[Home] | [Total List]

[176321_s_at]

Description Y71F9AM.A /REP_DB=WormBase Gene ID /WP=CE26244 /CHR=1 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 08      4grp_highest_8_8 > 09      4grp_high_8_8 > 61      6grp_highest_nonorm > 03      6grp_total > 06      4grp_total > 58      6grp_highest_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4276
1 2 3 4 range
A 3312.9
(-0.2)
P 		4792.5
(1.9)
P 		5554.3
(3)
P 		1398.5
(-3)
P 		4156
B 3101.2
(-0.3)
P 		5024
(2.7)
P 		5219.9
(3)
P 		1330.4
(-3)
P 		3890
C 3242.5
(-0.1)
P 		5401.5
(3)
P 		5382.8
(3)
P 		1278.3
(-3)
P 		4123
avr 3218.9
(-0.2) 		5072.7
(2.5) 		5385.7
(3) 		1335.7
(-3) 		4050

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3371
1 2 3 4 5 6 range
A 3550
(3)
P 		2862.7
(0.7)
P 		2219.9
(-1.4)
P 		2537.9
(-0.4)
P 		2345.5
(-1)
P 		1753.5
(-3)
P 		1797
B 4273.7
(3)
P 		2490.1
(-0.8)
P 		3086.2
(0.5)
P 		2597.2
(-0.6)
P 		2374.6
(-1)
P 		1449.6
(-3)
P 		2824
C 4670.6
(3)
P 		2570.3
(-0.7)
P 		2582.4
(-0.7)
P 		2029.9
(-1.7)
P 		3109.3
(0.2)
P 		1299.7
(-3)
P 		3371
avr 4164.8
(3) 		2641
(-0.4) 		2629.5
(-0.5) 		2388.3
(-1) 		2609.8
(-0.5) 		1500.9
(-3) 		2664
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1671
1 2 3 4 range
A 1206.2
(1.8)
P 		1040.3
(1)
P 		1452
(3)
P 		204.7
(-3)
P 		1247
B 989
(1.4)
P 		1240.8
(3)
P 		1209.6
(2.8)
P 		283.5
(-3)
P 		957
C 1073.4
(0.1)
P 		1553
(1.8)
P 		1876.1
(3)
P 		215.5
(-3)
P 		1661
avr 1089.5
(1) 		1278
(1.9) 		1512.6
(3) 		234.6
(-3) 		1278

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1323
1 2 3 4 5 6 range
A 654.4
(-0.7)
P 		1018.1
(3)
P 		483.5
(-2.4)
P 		643.7
(-0.8)
P 		707.8
(-0.1)
P 		426.9
(-3)
P 		591
B 1487.1
(3)
P 		828.9
(-1.2)
P 		749.4
(-1.7)
P 		687.9
(-2.1)
P 		964.8
(-0.3)
P 		540.5
(-3)
P 		947
C 1731.2
(3)
P 		784.3
(-1.3)
P 		657.3
(-1.9)
P 		408.2
(-3)
P 		1006.1
(-0.3)
P 		435.1
(-2.9)
P 		1323
avr 1290.9
(3) 		877.1
(-0) 		630.1
(-1.8) 		579.9
(-2.2) 		892.9
(0.1) 		467.5
(-3) 		823
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176321_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18664
Sequence Type Exemplar sequence
Representative Public ID Y71F9AM.A NCBI
Target Description Y71F9AM.A /REP_DB=WormBase Gene ID /WP=CE26244 /CHR=1 /FEA=Sanger Annotation /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_058675(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058675 NCBI Caenorhabditis elegans Y71F9AM.6 (Y71F9AM.6) mRNA, complete cds. 11/11 None
GENEFINDER00000002748 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2927682:2929352:1 11/11 None
SNAP00000002736 ENSEMBL cdna:SNAP chromosome:CEL140:I:2928398:2929352:1 11/11 None
Y71F9AM.6.1 ENSEMBL cdna:known chromosome:CEL140:I:2928394:2929658:1 gene:Y71F9AM.6 11/11 None
Y71F9AM.6.2 ENSEMBL cdna:known chromosome:CEL140:I:2928396:2931254:1 gene:Y71F9AM.6 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
chrI:2928397-2929352(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y71F9AM.6
Entrez Gene 171865 Entrez gene
SwissProt Q95XT5 EMBL-EBI
WormBase CE26244 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13096_G_AT translocon-associated protein alpha (TRAP alpha) family protein at
ATGENOME1:13095_AT translocon-associated protein alpha (TRAP alpha) family protein at
ATH1-121501:264020_AT translocon-associated protein alpha (TRAP alpha) family protein at
CANINE:1604378_AT signal sequence receptor, alpha (translocon-associated protein alpha) cfa
CANINE:1597616_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) cfa
CANINE:1597615_AT signal sequence receptor, alpha (translocon-associated protein alpha) cfa
CANINE_2:CFA.1295.1.S1_AT signal sequence receptor, alpha (translocon-associated protein alpha) cfa
CANINE_2:CFAAFFX.14997.1.S1_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) cfa
DROSOPHILA_2:1626456_AT dm
DROSGENOME1:154368_AT dm
CHICKEN:GGAAFFX.11624.1.S1_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) gga
HG-FOCUS:201894_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A:201894_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133_PLUS_2:201894_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A_2:201894_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133_PLUS_2:200889_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A:200889_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A_2:200889_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A:200891_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133_PLUS_2:200891_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A_2:200891_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-FOCUS:200891_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133_PLUS_2:200890_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A_2:200890_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U133A:200890_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HUGENEFL:Z12830_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HUGENEFL:M14219_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
U133_X3P:G6552340_3P_A_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
U133_X3P:G4503270_3P_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
U133_X3P:HS.250773.0.S2_3P_A_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
U133_X3P:HS.250773.0.S1_3P_S_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
U133_X3P:HS.250773.0.S1_3P_A_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U95AV2:34648_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U95AV2:34649_AT signal sequence receptor, alpha (translocon-associated protein alpha) hs
HG-U95D:69796_AT Signal sequence receptor, alpha (translocon-associated protein alpha) hs
HU35KSUBC:RC_N66724_AT Signal sequence receptor, alpha (translocon-associated protein alpha) hs
MOUSE430_2:1417763_AT signal sequence receptor, alpha mm
MOE430A:1417763_AT signal sequence receptor, alpha mm
MOUSE430A_2:1417763_AT signal sequence receptor, alpha mm
MOE430A:1448843_AT signal sequence receptor, alpha mm
MOUSE430A_2:1448843_AT signal sequence receptor, alpha mm
MOUSE430_2:1448843_AT signal sequence receptor, alpha mm
MU11KSUBB:MSA.22628.0_S_AT signal sequence receptor, alpha mm
MG-U74AV2:97722_AT signal sequence receptor, alpha mm
MG-U74AV2:94511_AT signal sequence receptor, alpha mm
MG-U74CV2:135739_AT signal sequence receptor, alpha mm
MG-U74CV2:137565_AT signal sequence receptor, alpha mm
MG-U74CV2:170007_I_AT signal sequence receptor, alpha mm
MOE430A:1417764_AT signal sequence receptor, alpha mm
MOUSE430A_2:1417764_AT signal sequence receptor, alpha mm
MOUSE430_2:1417764_AT signal sequence receptor, alpha mm
MOE430B:1441327_A_AT signal sequence receptor, alpha mm
MOUSE430_2:1441327_A_AT signal sequence receptor, alpha mm
MG-U74BV2:104983_AT signal sequence receptor, alpha mm
MOE430B:1444526_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MOUSE430_2:1444526_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MU19KSUBB:TC26236_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MU19KSUBB:TC31643_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MU19KSUBB:TC32242_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MU19KSUBC:TC35925_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MU19KSUBC:TC35925_G_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
MU19KSUBC:TC35926_AT Signal sequence receptor, alpha, mRNA (cDNA clone MGC:19285 IMAGE:4017600) mm
RG-U34B:RC_AA851871_AT signal sequence receptor, alpha (predicted) rn
RG-U34C:RC_AI230697_AT signal sequence receptor, alpha (predicted) rn
RAE230A:1373090_AT signal sequence receptor, alpha (predicted) rn
RAT230_2:1373090_AT signal sequence receptor, alpha (predicted) rn
RAE230B:1390767_AT signal sequence receptor, alpha (predicted) rn
RAT230_2:1390767_AT signal sequence receptor, alpha (predicted) rn
RAE230B:1381987_AT Signal sequence receptor, alpha (predicted) rn
RAT230_2:1381987_AT Signal sequence receptor, alpha (predicted) rn
RAE230A:1384833_AT Signal sequence receptor, alpha (predicted) rn
RAT230_2:1384833_AT Signal sequence receptor, alpha (predicted) rn
RAE230B:1396685_AT Signal sequence receptor, alpha (predicted) rn
RAT230_2:1396685_AT Signal sequence receptor, alpha (predicted) rn
RG-U34B:RC_AA801117_AT Signal sequence receptor, alpha (predicted) rn
RG-U34C:RC_AI137491_AT Signal sequence receptor, alpha (predicted) rn
RG-U34C:RC_AI175803_AT Signal sequence receptor, alpha (predicted) rn
Protein Similarities
Method ID Description E-Value
blast AAK66027 Hypothetical protein Y71F9AM.6 [Caenorhabditis elegans] ref|NP_491076.1| Y71F9AM.6 [Caenorhabditis elegans] 1.0E-137
blast CAE60584 Hypothetical protein CBG04219 [Caenorhabditis briggsae] 1.0E-123
Protein Domains
Database ID Description E-Value
Pfam IPR005595 EMBL-EBI Translocon-associated protein (TRAP), alpha subunit 1.9E-43
Pfam IPR005595 EMBL-EBI Translocon-associated protein (TRAP), alpha subunit 1.9E-43
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491076.1 1 175-197
Y71F9AM.6.1 1 175-197
Y71F9AM.6.2 1 175-197
GENEFINDER00000002748 2 122-144,299-321
SNAP00000002736 1 175-197
Sequence
Target Sequence 
>C. ELEGANS:176321_S_AT
cattccactttgttcaaccatctgatgccaatgttgttcgcgagttctacaccggaaagc
cagtgaaatacctgattggattccaaaacaagggagaaaaggactttgtcgtgaagtacg
ctgagacatctttccgtttcccaactgatcactcctaccatctccagaacttcactcgcg
gagaatacaaccgccgtgtggcgccaaaggaggaggtcaccctcgactacggattctacg
cccacgagacctttgccggacgcccagttggactcgtcgtcaacgttcactaccaagacg
ccgacggaaacgttttcgtgaacaacgtctacaaccagaccatcaatatcatggaggacg
actctggattctctggagagaccggattcctgttcatcttcttcgttgccctctccatcg
gaggactctacctttccaaccaattcctttccaagctctcccgcaagtctggactctcga
agcgtcgcgttgttgagcaaggaacttcctcggaagtcgactttgaatggatcccaagag
atgccgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATTCCACTTTGTTCAACCATCTGA 442 217 167 Antisense
CCATCTGATGCCAATGTTGTTCGCG 653 269 184 Antisense
TACGCTGAGACATCTTTCCGTTTCC 374 649 283 Antisense
GAGAATACAACCGCCGTGTGGCGCC 706 389 347 Antisense
CAAAGGAGGAGGTCACCCTCGACTA 221 191 371 Antisense
CCAGTTGGACTCGTCGTCAACGTTC 571 261 430 Antisense
TCAACGTTCACTACCAAGACGCCGA 107 631 446 Antisense
AGGACGACTCTGGATTCTCTGGAGA 624 55 521 Antisense
AGAGACCGGATTCCTGTTCATCTTC 423 69 543 Antisense
GACTCTCGAAGCGTCGCGTTGTTGA 180 373 638 Antisense
GAATGGATCCCAAGAGATGCCGTCA 318 333 691 Antisense
Sequence Source Affymetrix Proprietary Database