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[175024_s_at] Reverse transcriptase

Description CEK038EZR_rc /REP_DB=TREMBL Accession /GB=D33937 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk38e12 : 3prime end, single read.
Cluster 6grp_total > 0      4grp_total > 04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 0.8
(-3)
A 		5.9
(-2)
A 		22.5
(1)
A 		33
(3)
A 		32
B 28.8
(-0.8)
A 		29.9
(-0.6)
A 		16.4
(-3)
A 		49.8
(3)
A 		33
C 28.9
(-0.2)
A 		4.3
(-2.7)
A 		1.2
(-3)
A 		59.9
(3)
A 		59
avr 19.5
(-1.9) 		13.4
(-3) 		13.4
(-3) 		47.6
(3) 		34

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 1.1
(-2.9)
A 		2.4
(-2.2)
A 		1
(-3)
A 		3
(-1.9)
A 		3.4
(-1.7)
A 		11.8
(3)
A 		11
B 1.5
(-2.8)
A 		7.5
(-0.4)
A 		1.8
(-2.7)
A 		1.5
(-2.8)
A 		1.1
(-3)
A 		16
(3)
A 		15
C 4
(-2.3)
A 		30.4
(3)
A 		4.4
(-2.3)
A 		18.1
(0.5)
A 		17.2
(0.3)
A 		0.7
(-3)
A 		30
avr 2.2
(-3) 		13.4
(3) 		2.4
(-2.9) 		7.5
(-0.2) 		7.2
(-0.3) 		9.5
(0.9) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 0.3
(-3)
A 		1.3
(-1.9)
A 		5.9
(3)
A 		4.8
(1.8)
A 		6
B 9.2
(1.8)
A 		7.4
(0.2)
A 		3.8
(-3)
A 		10.6
(3)
A 		7
C 9.6
(2.7)
A 		1.2
(-2.5)
A 		0.4
(-3)
A 		10.1
(3)
A 		10
avr 6.4
(0.6) 		3.3
(-3) 		3.4
(-2.9) 		8.5
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 0.2
(-3)
A 		0.9
(-1.4)
A 		0.2
(-3)
A 		0.7
(-1.9)
A 		1
(-1.2)
A 		2.9
(3)
A 		3
B 0.5
(-2.9)
A 		2.5
(-0.8)
A 		0.4
(-3)
A 		0.4
(-3)
A 		0.5
(-2.9)
A 		6
(3)
A 		6
C 1.5
(-2.1)
A 		9.3
(3)
A 		1.1
(-2.4)
A 		3.6
(-0.8)
A 		5.6
(0.6)
A 		0.2
(-3)
A 		9
avr 0.7
(-2.8) 		4.2
(3) 		0.6
(-3) 		1.6
(-1.3) 		2.4
(-0) 		3
(1) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175024_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21180
Sequence Type Exemplar sequence
Representative Public ID CEK038EZR NCBI
Target Description CEK038EZR_rc /REP_DB=TREMBL Accession /GB=D33937 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk38e12 : 3prime end, single read.
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_066724(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066724 NCBI Caenorhabditis elegans F58A4.5 (F58A4.5) mRNA, complete cds. 11/11 A 
SNAP00000012190 ENSEMBL cdna:SNAP chromosome:CEL140:III:9603014:9604164:-1 11/11 None
GENEFINDER00000012210 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9603014:9612087:-1 11/11 None
F58A4.5 ENSEMBL cdna:known chromosome:CEL140:III:9602926:9608583:-1 gene:F58A4.5 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
chrIII:9603030-9603616(-) 100.0 100.0
Public Domain and Genome References
Gene Title Reverse transcriptase
Ensembl F58A4.5
Entrez Gene 176357 Entrez gene
SwissProt P34472 EMBL-EBI
WormBase CE36869 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
5529 sugar binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA80162 Hypothetical protein F58A4.5 [Caenorhabditis elegans] ref|NP_499125.2| F58A4.5 [Caenorhabditis elegans] sp|P34472|YMH5_CAEEL Hypothetical C-type lectin protein F58A4.5 precursor 0.0
blast CAI06052 Hypothetical protein F58A4.14 [Caenorhabditis elegans] ref|NP_001022625.1| F58A4.14 [Caenorhabditis elegans] 0.0
blast CAE65050 Hypothetical protein CBG09893 [Caenorhabditis briggsae] 1.0E-171
blast CAA80162 Hypothetical protein F58A4.5 [Caenorhabditis elegans] ref|NP_499125.2| F58A4.5 [Caenorhabditis elegans] sp|P34472|YMH5_CAEEL Hypothetical C-type lectin protein F58A4.5 precursor 1.0E-79
blast NP_494684 F53C3.9 [Caenorhabditis elegans] 6.0E-10
blast F88996 protein C17B7.6 [imported] - Caenorhabditis elegans 6.0E-10
Protein Domains
Database ID Description E-Value
Pfam IPR001304 EMBL-EBI C-type lectin 2.6E-5
Pfam IPR001304 EMBL-EBI C-type lectin 6.7E-13
Pfam IPR001304 EMBL-EBI C-type lectin 2.6E-5
Pfam IPR001440 EMBL-EBI TPR repeat 3.7E-5
Pfam IPR001440 EMBL-EBI TPR repeat 0.31
Pfam IPR001440 EMBL-EBI TPR repeat 2.3E-5
Pfam IPR001440 EMBL-EBI TPR repeat 0.38
Pfam IPR001440 EMBL-EBI TPR repeat 0.0039
Pfam IPR001304 EMBL-EBI C-type lectin 3.3E-7
Pfam IPR001304 EMBL-EBI C-type lectin 2.6E-5
Sequence
Target Sequence 
>C. ELEGANS:175024_S_AT
gaactcatacgtagcatccgtgcaaaatgaaggagaagctcgattcgtttcagctcttgt
acaaaccgagaagaactatactgtagacgaacagacatggattggatatgttaaatatga
tcgagattttggatgggaagatggaaataagggattacaattcgatccatggacggagaa
gatgccaagacagaaaaagtgcactgtgttcactgggaacgaaatccacgagaattgtcg
aagtcagttccgatttgtaagcgtcgattgtaataagactcaacgctctgtactttgctc
aaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACTCATACGTAGCATCCGTGCAA 682 349 16 Antisense
GAAGCTCGATTCGTTTCAGCTCTTG 408 343 50 Antisense
GTTTCAGCTCTTGTACAAACCGAGA 82 441 62 Antisense
GTAGACGAACAGACATGGATTGGAT 350 455 98 Antisense
GATTACAATTCGATCCATGGACGGA 183 429 168 Antisense
AAGTGCACTGTGTTCACTGGGAACG 527 151 212 Antisense
GTTCACTGGGAACGAAATCCACGAG 616 443 223 Antisense
ACGAGAATTGTCGAAGTCAGTTCCG 690 91 243 Antisense
GTCAGTTCCGATTTGTAAGCGTCGA 700 465 258 Antisense
TAAGACTCAACGCTCTGTACTTTGC 419 635 289 Antisense
CAACGCTCTGTACTTTGCTCAAAAC 513 185 296 Antisense
Sequence Source Affymetrix Proprietary Database