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[173458_at]

Description g7109229 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=M01D7.2 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=M01D7.2 /WP=CE25946 /CHR=1 /FEA=Genomic Cluster /GEN=SC /DEF=secretory carrier membrane protein
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 26      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 70      6grp_total > 26      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 15      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 729
1 2 3 4 range
A 622.2
(1.8)
P 		413.2
(-2.1)
P 		364.9
(-3)
P 		686
(3)
P 		321
B 554
(1.3)
P 		300.5
(-3)
P 		415
(-1)
P 		650.9
(3)
P 		350
C 534.7
(-1.3)
P 		351.4
(-2.9)
P 		336.4
(-3)
P 		1029.8
(3)
P 		693
avr 570.3
(-0) 		355
(-3) 		372.1
(-2.8) 		788.9
(3) 		434

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 404
1 2 3 4 5 6 range
A 499
(3)
P 		257
(-1.4)
P 		355.5
(0.4)
P 		169.4
(-3)
P 		214.5
(-2.2)
P 		167.6
(-3)
P 		331
B 555.4
(3)
P 		384.6
(0.4)
P 		248.8
(-1.6)
P 		260.4
(-1.4)
P 		156.7
(-3)
P 		323
(-0.5)
P 		399
C 344.6
(0.3)
P 		506.8
(3)
P 		170.6
(-2.7)
P 		194.3
(-2.3)
P 		151.4
(-3)
P 		369
(0.7)
P 		355
avr 466.3
(3) 		382.8
(1.3) 		258.3
(-1.3) 		208
(-2.3) 		174.2
(-3) 		286.5
(-0.7) 		292
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 152
1 2 3 4 range
A 226.5
(3)
P 		89.7
(-3)
P 		95.4
(-2.8)
P 		100.4
(-2.5)
P 		137
B 176.7
(3)
P 		74.2
(-3)
P 		96.2
(-1.7)
P 		138.7
(0.8)
P 		103
C 177
(3)
P 		101
(-3)
P 		117.2
(-1.7)
P 		173.6
(2.7)
P 		76
avr 193.4
(3) 		88.3
(-3) 		102.9
(-2.2) 		137.6
(-0.2) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 154
1 2 3 4 5 6 range
A 92
(3)
P 		91.4
(2.9)
P 		77.4
(1.3)
P 		43
(-2.7)
P 		64.7
(-0.2)
P 		40.8
(-3)
P 		51
B 193.3
(3)
P 		128
(0.1)
P 		60.4
(-3)
P 		69
(-2.6)
P 		63.7
(-2.9)
P 		120.5
(-0.3)
P 		133
C 127.7
(1.6)
P 		154.6
(3)
P 		43.4
(-2.8)
P 		39.1
(-3)
P 		49
(-2.5)
P 		123.5
(1.4)
P 		116
avr 137.7
(3) 		124.7
(2.1) 		60.4
(-2.3) 		50.4
(-3) 		59.1
(-2.4) 		94.9
(0.1) 		87
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173458_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22501
Sequence Type Exemplar sequence
Representative Public ID 7109229 NCBI
Target Description g7109229 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=M01D7.2 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=M01D7.2 /WP=CE25946 /CHR=1 /FEA=Genomic Cluster /GEN=SC /DEF=secretory carrier membrane protein
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_058510(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058510 NCBI Caenorhabditis elegans SCAMP (synaptic vesicle protein) homolog family member (scm-1) (scm-1) mRNA, complete cds. 11/11 A 
M01D7.2 ENSEMBL cdna:known chromosome:CEL140:I:1862613:1872307:-1 gene:M01D7.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_067172 1/11 Cross Hyb Matching Probes None
Y75B8A.1 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:1862687-1872281(-) 83.99 100.0
Public Domain and Genome References
Gene Title
Gene Symbol scm-1
Ensembl M01D7.2
Entrez Gene 171756 Entrez gene
SwissProt O01967 EMBL-EBI
WormBase CE25946 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264883_S_AT secretory carrier membrane protein (SCAMP) family protein at
ATGENOME1:15032_AT secretory carrier membrane protein (SCAMP) family protein (SC3) at
CANINE_2:CFAAFFX.14499.1.S1_AT similar to Secretory carrier-associated membrane protein 1 (Secretory carrier membrane protein 1) cfa
DROSOPHILA_2:1626101_AT dm
DROSOPHILA_2:1641444_A_AT dm
DROSOPHILA_2:1636178_AT dm
DROSGENOME1:145118_AT dm
HG-U133_PLUS_2:206667_S_AT secretory carrier membrane protein 1 hs
HG-U133A:206667_S_AT secretory carrier membrane protein 1 hs
HG-U133A_2:206667_S_AT secretory carrier membrane protein 1 hs
HG-U133_PLUS_2:206668_S_AT secretory carrier membrane protein 1 hs
HG-U133A:206668_S_AT secretory carrier membrane protein 1 hs
HG-U133A_2:206668_S_AT secretory carrier membrane protein 1 hs
HU35KSUBA:HUM_ALU_AT secretory carrier membrane protein 1 hs
HU35KSUBB:HUM_ALU_AT secretory carrier membrane protein 1 hs
HU35KSUBC:HUM_ALU_AT secretory carrier membrane protein 1 hs
HU35KSUBD:HUM_ALU_AT secretory carrier membrane protein 1 hs
HUGENEFL:HUM_ALU_AT secretory carrier membrane protein 1 hs
HC-G110:HUM_ALU_AT secretory carrier membrane protein 1 hs
HU35KSUBB:RC_N63272_AT secretory carrier membrane protein 1 hs
HUGENEFL:AF005037_AT secretory carrier membrane protein 1 hs
U133_X3P:G4759063_3P_A_AT secretory carrier membrane protein 1 hs
U133_X3P:G2232238_3P_S_AT secretory carrier membrane protein 1 hs
U133_X3P:G2232238_3P_AT secretory carrier membrane protein 1 hs
U133_X3P:HS.31218.1.S2_3P_AT secretory carrier membrane protein 1 hs
U133_X3P:HS.31218.1.S1_3P_AT secretory carrier membrane protein 1 hs
U133_X3P:206667_3P_S_AT secretory carrier membrane protein 1 hs
HG-U133_PLUS_2:1552978_A_AT secretory carrier membrane protein 1 hs
HG-U133A_2:212416_AT secretory carrier membrane protein 1 hs
HG-FOCUS:212416_AT secretory carrier membrane protein 1 hs
HG-U133_PLUS_2:212416_AT secretory carrier membrane protein 1 hs
HG-U133A:212416_AT secretory carrier membrane protein 1 hs
HG-U133A_2:212417_AT secretory carrier membrane protein 1 hs
HG-U133_PLUS_2:212417_AT secretory carrier membrane protein 1 hs
HG-U133A:212417_AT secretory carrier membrane protein 1 hs
HG-U95AV2:38849_AT secretory carrier membrane protein 1 hs
HG-U95B:44661_AT secretory carrier membrane protein 1 hs
HG-U95E:75028_R_AT secretory carrier membrane protein 1 hs
HG-U95AV2:32290_AT Secretory carrier membrane protein 1 hs
U133_X3P:HS.31218.1.S3_3P_X_AT Secretory carrier membrane protein 1 hs
U133_X3P:HS.31218.1.S3_3P_AT Secretory carrier membrane protein 1 hs
HG-U133A_2:212425_AT Secretory carrier membrane protein 1 hs
HG-U133_PLUS_2:212425_AT Secretory carrier membrane protein 1 hs
HG-U133A:212425_AT Secretory carrier membrane protein 1 hs
HG-U95D:67444_AT Secretory carrier membrane protein 1 hs
HG-U95D:77859_AT Secretory carrier membrane protein 1 hs
MU11KSUBA:AA237244_S_AT secretory carrier membrane protein 1 mm
MG-U74AV2:162426_F_AT secretory carrier membrane protein 1 mm
MG-U74AV2:160795_AT secretory carrier membrane protein 1 mm
MG-U74CV2:166370_AT secretory carrier membrane protein 1 mm
MG-U74CV2:170211_R_AT secretory carrier membrane protein 1 mm
MOE430A:1426775_S_AT secretory carrier membrane protein 1 mm
MOUSE430A_2:1426775_S_AT secretory carrier membrane protein 1 mm
MOUSE430_2:1426775_S_AT secretory carrier membrane protein 1 mm
MOE430B:1453054_AT secretory carrier membrane protein 1 mm
MOUSE430_2:1453054_AT secretory carrier membrane protein 1 mm
MU19KSUBA:TC23805_AT Secretory carrier membrane protein 1, mRNA (cDNA clone MGC:30386 IMAGE:4162134) mm
RG-U34A:RC_AI073164_AT secretory carrier membrane protein 1 rn
RAE230A:1388819_AT secretory carrier membrane protein 1 rn
RAT230_2:1388819_AT secretory carrier membrane protein 1 rn
RAE230A:1370978_AT secretory carrier membrane protein 1 rn
RAT230_2:1370978_AT secretory carrier membrane protein 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
15031 protein transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK84628 Scamp (synaptic vesicle protein) homolog protein 1 [Caenorhabditis elegans] ref|NP_490911.1| SCAMP (synaptic vesicle protein) homolog family member (scm-1) [Caenorhabditis elegans] gb|AAF36687.1| secretory carrier membrane protein [Caenorhabditis elegans] 1.0E-120
blast CAE74472 Hypothetical protein CBG22219 [Caenorhabditis briggsae] 1.0E-102
blast AAH34048 Secretory carrier membrane protein 1, isoform 1 [Homo sapiens] emb|CAG47081.1| SCAMP1 [Homo sapiens] sp|O15126|SCAM1_HUMAN Secretory carrier-associated membrane protein 1 (Secretory carrier membrane protein 1) gb|AAH15065.1| Secretory carrier membrane protein 1, isoform 1 [Homo sapiens] 7.0E-36
Protein Domains
Database ID Description E-Value
Pfam IPR007273 EMBL-EBI SCAMP 5.5E-105
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490911.1 4 154-176,180-202,215-237,259-281
M01D7.2 4 154-176,180-202,215-237,259-281
Sequence
Target Sequence 
>C. ELEGANS:173458_AT
gtattcatttctatcaacaacaaaaaaaacgttatatttttcacgtggtgccaggggctg
tcccattacggtttgatctactaaaaatgtaggaattttttgcccaaaaaaatataaaaa
atgtgacgtcagcacgttcttaaccatgagaaatcagttgaaagctctgcgtctcttctc
ccgcattttttgtagatcagcgtagatcaagccgatatgggacactctctta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATTCATTTCTATCAACAACAAAA 436 453 1036 Antisense
CGTTATATTTTTCACGTGGTGCCAG 536 245 1065 Antisense
TATTTTTCACGTGGTGCCAGGGGCT 156 661 1070 Antisense
TTTTCACGTGGTGCCAGGGGCTGTC 422 667 1073 Antisense
AAAATGTGACGTCAGCACGTTCTTA 118 133 1153 Antisense
ACGTCAGCACGTTCTTAACCATGAG 309 91 1161 Antisense
AGCACGTTCTTAACCATGAGAAATC 193 75 1166 Antisense
AATCAGTTGAAAGCTCTGCGTCTCT 331 171 1187 Antisense
GTAGATCAGCGTAGATCAAGCCGAT 601 455 1227 Antisense
GATCAAGCCGATATGGGACACTCTC 8 423 1240 Antisense
CAAGCCGATATGGGACACTCTCTTA 31 187 1243 Antisense
Sequence Source GenBank