[Home] | [Total List]

[176659_s_at]

Description Y38F2AR.D_rc /REP_DB=WormBase Gene ID /WP=CE21629 /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 10      6grp_high1_10_10 > 08      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 03      6grp_total > 04      4grp_total > 58      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5286
1 2 3 4 range
A 3594.6
(-0.8)
P 		6383.3
(2.4)
P 		6874.2
(3)
P 		1665.7
(-3)
P 		5209
B 3736.9
(-0.4)
P 		5859.8
(2.1)
P 		6639.4
(3)
P 		1588.1
(-3)
P 		5051
C 3833.2
(-0.4)
P 		6244.2
(2.6)
P 		6562.1
(3)
P 		1681.3
(-3)
P 		4881
avr 3721.6
(-0.5) 		6162.4
(2.4) 		6691.9
(3) 		1645
(-3) 		5047

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2682
1 2 3 4 5 6 range
A 3828.2
(3)
P 		2951.9
(0.2)
P 		3139.4
(0.8)
P 		2930.9
(0.1)
P 		2759.1
(-0.4)
P 		1963.4
(-3)
P 		1865
B 4097.1
(3)
P 		3020.8
(-0.5)
P 		2641.4
(-1.7)
P 		2895
(-0.9)
P 		3218.2
(0.2)
P 		2229
(-3)
P 		1868
C 4106.1
(3)
P 		2458.4
(-0.7)
P 		2728.7
(-0.1)
P 		2627.7
(-0.3)
P 		3209
(1)
P 		1424
(-3)
P 		2682
avr 4010.5
(3) 		2810.4
(-0.4) 		2836.5
(-0.3) 		2817.9
(-0.3) 		3062.1
(0.3) 		1872.1
(-3) 		2138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2043
1 2 3 4 range
A 1308.8
(1.1)
P 		1385.6
(1.4)
P 		1797.1
(3)
P 		243.8
(-3)
P 		1553
B 1191.7
(1.3)
P 		1447.2
(2.5)
P 		1538.5
(3)
P 		338.4
(-3)
P 		1200
C 1268.9
(-0)
P 		1795.3
(1.5)
P 		2287.1
(3)
P 		283.5
(-3)
P 		2004
avr 1256.5
(0.7) 		1542.7
(1.7) 		1874.2
(3) 		288.6
(-3) 		1586

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1045
1 2 3 4 5 6 range
A 705.7
(-0.6)
P 		1049.9
(3)
P 		683.7
(-0.8)
P 		743.3
(-0.2)
P 		832.6
(0.7)
P 		478
(-3)
P 		572
B 1425.6
(3)
P 		1005.5
(-0.2)
P 		641.4
(-3)
P 		766.8
(-2)
P 		1307.5
(2.1)
P 		831.2
(-1.5)
P 		784
C 1521.9
(3)
P 		750.1
(-1.4)
P 		694.5
(-1.7)
P 		528.4
(-2.7)
P 		1038.4
(0.2)
P 		476.7
(-3)
P 		1045
avr 1217.7
(3) 		935.2
(0.3) 		673.2
(-2.2) 		679.5
(-2.2) 		1059.5
(1.5) 		595.3
(-3) 		622
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176659_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28190
Sequence Type Exemplar sequence
Representative Public ID Y38F2AR.D NCBI
Target Description Y38F2AR.D_rc /REP_DB=WormBase Gene ID /WP=CE21629 /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=(ST.LOUIS)
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_067797(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067797 NCBI Caenorhabditis elegans Y38F2AR.2 (Y38F2AR.2) mRNA, complete cds. 11/11 A 
SNAP00000033665 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2389457:2390122:1 11/11 None
GENEFINDER00000033672 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2388964:2390122:1 11/11 None
Y38F2AR.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:2389438:2390384:1 gene:Y38F2AR.2 11/11 A 
Y38F2AR.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:2389443:2390384:1 gene:Y38F2AR.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
chrIV:2389855-2390176(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38F2AR.2
Entrez Gene 177028 Entrez gene
SwissProt Q95XS1 EMBL-EBI
WormBase CE21634 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1603382_AT similar to signal sequence receptor, gamma cfa
CANINE:1593937_AT similar to signal sequence receptor, gamma cfa
CANINE:1586135_S_AT similar to signal sequence receptor, gamma cfa
CANINE_2:CFAAFFX.14005.1.S1_AT similar to signal sequence receptor, gamma cfa
CANINE_2:CFAAFFX.14005.1.S1_S_AT similar to signal sequence receptor, gamma cfa
DROSOPHILA_2:1630929_AT dm
DROSGENOME1:153541_AT dm
CHICKEN:GGA.6341.2.S1_A_AT signal sequence receptor, gamma (translocon-associated protein gamma) gga
HG-U133A:217790_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133A_2:217790_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133_PLUS_2:217790_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-FOCUS:217790_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HU35KSUBA:RC_AA453487_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HU35KSUBA:RC_AA424586_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HU35KSUBA:D30946_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HU35KSUBC:RC_N50721_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HU35KSUBC:RC_C14076_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
U133_X3P:G6005883_3P_A_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
U133_X3P:HS.28707.0.S2_3P_X_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
U133_X3P:HS.28707.0.S1_3P_A_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133_PLUS_2:222411_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133B:222411_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133_PLUS_2:222412_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133B:222412_S_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U95C:62265_AT signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133_PLUS_2:237817_AT Signal sequence receptor, gamma (translocon-associated protein gamma) hs
HG-U133B:237817_AT Signal sequence receptor, gamma (translocon-associated protein gamma) hs
U133_X3P:HS.165112.0.A1_3P_AT Signal sequence receptor, gamma (translocon-associated protein gamma) hs
MG-U74AV2:104248_AT signal sequence receptor, gamma mm
MU11KSUBB:MSA.24713.0_S_AT signal sequence receptor, gamma mm
MU11KSUBB:MSA.11165.0_F_AT signal sequence receptor, gamma mm
MG-U74AV2:96007_AT signal sequence receptor, gamma mm
MG-U74AV2:104249_G_AT signal sequence receptor, gamma mm
MOE430A:1415700_A_AT signal sequence receptor, gamma mm
MOE430B:1415700_A_AT signal sequence receptor, gamma mm
MOUSE430A_2:1415700_A_AT signal sequence receptor, gamma mm
MOUSE430_2:1415700_A_AT signal sequence receptor, gamma mm
MOE430B:1447053_X_AT signal sequence receptor, gamma mm
MOUSE430_2:1447053_X_AT signal sequence receptor, gamma mm
MU19KSUBC:TC35856_AT Signal sequence receptor, gamma (Ssr3), mRNA mm
MU19KSUBC:TC38955_AT Signal sequence receptor, gamma (Ssr3), mRNA mm
MU19KSUBC:TC38955_G_AT Signal sequence receptor, gamma (Ssr3), mRNA mm
MU19KSUBC:TC39282_AT Signal sequence receptor, gamma (Ssr3), mRNA mm
MU19KSUBC:TC39282_G_AT Signal sequence receptor, gamma (Ssr3), mRNA mm
RG-U34A:RC_AA800034_AT signal sequence receptor, gamma rn
RG-U34A:Z14030_AT signal sequence receptor, gamma rn
RG-U34B:RC_AA996955_AT signal sequence receptor, gamma rn
RAE230A:1375652_AT signal sequence receptor, gamma rn
RAT230_2:1375652_AT signal sequence receptor, gamma rn
RAE230A:1388777_AT signal sequence receptor, gamma rn
RAT230_2:1388777_AT signal sequence receptor, gamma rn
RAE230A:1369718_AT signal sequence receptor, gamma rn
RAT230_2:1369718_AT signal sequence receptor, gamma rn
RG-U34C:RC_AI169308_AT Signal sequence receptor, gamma rn
Protein Similarities
Method ID Description E-Value
blast NP_500198 Y38F2AR.2 [Caenorhabditis elegans] gb|AAK68443.1| Hypothetical protein Y38F2AR.2 [Caenorhabditis elegans] 3.0E-81
blast NP_500198 Y38F2AR.2 [Caenorhabditis elegans] gb|AAK68443.1| Hypothetical protein Y38F2AR.2 [Caenorhabditis elegans] 4.0E-81
blast CAE70294 Hypothetical protein CBG16815 [Caenorhabditis briggsae] 1.0E-69
blast CAE70294 Hypothetical protein CBG16815 [Caenorhabditis briggsae] 2.0E-69
Protein Domains
Database ID Description E-Value
Pfam IPR009779 EMBL-EBI Translocon-associated, gamma subunit 1.0E-126
Pfam IPR009779 EMBL-EBI Translocon-associated, gamma subunit 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500198.1 4 25-44,54-71,128-150,154-176
Y38F2AR.2.1 4 25-44,54-71,128-150,154-176
Y38F2AR.2.2 4 25-44,54-71,128-150,154-176
SNAP00000033665 4 25-44,54-71,128-150,154-176
GENEFINDER00000033672 4 61-80,90-107,164-186,190-212
Sequence
Target Sequence 
>C. ELEGANS:176659_S_AT
tcagctgtggaacgcgagatcagcggacaatatgctgctgacaagaaaatgactgttaag
gagaaggaggagcgcgcgcttttccgcaaaaacgaggtcgccgacaccgaatccacctac
ttgtcggtcttctacacaaactcgctctacttgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGCTGTGGAACGCGAGATCAGCG 291 625 13 Antisense
GGAACGCGAGATCAGCGGACAATAT 568 529 21 Antisense
GCGGACAATATGCTGCTGACAAGAA 526 293 35 Antisense
AAGGAGAAGGAGGAGCGCGCGCTTT 20 161 70 Antisense
GAGAAGGAGGAGCGCGCGCTTTTCC 612 379 73 Antisense
GCGCTTTTCCGCAAAAACGAGGTCG 270 287 88 Antisense
TTCCGCAAAAACGAGGTCGCCGACA 509 697 94 Antisense
GCAAAAACGAGGTCGCCGACACCGA 411 317 98 Antisense
ACTTGTCGGTCTTCTACACAAACTC 326 103 131 Antisense
TTGTCGGTCTTCTACACAAACTCGC 200 705 133 Antisense
TCTACACAAACTCGCTCTACTTGAC 588 613 143 Antisense
Sequence Source Affymetrix Proprietary Database