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[194127_at] cAMP dependent protein kinase regulatory chain + guanine nucleotide releasing factors

Description T20G5.5 /REP_DB=WormBase Gene ID /WP=CE23992 /GEN=pxf-2 /TR=SW:P34578 /GB=CAA83013.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=cAMP dependent protein kinase regulatory chain + guanine nucleotide releasing factors
Cluster 6grp_high1_10_10 > 10      4grp_high_8_8 > 25      6grp_total > 03      4grp_total > 38      6grp_cgc > 50      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 200
1 2 3 4 range
A 187.5
(3)
P 		66.6
(-1.2)
P 		16.7
(-3)
A 		78.7
(-0.8)
P 		171
B 184.5
(3)
P 		55.4
(-2.4)
P 		41.8
(-3)
P 		69.7
(-1.8)
P 		143
C 216.6
(3)
P 		81.2
(-2.1)
P 		61
(-2.8)
P 		56.3
(-3)
A 		160
avr 196.2
(3) 		67.7
(-1.9) 		39.8
(-3) 		68.2
(-1.9) 		156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 137
1 2 3 4 5 6 range
A 129
(2.4)
P 		113.6
(1.3)
P 		136.2
(2.9)
P 		137.9
(3)
P 		83.5
(-0.9)
P 		54
(-3)
P 		84
B 142.4
(3)
P 		133.1
(2.4)
P 		82.1
(-0.7)
P 		104.1
(0.7)
P 		76.1
(-1)
P 		43.9
(-3)
A 		99
C 109.5
(-0.1)
P 		159.3
(2.1)
P 		102.5
(-0.4)
P 		179.7
(3)
P 		77.3
(-1.5)
P 		42.4
(-3)
P 		137
avr 127
(2.1) 		135.3
(2.7) 		106.9
(0.8) 		140.6
(3) 		79
(-0.9) 		46.8
(-3) 		94
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 68.3
(3)
P 		14.5
(-2.1)
P 		4.4
(-3)
A 		11.5
(-2.3)
P 		64
B 58.8
(3)
P 		13.7
(-2.5)
P 		9.7
(-3)
P 		14.9
(-2.4)
P 		49
C 71.7
(3)
P 		23.3
(-1.7)
P 		21.2
(-1.9)
P 		9.5
(-3)
A 		62
avr 66.3
(3) 		17.2
(-2.4) 		11.8
(-3) 		12
(-3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 37
1 2 3 4 5 6 range
A 23.8
(-0.6)
P 		40.4
(3)
P 		29.7
(0.6)
P 		35
(1.8)
P 		25.2
(-0.3)
P 		13.1
(-3)
P 		27
B 49.6
(3)
P 		44.3
(2)
P 		19.9
(-2.4)
P 		27.6
(-1)
P 		30.9
(-0.4)
P 		16.4
(-3)
A 		33
C 40.6
(1.6)
P 		48.6
(3)
P 		26.1
(-0.9)
P 		36.1
(0.8)
P 		25
(-1.1)
P 		14.2
(-3)
P 		34
avr 38
(1.7) 		44.4
(3) 		25.2
(-0.9) 		32.9
(0.7) 		27
(-0.5) 		14.6
(-3) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194127_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7724
Sequence Type Exemplar sequence
Representative Public ID T20G5.5 NCBI
Target Description T20G5.5 /REP_DB=WormBase Gene ID /WP=CE23992 /GEN=pxf-2 /TR=SW:P34578 /GB=CAA83013.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=cAMP dependent protein kinase regulatory chain + guanine nucleotide releasing factors
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_066855(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066855 NCBI Caenorhabditis elegans PDZ eXchange Factor family member (pxf-2) (pxf-2) mRNA, complete cds. 11/11 None
GENEFINDER00000033351 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10189107:10195065:1 11/11 None
SNAP00000033298 ENSEMBL cdna:SNAP chromosome:CEL140:III:10190064:10195065:1 11/11 None
T20G5.5 ENSEMBL cdna:known chromosome:CEL140:III:10187592:10195232:1 gene:T20G5.5 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:10187587-10195061(+) 99.08 100.0
Public Domain and Genome References
Gene Title cAMP dependent protein kinase regulatory chain + guanine nucleotide releasing factors
Gene Symbol pxf-2
Ensembl T20G5.5
Entrez Gene 176432 Entrez gene
SwissProt P34578 EMBL-EBI
WormBase CE23992 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.20294.1.S1_S_AT similar to Rap guanine nucleotide exchange factor 4 (cAMP-regulated guanine nucleotide exchange factor II) (cAMP-GEFII) (Exchange factor directly activated by cAMP 2) (Epac 2) cfa
DROSOPHILA_2:1631112_AT dm
DROSGENOME1:151791_AT dm
HG-U133A:205651_X_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
HG-U133_PLUS_2:205651_X_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
HG-FOCUS:205651_X_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
HG-U133A_2:205651_X_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
HU35KSUBC:RC_T23562_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
U133_X3P:G5901913_3P_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
HG-U95AV2:41011_I_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
HG-U95AV2:41012_R_AT Rap guanine nucleotide exchange factor (GEF) 4 hs
MOUSE430_2:1421622_A_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MOUSE430A_2:1421622_A_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MOE430A:1421622_A_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MG-U74AV2:92659_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MG-U74BV2:106461_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MG-U74BV2:106462_G_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MG-U74BV2:163318_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MOE430A:1425518_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MOUSE430A_2:1425518_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MOUSE430_2:1425518_AT Rap guanine nucleotide exchange factor (GEF) 4 mm
MOUSE430_2:1444034_AT CAMP-GEFII mm
MOE430B:1444034_AT CAMP-GEFII mm
MOE430B:1440274_AT CAMP-GEFII mm
MOUSE430_2:1440274_AT CAMP-GEFII mm
RG-U34A:U78517_AT cAMP-regulated guanine nucleotide exchange factor II rn
RAE230A:1371081_AT cAMP-regulated guanine nucleotide exchange factor II rn
RAT230_2:1371081_AT cAMP-regulated guanine nucleotide exchange factor II rn
RAE230A:1377529_AT CAMP-regulated guanine nucleotide exchange factor II rn
RAT230_2:1377529_AT CAMP-regulated guanine nucleotide exchange factor II rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6468 protein amino acid phosphorylation inferred from electronic annotation QuickGO AmiGO
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
7264 small GTPase mediated signal transduction inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5952 cAMP-dependent protein kinase complex inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5085 guanyl-nucleotide exchange factor activity inferred from electronic annotation QuickGO AmiGO
8603 cAMP-dependent protein kinase regulator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA83013 Hypothetical protein T20G5.5 [Caenorhabditis elegans] ref|NP_499256.1| PDZ eXchange Factor family member (pxf-2) [Caenorhabditis elegans] sp|P34578|YNX5_CAEEL Hypothetical protein T20G5.5 in chromosome III 0.0
blast CAE64967 Hypothetical protein CBG09801 [Caenorhabditis briggsae] 0.0
blast Q8WZA2 Rap guanine nucleotide exchange factor 4 (cAMP-regulated guanine nucleotide exchange factor II) (cAMP-GEFII) (Exchange factor directly activated by cAMP 2) (Epac 2) dbj|BAB72179.1| cAMP-GEFII [Homo sapiens] 1.0E-154
Protein Domains
Database ID Description E-Value
Pfam IPR001895 EMBL-EBI Guanine-nucleotide dissociation stimulator CDC25 2.6E-90
Pfam IPR000651 EMBL-EBI Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif 1.4E-27
Pfam IPR000591 EMBL-EBI Pleckstrin putative G-protein interacting domain 7.5E-21
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 1.8E-16
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 9.5E-26
Pfam IPR001895 EMBL-EBI Guanine-nucleotide dissociation stimulator CDC25 2.6E-90
Pfam IPR000651 EMBL-EBI Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif 1.4E-27
Pfam IPR000591 EMBL-EBI Pleckstrin putative G-protein interacting domain 7.5E-21
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 9.5E-26
Pfam IPR001895 EMBL-EBI Guanine-nucleotide dissociation stimulator CDC25 2.6E-90
Pfam IPR000651 EMBL-EBI Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif 1.4E-27
Pfam IPR000591 EMBL-EBI Pleckstrin putative G-protein interacting domain 7.5E-21
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 1.8E-16
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 9.5E-26
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499256.1 2 82-104,175-197
T20G5.5 2 82-104,175-197
Sequence
Target Sequence 
>C. ELEGANS:194127_AT
taagtatgccattcaatcttgatctattagttcgaagattcaatgaagtacaacattggt
cgactacagaaattcttctggctactgaagagaatcgaatggagattttgaaaaagttta
tctcaattgcaacaattgctcgagaatatcgcgatcttctaacagtttttgcaataacat
taggactcagtcatacatcaattagtagattgactctcacttggagtaagctaccacctg
cctctttgaaaacattctcagaactagaaaatctgttggatccaacaagaaatcatcgaa
tgtatcgacttcttgtctccaaaatgtcatcaccgtacattccatttgttccactaattt
tgaaggatttaatgtttattcatcagggaaacaagtcattttataatggtcttgtgaact
ttgaaaaaatgcacatgtttgcaaaaatctttcgaagttttcggcagtgtaaatctcaaa
tggataacggagcagaacatgaattcattgagccacagagtttaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAAGTATGCCATTCAATCTTGATCT 252 637 3092 Antisense
GAAGTACAACATTGGTCGACTACAG 521 335 3136 Antisense
TGCTCGAGAATATCGCGATCTTCTA 485 581 3228 Antisense
TAGGACTCAGTCATACATCAATTAG 136 653 3272 Antisense
ACTTGGAGTAAGCTACCACCTGCCT 583 89 3310 Antisense
ACCACCTGCCTCTTTGAAAACATTC 518 85 3324 Antisense
AATGTATCGACTTCTTGTCTCCAAA 7 165 3390 Antisense
TCTTGTCTCCAAAATGTCATCACCG 135 619 3402 Antisense
TCATCACCGTACATTCCATTTGTTC 249 621 3418 Antisense
GAAGTTTTCGGCAGTGTAAATCTCA 528 335 3545 Antisense
GAATTCATTGAGCCACAGAGTTTAA 349 323 3592 Antisense
Sequence Source Affymetrix Proprietary Database