[Home] | [Total List]

[176930_at]

Description Y34D9A.D /REP_DB=WormBase Gene ID /WP=CE21528 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59434.1
Cluster 6grp_high1_10_10 > 88      4grp_highest_8_8 > 12      4grp_high_8_8 > 30      6grp_total > 89      4grp_total > 32      6grp_cgc > 59      6grp_high1_sub > Da      6grp_cgc_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 85.7
(-3)
P 		107.8
(-0)
P 		95.8
(-1.6)
P 		130.5
(3)
P 		45
B 72.5
(-3)
P 		92.4
(-0.1)
P 		94
(0.1)
P 		113.7
(3)
P 		41
C 87.6
(-2)
P 		108.4
(0.9)
P 		123.8
(3)
P 		80.3
(-3)
P 		44
avr 81.9
(-3) 		102.9
(1.8) 		104.5
(2.2) 		108.2
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 182
1 2 3 4 5 6 range
A 65.1
(-2.2)
P 		49.7
(-3)
P 		75.7
(-1.7)
P 		65.5
(-2.2)
P 		115.8
(0.4)
P 		167.6
(3)
P 		118
B 102.4
(-1)
P 		63.6
(-2.4)
P 		72.3
(-2.1)
P 		45.4
(-3)
P 		174.2
(1.5)
P 		217.1
(3)
P 		172
C 83
(-0.8)
P 		76.7
(-1.1)
P 		35
(-3)
A 		35.3
(-3)
A 		144.1
(2)
P 		167.1
(3)
P 		132
avr 83.5
(-1.5) 		63.3
(-2.4) 		61
(-2.5) 		48.7
(-3) 		144.7
(1.3) 		183.9
(3) 		135
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 31.2
(3)
P 		23.4
(-0.9)
P 		25
(-0.1)
P 		19.1
(-3)
P 		12
B 23.1
(0.3)
P 		22.8
(-0.5)
P 		21.8
(-3)
P 		24.2
(3)
P 		2
C 29
(0.1)
P 		31.2
(0.6)
P 		43.1
(3)
P 		13.5
(-3)
P 		30
avr 27.8
(1.8) 		25.8
(0.7) 		30
(3) 		18.9
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 12
(-3)
P 		17.7
(-1.8)
P 		16.5
(-2.1)
P 		16.6
(-2)
P 		35
(1.8)
P 		40.8
(3)
P 		29
B 35.6
(-0.9)
P 		21.2
(-2.2)
P 		17.5
(-2.5)
P 		12
(-3)
P 		70.8
(2.1)
P 		81
(3)
P 		69
C 30.8
(-0.1)
P 		23.4
(-1)
P 		8.9
(-2.8)
A 		7.1
(-3)
A 		46.6
(1.9)
P 		55.9
(3)
P 		49
avr 26.1
(-1.2) 		20.8
(-1.9) 		14.3
(-2.7) 		11.9
(-3) 		50.8
(1.9) 		59.2
(3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176930_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18631
Sequence Type Exemplar sequence
Representative Public ID Y34D9A.D NCBI
Target Description Y34D9A.D /REP_DB=WormBase Gene ID /WP=CE21528 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59434.1
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_058408(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058408 NCBI Caenorhabditis elegans SPindle Defective family member (spd-1) (spd-1) mRNA, complete cds. 11/11 None
SNAP00000009164 ENSEMBL cdna:SNAP chromosome:CEL140:I:1019921:1052164:-1 11/11 None
GENEFINDER00000009201 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1031976:1033437:-1 11/11 None
Y34D9A.4.2 ENSEMBL cdna:known chromosome:CEL140:I:1030635:1033444:-1 gene:Y34D9A.4 11/11 None
Y34D9A.4.1 ENSEMBL cdna:known chromosome:CEL140:I:1030651:1033438:-1 gene:Y34D9A.4 11/11 None
Y34D9A.4.3 ENSEMBL cdna:known chromosome:CEL140:I:1030651:1033440:-1 gene:Y34D9A.4 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:1031975-1033437(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol spd-1
Ensembl Y34D9A.4
Entrez Gene 171683 Entrez gene
SwissProt Q6AW14 EMBL-EBI
WormBase CE37061 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAV68307 SPD-1 [Caenorhabditis elegans] ref|NP_490809.2| SPindle Defective family member (spd-1) [Caenorhabditis elegans] gb|AAT81176.1| Spindle defective protein 1 [Caenorhabditis elegans] 0.0
blast NP_490808 Y34D9A.1 [Caenorhabditis elegans] gb|AAK29884.1| Hypothetical protein Y34D9A.1 [Caenorhabditis elegans] 0.0
blast CAE74320 Hypothetical protein CBG22031 [Caenorhabditis briggsae] 0.0
blast CAE74321 Hypothetical protein CBG22032 [Caenorhabditis briggsae] 1.0E-50
Protein Domains
Database ID Description E-Value
Pfam IPR007145 EMBL-EBI MAP65/ASE1 1.4E-7
Pfam IPR007145 EMBL-EBI MAP65/ASE1 1.4E-7
Pfam IPR007145 EMBL-EBI MAP65/ASE1 1.4E-7
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000009164 1 67-89
Sequence
Target Sequence 
>C. ELEGANS:176930_AT
ttggctggaagatatcgagttccgatggaccgagaagcatcagcaacttcaggagctttg
ggagaaatgtctcgtatcggaagcagatcgacattattcgccgattttcgagccaaccaa
aaactcggagcaaaccctaaagcggatggag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGCTGGAAGATATCGAGTTCCGA 457 697 741 Antisense
GATATCGAGTTCCGATGGACCGAGA 78 423 751 Antisense
CGAGTTCCGATGGACCGAGAAGCAT 112 247 756 Antisense
CATCAGCAACTTCAGGAGCTTTGGG 176 211 778 Antisense
GGAGCTTTGGGAGAAATGTCTCGTA 221 517 792 Antisense
AAATGTCTCGTATCGGAAGCAGATC 112 119 805 Antisense
GAAGCAGATCGACATTATTCGCCGA 528 341 820 Antisense
GATCGACATTATTCGCCGATTTTCG 330 413 826 Antisense
GAGCCAACCAAAAACTCGGAGCAAA 440 383 850 Antisense
ACTCGGAGCAAACCCTAAAGCGGAT 36 99 863 Antisense
GGAGCAAACCCTAAAGCGGATGGAG 506 517 867 Antisense
Sequence Source Affymetrix Proprietary Database