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[186026_at]

Description F49E7.1A /REP_DB=WormBase Gene ID /WP=CE26367 /TR=Q9GYH7 /GB=AAF98624.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      4grp_highest_8_8 > 55      4grp_high_8_8 > 19      6grp_highest_nonorm > 90      6grp_total > 27      4grp_total > 29      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 187.3
(-0.3)
P 		224.6
(2.9)
P 		156.2
(-3)
P 		225.2
(3)
P 		69
B 211.6
(2.8)
P 		183.4
(0.7)
P 		136
(-3)
P 		213.7
(3)
P 		78
C 247.8
(2.5)
P 		185.8
(-1)
P 		151.5
(-3)
P 		256.2
(3)
P 		105
avr 215.6
(1.8) 		197.9
(0.6) 		147.9
(-3) 		231.7
(3) 		84

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 248.2
(3)
P 		226.2
(1.8)
P 		155.2
(-2)
P 		136.5
(-3)
P 		142
(-2.7)
P 		177.1
(-0.8)
P 		112
B 232.5
(3)
P 		160
(-1.5)
P 		150.4
(-2.1)
P 		136.4
(-3)
P 		141.2
(-2.7)
P 		181.9
(-0.2)
P 		96
C 202.7
(3)
P 		150.2
(-0.7)
P 		162
(0.2)
P 		116.5
(-3)
P 		152.6
(-0.5)
P 		175
(1.1)
P 		86
avr 227.8
(3) 		178.8
(0) 		155.9
(-1.4) 		129.8
(-3) 		145.3
(-2.1) 		178
(-0) 		98
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 68.2
(3)
P 		48.8
(-0.3)
P 		40.8
(-1.7)
P 		33
(-3)
P 		35
B 67.5
(3)
P 		45.3
(-0.7)
P 		31.5
(-3)
P 		45.5
(-0.7)
P 		36
C 82
(3)
P 		53.4
(-1.4)
P 		52.8
(-1.5)
P 		43.2
(-3)
P 		39
avr 72.6
(3) 		49.2
(-1.4) 		41.7
(-2.8) 		40.6
(-3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 45.8
(-1.5)
P 		80.4
(3)
P 		33.8
(-3)
P 		34.6
(-2.9)
P 		42.9
(-1.8)
P 		43.1
(-1.8)
P 		47
B 80.9
(3)
P 		53.3
(-0.7)
P 		36.5
(-2.9)
P 		36.1
(-3)
P 		57.4
(-0.1)
P 		67.8
(1.2)
P 		45
C 75.1
(3)
P 		45.8
(-0.4)
P 		41.2
(-0.9)
P 		23.4
(-3)
P 		49.4
(0)
P 		58.6
(1.1)
P 		52
avr 67.3
(3) 		59.8
(1.7) 		37.2
(-2) 		31.4
(-3) 		49.9
(0.1) 		56.5
(1.2) 		36
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186026_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18108
Sequence Type Exemplar sequence
Representative Public ID F49E7.1A NCBI
Target Description F49E7.1A /REP_DB=WormBase Gene ID /WP=CE26367 /TR=Q9GYH7 /GB=AAF98624.1 /SUBMIT=ST.LOUIS /CHR=X /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_075807(11), NM_075808(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075807 NCBI Caenorhabditis elegans Receptor Mediated Endocytosis family member (rme-6) (rme-6) mRNA, complete cds. 11/11 None
NM_075808 NCBI Caenorhabditis elegans Receptor Mediated Endocytosis family member (rme-6) (rme-6) mRNA, complete cds. 10/11 None
SNAP00000015509 ENSEMBL cdna:SNAP chromosome:CEL140:X:1101059:1103179:1 11/11 None
GENEFINDER00000015521 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1101482:1103179:1 10/11 None
F49E7.1a ENSEMBL cdna:known chromosome:CEL140:X:1097153:1103255:1 gene:F49E7.1 11/11 None
F49E7.1b ENSEMBL cdna:known chromosome:CEL140:X:1102033:1103179:1 gene:F49E7.1 10/11 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
chrX:1097152-1103179(+) 100.0 100.0
Public Domain and Genome References
Ensembl F49E7.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF98624 Receptor mediated endocytosis protein 6, isoform a [Caenorhabditis elegans] ref|NP_508208.2| Receptor Mediated Endocytosis family member (rme-6) [Caenorhabditis elegans] gb|AAW73253.1| receptor-mediated endocytosis 6 [Caenorhabditis elegans] 0.0
blast T25788 hypothetical protein F49E7.1 - Caenorhabditis elegans 0.0
blast CAE60511 Hypothetical protein CBG04130 [Caenorhabditis briggsae] 0.0
blast AAF98624 Receptor mediated endocytosis protein 6, isoform a [Caenorhabditis elegans] ref|NP_508208.2| Receptor Mediated Endocytosis family member (rme-6) [Caenorhabditis elegans] gb|AAW73253.1| receptor-mediated endocytosis 6 [Caenorhabditis elegans] 1.0E-160
blast T31057 hypothetical protein C05D9.6 - Caenorhabditis elegans 1.0E-160
blast AAF98624 Receptor mediated endocytosis protein 6, isoform a [Caenorhabditis elegans] ref|NP_508208.2| Receptor Mediated Endocytosis family member (rme-6) [Caenorhabditis elegans] gb|AAW73253.1| receptor-mediated endocytosis 6 [Caenorhabditis elegans] 1.0E-157
blast T31057 hypothetical protein C05D9.6 - Caenorhabditis elegans 1.0E-139
Protein Domains
Database ID Description E-Value
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 4.7E-28
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 7.7E-25
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 4.7E-28
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 4.7E-28
Pfam IPR003123 EMBL-EBI Vacuolar sorting protein 9 4.7E-28
Sequence
Target Sequence 
>C. ELEGANS:186026_AT
gatgtcgcgagccatgacaaccatcgagcgttatgtgatttttgcggtttatgataacgc
attctacccgaatagagatgcggatcatcacagagacaagttgctccgtggaaccatcgc
caaagtttctgacgtagtcacgccggtcaacgactttttgaaaattccagaacacctcca
cggtgaagctccctggccgtctgctcaggcggaactctcaatgctggatatttatgtgac
tgctcaggacaagctcaactgtgtggtccgatgctgtgacgtcatcaacaacctggtggc
gttgtcttcgaaaaacgcggtcgcatccgcagatgacctcacaccggttctagtttttgt
gattattaaggcgaatccacgtgctcttctgtctaacgtgcaatttgttgaaacctttgc
cggtgaccgcatcgagtcgggacgtgatgcttactactgggtcaacttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGTCGCGAGCCATGACAACCATC 375 409 2838 Antisense
GAGACAAGTTGCTCCGTGGAACCAT 187 393 2930 Antisense
GAACCATCGCCAAAGTTTCTGACGT 72 347 2948 Antisense
TCACGCCGGTCAACGACTTTTTGAA 315 623 2975 Antisense
CAGAACACCTCCACGGTGAAGCTCC 96 205 3005 Antisense
TGCTCAGGCGGAACTCTCAATGCTG 283 581 3039 Antisense
CAAGCTCAACTGTGTGGTCCGATGC 65 185 3087 Antisense
AAAACGCGGTCGCATCCGCAGATGA 412 129 3149 Antisense
GTGCTCTTCTGTCTAACGTGCAATT 650 479 3218 Antisense
TGACCGCATCGAGTCGGGACGTGAT 698 569 3261 Antisense
GATGCTTACTACTGGGTCAACTTCA 227 411 3283 Antisense
Sequence Source Affymetrix Proprietary Database