[Home] | [Total List]

[187574_at]

Description R05D3.2 /REP_DB=WormBase Gene ID /WP=CE00281 /TR=SW:P34535 /GB=AAK21441.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 59      4grp_highest_8_8 > 62      4grp_high_8_8 > 26      6grp_highest_nonorm > 84      6grp_total > 38      4grp_total > 29      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 231
1 2 3 4 range
A 718.8
(3)
P 		539.5
(-3)
P 		595.8
(-1.1)
P 		540.3
(-3)
P 		179
B 667.9
(0.9)
P 		670
(1)
P 		547.3
(-3)
P 		733.6
(3)
P 		186
C 729.2
(3)
P 		672.6
(1.5)
P 		503
(-3)
P 		683.4
(1.8)
P 		226
avr 705.3
(3) 		627.4
(0) 		548.7
(-3) 		652.4
(1) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 268
1 2 3 4 5 6 range
A 660.4
(1.3)
P 		600.8
(-0)
P 		468.3
(-3)
P 		520.5
(-1.8)
P 		695.3
(2.1)
P 		736.3
(3)
P 		268
B 736.3
(3)
P 		707.5
(2.1)
P 		541.7
(-3)
P 		605.2
(-1)
P 		611.7
(-0.8)
P 		718.4
(2.4)
P 		195
C 661
(0.8)
P 		727.6
(3)
P 		548.7
(-3)
P 		559.2
(-2.6)
P 		595
(-1.4)
P 		659.7
(0.7)
P 		179
avr 685.9
(2.4) 		678.6
(2.2) 		519.6
(-3) 		561.6
(-1.6) 		634
(0.7) 		704.8
(3) 		185
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 183
1 2 3 4 range
A 261.7
(3)
P 		117.1
(-1.8)
P 		155.8
(-0.5)
P 		79.1
(-3)
P 		183
B 213
(3)
P 		165.5
(-0.3)
P 		126.8
(-3)
P 		156.3
(-0.9)
P 		86
C 241.4
(3)
P 		193.4
(0.7)
P 		175.3
(-0.1)
P 		115.2
(-3)
P 		126
avr 238.7
(3) 		158.7
(-0.9) 		152.6
(-1.2) 		116.9
(-3) 		122

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 166
1 2 3 4 5 6 range
A 121.7
(-1.9)
P 		213.7
(3)
P 		102
(-3)
P 		132
(-1.4)
P 		209.8
(2.8)
P 		179.3
(1.2)
P 		112
B 256.2
(2.5)
P 		235.5
(1.6)
P 		131.5
(-3)
P 		160.3
(-1.7)
P 		248.5
(2.1)
P 		267.9
(3)
P 		136
C 245
(3)
P 		222
(2)
P 		139.7
(-1.8)
P 		112.5
(-3)
P 		192.5
(0.6)
P 		220.8
(1.9)
P 		133
avr 207.6
(2) 		223.7
(3) 		124.4
(-3) 		134.9
(-2.4) 		216.9
(2.6) 		222.7
(2.9) 		99
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187574_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7473
Sequence Type Exemplar sequence
Representative Public ID R05D3.2 NCBI
Target Description R05D3.2 /REP_DB=WormBase Gene ID /WP=CE00281 /TR=SW:P34535 /GB=AAK21441.1 /SUBMIT=ST.LOUIS /CHR=3 /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_066446(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066446 NCBI Caenorhabditis elegans R05D3.2 (R05D3.2) mRNA, complete cds. 11/11 None
SNAP00000035980 ENSEMBL cdna:SNAP chromosome:CEL140:III:8372185:8374690:1 11/11 None
GENEFINDER00000035990 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8372185:8374690:1 11/11 None
R05D3.2 ENSEMBL cdna:known chromosome:CEL140:III:8372170:8375080:1 gene:R05D3.2 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
chrIII:8372180-8374686(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R05D3.2
Entrez Gene 176182 Entrez gene
SwissProt P34535 EMBL-EBI
WormBase CE00281 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.8652.1.S1_S_AT similar to limb region 1 protein cfa
CANINE_2:CFAAFFX.8653.1.S1_S_AT similar to limb region 1 protein cfa
CHICKEN:GGA.1918.1.S1_AT limb region 1 homolog (mouse) gga
CHICKEN:GGA.1918.1.S2_AT limb region 1 homolog (mouse) gga
HG-U133_PLUS_2:224036_S_AT limb region 1 homolog (mouse) hs
HG-U133B:224036_S_AT limb region 1 homolog (mouse) hs
HG-U133_PLUS_2:224410_S_AT limb region 1 homolog (mouse) hs
HG-U133B:224410_S_AT limb region 1 homolog (mouse) hs
HU35KSUBA:RC_AA485147_AT limb region 1 homolog (mouse) hs
HU35KSUBB:RC_AA205320_AT limb region 1 homolog (mouse) hs
HU35KSUBD:RC_AA476728_AT limb region 1 homolog (mouse) hs
U133_X3P:G13591769_3P_S_AT limb region 1 homolog (mouse) hs
U133_X3P:G12002015_3P_A_AT limb region 1 homolog (mouse) hs
U133_X3P:HS.107537.0.S3_3P_AT limb region 1 homolog (mouse) hs
HG-U133_PLUS_2:222505_AT limb region 1 homolog (mouse) hs
HG-U133B:222505_AT limb region 1 homolog (mouse) hs
HG-U133_PLUS_2:222506_AT limb region 1 homolog (mouse) hs
HG-U133B:222506_AT limb region 1 homolog (mouse) hs
HG-U95B:56376_AT limb region 1 homolog (mouse) hs
HG-U95B:42173_AT Limb region 1 homolog (mouse) hs
HG-U95D:71569_AT Limb region 1 homolog (mouse) hs
HG-U95D:91218_AT Limb region 1 homolog (mouse) hs
HU35KSUBC:RC_T90672_AT Limb region 1 homolog (mouse) hs
HU35KSUBD:RC_AA425162_AT Limb region 1 homolog (mouse) hs
MOUSE430A_2:1426272_AT limb region 1 mm
MOE430A:1426272_AT limb region 1 mm
MOUSE430_2:1426272_AT limb region 1 mm
MOE430A:1426273_AT limb region 1 mm
MOUSE430A_2:1426273_AT limb region 1 mm
MOUSE430_2:1426273_AT limb region 1 mm
MOE430A:1425605_A_AT limb region 1 mm
MOUSE430A_2:1425605_A_AT limb region 1 mm
MOUSE430_2:1425605_A_AT limb region 1 mm
MOUSE430_2:1459606_AT Limb region 1, mRNA (cDNA clone MGC:28737 IMAGE:4481088) mm
MOE430B:1459606_AT Limb region 1, mRNA (cDNA clone MGC:28737 IMAGE:4481088) mm
MG-U74AV2:95880_S_AT Limb region 1, mRNA (cDNA clone MGC:28737 IMAGE:4481088) mm
Protein Similarities
Method ID Description E-Value
blast AAK21441 Hypothetical protein R05D3.2 [Caenorhabditis elegans] ref|NP_498847.1| R05D3.2 [Caenorhabditis elegans] sp|P34535|YNC2_CAEEL Hypothetical protein R05D3.2 in chromosome III 0.0
blast CAE71275 Hypothetical protein CBG18158 [Caenorhabditis briggsae] 0.0
blast AAF56340 CG5807-PA [Drosophila melanogaster] ref|NP_651290.1| CG5807-PA [Drosophila melanogaster] 5.0E-34
Protein Domains
Database ID Description E-Value
Pfam IPR006876 EMBL-EBI LMBR1-like conserved region 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498847.1 10 5-27,65-87,113-135,161-183,204-226,241-263,541-563,601-623,636-658,673-695
R05D3.2 10 5-27,65-87,113-135,161-183,204-226,241-263,541-563,601-623,636-658,673-695
SNAP00000035980 10 5-27,65-87,113-135,161-183,204-226,241-263,541-563,601-623,636-658,673-695
GENEFINDER00000035990 10 5-27,65-87,113-135,161-183,204-226,241-263,541-563,601-623,636-658,673-695
Sequence
Target Sequence 
>C. ELEGANS:187574_AT
tttcatgagtcttcgattcccagtagcggccgctgctttgttagttttgacgacatgctc
tctaatcatggtggctacaaataccttgaaattgttattcgggtatcgcagtttacctgt
ctatgctcaatacattgaggtacacactcgtcattcattcggactttttggggcttgcat
cgaaactcttctcattatttacgtgatgatcacatctttcgttgggctgtactcccttcc
ggttcttcgttctcttcgacctgttcgaaaagatactccaatgccaacgataattattaa
ttcttcaatagttcttgttgttgcatccgctctcccagtagctgttaacacagttggaat
gacaacttttgatcttctcggctcccactcatcgctccaatggcttggatcatttcgagt
cgttgttgcctataatactctattcgtcgtgttgtctgtcgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCATGAGTCTTCGATTCCCAGTA 283 671 1626 Antisense
GCCGCTGCTTTGTTAGTTTTGACGA 450 285 1654 Antisense
AGTTTTGACGACATGCTCTCTAATC 562 63 1668 Antisense
ATCGCAGTTTACCTGTCTATGCTCA 466 37 1730 Antisense
GTACACACTCGTCATTCATTCGGAC 475 461 1765 Antisense
TCATTCGGACTTTTTGGGGCTTGCA 278 615 1780 Antisense
GCTTGCATCGAAACTCTTCTCATTA 691 305 1798 Antisense
TCACATCTTTCGTTGGGCTGTACTC 587 625 1835 Antisense
GCTCTCCCAGTAGCTGTTAACACAG 307 299 1954 Antisense
GGCTTGGATCATTTCGAGTCGTTGT 454 537 2027 Antisense
TCTATTCGTCGTGTTGTCTGTCGCA 275 615 2064 Antisense
Sequence Source Affymetrix Proprietary Database