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[190862_at]

Description F44E2.2 /REP_DB=WormBase Gene ID /WP=CE07254 /TR=SW:P34431 /GB=AAA28035.2 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Reverse Transcriptase
Cluster 6grp_high1_10_10 > 98      6grp_total > 98      4grp_total > 32      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 10.9
(-3)
A 		89.3
(2.5)
P 		64.4
(0.8)
P 		96.3
(3)
A 		85
B 43.9
(-2.5)
A 		39
(-3)
A 		102.2
(3)
P 		65.5
(-0.5)
P 		63
C 47.3
(-3)
A 		118.9
(3)
P 		109.6
(2.2)
P 		77
(-0.5)
A 		72
avr 34
(-3) 		82.4
(2) 		92.1
(3) 		79.6
(1.7) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 278
1 2 3 4 5 6 range
A 96.7
(-1.7)
P 		38.9
(-3)
A 		89.4
(-1.9)
P 		113.6
(-1.4)
P 		212.4
(0.8)
P 		313.4
(3)
P 		275
B 35.3
(-3)
A 		71.5
(-2)
P 		111.8
(-0.8)
P 		96.5
(-1.3)
P 		227.6
(2.5)
P 		246.2
(3)
P 		211
C 110.7
(-1.3)
P 		86.3
(-2.1)
P 		62.5
(-3)
P 		145
(-0)
P 		210.9
(2.3)
P 		229.8
(3)
P 		167
avr 80.9
(-2.5) 		65.6
(-3) 		87.9
(-2.3) 		118.4
(-1.4) 		217
(1.6) 		263.1
(3) 		198
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 4
(-3)
A 		19.4
(3)
P 		16.8
(2)
P 		14.1
(0.9)
A 		15
B 14
(-1.1)
A 		9.6
(-3)
A 		23.7
(3)
P 		14
(-1.1)
P 		14
C 15.7
(-2.4)
A 		34.2
(2)
P 		38.2
(3)
P 		13
(-3)
A 		25
avr 11.2
(-3) 		21.1
(1) 		26.2
(3) 		13.7
(-2) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 17.8
(-2.6)
P 		13.8
(-3)
A 		19.5
(-2.5)
P 		28.8
(-1.6)
P 		64.1
(1.8)
P 		76.3
(3)
P 		63
B 12.3
(-3)
A 		23.8
(-2.1)
P 		27.2
(-1.9)
P 		25.6
(-2)
P 		92.5
(3)
P 		91.8
(2.9)
P 		80
C 41
(-0.5)
P 		26.3
(-2)
P 		15.9
(-3)
P 		29.2
(-1.7)
P 		68.2
(2.1)
P 		76.9
(3)
P 		61
avr 23.7
(-2.7) 		21.3
(-3) 		20.9
(-3) 		27.9
(-2.3) 		74.9
(2.3) 		81.7
(3) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190862_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6004
Sequence Type Exemplar sequence
Representative Public ID F44E2.2 NCBI
Target Description F44E2.2 /REP_DB=WormBase Gene ID /WP=CE07254 /TR=SW:P34431 /GB=AAA28035.2 /SUBMIT=ST.LOUIS /CHR=3 /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_066558(11), NM_066557(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066558 NCBI Caenorhabditis elegans F44E2.2a (F44E2.2) mRNA, complete cds. 11/11 None
NM_066557 NCBI Caenorhabditis elegans F44E2.2b (F44E2.2) mRNA, complete cds. 11/11 None
SNAP00000030931 ENSEMBL cdna:SNAP chromosome:CEL140:III:8854562:8860537:1 11/11 None
GENEFINDER00000031030 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8854562:8860537:1 11/11 None
F44E2.2a ENSEMBL cdna:known chromosome:CEL140:III:8853705:8860537:1 gene:F44E2.2 11/11 None
F44E2.2b ENSEMBL cdna:known chromosome:CEL140:III:8853719:8860537:1 gene:F44E2.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176248 3 2 NM_066557 190862_at (11)
NM_066558 190862_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Ensembl F44E2.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA28035 Hypothetical protein F44E2.2a [Caenorhabditis elegans] ref|NP_498959.1| F44E2.2a [Caenorhabditis elegans] 0.0
blast AAL02516 Hypothetical protein F44E2.2b [Caenorhabditis elegans] ref|NP_498958.1| F44E2.2b [Caenorhabditis elegans] sp|P34431|YL52_CAEEL Hypothetical protein F44E2.2 in chromosome III 0.0
blast AAA50456 gag, pol and env protein precursor [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.3E-39
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 5.2E-6
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.1E-57
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.3E-39
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 5.2E-6
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.1E-57
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 1.3E-39
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 5.2E-6
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 1.1E-57
Sequence
Target Sequence 
>C. ELEGANS:190862_AT
gattgcgattggaagacctgccggtttccacgaagaactgcttcgtctgtactgactatg
atgaggaaactctgattgctcttcagaagaaatgttgccgagaaagattcaagatgatag
ttctggttattccattcacaattgatgtcgagctagttgattgttggaatcggcttattg
caaaaatctcggaagaaactaaaatactggtagtgtccaacatgactcctgacgaattgg
aagatcatgctcttctagtggaattcacatccatcctgcaaaaatgtcgtcgagtagatg
atggttatttggaaataatatcgcttcatgataggttggaagctcatccaagaaagactc
tcgaaatgacagctttagccggtaaagtggagtactggaaagctgtacaaactcgtgcta
aggaagttggaatggaatggaaagcgtttgagttaaaacgctgtaccagtgatactcctg
tcaaaaactcagactgtgaagcctcgacgtctatgaagtctgcgtccactgtaagaacgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTGCGATTGGAAGACCTGCCGGT 708 433 5924 Antisense
TGCCGGTTTCCACGAAGAACTGCTT 372 585 5942 Antisense
GAACTGCTTCGTCTGTACTGACTAT 357 347 5958 Antisense
ATGAGGAAACTCTGATTGCTCTTCA 379 45 5984 Antisense
GGTAGTGTCCAACATGACTCCTGAC 152 505 6132 Antisense
GAATTCACATCCATCCTGCAAAAAT 401 325 6184 Antisense
GACTCTCGAAATGACAGCTTTAGCC 703 373 6279 Antisense
ACGCTGTACCAGTGATACTCCTGTC 501 91 6381 Antisense
AACTCAGACTGTGAAGCCTCGACGT 178 139 6409 Antisense
GCCTCGACGTCTATGAAGTCTGCGT 2 281 6424 Antisense
AAGTCTGCGTCCACTGTAAGAACGT 409 157 6439 Antisense
Sequence Source Affymetrix Proprietary Database