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[182365_s_at]

Description Y60A3A.9 /REP_DB=WormBase Gene ID /WP=CE24533 /TR=Q9U1Z4 /GB=CAB60397.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 71      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 45      6grp_total > 70      4grp_total > 32      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 771
1 2 3 4 range
A 1976.3
(-2.6)
P 		1948.1
(-3)
P 		2429.5
(3)
P 		2347.2
(2)
P 		481
B 1716
(-3)
P 		2138.7
(0.3)
P 		2232.3
(1)
P 		2486.6
(3)
P 		771
C 1929.2
(-2.6)
P 		2176.2
(0)
P 		2453.8
(3)
P 		1895.4
(-3)
P 		558
avr 1873.8
(-3) 		2087.7
(-0.4) 		2371.9
(3) 		2243.1
(1.4) 		498

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1308
1 2 3 4 5 6 range
A 2175.8
(-0.2)
P 		1759.5
(-3)
P 		2326.5
(0.8)
P 		2645.6
(3)
P 		2324.4
(0.8)
P 		1836.8
(-2.5)
P 		886
B 1785.6
(-3)
P 		1910.3
(-2.2)
P 		1786.5
(-3)
P 		2770.3
(3)
P 		2185.8
(-0.6)
P 		1792.6
(-3)
P 		985
C 2328.4
(-0.2)
P 		2035.3
(-1.5)
P 		2253
(-0.5)
P 		3019.3
(3)
P 		1975.6
(-1.8)
P 		1711.4
(-3)
P 		1308
avr 2096.6
(-1.2) 		1901.7
(-2.3) 		2122
(-1) 		2811.7
(3) 		2161.9
(-0.8) 		1780.3
(-3) 		1031
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 536
1 2 3 4 range
A 719.6
(3)
P 		422.9
(-1.7)
P 		635.1
(1.7)
P 		343.6
(-3)
P 		376
B 547.2
(3)
P 		528.2
(-0.8)
P 		517.3
(-3)
P 		529.9
(-0.5)
P 		30
C 638.6
(0.6)
P 		625.7
(0.4)
P 		855.2
(3)
P 		319.6
(-3)
P 		536
avr 635.1
(2.2) 		525.6
(-0.2) 		669.2
(3) 		397.7
(-3) 		272

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 487
1 2 3 4 5 6 range
A 401.1
(-3)
P 		625.8
(1.5)
P 		506.7
(-0.9)
P 		671
(2.4)
P 		701.4
(3)
P 		447.2
(-2.1)
P 		300
B 621.3
(-0.5)
P 		635.8
(-0.3)
P 		433.8
(-3)
P 		733.7
(1)
P 		888.1
(3)
P 		668.5
(0.1)
P 		454
C 863
(3)
P 		621
(-2)
P 		573.4
(-3)
P 		607.2
(-2.3)
P 		639.3
(-1.6)
P 		572.9
(-3)
P 		290
avr 628.5
(0.1) 		627.5
(0.1) 		504.6
(-3) 		670.6
(1.2) 		742.9
(3) 		562.9
(-1.5) 		238
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 182365_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13934
Sequence Type Exemplar sequence
Representative Public ID Y60A3A.9 NCBI
Target Description Y60A3A.9 /REP_DB=WormBase Gene ID /WP=CE24533 /TR=Q9U1Z4 /GB=CAB60397.1 /SUBMIT=HINXTON /CHR=5 /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_075460(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075460 NCBI Caenorhabditis elegans Y60A3A.9 (Y60A3A.9) mRNA, complete cds. 11/11 None
SNAP00000032802 ENSEMBL cdna:SNAP chromosome:CEL140:V:19944946:19948415:-1 11/11 None
GENEFINDER00000032829 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19944946:19947087:-1 11/11 None
Y60A3A.9 ENSEMBL cdna:known chromosome:CEL140:V:19944766:19947087:-1 gene:Y60A3A.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_075653 4/11 Cross Hyb Matching Probes None
SNAP00000032587 3/11 Cross Hyb Matching Probes None
GENEFINDER00000032592 4/11 Cross Hyb Matching Probes None
T08D2.1 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:19944945-19947087(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y60A3A.9
Entrez Gene 180307 Entrez gene
SwissProt Q9U1Z4 EMBL-EBI
WormBase CE24533 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.20985.1.S1_S_AT similar to transmembrane emp24 protein transport domain containing 4 cfa
DROSGENOME1:142700_AT dm
DROSOPHILA_2:1625153_AT dm
DROSGENOME1:142700_AT eclair dm
DROSOPHILA_2:1629234_AT eclair dm
HU35KSUBA:C02369_AT transmembrane emp24 protein transport domain containing 4 hs
HU35KSUBB:RC_T98284_AT transmembrane emp24 protein transport domain containing 4 hs
U133_X3P:HS2.405972.1.S1_3P_S_AT transmembrane emp24 protein transport domain containing 4 hs
U133_X3P:HS2.177391.1.S1_3P_A_AT transmembrane emp24 protein transport domain containing 4 hs
U133_X3P:HS.301226.1.S2_3P_AT transmembrane emp24 protein transport domain containing 4 hs
U133_X3P:HS.301226.1.S1_3P_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133_PLUS_2:1558052_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133_PLUS_2:1558053_S_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133_PLUS_2:1558487_A_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133_PLUS_2:224676_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133B:224676_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133_PLUS_2:224680_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U133B:224680_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U95C:48931_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U95C:63413_AT transmembrane emp24 protein transport domain containing 4 hs
HG-U95C:63729_F_AT transmembrane emp24 protein transport domain containing 4 hs
HU35KSUBA:C06244_AT Transmembrane emp24 protein transport domain containing 4 hs
MG-U74AV2:96894_AT transmembrane emp24 protein transport domain containing 4 mm
MOE430A:1448423_AT transmembrane emp24 protein transport domain containing 4 mm
MOUSE430A_2:1448423_AT transmembrane emp24 protein transport domain containing 4 mm
MOUSE430_2:1448423_AT transmembrane emp24 protein transport domain containing 4 mm
MOE430A:1448422_AT transmembrane emp24 protein transport domain containing 4 mm
MOUSE430A_2:1448422_AT transmembrane emp24 protein transport domain containing 4 mm
MOUSE430_2:1448422_AT transmembrane emp24 protein transport domain containing 4 mm
MU19KSUBC:TC40233_AT Transmembrane emp24 protein transport domain containing 4 (Tmed4), mRNA mm
RG-U34C:RC_AI235294_AT similar to RIKEN cDNA 1110014L17 (predicted) rn
RG-U34C:RC_AI170673_AT similar to RIKEN cDNA 1110014L17 (predicted) rn
RAE230A:1376161_AT similar to RIKEN cDNA 1110014L17 (predicted) rn
RAT230_2:1376161_AT similar to RIKEN cDNA 1110014L17 (predicted) rn
RAE230A:1373056_AT similar to RIKEN cDNA 1110014L17 (predicted) rn
RAT230_2:1373056_AT similar to RIKEN cDNA 1110014L17 (predicted) rn
YEAST_2:1777611_AT Protein with similarity to Emp24p and Erv25p, member of the p24 family involved in ER to Golgi transport Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6886 intracellular protein transport 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
8320 protein carrier activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB60397 Hypothetical protein Y60A3A.9 [Caenorhabditis elegans] ref|NP_507861.1| Y60A3A.9 [Caenorhabditis elegans] 1.0E-119
blast CAE56730 Hypothetical protein CBG24517 [Caenorhabditis briggsae] 1.0E-115
blast EAL40586 ENSANGP00000026678 [Anopheles gambiae str. PEST] ref|XP_562397.1| ENSANGP00000026678 [Anopheles gambiae str. PEST] 9.0E-86
Protein Domains
Database ID Description E-Value
Pfam IPR000348 EMBL-EBI emp24/gp25L/p24 7.7E-82
Pfam IPR000348 EMBL-EBI emp24/gp25L/p24 7.7E-82
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000032802 1 188-207
Sequence
Target Sequence 
>C. ELEGANS:182365_S_AT
attctctctacttccatattgcggaaactgagaagaaatgctttatcgaggagattccag
acgagactatggtgaccggaaactacaaagtacaattatacgacccaaatacgaagggat
acggagattatccgaatattggaatgcacgtcgaggttaaggatccagaggacaaggtta
ttctttcgaaattgtacaccgccgaaggccgtttcactttcacatcgaatactccaggag
agcacgtcatttgtatctattccaacagtactgcgtggttcaacggagcccaacttcgtg
ttcatcttgatattcaggccggagatcacgctcaggactatgctcagatcgcccaaaagg
acaagctgaacgagcttcaactccgtattcgtcaacttttggaccaagtcgaccaaatca
caaaagaacagaattatcaaagatatcgtgaagagagattccgtcaaacttctgaatcta
ccaattcgcgagttttctactggtctattgctcaagtcgtcgttcttgccatcaccggtg
cctggcaaatgcgtcatcttcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCTCTCTACTTCCATATTGCGGA 307 11 56 Antisense
TTCACTTTCACATCGAATACTCCAG 309 687 268 Antisense
GAGCACGTCATTTGTATCTATTCCA 518 389 295 Antisense
TACTGCGTGGTTCAACGGAGCCCAA 550 643 324 Antisense
CCCAACTTCGTGTTCATCTTGATAT 38 259 344 Antisense
GATATTCAGGCCGGAGATCACGCTC 255 427 364 Antisense
AGATCACGCTCAGGACTATGCTCAG 7 67 378 Antisense
ACTATGCTCAGATCGCCCAAAAGGA 687 101 392 Antisense
TCAACTCCGTATTCGTCAACTTTTG 184 631 432 Antisense
AATTCGCGAGTTTTCTACTGGTCTA 600 177 538 Antisense
TGCCTGGCAAATGCGTCATCTTCGT 60 587 594 Antisense
Sequence Source Affymetrix Proprietary Database