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[193652_s_at] protein transport protein SEC61 alpha subunit

Description Y57G11C.15 /REP_DB=WormBase Gene ID /WP=CE14954 /TR=O18239 /GB=CAB16516.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=protein transport protein SEC61 alpha subunit
Cluster 6grp_highest_10_10 > 10      6grp_high1_10_10 > 06      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 04      6grp_total > 04      4grp_total > 58      6grp_high1_sub > De      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7571
1 2 3 4 range
A 5541.8
(-0.2)
P 		7698
(1.8)
P 		9031.9
(3)
P 		2534.4
(-3)
P 		6498
B 5056.5
(-0.9)
P 		8707.9
(2.7)
P 		9062.1
(3)
P 		2941.4
(-3)
P 		6121
C 5336.1
(-0.7)
P 		9960.2
(3)
P 		9343.8
(2.5)
P 		2389
(-3)
P 		7571
avr 5311.5
(-0.5) 		8788.7
(2.7) 		9145.9
(3) 		2621.6
(-3) 		6524

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4516
1 2 3 4 5 6 range
A 7068.8
(3)
P 		5241
(0.4)
P 		3961.1
(-1.5)
P 		4441.5
(-0.8)
P 		4202.1
(-1.1)
P 		2881.4
(-3)
P 		4187
B 6725.8
(3)
P 		5108.1
(0.6)
P 		4825.8
(0.2)
P 		5045.9
(0.6)
P 		3774.3
(-1.3)
P 		2611.5
(-3)
P 		4114
C 6936.8
(3)
P 		4682.7
(-0.1)
P 		4760.4
(0)
P 		4524.3
(-0.3)
P 		4487.6
(-0.4)
P 		2552.9
(-3)
P 		4384
avr 6910.5
(3) 		5010.6
(0.3) 		4515.8
(-0.4) 		4670.6
(-0.2) 		4154.7
(-0.9) 		2681.9
(-3) 		4229
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2886
1 2 3 4 range
A 2017.8
(2)
P 		1671
(0.9)
P 		2361.1
(3)
P 		371
(-3)
P 		1990
B 1612.5
(0.9)
P 		2150.6
(3)
P 		2099.9
(2.8)
P 		626.8
(-3)
P 		1524
C 1766.4
(-0.1)
P 		2863.6
(2.2)
P 		3256.6
(3)
P 		402.8
(-3)
P 		2854
avr 1798.9
(0.8) 		2228.4
(2) 		2572.5
(3) 		466.9
(-3) 		2106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1870
1 2 3 4 5 6 range
A 1303.1
(0.1)
P 		1864
(3)
P 		862.6
(-2.2)
P 		1126.5
(-0.8)
P 		1268
(-0.1)
P 		701.5
(-3)
P 		1163
B 2340.2
(3)
P 		1700.3
(0.2)
P 		1171.9
(-2.1)
P 		1336.5
(-1.4)
P 		1533.5
(-0.5)
P 		973.8
(-3)
P 		1366
C 2571.2
(3)
P 		1428.8
(-1)
P 		1211.6
(-1.8)
P 		909.8
(-2.8)
P 		1452.1
(-0.9)
P 		854.6
(-3)
P 		1717
avr 2071.5
(3) 		1664.4
(1) 		1082
(-1.8) 		1124.3
(-1.6) 		1417.9
(-0.2) 		843.3
(-3) 		1228
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193652_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10353
Sequence Type Exemplar sequence
Representative Public ID Y57G11C.15 NCBI
Target Description Y57G11C.15 /REP_DB=WormBase Gene ID /WP=CE14954 /TR=O18239 /GB=CAB16516.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=protein transport protein SEC61 alpha subunit
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_070392(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070392 NCBI Caenorhabditis elegans Y57G11C.15 (Y57G11C.15) mRNA, complete cds. 11/11 None
SNAP00000003487 ENSEMBL cdna:SNAP chromosome:CEL140:IV:14822801:14824292:-1 11/11 None
GENEFINDER00000003611 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:14822801:14825276:-1 11/11 None
Y57G11C.15.2 ENSEMBL cdna:known chromosome:CEL140:IV:14822494:14825139:-1 gene:Y57G11C.15 11/11 None
Y57G11C.15.1 ENSEMBL cdna:known chromosome:CEL140:IV:14822494:14824947:-1 gene:Y57G11C.15 11/11 None
Y57G11C.15.3 ENSEMBL cdna:known chromosome:CEL140:IV:14822504:14824876:-1 gene:Y57G11C.15 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
chrIV:14822806-14824818(-) 100.0 100.0
Public Domain and Genome References
Gene Title protein transport protein SEC61 alpha subunit
Ensembl Y57G11C.15
Entrez Gene 178407 Entrez gene
SwissProt O18239 EMBL-EBI
WormBase CE14954 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264296_AT protein transport protein sec61, putative at
ATGENOME1:12389_AT protein transport protein sec61, putative at
CANINE:1585833_AT similar to Sec61, alpha subunit 2 cfa
CANINE_2:CFA.10701.1.A1_AT similar to Sec61, alpha subunit 2 cfa
CANINE_2:CFA.21141.1.S1_S_AT similar to Sec61, alpha subunit 2 cfa
CANINE_2:CFAAFFX.8168.1.S1_S_AT similar to Sec61, alpha subunit 2 cfa
DROSOPHILA_2:1638663_AT dm
DROSGENOME1:154508_AT dm
CHICKEN:GGA.16294.2.S1_S_AT Sec61 alpha 2 subunit (S. cerevisiae) gga
CHICKEN:GGA.5575.1.S1_AT Sec61 alpha 2 subunit (S. cerevisiae) gga
HG-U133_PLUS_2:219499_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133A:219499_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133A_2:219499_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
U133_X3P:G8922529_3P_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
U133_X3P:HS.131840.1.S1_3P_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133_PLUS_2:230215_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133B:230215_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U95E:73535_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U95E:74690_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HU35KSUBB:RC_N62515_S_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HU35KSUBC:RC_N49686_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133_PLUS_2:228747_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133B:228747_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
U133_X3P:HS.301957.2.S1_3P_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
U133_X3P:HS.301957.0.A2_3P_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133_PLUS_2:222824_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U133B:222824_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U95C:49172_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
HG-U95B:57789_AT Sec61 alpha 2 subunit (S. cerevisiae) hs
MU11KSUBB:MSA.18113.0_S_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MU11KSUBB:MSA.34154.0_S_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MG-U74AV2:103913_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MG-U74CV2:132815_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MOE430A:1420644_A_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MOUSE430A_2:1420644_A_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MOUSE430_2:1420644_A_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MOE430A:1449944_A_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MOUSE430A_2:1449944_A_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MOUSE430_2:1449944_A_AT Sec61, alpha subunit 2 (S. cerevisiae) mm
MU19KSUBB:TC29002_AT Sec61, alpha subunit 2 (S. cerevisiae), mRNA (cDNA clone MGC:6359 IMAGE:3494001) mm
RG-U34C:RC_AI228119_AT Sec61, alpha subunit 2 (S. cerevisiae) (predicted) rn
RAE230A:1375659_AT Sec61, alpha subunit 2 (S. cerevisiae) (predicted) rn
RAT230_2:1375659_AT Sec61, alpha subunit 2 (S. cerevisiae) (predicted) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9306 protein secretion inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
15450 protein translocase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB16516 Hypothetical protein Y57G11C.15 [Caenorhabditis elegans] ref|NP_502793.1| Y57G11C.15 [Caenorhabditis elegans] 0.0
blast CAE73902 Hypothetical protein CBG21508 [Caenorhabditis briggsae] 0.0
blast EAA14690 ENSANGP00000016786 [Anopheles gambiae str. PEST] ref|XP_319948.2| ENSANGP00000016786 [Anopheles gambiae str. PEST] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002208 EMBL-EBI SecY protein 4.5E-8
Pfam IPR002208 EMBL-EBI SecY protein 4.5E-8
Pfam IPR002208 EMBL-EBI SecY protein 4.5E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502793.1 10 33-55,75-97,118-138,143-165,172-193,203-220,241-263,283-305,410-432,437-459
Y57G11C.15.2 10 33-55,75-97,118-138,143-165,172-193,203-220,241-263,283-305,410-432,437-459
Y57G11C.15.1 10 33-55,75-97,118-138,143-165,172-193,203-220,241-263,283-305,410-432,437-459
Y57G11C.15.3 10 33-55,75-97,118-138,143-165,172-193,203-220,241-263,283-305,410-432,437-459
SNAP00000003487 10 2-24,44-66,87-107,112-134,141-162,172-189,210-232,252-274,379-401,406-428
GENEFINDER00000003611 10 105-127,147-169,190-210,215-237,244-265,275-292,313-335,355-377,482-504,509-531
Sequence
Target Sequence 
>C. ELEGANS:193652_S_AT
caacattccaatcatccttcaatctgctctcgtctccaacctctacgttatctctcagat
gctcgccggaaagttcggaggaaacttcttcatcaaccttctcggtacctggtccgataa
caccggatacagaagctacccaactggaggactctgctactatctttcaccaccagagtc
tcttggacacatcttcgaagacccaatccactgcatcatctacatcgtcttcatgctcgg
atcttgcgcattcttctccaagacctggatcgatgtgtccggatcttctgccaaggatgt
tgccaagcaactcaaggagcaacagatggtcatgcgtggtcatcgtgagaagtccatgat
tcacgagctcaaccgttacatcccaactgccgccgccttcggaggactctgcattggagc
tctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACATTCCAATCATCCTTCAATCT 435 189 873 Antisense
CAACCTCTACGTTATCTCTCAGATG 486 187 909 Antisense
CTCTCAGATGCTCGCCGGAAAGTTC 599 229 924 Antisense
AGCTACCCAACTGGAGGACTCTGCT 165 77 1006 Antisense
CAGAGTCTCTTGGACACATCTTCGA 386 205 1046 Antisense
GCATCATCTACATCGTCTTCATGCT 591 309 1085 Antisense
TCTTCATGCTCGGATCTTGCGCATT 312 615 1100 Antisense
GGATCGATGTGTCCGGATCTTCTGC 386 513 1139 Antisense
GGATCTTCTGCCAAGGATGTTGCCA 637 511 1153 Antisense
GATTCACGAGCTCAACCGTTACATC 644 429 1230 Antisense
CGGAGGACTCTGCATTGGAGCTCTT 677 243 1272 Antisense
Sequence Source Affymetrix Proprietary Database