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[186913_at]

Description F59A2.4 /REP_DB=WormBase Gene ID /WP=CE17941 /TR=SW:P52874 /GB=CAA84329.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 67      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 94      6grp_total > 68      4grp_total > 33      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 511
1 2 3 4 range
A 510.3
(-3)
P 		933.5
(3)
P 		563.8
(-2.2)
P 		731.8
(0.1)
P 		423
B 423
(-3)
P 		712.1
(1.7)
P 		703
(1.6)
P 		789.2
(3)
P 		366
C 485.2
(-3)
P 		587.4
(-1.2)
P 		755.6
(1.7)
P 		827.8
(3)
P 		343
avr 472.8
(-3) 		744.3
(2.3) 		674.1
(0.9) 		782.9
(3) 		310

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 616
1 2 3 4 5 6 range
A 768.2
(0.2)
P 		503.2
(-3)
P 		540.3
(-2.6)
P 		505.5
(-3)
P 		658.1
(-1.1)
P 		1005.3
(3)
P 		502
B 418.3
(-3)
P 		425.1
(-2.9)
P 		445.2
(-2.6)
P 		414.8
(-3)
P 		453.3
(-2.5)
P 		875.6
(3)
P 		461
C 599.2
(-0.2)
P 		474.9
(-1.9)
P 		389.5
(-3)
P 		600
(-0.2)
P 		407.8
(-2.8)
P 		842.6
(3)
P 		453
avr 595.2
(-1.2) 		467.7
(-2.9) 		458.3
(-3) 		506.8
(-2.4) 		506.4
(-2.4) 		907.8
(3) 		450
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 156
1 2 3 4 range
A 185.8
(1.9)
P 		202.6
(3)
P 		147.4
(-0.5)
P 		107.1
(-3)
P 		96
B 134.9
(-3)
P 		175.9
(3)
P 		162.9
(1.1)
P 		168.2
(1.9)
P 		41
C 160.6
(-2)
P 		168.9
(-1.6)
P 		263.4
(3)
P 		139.6
(-3)
P 		124
avr 160.4
(-0.5) 		182.5
(2) 		191.2
(3) 		138.3
(-3) 		53

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 227
1 2 3 4 5 6 range
A 141.6
(-1.9)
P 		179
(-0.1)
P 		117.7
(-3)
P 		128.2
(-2.5)
P 		198.6
(0.8)
P 		244.8
(3)
P 		127
B 145.6
(-2)
P 		141.5
(-2.1)
P 		108.1
(-3)
P 		109.9
(-3)
P 		184.2
(-0.9)
P 		326.5
(3)
P 		218
C 222.1
(1)
P 		144.9
(-1.5)
P 		99.1
(-3)
P 		120.7
(-2.3)
P 		132
(-1.9)
P 		282.1
(3)
P 		183
avr 169.8
(-0.9) 		155.1
(-1.4) 		108.3
(-3) 		119.6
(-2.6) 		171.6
(-0.8) 		284.5
(3) 		176
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186913_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7030
Sequence Type Exemplar sequence
Representative Public ID F59A2.4 NCBI
Target Description F59A2.4 /REP_DB=WormBase Gene ID /WP=CE17941 /TR=SW:P52874 /GB=CAA84329.1 /SUBMIT=HINXTON /CHR=3 /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_065301(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065301 NCBI Caenorhabditis elegans F59A2.4 (F59A2.4) mRNA, complete cds. 11/11 None
SNAP00000026714 ENSEMBL cdna:SNAP chromosome:CEL140:III:3397740:3400564:1 11/11 None
GENEFINDER00000026724 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:3397740:3400564:1 11/11 None
F59A2.4 ENSEMBL cdna:known chromosome:CEL140:III:3397729:3400615:1 gene:F59A2.4 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:3397739-3400564(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F59A2.4
Entrez Gene 175442 Entrez gene
SwissProt P52874 EMBL-EBI
WormBase CE17941 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258842_AT pre-mRNA cleavage complex family protein at
CANINE_2:CFAAFFX.12543.1.S1_AT similar to Pre-mRNA cleavage complex II protein Clp1 cfa
DROSOPHILA_2:1625549_AT dm
DROSGENOME1:153827_AT dm
CHICKEN:GGA.2011.2.S1_S_AT ATP/GTP-binding protein gga
HG-U133_PLUS_2:204370_AT ATP/GTP-binding protein hs
HG-U133A_2:204370_AT ATP/GTP-binding protein hs
HG-U133A:204370_AT ATP/GTP-binding protein hs
HG-FOCUS:204370_AT ATP/GTP-binding protein hs
HU35KSUBA:U73524_AT ATP/GTP-binding protein hs
HUGENEFL:U73524_AT ATP/GTP-binding protein hs
HU35KSUBD:RC_AA430184_S_AT ATP/GTP-binding protein hs
U133_X3P:G5803028_3P_AT ATP/GTP-binding protein hs
HG-U95AV2:33149_AT ATP/GTP-binding protein hs
HG-U133_PLUS_2:229496_AT ATP/GTP-binding protein hs
HG-U133B:229496_AT ATP/GTP-binding protein hs
U133_X3P:HS.87465.1.A1_3P_AT ATP/GTP-binding protein hs
MG-U74AV2:160672_AT expressed sequence AI462438 mm
MG-U74CV2:170961_AT expressed sequence AI462438 mm
MOE430A:1423612_AT expressed sequence AI462438 mm
MOUSE430A_2:1423612_AT expressed sequence AI462438 mm
MOUSE430_2:1423612_AT expressed sequence AI462438 mm
MU19KSUBB:TC33703_AT Expressed sequence AI462438 (AI462438), mRNA mm
RG-U34C:RC_AI171213_AT similar to ATP/GTP-binding protein (predicted) rn
RAE230A:1390118_AT similar to ATP/GTP-binding protein (predicted) rn
RAT230_2:1390118_AT similar to ATP/GTP-binding protein (predicted) rn
RAE230B:1391893_AT similar to ATP/GTP-binding protein (predicted) rn
RAT230_2:1391893_AT similar to ATP/GTP-binding protein (predicted) rn
Protein Similarities
Method ID Description E-Value
blast CAA84329 Hypothetical protein F59A2.4 [Caenorhabditis elegans] ref|NP_497702.1| F59A2.4 [Caenorhabditis elegans] sp|P52874|YMI4_CAEEL Hypothetical protein F59A2.4 in chromosome III 0.0
blast CAE65024 Hypothetical protein CBG09862 [Caenorhabditis briggsae] 0.0
blast CAE56038 Hypothetical protein CBG23604 [Caenorhabditis briggsae] 1.0E-170
Protein Domains
Database ID Description E-Value
Pfam IPR010655 EMBL-EBI Pre-mRNA cleavage complex II Clp1 1.0E-126
Pfam IPR010655 EMBL-EBI Pre-mRNA cleavage complex II Clp1 1.4E-79
Pfam IPR010655 EMBL-EBI Pre-mRNA cleavage complex II Clp1 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:186913_AT
aaagcggcatcggcatttgaagtcgacgtggttattgtgctcgatcacgagaggctctac
agtgatttgagtaaagaattgccggaattcgtcagactcacacatgttccaaaatccggt
ggagttgaacaacgaaccgggcaaattcgttcgaaaatgcgcggagaaaacgttcatcgg
tatttctacggaacccgtgccaacaatctctacccattcacatttgacgtcagcttcgat
gacgtcactctttgtaaaatcggagccgagcaactgcccgattcatgtctaccattcgga
atggaagttgaaaatcatgagacaaagctggttatcatggagcccagtgccgacattaaa
catcatttgttcgcgttctcgcggagcacgaaagccgacgaaaatgtgctgaaatcgccg
gtttttggattttgtcttgtcacggaggttgatttggagaagcgaacaatgtcaattctc
tgcccacagcgtacaattccatcgaaagttctcgtcttctcagatatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGCGGCATCGGCATTTGAAGTCG 641 121 742 Antisense
AATTCGTCAGACTCACACATGTTCC 620 177 827 Antisense
ATCTCTACCCATTCACATTTGACGT 192 33 947 Antisense
AAATCGGAGCCGAGCAACTGCCCGA 679 113 998 Antisense
TGGAGCCCAGTGCCGACATTAAACA 215 549 1079 Antisense
AAACATCATTTGTTCGCGTTCTCGC 7 129 1099 Antisense
GTTCTCGCGGAGCACGAAAGCCGAC 678 441 1116 Antisense
AATGTGCTGAAATCGCCGGTTTTTG 213 163 1144 Antisense
GGATTTTGTCTTGTCACGGAGGTTG 118 507 1168 Antisense
CGAACAATGTCAATTCTCTGCCCAC 171 253 1204 Antisense
GAAAGTTCTCGTCTTCTCAGATATC 683 359 1245 Antisense
Sequence Source Affymetrix Proprietary Database