[Home] | [Total List]

[187087_at]

Description D2005.3 /REP_DB=WormBase Gene ID /WP=CE09067 /TR=SW:Q93408 /GB=CAB02078.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 56      6grp_high1_10_10 > 65      4grp_highest_8_8 > 22      4grp_high_8_8 > 14      6grp_highest_nonorm > 78      6grp_total > 55      4grp_total > 09      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4963
1 2 3 4 range
A 943.9
(-3)
P 		1184.5
(-2.7)
P 		1313.5
(-2.6)
P 		5899
(3)
P 		4955
B 935.8
(-3)
P 		1215.1
(-2.6)
P 		1542.8
(-2.1)
P 		4984.1
(3)
P 		4048
C 995.1
(-3)
P 		1240.1
(-2.6)
P 		1293.4
(-2.6)
P 		5104
(3)
P 		4109
avr 958.3
(-3) 		1213.2
(-2.7) 		1383.2
(-2.4) 		5329
(3) 		4371

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1136
1 2 3 4 5 6 range
A 1439.3
(-2.1)
P 		1462.2
(-1.9)
P 		2145.1
(3)
P 		1318.2
(-3)
P 		1316.6
(-3)
P 		1604.8
(-0.9)
P 		829
B 1473.4
(-1.7)
P 		1662.7
(-0.7)
P 		2307.5
(3)
P 		1251.6
(-3)
P 		1326.4
(-2.6)
P 		1882.9
(0.6)
P 		1056
C 1313
(-2.5)
P 		1761.3
(-0.1)
P 		1289
(-2.6)
P 		1663
(-0.7)
P 		1218.9
(-3)
P 		2354.8
(3)
P 		1136
avr 1408.6
(-1.9) 		1628.7
(0.1) 		1913.9
(2.7) 		1410.9
(-1.9) 		1287.3
(-3) 		1947.5
(3) 		660
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 805
1 2 3 4 range
A 343.7
(-2.1)
P 		257.1
(-3)
P 		343.4
(-2.1)
P 		863.5
(3)
P 		606
B 298.4
(-3)
P 		300.1
(-3)
P 		357.5
(-2.5)
P 		1062.1
(3)
P 		764
C 329.4
(-3)
P 		356.5
(-2.7)
P 		450.8
(-1.6)
P 		860.6
(3)
P 		531
avr 323.8
(-2.8) 		304.6
(-3) 		383.9
(-2.2) 		928.7
(3) 		624

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 523
1 2 3 4 5 6 range
A 265.3
(-3)
P 		520
(3)
P 		467.2
(1.8)
P 		334.3
(-1.4)
P 		397.3
(0.1)
P 		390.7
(-0)
P 		255
B 512.7
(-0.1)
P 		553.4
(0.6)
P 		560.3
(0.7)
P 		331.5
(-3)
P 		538.9
(0.4)
P 		702.1
(3)
P 		371
C 486.7
(-0.9)
P 		537.4
(-0.3)
P 		328.1
(-3)
P 		334.4
(-2.9)
P 		394.4
(-2.1)
P 		788.3
(3)
P 		460
avr 421.6
(-1.2) 		536.9
(1.2) 		451.9
(-0.6) 		333.4
(-3) 		443.5
(-0.8) 		627
(3) 		294
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187087_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.484
Sequence Type Exemplar sequence
Representative Public ID D2005.3 NCBI
Target Description D2005.3 /REP_DB=WormBase Gene ID /WP=CE09067 /TR=SW:Q93408 /GB=CAB02078.1 /SUBMIT=HINXTON /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_059758(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059758 NCBI Caenorhabditis elegans D2005.3 (D2005.3) mRNA, complete cds. 11/11 None
SNAP00000018865 ENSEMBL cdna:SNAP chromosome:CEL140:I:7821957:7822710:-1 11/11 None
GENEFINDER00000018875 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7821957:7822710:-1 11/11 None
D2005.3 ENSEMBL cdna:known chromosome:CEL140:I:7821882:7823168:-1 gene:D2005.3 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:7821887-7822641(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl D2005.3
Entrez Gene 183935 Entrez gene
SwissProt Q93408 EMBL-EBI
WormBase CE32341 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:256001_AT double-stranded DNA-binding family protein at
CANINE:1599278_AT similar to programmed cell death 5 cfa
CANINE_2:CFA.20446.1.A1_S_AT similar to programmed cell death 5 cfa
DROSOPHILA_2:1640056_AT dm
DROSGENOME1:148853_AT dm
CHICKEN:GGA.6987.1.S1_AT programmed cell death 5 gga
CHICKEN:GGA.6987.2.S1_A_AT programmed cell death 5 gga
CHICKEN:GGA.6987.2.S1_AT Programmed cell death 5 gga
HG-U133_PLUS_2:219275_AT programmed cell death 5 hs
HG-U133A:219275_AT programmed cell death 5 hs
HG-FOCUS:219275_AT programmed cell death 5 hs
HG-U133A_2:219275_AT programmed cell death 5 hs
HU35KSUBA:AA452724_AT programmed cell death 5 hs
HU35KSUBB:RC_R71082_S_AT programmed cell death 5 hs
U133_X3P:G4759223_3P_A_AT programmed cell death 5 hs
HG-U95B:44724_AT programmed cell death 5 hs
HG-U95B:57062_AT programmed cell death 5 hs
HG-U133_PLUS_2:227751_AT Programmed cell death 5 hs
HG-U133B:227751_AT Programmed cell death 5 hs
U133_X3P:HS.166468.1.A1_3P_AT Programmed cell death 5 hs
HG-U95D:88125_I_AT Programmed cell death 5 hs
HG-U95D:88127_R_AT Programmed cell death 5 hs
MU11KSUBA:AA413205_S_AT programmed cell death 5 mm
MG-U74AV2:93968_AT programmed cell death 5 mm
MOE430A:1450638_AT programmed cell death 5 mm
MOUSE430A_2:1450638_AT programmed cell death 5 mm
MOUSE430_2:1450638_AT programmed cell death 5 mm
MOE430B:1445929_AT Programmed cell death 5 (Pdcd5), mRNA mm
MOUSE430_2:1445929_AT Programmed cell death 5 (Pdcd5), mRNA mm
MU19KSUBC:TC36359_AT Programmed cell death 5 (Pdcd5), mRNA mm
MU19KSUBC:TC40012_AT Programmed cell death 5 (Pdcd5), mRNA mm
MU19KSUBC:TC40013_S_AT Programmed cell death 5 (Pdcd5), mRNA mm
RG-U34C:RC_AI172308_AT programmed cell death 5 (predicted) rn
RAE230A:1389454_AT programmed cell death 5 (predicted) rn
RAT230_2:1389454_AT programmed cell death 5 (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAB02078 Hypothetical protein D2005.3 [Caenorhabditis elegans] ref|NP_492159.2| D2005.3 [Caenorhabditis elegans] sp|Q93408|YRGK_CAEEL Hypothetical protein D2005.3 in chromosome I 1.0E-65
blast CAB02078 Hypothetical protein D2005.3 [Caenorhabditis elegans] ref|NP_492159.2| D2005.3 [Caenorhabditis elegans] sp|Q93408|YRGK_CAEEL Hypothetical protein D2005.3 in chromosome I 8.0E-58
blast CAE63744 Hypothetical protein CBG08274 [Caenorhabditis briggsae] 3.0E-51
blast XP_533708 PREDICTED: similar to programmed cell death 5 [Canis familiaris] 2.0E-21
Protein Domains
Database ID Description E-Value
Pfam IPR002836 EMBL-EBI DNA-binding TFAR19-related protein 2.0E-24
Pfam IPR002836 EMBL-EBI DNA-binding TFAR19-related protein 2.0E-24
Sequence
Target Sequence 
>C. ELEGANS:187087_AT
gaagctcagggagcctcttctattccccagccatctcaggatgcacacgaaaaagcacgc
caacaagctgaaaatcaggaaactgcaaagaatggcatgatttctcagattctcgatcaa
gcggcgatgcaaagattgagcaatcttgctgttgcaaagccagaaaaagctcaaatggtg
gaagctgccttgatcaatatggcaagaagaggacaactatctggaaaaatgaccgatgat
ggattaaaagcattgatggaacgagtatctgctcaaactcagaaagccacgtcagtcaag
ttcgatcgtcggcgcaatgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCTCAGGGAGCCTCTTCTATTC 89 343 16 Antisense
CCAGCCATCTCAGGATGCACACGAA 552 273 42 Antisense
GCACACGAAAAAGCACGCCAACAAG 301 315 58 Antisense
ATTTCTCAGATTCTCGATCAAGCGG 63 17 115 Antisense
GATTCTCGATCAAGCGGCGATGCAA 517 431 123 Antisense
GAGCAATCTTGCTGTTGCAAAGCCA 268 391 153 Antisense
AATGGTGGAAGCTGCCTTGATCAAT 621 161 189 Antisense
GATGGAACGAGTATCTGCTCAAACT 456 407 270 Antisense
CTGCTCAAACTCAGAAAGCCACGTC 284 237 284 Antisense
AAGCCACGTCAGTCAAGTTCGATCG 350 149 299 Antisense
CAAGTTCGATCGTCGGCGCAATGAG 406 183 312 Antisense
Sequence Source Affymetrix Proprietary Database