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[176728_s_at]

Description M01D7.2 /REP_DB=WormBase Gene ID /WP=CE25946 /GB=AAB58069.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 4grp_highest_8_8 > 51      4grp_high_8_8 > 32      6grp_total > 17      4grp_total > 47      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 338
1 2 3 4 range
A 643.1
(3)
P 		510.7
(0.2)
P 		518.2
(0.4)
P 		359.5
(-3)
P 		284
B 572.4
(3)
P 		349.7
(-2)
P 		304.8
(-3)
P 		478.3
(0.9)
P 		268
C 620.6
(3)
P 		449.6
(-2.8)
P 		443.1
(-3)
P 		469.6
(-2.1)
P 		178
avr 612
(3) 		436.7
(-2.5) 		422
(-3) 		435.8
(-2.6) 		190

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 346
1 2 3 4 5 6 range
A 396.2
(3)
P 		336.3
(1.3)
P 		273.5
(-0.5)
P 		185.4
(-3)
A 		189
(-2.9)
M 		261.1
(-0.8)
P 		211
B 501.3
(3)
P 		280.5
(-0.9)
P 		176.5
(-2.7)
A 		275.7
(-0.9)
P 		157.9
(-3)
A 		286
(-0.8)
P 		343
C 503.5
(3)
P 		287.4
(-0.8)
P 		273.2
(-1.1)
P 		207.5
(-2.2)
A 		162.8
(-3)
A 		265.7
(-1.2)
P 		341
avr 467
(3) 		301.4
(-0.3) 		241.1
(-1.6) 		222.9
(-1.9) 		169.9
(-3) 		270.9
(-1) 		297
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 182
1 2 3 4 range
A 234.1
(3)
P 		110.9
(-1.1)
P 		135.5
(-0.3)
P 		52.6
(-3)
P 		182
B 182.5
(3)
P 		86.4
(-2.2)
P 		70.6
(-3)
P 		101.9
(-1.3)
P 		112
C 205.4
(3)
P 		129.3
(-0.6)
P 		154.4
(0.6)
P 		79.2
(-3)
P 		126
avr 207.3
(3) 		108.9
(-1.6) 		120.2
(-1) 		77.9
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 73
(-0.9)
P 		119.6
(3)
P 		59.6
(-2)
P 		47
(-3)
A 		57
(-2.2)
M 		63.6
(-1.6)
P 		73
B 174.4
(3)
P 		93.4
(-0.7)
P 		42.9
(-3)
A 		73
(-1.6)
P 		64.1
(-2)
A 		106.6
(-0.1)
P 		132
C 186.6
(3)
P 		87.7
(-1.1)
P 		69.5
(-1.8)
P 		41.7
(-3)
A 		52.7
(-2.5)
A 		89
(-1)
P 		145
avr 144.7
(3) 		100.2
(0.1) 		57.3
(-2.8) 		53.9
(-3) 		57.9
(-2.7) 		86.4
(-0.9) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176728_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.45
Sequence Type Exemplar sequence
Representative Public ID M01D7.2 NCBI
Target Description M01D7.2 /REP_DB=WormBase Gene ID /WP=CE25946 /GB=AAB58069.1 /SUBMIT=ST.LOUIS /CHR=1 /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_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 
SNAP00000009592 ENSEMBL cdna:SNAP chromosome:CEL140:I:1862972:1873193:-1 11/11 None
GENEFINDER00000009602 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1862972:1872280:-1 11/11 None
M01D7.2 ENSEMBL cdna:known chromosome:CEL140:I:1862613:1872307:-1 gene:M01D7.2 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
chrI:1862971-1872280(-) 98.02 100.0
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-126
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-122
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-105
blast CAE74472 Hypothetical protein CBG22219 [Caenorhabditis briggsae] 1.0E-102
blast CAG10821 unnamed protein product [Tetraodon nigroviridis] 6.0E-36
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
Pfam IPR007273 EMBL-EBI SCAMP 5.5E-105
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
SNAP00000009592 4 158-180,184-206,219-241,263-285
GENEFINDER00000009602 4 273-295,299-321,334-356,378-400
Sequence
Target Sequence 
>C. ELEGANS:176728_S_AT
agactgtcacattcgcctattacgtatttctaatgtacgtacttgcgttggttgtcaacg
tgttggcctcgttgttctatatgatattcgccggcggttcaatcggtcaactatttctcg
cgtgcattcagctggctctattctcgccgtgctcatttcttttctggtttcgtccggttt
ataaggcgttcagaaatgattcgtcattcaattttatggtcttcttctttgttctcttct
tccattgcattttcacgtttgttcaaactctcggcttatccaattatgcttgtggatgga
ttaatgctctcgatacttttaatgtctccgtgccaatcgcccttctcatgcttatctcgg
ccatcacattcaccgtcgccctcaccggaatggtcaccgcccttgtaaaagtgcaccgcc
tgtatcgtggagccggcttctccatcgacaaggctcgtcaggaattcacaaatggtgtta
tgtcggatgctggtgtacagagagccactcaggcagcaactcaggcag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGACTGTCACATTCGCCTATTACGT 447 71 449 Antisense
TGTTGGCCTCGTTGTTCTATATGAT 318 563 509 Antisense
GATATTCGCCGGCGGTTCAATCGGT 84 427 531 Antisense
TCAATCGGTCAACTATTTCTCGCGT 520 633 547 Antisense
ATTTTATGGTCTTCTTCTTTGTTCT 397 15 659 Antisense
TCTTCCATTGCATTTTCACGTTTGT 92 619 686 Antisense
GTTCAAACTCTCGGCTTATCCAATT 246 445 709 Antisense
CGATACTTTTAATGTCTCCGTGCCA 685 247 759 Antisense
GGTCACCGCCCTTGTAAAAGTGCAC 73 501 840 Antisense
TAAAAGTGCACCGCCTGTATCGTGG 129 639 854 Antisense
GCCACTCAGGCAGCAACTCAGGCAG 132 277 952 Antisense
Sequence Source Affymetrix Proprietary Database