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[187745_at]

Description C29E4.3 /REP_DB=WormBase Gene ID /WP=CE25793 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=RNA production-processing
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 55      4grp_highest_8_8 > 35      4grp_high_8_8 > 48      6grp_highest_nonorm > 72      6grp_total > 40      4grp_total > 63      6grp_cgc > 26      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 300
1 2 3 4 range
A 552.3
(3)
P 		274
(-2.6)
P 		334.4
(-1.4)
P 		252.5
(-3)
P 		300
B 444.2
(3)
P 		279.5
(-3)
P 		307.9
(-2)
P 		294.5
(-2.5)
P 		165
C 488.8
(3)
P 		280.2
(-3)
P 		447
(1.8)
P 		280.2
(-3)
P 		209
avr 495.1
(3) 		277.9
(-2.9) 		363.1
(-0.6) 		275.7
(-3) 		219

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 253
1 2 3 4 5 6 range
A 356.6
(-2.8)
P 		468.3
(1.8)
P 		353.5
(-3)
P 		475.9
(2.1)
P 		352.4
(-3)
P 		496.4
(3)
P 		144
B 440.7
(1.2)
P 		481.2
(3)
P 		454.1
(1.8)
P 		406.5
(-0.4)
P 		349.2
(-3)
P 		429.5
(0.7)
P 		132
C 517.1
(0.7)
P 		422.4
(-1.8)
P 		471.2
(-0.5)
P 		602
(3)
P 		376.4
(-3)
P 		447.3
(-1.1)
P 		226
avr 438.1
(0.5) 		457.3
(1.3) 		426.3
(-0) 		494.8
(3) 		359.3
(-3) 		457.7
(1.4) 		136
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 201.1
(3)
P 		59.5
(-2.2)
P 		87.4
(-1.2)
P 		37
(-3)
P 		164
B 141.6
(3)
P 		69
(-2.5)
P 		71.4
(-2.3)
P 		62.8
(-3)
P 		79
C 161.8
(3)
P 		80.6
(-1.3)
P 		155.8
(2.7)
P 		47.2
(-3)
P 		115
avr 168.2
(3) 		69.7
(-2) 		104.9
(-0.2) 		49
(-3) 		119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 126
1 2 3 4 5 6 range
A 65.7
(-3)
P 		166.6
(3)
P 		77
(-2.3)
P 		120.7
(0.3)
P 		106.3
(-0.6)
P 		120.9
(0.3)
P 		101
B 153.3
(2.2)
P 		160.2
(3)
P 		110.3
(-2.7)
P 		107.7
(-3)
P 		141.9
(0.9)
P 		160.2
(3)
P 		53
C 191.7
(3)
P 		128.9
(-2.2)
P 		119.9
(-3)
P 		121.1
(-2.9)
P 		121.8
(-2.8)
P 		149.7
(-0.5)
P 		72
avr 136.9
(1.2) 		151.9
(3) 		102.4
(-3) 		116.5
(-1.3) 		123.3
(-0.5) 		143.6
(2) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187745_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8001
Sequence Type Exemplar sequence
Representative Public ID C29E4.3 NCBI
Target Description C29E4.3 /REP_DB=WormBase Gene ID /WP=CE25793 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=RNA production-processing
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_171884(10), NM_171198(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171884 NCBI Caenorhabditis elegans associated with RAN (nuclear import/export) function family member (ran-2) (ran-2) mRNA, complete cds. 10/11 None
NM_171198 NCBI Caenorhabditis elegans associated with RAN (nuclear import/export) function family member (ran-2) (ran-2) mRNA, complete cds. 10/11 None
SNAP00000010834 ENSEMBL cdna:SNAP chromosome:CEL140:III:7933764:7937286:1 10/11 None
GENEFINDER00000010851 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7933764:7937400:1 10/11 None
C29E4.3a ENSEMBL cdna:known chromosome:CEL140:III:7933549:7937626:1 gene:C29E4.3 10/11 None
C29E4.3b ENSEMBL cdna:known chromosome:CEL140:III:7933749:7937591:1 gene:C29E4.3 10/11 A 
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:7933761-7937451(+) 99.12 100.0
Public Domain and Genome References
Ensembl C29E4.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK84496 Associated with ran (nuclear import/export) function protein 2, isoform a [Caenorhabditis elegans] ref|NP_741233.2| associated with RAN (nuclear import/export) function family member (ran-2) [Caenorhabditis elegans] sp|P34342|RGP2_CAEEL Ran GTPase-activating protein 2 (Ran nuclear import/export related protein 2) (RanGAP) 0.0
blast AAM22042 Associated with ran (nuclear import/export) function protein 2, isoform b [Caenorhabditis elegans] ref|NP_741232.1| associated with RAN (nuclear import/export) function family member (ran-2) [Caenorhabditis elegans] 0.0
blast CAE66900 Hypothetical protein CBG12282 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.62
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.39
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.84
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.62
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.39
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.84
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000010851 1 919-938
Sequence
Target Sequence 
>C. ELEGANS:187745_AT
tgatcgtctggatatcgactttgaaagcagattccaggaagacactgcacgtgttattct
tcaactttcagcacctctcaaaagttgtaaaatgagtgagccagctttgcaaagagctat
tgaagttgcagaaaatatcgtccgccgagtggagtctgtcaagcgtaacccgattccggc
cacaactcaattagttaacaatattgttgctcaatgtgcaggaacaggagttaaggctga
aactgattggggatatggtgccgatccacaagtgatttcacgtttgttctcggaacttgt
tgctcgcggccatttcaagttggagctggctctccttcaacgctttttctcagccttcac
aataatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATCGTCTGGATATCGACTTTGAA 547 565 2424 Antisense
GATTCCAGGAAGACACTGCACGTGT 273 433 2453 Antisense
ACACTGCACGTGTTATTCTTCAACT 354 109 2465 Antisense
GTTATTCTTCAACTTTCAGCACCTC 613 447 2476 Antisense
TTTCAGCACCTCTCAAAAGTTGTAA 288 671 2489 Antisense
ATGAGTGAGCCAGCTTTGCAAAGAG 371 45 2515 Antisense
AAATATCGTCCGCCGAGTGGAGTCT 260 115 2556 Antisense
GAGTCTGTCAAGCGTAACCCGATTC 477 395 2575 Antisense
ATTCCGGCCACAACTCAATTAGTTA 684 5 2596 Antisense
GATATGGTGCCGATCCACAAGTGAT 668 425 2675 Antisense
CTTTTTCTCAGCCTTCACAATAATC 296 223 2766 Antisense
Sequence Source Affymetrix Proprietary Database