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[172876_x_at]

Description Y75D11A.4 /REP_DB=WormBase Gene ID /WP=CE24670 /TR=Q9N4C9 /GB=AAF36059.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse transcriptase
Cluster 6grp_total > 11      4grp_total > 17      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 283
1 2 3 4 range
A 15.2
(-3)
A 		89.8
(-1)
A 		71.2
(-1.5)
A 		243.6
(3)
A 		228
B 16.1
(-3)
A 		24.9
(-2.3)
A 		91.3
(3)
A 		78
(1.9)
A 		75
C 58.2
(-3)
A 		120.2
(-1.4)
A 		68.9
(-2.7)
A 		297.9
(3)
A 		240
avr 29.8
(-3) 		78.3
(-1.4) 		77.1
(-1.4) 		206.5
(3) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 122
1 2 3 4 5 6 range
A 17.5
(-2.7)
A 		85.9
(3)
A 		22.1
(-2.4)
A 		53.6
(0.3)
A 		59.6
(0.8)
A 		14.4
(-3)
A 		72
B 20.2
(-2.4)
A 		109.7
(3)
A 		95.3
(2.1)
A 		12.4
(-2.8)
A 		45.3
(-0.9)
A 		9.9
(-3)
A 		100
C 115.9
(2.2)
A 		131.7
(3)
A 		77.6
(0.2)
A 		33.4
(-2)
A 		14.7
(-3)
A 		56.1
(-0.9)
A 		117
avr 51.2
(-1.2) 		109.1
(3) 		65
(-0.2) 		33.1
(-2.5) 		39.9
(-2) 		26.8
(-3) 		82
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 5.5
(-3)
A 		19.5
(-0.2)
A 		18.6
(-0.4)
A 		35.7
(3)
A 		30
B 5.1
(-3)
A 		6.1
(-2.6)
A 		21.2
(3)
A 		16.6
(1.3)
A 		16
C 19.3
(-3)
A 		34.5
(-0)
A 		24
(-2.1)
A 		50.2
(3)
A 		31
avr 10
(-3) 		20
(-0.5) 		21.3
(-0.2) 		34.2
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 3.2
(-3)
A 		30.6
(3)
A 		4.8
(-2.6)
A 		13.6
(-0.7)
A 		18
(0.2)
A 		3.5
(-2.9)
A 		27
B 7
(-2.3)
A 		36.5
(3)
A 		23.1
(0.6)
A 		3.3
(-3)
A 		18.4
(-0.3)
A 		3.7
(-2.9)
A 		33
C 43
(3)
A 		40.2
(2.6)
A 		19.7
(-0.7)
A 		6.7
(-2.7)
A 		4.8
(-3)
A 		18.8
(-0.8)
A 		38
avr 17.7
(-0.9) 		35.8
(3) 		15.9
(-1.3) 		7.9
(-3) 		13.7
(-1.8) 		8.7
(-2.8) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172876_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18136
Sequence Type Exemplar sequence
Representative Public ID Y75D11A.4 NCBI
Target Description Y75D11A.4 /REP_DB=WormBase Gene ID /WP=CE24670 /TR=Q9N4C9 /GB=AAF36059.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=reverse transcriptase
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_075922(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075922 NCBI Caenorhabditis elegans Y75D11A.4 (Y75D11A.4) mRNA, complete cds. 11/11 None
SNAP00000021928 ENSEMBL cdna:SNAP chromosome:CEL140:X:1762699:1764846:-1 11/11 None
GENEFINDER00000021982 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1762699:1764384:-1 11/11 None
Y75D11A.4 ENSEMBL cdna:known chromosome:CEL140:X:1762699:1764141:-1 gene:Y75D11A.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_067753 3/11 Cross Hyb Matching Probes A 
NM_066214 2/11 Cross Hyb Matching Probes A 
NM_059031 5/11 Cross Hyb Matching Probes A 
NM_068720 4/11 Cross Hyb Matching Probes A 
GENEFINDER00000028191 5/11 Cross Hyb Matching Probes None
SNAP00000028189 5/11 Cross Hyb Matching Probes None
SNAP00000043608 6/11 Cross Hyb Matching Probes None
GENEFINDER00000043621 6/11 Cross Hyb Matching Probes None
SNAP00000032856 2/11 Cross Hyb Matching Probes None
GENEFINDER00000032865 2/11 Cross Hyb Matching Probes None
SNAP00000003803 4/11 Cross Hyb Matching Probes None
GENEFINDER00000003821 4/11 Cross Hyb Matching Probes None
SNAP00000007753 3/11 Cross Hyb Matching Probes None
GENEFINDER00000007760 3/11 Cross Hyb Matching Probes None
SNAP00000032798 3/11 Cross Hyb Matching Probes None
W09C3.8 5/11 Cross Hyb Matching Probes A 
F02E9.8 8/11 Cross Hyb Matching Probes A 
F56C9.2 2/11 Cross Hyb Matching Probes A 
Y76B12C.5 3/11 Cross Hyb Matching Probes A 
C34D4.5 4/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:8441239-8442126(+) 60.36 60.36
chrIII:7327301-7328744(+) 94.66 94.66
chrIV:7145772-7147215(+) 94.46 94.46
chrX:1762698-1764141(-) 100.0 100.0
chrIV:1981949-1983127(-) 79.56 79.56
Public Domain and Genome References
Ensembl Y75D11A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508323 Y75D11A.4 [Caenorhabditis elegans] 0.0
blast NP_498615 F56C9.2 [Caenorhabditis elegans] 0.0
blast AAB00700 Hypothetical protein C34D4.5 [Caenorhabditis elegans] ref|NP_501121.1| C34D4.5 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-46
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-46
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 7.7E-46
Sequence
Target Sequence 
>C. ELEGANS:172876_X_AT
ccgctatctgggtcgctggatcgacatttctggctcaattgacgaagagatctcgaggag
aataagagcaggttggggtgctctggttggaatcaaagaagtcttgagaatcatgccaaa
caaggaaaatatcatcctcttcaagcaaaatgtgctaccagctctcctgtatgctagtaa
aacttggacttgtaatgctggatccacgttgagactcaaaagaactgtcaccggtctcat
cgacgctgcagaaattcgaggctgtaacttcaacttggaacgttacctccttgcaaaaca
atcaagatttgcaggacacattctacggagagatccaaaccgatggacaaaaatctgcac
ggaatgggacccgagccacaacaaaaattggaaacgtgccgttggaggacagaagaagag
atgggctaaggatatcgacgaagaatacgcaaaatttcaccacaattccgccatgtcggg
acaagtcgtcgttgggagaagaagactaggaatgctcactccgaaggctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCGCTATCTGGGTCGCTGGATCGAC 328 263 855 Antisense
GATCGACATTTCTGGCTCAATTGAC 482 417 873 Antisense
TACCAGCTCTCCTGTATGCTAGTAA 681 649 1010 Antisense
ATGCTGGATCCACGTTGAGACTCAA 559 41 1049 Antisense
CAAAAGAACTGTCACCGGTCTCATC 228 191 1071 Antisense
GGTCTCATCGACGCTGCAGAAATTC 397 501 1087 Antisense
TTCGAGGCTGTAACTTCAACTTGGA 265 685 1109 Antisense
CAACTTGGAACGTTACCTCCTTGCA 140 187 1125 Antisense
GAATGGGACCCGAGCCACAACAAAA 476 331 1216 Antisense
TCACCACAATTCCGCCATGTCGGGA 551 625 1311 Antisense
CTAGGAATGCTCACTCCGAAGGCTC 663 211 1360 Antisense
Sequence Source Affymetrix Proprietary Database