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[171784_x_at] Peptidyl-prolyl cis-trans isomerases

Description CEC603_rc /REP_DB=TREMBL Accession /GB=C07603 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk143c1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 46      6grp_high1_10_10 > 54      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 76      6grp_total > 54      4grp_total > 41      6grp_cgc > 45      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 798
1 2 3 4 range
A 1233.1
(-3)
P 		1556.8
(0)
P 		1876.2
(3)
P 		1467.2
(-0.8)
P 		643
B 1077.9
(-3)
P 		1616.3
(2.1)
P 		1711
(3)
P 		1394.9
(0)
P 		633
C 1277.8
(-3)
P 		1665.5
(3)
P 		1611.8
(2.2)
P 		1415.8
(-0.9)
P 		388
avr 1196.3
(-3) 		1612.9
(1.7) 		1733
(3) 		1426
(-0.4) 		537

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1219
1 2 3 4 5 6 range
A 685.3
(-3)
P 		1088.3
(-0.6)
P 		1699
(3)
P 		1011.2
(-1.1)
P 		902.6
(-1.7)
P 		1135.3
(-0.3)
P 		1014
B 1037.1
(-1.3)
P 		1193.9
(2.5)
P 		1107.3
(0.4)
P 		967.2
(-3)
P 		1035.9
(-1.3)
P 		1215.4
(3)
P 		248
C 1116.8
(1.7)
P 		1001.3
(0.8)
P 		1295.8
(3)
P 		480.3
(-3)
P 		1031.9
(1.1)
P 		1080.9
(1.4)
P 		816
avr 946.4
(-1.6) 		1094.5
(0) 		1367.4
(3) 		819.6
(-3) 		990.1
(-1.1) 		1143.9
(0.6) 		548
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 347
1 2 3 4 range
A 449
(2.1)
P 		337.9
(-0.3)
P 		490.5
(3)
P 		214.8
(-3)
P 		276
B 343.7
(-0.3)
P 		399.2
(3)
P 		396.5
(2.8)
P 		297.3
(-3)
P 		102
C 423
(0.4)
P 		478.9
(1.5)
P 		561.8
(3)
P 		238.7
(-3)
P 		323
avr 405.2
(1) 		405.3
(1) 		482.9
(3) 		250.3
(-3) 		233

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 357
1 2 3 4 5 6 range
A 126.3
(-3)
P 		387.1
(3)
P 		370
(2.6)
P 		256.5
(-0)
P 		272.4
(0.4)
P 		276.4
(0.5)
P 		261
B 360.9
(0.2)
P 		397.4
(1.3)
P 		268.9
(-2.6)
P 		256.2
(-3)
P 		420.9
(2)
P 		453.2
(3)
P 		197
C 414
(3)
P 		305.5
(0.9)
P 		329.8
(1.4)
P 		96.6
(-3)
P 		333.9
(1.5)
P 		361.8
(2)
P 		317
avr 300.4
(0.6) 		363.3
(3) 		322.9
(1.5) 		203.1
(-3) 		342.4
(2.2) 		363.8
(3) 		161
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171784_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27753
Sequence Type Exemplar sequence
Representative Public ID CEC603 NCBI
Target Description CEC603_rc /REP_DB=TREMBL Accession /GB=C07603 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk143c1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074350, U31077
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
U31077 NCBI Caenorhabditis elegans cyclophilin isoform 3 (cyp-3) mRNA, complete cds. A 
SNAP00000027058 ENSEMBL cdna:SNAP chromosome:CEL140:V:15192538:15193419:1 None
NM_074350 NCBI Caenorhabditis elegans CYclophyliN family member (cyn-3) (cyn-3) mRNA, complete cds. A 
Y75B12B.5.1 ENSEMBL cdna:known chromosome:CEL140:V:15192511:15193512:1 gene:Y75B12B.5 None
Y75B12B.5.3 ENSEMBL cdna:known chromosome:CEL140:V:15192511:15193419:1 gene:Y75B12B.5 None
GENEFINDER00000027070 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15192538:15193419:1 None
Y75B12B.5.2 ENSEMBL cdna:known chromosome:CEL140:V:15192513:15193555:1 gene:Y75B12B.5 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_074348 4/11 Cross Hyb Matching Probes A 
SNAP00000027056 4/11 Cross Hyb Matching Probes None
GENEFINDER00000027069 4/11 Cross Hyb Matching Probes None
Y75B12B.2.4 4/11 Cross Hyb Matching Probes None
Y75B12B.2.2 4/11 Cross Hyb Matching Probes A 
Y75B12B.2.1 4/11 Cross Hyb Matching Probes A 
Y75B12B.2.3 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:15192844-15193334(+) 53.09 53.09
Public Domain and Genome References
Gene Title Peptidyl-prolyl cis-trans isomerases
Gene Symbol cyn-3
Ensembl Y75B12B.5
Entrez Gene 180028 Entrez gene
SwissProt P52011 EMBL-EBI
WormBase CE20374 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:18470_AT peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase at
ATH1-121501:265483_AT peptidyl-prolyl cis-trans isomerase / cyclophilin-40 (CYP40) / rotamase at
CANINE:1592757_S_AT similar to peptidylprolyl isomerase D cfa
CANINE:1589619_S_AT similar to peptidylprolyl isomerase D cfa
CANINE_2:CFA.760.1.A1_AT similar to peptidylprolyl isomerase D cfa
CANINE_2:CFAAFFX.13745.1.S1_S_AT similar to peptidylprolyl isomerase D cfa
DROSOPHILA_2:1635293_S_AT dm
DROSGENOME1:152064_AT dm
CHICKEN:GGA.2412.1.S1_AT similar to cyclophilin gga
HG-U133_PLUS_2:204185_X_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133A:204185_X_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133A_2:204185_X_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U95AV2:948_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HC-G110:948_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HU35KSUBC:RC_AA621289_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HUGENEFL:D63861_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
U133_X3P:HS.143482.0.S1_3P_A_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133A_2:204186_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-FOCUS:204186_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133_PLUS_2:204186_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133A:204186_S_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U95AV2:31811_R_AT peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133_PLUS_2:228469_AT Peptidylprolyl isomerase D (cyclophilin D) hs
HG-U133B:228469_AT Peptidylprolyl isomerase D (cyclophilin D) hs
HG-U95C:61695_AT Peptidylprolyl isomerase D (cyclophilin D) hs
HU35KSUBA:RC_AA458652_AT Peptidylprolyl isomerase D (cyclophilin D) hs
U133_X3P:HS.143482.1.A1_3P_AT Peptidylprolyl isomerase D (cyclophilin D) hs
MU11KSUBA:AA407024_F_AT peptidylprolyl isomerase D (cyclophilin D) mm
MG-U74AV2:97445_AT peptidylprolyl isomerase D (cyclophilin D) mm
MOE430A:1417057_A_AT peptidylprolyl isomerase D (cyclophilin D) mm
MOUSE430A_2:1417057_A_AT peptidylprolyl isomerase D (cyclophilin D) mm
MOUSE430_2:1417057_A_AT peptidylprolyl isomerase D (cyclophilin D) mm
MU19KSUBA:TC17323_AT Peptidylprolyl isomerase D (cyclophilin D), mRNA (cDNA clone MGC:25799 IMAGE:4035785) mm
MU19KSUBA:TC22737_F_AT Peptidylprolyl isomerase D (cyclophilin D), mRNA (cDNA clone MGC:25799 IMAGE:4035785) mm
MU19KSUBB:TC29024_AT Peptidylprolyl isomerase D (cyclophilin D), mRNA (cDNA clone MGC:25799 IMAGE:4035785) mm
MU19KSUBB:TC29024_G_AT Peptidylprolyl isomerase D (cyclophilin D), mRNA (cDNA clone MGC:25799 IMAGE:4035785) mm
RT-U34:RC_AA850781_AT peptidylprolyl isomerase D rn
RG-U34A:RC_AA850781_AT peptidylprolyl isomerase D rn
RAE230A:1372827_AT peptidylprolyl isomerase D rn
RAT230_2:1372827_AT peptidylprolyl isomerase D rn
RAE230B:1380893_AT peptidylprolyl isomerase D rn
RAT230_2:1380893_AT peptidylprolyl isomerase D rn
RT-U34:RC_AA850781_AT similar to peptidylprolyl isomerase D rn
RG-U34A:RC_AA850781_AT similar to peptidylprolyl isomerase D rn
RAE230B:1380893_AT similar to peptidylprolyl isomerase D rn
RAT230_2:1380893_AT similar to peptidylprolyl isomerase D rn
YEAST_2:1776760_AT Peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds to Hsp82p and contributes to chaperone activity Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6457 protein folding inferred from electronic annotation QuickGO AmiGO
6457 protein folding inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5623 cell inferred from direct assay QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3755 peptidyl-prolyl cis-trans isomerase activity inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA21762 Hypothetical protein Y75B12B.5 [Caenorhabditis elegans] ref|NP_506751.1| CYclophyliN family member (cyn-3) [Caenorhabditis elegans] sp|P52011|CYP3_CAEEL Peptidyl-prolyl cis-trans isomerase 3 (PPIase) (Rotamase) (Cyclophilin-3) gb|AAC47129.1| cyclophilin isoform 3 pdb|1E3B|A Chain A, Cyclophilin 3 From C.Elegans Complexed With Aup(Et)3 pdb|1E8K|A Chain A, Cyclophilin 3 Complexed With Dipeptide Ala-Pro pdb|1DYW|A Chain A, Biochemical And Structural Characterization Of A Divergent Loop Cyclophilin From Caenorhabditis Elegans 2.0E-89
blast CAE71615 Hypothetical protein CBG18577 [Caenorhabditis briggsae] 2.0E-82
Protein Domains
Database ID Description E-Value
Pfam IPR002130 EMBL-EBI Peptidyl-prolyl cis-trans isomerase, cyclophilin type 1.1E-119
Sequence
Target Sequence 
>C. ELEGANS:171784_X_AT
gaagcacaccggaccaggagtcctttccatgtctaacactggaccaaacaccaccggatc
tcnattcaagngttttcctctgcaccgtcaagactccctggctcgacgggaagaacttcg
ttttcggacgtgtcgtcgaaggattggacatcgtcaccaaggtcgagggcaacggaagca
gctccggaactccaaagtccgagtgcctccatgcgccgactgcggacagctgctaaattt
gt

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCACACCGGACCAGGAGTCCTT 619 339 47 Antisense
AGTCCTTTCCATGTCTAACACTGGA 270 41 65 Antisense
GTCTAACACTGGACCAAACACCACC 514 467 77 Antisense
GACTCCCTGGCTCGACGGGAAGAAC 641 369 138 Antisense
CTGGCTCGACGGGAAGAACTTCGTT 194 239 144 Antisense
TTCGTTTTCGGACGTGTCGTCGAAG 317 659 163 Antisense
GTCGTCGAAGGATTGGACATCGTCA 633 471 178 Antisense
GACATCGTCACCAAGGTCGAGGGCA 181 369 193 Antisense
GCAACGGAAGCAGCTCCGGAACTCC 61 319 215 Antisense
CCGGAACTCCAAAGTCCGAGTGCCT 103 263 230 Antisense
GACTGCGGACAGCTGCTAAATTTGT 147 375 264 Antisense
Sequence Source Affymetrix Proprietary Database