704 /GEN=tam-1 /TR=O16936 /GB=AAC48041.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 57      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 84      6grp_total > 59      4grp_total > 11      6grp_highest_sub > Cu      6grp_cgc > 39      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 845
1 2 3 4 range
A 605.9
(-2.2)
P 		605
(-2.2)
P 		515.5
(-3)
P 		1210.2
(3)
P 		695
B 608
(-2)
P 		547.6
(-2.4)
P 		467
(-3)
P 		1311.9
(3)
P 		845
C 692
(-1.4)
P 		648.7
(-1.7)
P 		500.4
(-3)
P 		1202.7
(3)
P 		702
avr 635.3
(-1.9) 		600.4
(-2.1) 		494.3
(-3) 		1241.6
(3) 		747

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 615
1 2 3 4 5 6 range
A 777.3
(-0.3)
P 		598.9
(-2)
P 		498.8
(-3)
P 		639.8
(-1.6)
P 		706
(-1)
P 		1113.3
(3)
P 		615
B 771.8
(2.3)
P 		594.3
(-2)
P 		555.7
(-3)
P 		656.9
(-0.5)
P 		619.8
(-1.4)
P 		799.1
(3)
P 		243
C 710.4
(0.8)
P 		618.2
(-1.3)
P 		539.9
(-3)
P 		615.7
(-1.3)
P 		591.7
(-1.8)
P 		809.1
(3)
P 		269
avr 753.2
(0.5) 		603.8
(-1.8) 		531.5
(-3) 		637.5
(-1.3) 		639.2
(-1.3) 		907.2
(3) 		376
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 171
1 2 3 4 range
A 220.6
(3)
P 		131.3
(-3)
P 		134.8
(-2.8)
P 		177.1
(0.1)
P 		89
B 193.9
(-0)
P 		135.2
(-2.1)
P 		108.2
(-3)
P 		279.6
(3)
P 		171
C 229.1
(3)
P 		186.5
(-1.7)
P 		174.4
(-3)
P 		202.8
(0.1)
P 		55
avr 214.5
(2.6) 		151
(-2.1) 		139.1
(-3) 		219.8
(3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 143.3
(-1.7)
P 		213
(0.9)
P 		108.6
(-3)
P 		162.3
(-1)
P 		213
(0.9)
P 		271.1
(3)
P 		163
B 268.6
(1.9)
P 		197.8
(-0.7)
P 		134.9
(-3)
P 		174
(-1.6)
P 		251.8
(1.3)
P 		298
(3)
P 		163
C 263.3
(2.7)
P 		188.6
(-0.4)
P 		137.4
(-2.4)
P 		123.8
(-3)
P 		191.5
(-0.2)
P 		270.8
(3)
P 		147
avr 225.1
(0.8) 		199.8
(-0.1) 		127
(-3) 		153.4
(-2) 		218.8
(0.6) 		280
(3) 		153
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188038_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15701
Sequence Type Exemplar sequence
Representative Public ID F26G5.9 NCBI
Target Description F26G5.9 /REP_DB=WormBase Gene ID /WP=CE09704 /GEN=tam-1 /TR=O16936 /GB=AAC48041.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071934(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071934 NCBI Caenorhabditis elegans Tandem Array expression Modifier family member (tam-1) (tam-1) mRNA, complete cds. 11/11 A 
SNAP00000021539 ENSEMBL cdna:SNAP chromosome:CEL140:V:4958800:4962808:-1 11/11 None
GENEFINDER00000021548 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4958800:4962808:-1 11/11 None
F26G5.9 ENSEMBL cdna:known chromosome:CEL140:V:4958421:4962900:-1 gene:F26G5.9 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4958799-4962808(-) 95.7 100.0
Public Domain and Genome References
Gene Title
Gene Symbol tam-1
Ensembl F26G5.9
Entrez Gene 178887 Entrez gene
SwissProt O16936 EMBL-EBI
WormBase CE09704 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
43073 germ cell nucleus inferred from direct assay QuickGO AmiGO
5634 nucleus inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_504335 Tandem Array expression Modifier family member (tam-1) [Caenorhabditis elegans] gb|AAC48041.1| Tandem array expression modifier protein 1 [Caenorhabditis elegans] gb|AAD47816.1| tandem-array-modifier protein [Caenorhabditis elegans] 0.0
blast CAE73154 Hypothetical protein CBG20546 [Caenorhabditis briggsae] 1.0E-112
Protein Domains
Database ID Description E-Value
Pfam IPR001841 EMBL-EBI Zn-finger, RING 8.4E-9
Sequence
Target Sequence 
>C. ELEGANS:188038_S_AT
cgatgatgttccaccgcagattaacaattttgtggagtttgatgatatgcgcgagcaagt
cgatgcgatagaagacgaggaatttgagccggtgctccacagagcggcgatagaattcca
agaagcagcggatcaggatgctctagagcaagatgttcgggagcgtaatttactggatca
cgaagccgagaacgaggaggaagacgacggtgatctgccttacgaggaagaggacgacga
ggaagaagaagttcatgttcgtaactcagttgttcgtcgtcgcgtccagcgcccacgaga
tgcggcgcacatttcggaagttgaaacaagacgctctgctcgcaggcttgccaggaattc
aaacaatccgactgatgaaccatccacgtcttctggagccgccggtccatcaaatcgccc
accacattctccgactccaccacctggaaacaaaagaagaagggttgatagaaaaccgaa
gactgaagaaccagaacaaatggaaactgaaccagtcgatcctgttcatcgtgcgccaaa
gcgtcgtggtacttctgctgcatcgtcttcctctaatggaatgccttcgtcgtctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGATGATGTTCCACCGCAGATTAAC 358 249 2220 Antisense
AATTTGAGCCGGTGCTCCACAGAGC 393 173 2300 Antisense
GCAGCGGATCAGGATGCTCTAGAGC 511 313 2344 Antisense
GAGGAAGACGACGGTGATCTGCCTT 393 403 2416 Antisense
TCCAGCGCCCACGAGATGCGGCGCA 617 587 2504 Antisense
ATGCGGCGCACATTTCGGAAGTTGA 75 43 2519 Antisense
AGTTGAAACAAGACGCTCTGCTCGC 317 65 2538 Antisense
TCTGCTCGCAGGCTTGCCAGGAATT 343 607 2554 Antisense
CGACTGATGAACCATCCACGTCTTC 39 253 2588 Antisense
TGAACCAGTCGATCCTGTTCATCGT 29 575 2727 Antisense
TCTAATGGAATGCCTTCGTCGTCTG 91 613 2791 Antisense
Sequence Source Affymetrix Proprietary Database