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[175875_s_at]

Description F07B7.C /REP_DB=WormBase Gene ID /WP=CE25842 /CHR=5 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 4grp_high_8_8 > 10      6grp_total > 24      4grp_total > 14      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 205
1 2 3 4 range
A 230.3
(2.3)
P 		120.7
(-3)
A 		158.1
(-1.2)
M 		244.3
(3)
P 		124
B 199.1
(2.4)
P 		114
(-3)
P 		119.4
(-2.7)
P 		209
(3)
P 		95
C 245.8
(1.8)
P 		104.9
(-2.3)
A 		81.5
(-3)
P 		286
(3)
P 		205
avr 225.1
(2) 		113.2
(-3) 		119.7
(-2.7) 		246.4
(3) 		133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 151.4
(1.9)
M 		169.7
(3)
P 		134.9
(0.9)
P 		101.1
(-1.2)
P 		71.7
(-3)
A 		74.2
(-2.8)
P 		98
B 147.8
(3)
P 		132
(1.8)
P 		122.7
(1.2)
P 		140.5
(2.5)
P 		66.1
(-3)
A 		71.6
(-2.6)
A 		82
C 198.4
(3)
P 		132.9
(-0.1)
P 		127.4
(-0.3)
P 		93.3
(-1.9)
P 		71
(-3)
A 		119
(-0.7)
M 		127
avr 165.9
(3) 		144.9
(1.7) 		128.3
(0.7) 		111.6
(-0.4) 		69.6
(-3) 		88.3
(-1.8) 		96
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 83.9
(3)
P 		26.2
(-3)
A 		41.3
(-1.4)
M 		35.8
(-2)
P 		58
B 63.5
(3)
P 		28.2
(-2.9)
P 		27.7
(-3)
P 		44.5
(-0.2)
P 		36
C 81.4
(3)
P 		30.2
(-2.8)
A 		28.4
(-3)
P 		48.2
(-0.8)
P 		53
avr 76.3
(3) 		28.2
(-3) 		32.5
(-2.5) 		42.8
(-1.2) 		48

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 55
1 2 3 4 5 6 range
A 27.9
(-1.6)
M 		60.4
(3)
P 		29.4
(-1.4)
P 		25.6
(-1.9)
P 		21.6
(-2.5)
A 		18.1
(-3)
P 		42
B 51.4
(3)
P 		43.9
(1.2)
P 		29.8
(-2.2)
P 		37.2
(-0.4)
P 		26.9
(-3)
A 		26.7
(-3)
A 		25
C 73.5
(3)
P 		40.5
(-0.6)
P 		32.4
(-1.5)
P 		18.8
(-3)
P 		23
(-2.5)
A 		39.8
(-0.7)
M 		55
avr 50.9
(3) 		48.3
(2.4) 		30.5
(-1.5) 		27.2
(-2.2) 		23.8
(-3) 		28.2
(-2) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175875_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19408
Sequence Type Exemplar sequence
Representative Public ID F07B7.C NCBI
Target Description F07B7.C /REP_DB=WormBase Gene ID /WP=CE25842 /CHR=5 /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_072866(11), NM_072880(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072866 NCBI Caenorhabditis elegans Regulator of Presynaptic Morphology family member (rpm-1) (rpm-1) mRNA, complete cds. 11/11 A 
NM_072880 NCBI Caenorhabditis elegans F07B7.12 (F07B7.12) mRNA, complete cds. 11/11 None
SNAP00000015097 ENSEMBL cdna:SNAP chromosome:CEL140:V:8857848:8864636:-1 11/11 None
GENEFINDER00000015148 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8857848:8864636:-1 11/11 None
SNAP00000041469 ENSEMBL cdna:SNAP chromosome:CEL140:V:8808259:8822542:-1 11/11 None
GENEFINDER00000041473 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8808259:8822542:-1 11/11 None
C01B7.6 ENSEMBL cdna:known chromosome:CEL140:V:8808003:8822542:-1 gene:C01B7.6 11/11 A 
F07B7.12 ENSEMBL cdna:known chromosome:CEL140:V:8857580:8864636:-1 gene:F07B7.12 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
chrV:8857848-8864637(-) 100.0 100.0
chrV:8815795-8822543(-) 99.28 99.28
Public Domain and Genome References
Gene Title

Gene Symbol rpm-1
Ensembl C01B7.6
F07B7.12
Entrez Gene 179259 Entrez gene
184118 Entrez gene
SwissProt Q17551 EMBL-EBI
Q965Y9 EMBL-EBI
WormBase CE06730 Wormbase
CE25842 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1606157_AT similar to pam, highwire, rpm 1 cfa
CANINE:1603510_AT similar to pam, highwire, rpm 1 cfa
CANINE:1597969_AT similar to pam, highwire, rpm 1 cfa
CANINE:1591626_AT similar to pam, highwire, rpm 1 cfa
CANINE_2:CFA.16375.1.S1_AT similar to pam, highwire, rpm 1 cfa
CANINE_2:CFA.9716.1.A1_S_AT similar to pam, highwire, rpm 1 cfa
CANINE_2:CFAAFFX.8673.1.S1_S_AT similar to pam, highwire, rpm 1 cfa
CANINE_2:CFAAFFX.8688.1.S1_S_AT similar to pam, highwire, rpm 1 cfa
DROSOPHILA_2:1632637_AT highwire dm
DROSGENOME1:145096_AT highwire dm
DROSGENOME1:145093_AT highwire dm
CHICKEN:GGA.11563.1.S1_S_AT MYC binding protein 2 gga
CHICKEN:GGA.11616.1.S1_AT MYC binding protein 2 gga
CHICKEN:GGA.16723.1.S1_AT MYC binding protein 2 gga
CHICKEN:GGAAFFX.25128.1.S1_AT MYC binding protein 2 gga
HG-U133A:201960_S_AT MYC binding protein 2 hs
HG-U133_PLUS_2:201960_S_AT MYC binding protein 2 hs
HG-U133A_2:201960_S_AT MYC binding protein 2 hs
HU35KSUBA:RC_AA350690_AT MYC binding protein 2 hs
HU35KSUBC:RC_N49728_AT MYC binding protein 2 hs
HU35KSUBC:RC_H21386_AT MYC binding protein 2 hs
U133_X3P:G7662379_3P_A_AT MYC binding protein 2 hs
U133_X3P:HS2.396417.1.S1_3P_S_AT MYC binding protein 2 hs
U133_X3P:HS.151411.0.S1_3P_A_AT MYC binding protein 2 hs
HG-U133_PLUS_2:1557370_S_AT MYC binding protein 2 hs
HG-U133A_2:201959_S_AT MYC binding protein 2 hs
HG-U133_PLUS_2:201959_S_AT MYC binding protein 2 hs
HG-U133A:201959_S_AT MYC binding protein 2 hs
HG-U95AV2:39777_AT MYC binding protein 2 hs
HG-U95C:58721_I_AT MYC binding protein 2 hs
HG-U95C:58722_R_AT MYC binding protein 2 hs
HU35KSUBD:RC_Z40889_AT MYC binding protein 2 hs
MOE430A:1434937_AT pam, highwire, rpm 1 mm
MOUSE430A_2:1434937_AT pam, highwire, rpm 1 mm
MOUSE430_2:1434937_AT pam, highwire, rpm 1 mm
MU11KSUBA:AA189534_F_AT pam, highwire, rpm 1 mm
MG-U74AV2:93424_AT pam, highwire, rpm 1 mm
MG-U74BV2:114532_AT pam, highwire, rpm 1 mm
MG-U74BV2:109988_AT pam, highwire, rpm 1 mm
MOE430B:1454900_S_AT pam, highwire, rpm 1 mm
MOUSE430_2:1454900_S_AT pam, highwire, rpm 1 mm
MOE430B:1434274_AT pam, highwire, rpm 1 mm
MOUSE430_2:1434274_AT pam, highwire, rpm 1 mm
MOE430B:1458870_X_AT pam, highwire, rpm 1 mm
MOUSE430_2:1458870_X_AT pam, highwire, rpm 1 mm
MOE430B:1445340_AT pam, highwire, rpm 1 mm
MOUSE430_2:1445340_AT pam, highwire, rpm 1 mm
MOE430B:1447150_AT pam, highwire, rpm 1 mm
MOUSE430_2:1447150_AT pam, highwire, rpm 1 mm
MG-U74CV2:129117_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MOUSE430_2:1442858_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MOE430B:1442858_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MOE430B:1456715_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MOUSE430_2:1456715_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MOE430B:1457865_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MOUSE430_2:1457865_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MU19KSUBA:TC25060_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MU19KSUBA:TC25060_G_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
MU19KSUBC:TC38522_AT Pam, highwire, rpm 1 (Phr1), mRNA mm
RG-U34A:RC_AA800029_AT pam, highwire, rpm 1 (predicted) rn
RAE230A:1390423_AT pam, highwire, rpm 1 (predicted) rn
RAT230_2:1390423_AT pam, highwire, rpm 1 (predicted) rn
RAE230A:1372863_AT pam, highwire, rpm 1 (predicted) rn
RAT230_2:1372863_AT pam, highwire, rpm 1 (predicted) rn
RAE230B:1397192_AT pam, highwire, rpm 1 (predicted) rn
RAT230_2:1397192_AT pam, highwire, rpm 1 (predicted) rn
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA96117 Regulator of presynaptic morphology protein 1 [Caenorhabditis elegans] ref|NP_505267.1| Regulator of Presynaptic Morphology family member (rpm-1) [Caenorhabditis elegans] sp|Q17551|RPM1_CAEEL Ubiquitin ligase protein rpm-1 (Pam/highwire/rpm-1 protein) (Regulator of presynaptic morphology protein 1) (Synapse defective protein 3) 0.0
blast CAE57746 Hypothetical protein CBG00759 [Caenorhabditis briggsae] 0.0
blast AAK84508 Hypothetical protein F07B7.12 [Caenorhabditis elegans] ref|NP_505281.1| F07B7.12 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 0.769999980926514
scop a.4.5.SCF ubiquitin ligase complex WHB domain All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; SCF ubiquitin ligase complex WHB domain 0.829999983310699
Pfam IPR000408 EMBL-EBI Regulator of chromosome condensation, RCC1 2.3E-7
Pfam IPR000315 EMBL-EBI Zn-finger, B-box 3.9E-11
Sequence
Target Sequence 
>C. ELEGANS:175875_S_AT
gagagtcaacatccatacaaaccaaatacatcaagctcaatggttttgttgttcgaggaa
gctgattacatttgtgtccgattttcaccggattgtcaaactgcacaatttgatgatcaa
ctgacaatttatctcaaaatcgatgagcattcttacatgccaattgaacgttgttatggg
agcgaatggccgtcctatccaatgatattgcctggaaactgtctgatgtttgttttggat
gcatcttctgctgttgaaggtgcaacttctgaacagatgttcggttaccacgtgacagta
accggatatttagttggttacaatgattctactatgcgactggaacaagatctcgtttgg
ttgtcagctaatgcttgtcgaataatgacacaattaccgatcaatccgagcaacattgaa
catttgagcacagctgaagacgacactcgtcatctatttgagaaacacggaagtcttctg
aaaaaaggtcttagcttgagtcattcaccaactctcagtgagctgtgtacaaagggacaa
ccacctccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGAGTCAACATCCATACAAACCAA 87 395 5122 Antisense
GATTTTCACCGGATTGTCAAACTGC 222 429 5201 Antisense
TATGGGAGCGAATGGCCGTCCTATC 402 655 5296 Antisense
GGCCGTCCTATCCAATGATATTGCC 272 543 5309 Antisense
ATATTGCCTGGAAACTGTCTGATGT 643 17 5326 Antisense
TTTGGATGCATCTTCTGCTGTTGAA 580 665 5355 Antisense
AGATCTCGTTTGGTTGTCAGCTAAT 652 65 5469 Antisense
GACACAATTACCGATCAATCCGAGC 140 367 5508 Antisense
GACGACACTCGTCATCTATTTGAGA 709 379 5560 Antisense
GTCTTAGCTTGAGTCATTCACCAAC 306 469 5609 Antisense
TGTACAAAGGGACAACCACCTCCAG 211 513 5647 Antisense
Sequence Source Affymetrix Proprietary Database