[Home] | [Total List]

[194208_x_at]

Description g1518843 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C09B8.7 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C09B8.7 /WP=CE27670 /CHR=X /FEA=Genomic Cluster /GEN=pak-1 /DEF=p21-activated kinase CePAK; Serine-threonine protein kinase
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 16      4grp_high_8_8 > 51      6grp_highest_nonorm > 60      6grp_total > 07      4grp_total > 60      6grp_highest_sub > De      6grp_cgc > 24      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 307
1 2 3 4 range
A 496.8
(3)
P 		445.2
(2)
P 		421.4
(1.5)
P 		189.7
(-3)
A 		307
B 401.9
(1.4)
P 		399.1
(1.3)
P 		457.5
(3)
P 		247.6
(-3)
P 		210
C 458.8
(2.8)
P 		464.1
(3)
P 		445.9
(2.3)
P 		298.8
(-3)
P 		165
avr 452.5
(3) 		436.1
(2.5) 		441.6
(2.7) 		245.4
(-3) 		207

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 363
1 2 3 4 5 6 range
A 448.3
(2.4)
P 		473.5
(3)
P 		217.7
(-3)
P 		316.7
(-0.7)
P 		248.8
(-2.3)
P 		332.3
(-0.3)
P 		256
B 487.5
(3)
P 		368.6
(-0.2)
P 		377.6
(0)
P 		367.5
(-0.3)
P 		266.7
(-3)
P 		294.9
(-2.2)
P 		221
C 580.8
(3)
P 		349.5
(-1.9)
P 		428.8
(-0.2)
P 		319.1
(-2.6)
P 		298.6
(-3)
P 		322
(-2.5)
P 		282
avr 505.5
(3) 		397.2
(0.2) 		341.4
(-1.2) 		334.4
(-1.4) 		271.4
(-3) 		316.4
(-1.8) 		234
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 153
1 2 3 4 range
A 180.9
(3)
P 		96.6
(-0.3)
P 		110.2
(0.2)
P 		27.8
(-3)
A 		153
B 128.2
(3)
P 		98.6
(0.6)
P 		106
(1.2)
P 		52.8
(-3)
P 		75
C 151.9
(2.8)
P 		133.4
(1.7)
P 		155.4
(3)
P 		50.4
(-3)
P 		105
avr 153.7
(3) 		109.5
(0.6) 		123.9
(1.4) 		43.7
(-3) 		110

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 168
1 2 3 4 5 6 range
A 82.6
(-1.3)
P 		168.4
(3)
P 		47.4
(-3)
P 		80.3
(-1.4)
P 		75.1
(-1.6)
P 		80.9
(-1.3)
P 		121
B 169.6
(3)
P 		122.7
(-0.6)
P 		91.7
(-3)
P 		97.3
(-2.6)
P 		108.4
(-1.7)
P 		110
(-1.6)
P 		78
C 215.3
(3)
P 		106.6
(-1.3)
P 		109.1
(-1.2)
P 		64.2
(-3)
P 		96.6
(-1.7)
P 		107.8
(-1.3)
P 		151
avr 155.8
(3) 		132.6
(1.1) 		82.7
(-2.8) 		80.6
(-3) 		93.4
(-2) 		99.6
(-1.5) 		75
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194208_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25946
Sequence Type Exemplar sequence
Representative Public ID 1518843 NCBI
Target Description g1518843 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C09B8.7 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C09B8.7 /WP=CE27670 /CHR=X /FEA=Genomic Cluster /GEN=pak-1 /DEF=p21-activated kinase CePAK; Serine-threonine protein kinase
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_001029209(11), NM_001029207(11), NM_001029208(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029209 NCBI Caenorhabditis elegans P21-Activated Kinase family member (pak-1) (pak-1) mRNA, complete cds. 11/11 None
NM_001029207 NCBI Caenorhabditis elegans P21-Activated Kinase family member (pak-1) (pak-1) mRNA, complete cds. 11/11 None
NM_001029208 NCBI Caenorhabditis elegans P21-Activated Kinase family member (pak-1) (pak-1) mRNA, complete cds. 11/11 None
C09B8.7e.3 ENSEMBL cdna:known chromosome:CEL140:X:6044266:6048568:-1 gene:C09B8.7 11/11 A 
C09B8.7e.2 ENSEMBL cdna:known chromosome:CEL140:X:6044267:6048568:-1 gene:C09B8.7 11/11 A 
C09B8.7e.1 ENSEMBL cdna:known chromosome:CEL140:X:6044275:6046119:-1 gene:C09B8.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001029206 7/11 Cross Hyb Matching Probes None
C09B8.7a.2 7/11 Cross Hyb Matching Probes None
C09B8.7c.1 7/11 Cross Hyb Matching Probes None
C09B8.7b 7/11 Cross Hyb Matching Probes A 
C09B8.7c.2 7/11 Cross Hyb Matching Probes None
C09B8.7a.1 7/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
180873 4 3 NM_001029207 175721_s_at (11), 194208_x_at (11)
NM_001029208 175721_s_at (11), 194208_x_at (11)
NM_001029209 175721_s_at (11), 194208_x_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:6044663-6048557(-) 100.0 100.0
Public Domain and Genome References
Ensembl C09B8.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL65775 P21-activated kinase family protein 1, isoform b [Caenorhabditis elegans] ref|NP_001024378.1| P21-Activated Kinase family member (pak-1) [Caenorhabditis elegans] dbj|BAA11844.1| protein kinase [Caenorhabditis elegans] 0.0
blast AAA68805 P21-activated kinase family protein 1, isoform a [Caenorhabditis elegans] ref|NP_001024377.1| P21-Activated Kinase family member (pak-1) [Caenorhabditis elegans] sp|Q17850|PAK1_CAEEL Serine/threonine-protein kinase pak-1 (p21-activated kinase 1) (PAK1) (CePAK) 0.0
blast AAC47308 p21-activated kinase CePAK [Caenorhabditis elegans] 0.0
blast AAO61438 P21-activated kinase family protein 1, isoform c [Caenorhabditis elegans] ref|NP_001024379.1| P21-Activated Kinase family member (pak-1) [Caenorhabditis elegans] 0.0
blast AAA68805 P21-activated kinase family protein 1, isoform a [Caenorhabditis elegans] ref|NP_001024377.1| P21-Activated Kinase family member (pak-1) [Caenorhabditis elegans] sp|Q17850|PAK1_CAEEL Serine/threonine-protein kinase pak-1 (p21-activated kinase 1) (PAK1) (CePAK) 7.0E-67
blast AAL65775 P21-activated kinase family protein 1, isoform b [Caenorhabditis elegans] ref|NP_001024378.1| P21-Activated Kinase family member (pak-1) [Caenorhabditis elegans] dbj|BAA11844.1| protein kinase [Caenorhabditis elegans] 7.0E-67
blast AAO61440 P21-activated kinase family protein 1, isoform e [Caenorhabditis elegans] ref|NP_001024380.1| P21-Activated Kinase family member (pak-1) [Caenorhabditis elegans] 7.0E-67
Protein Families
Method ID Description E-Value
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 1.0E-62
ec A2S7_HUMAN (Q96Q40) Serine/threonine-protein kinase ALS2CR7 (EC 2.7.1.37) (Amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 7) 6.0E-63
hanks 2.1.17 CaMK Group; CaMK I Regulated by Ca2+/CaM and close relatives; TWITCH 7.0E-71
hanks 2.1.17 CaMK Group; CaMK I Regulated by Ca2+/CaM and close relatives; TWITCH 5.0E-71
hanks 1.1.1 AGC group; AGC I Cyclic nucleotide regulated protein kinase (PKA & PKG); cAPKa 4.0E-22
Protein Domains
Database ID Description E-Value
scop a.1.1.Globins All alpha proteins; Globin-like; Globin-like; Globins 8.0
scop a.1.1.Globins All alpha proteins; Globin-like; Globin-like; Globins 7.59999990463257
Pfam IPR000719 EMBL-EBI Protein kinase 3.8E-31
Pfam IPR000719 EMBL-EBI Protein kinase 5.0E-93
Pfam IPR000095 EMBL-EBI PAK-box/P21-Rho-binding 1.2E-29
Pfam IPR000719 EMBL-EBI Protein kinase 5.0E-93
Pfam IPR000095 EMBL-EBI PAK-box/P21-Rho-binding 1.2E-29
Sequence
Target Sequence 
>C. ELEGANS:194208_X_AT
gactttggattctgtgctcagctctcgccggagcaaagaaaacgcacgacaatggtcgga
actccatactggatggcgccggaagtggtgacccgcaaacaatacggacccaaggttgat
gtgtggtccttgggaatcatggcgattgagatggtcgaaggagaaccgccatatttgaat
gaaaatccactcagggctatctatctcattgctacaaatggcaaacccgacttccctgga
agagattccatgactttgttgttcaaggactttgtcgactctgcgttggaagtacaagtt
gaaaatcgatggtcggcaagccaactccttacgcatccattcctccgatgcgccaaaccg
cttgcttcactgtactacttaatcgttgcggcgaagaagagcatcgccgaagctagcaac
tcataattatgatgattgtattctcaatacacgacgtgtatttcttgttcttctcaaatc
tcaagtcgtacttactttgaaactgttttcttttctctccatctcaagtcatttctaact
atctactttgagcccaacttaccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTTTGGATTCTGTGCTCAGCTCT 109 373 1298 Antisense
CTGGATGGCGCCGGAAGTGGTGACC 152 241 1366 Antisense
AATCCACTCAGGGCTATCTATCTCA 162 167 1481 Antisense
CAAGGACTTTGTCGACTCTGCGTTG 425 183 1561 Antisense
ATCGATGGTCGGCAAGCCAACTCCT 430 33 1602 Antisense
CGCTTGCTTCACTGTACTACTTAAT 388 255 1656 Antisense
AGAGCATCGCCGAAGCTAGCAACTC 654 69 1695 Antisense
ACGACGTGTATTTCTTGTTCTTCTC 416 93 1748 Antisense
TGAAACTGTTTTCTTTTCTCTCCAT 514 571 1795 Antisense
TCTCTCCATCTCAAGTCATTTCTAA 129 613 1811 Antisense
TATCTACTTTGAGCCCAACTTACCG 466 659 1837 Antisense
Sequence Source GenBank