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[193776_at] Peptidyl-prolyl cis-trans isomerases

Description Y75B12B.5 /REP_DB=WormBase Gene ID /WP=CE20374 /GEN=cyp-3 /TR=SW:P52011 /GB=CAA21762.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Peptidyl-prolyl cis-trans isomerases
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 40      4grp_highest_8_8 > 10      4grp_high_8_8 > 54      6grp_highest_nonorm > 27      6grp_total > 52      4grp_total > 57      6grp_highest_sub > 03      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5897
1 2 3 4 range
A 7306.3
(-1.8)
P 		9968.6
(1.9)
P 		10796.8
(3)
P 		6467.1
(-3)
P 		4330
B 7067.1
(-2.2)
P 		10927.5
(1.9)
P 		11994.1
(3)
P 		6302.8
(-3)
P 		5691
C 6862.2
(-1.9)
P 		10215.4
(3)
P 		9198
(1.5)
P 		6097
(-3)
P 		4118
avr 7078.5
(-1.9) 		10370.5
(2.6) 		10663
(3) 		6289
(-3) 		4374

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4325
1 2 3 4 5 6 range
A 7017.7
(0.4)
P 		7624.9
(1.6)
P 		8230.8
(2.8)
P 		8356.3
(3)
P 		5238.4
(-3)
P 		6319.3
(-0.9)
P 		3118
B 6429.7
(-1.2)
P 		6904
(-0.6)
P 		9493.2
(3)
P 		6525
(-1.1)
P 		5565.3
(-2.4)
P 		5168.1
(-3)
P 		4325
C 7540.6
(0.3)
P 		6572.8
(-1.3)
P 		9159.3
(3)
P 		7376.9
(0)
P 		6804.8
(-0.9)
P 		5540.9
(-3)
P 		3618
avr 6996
(-0.6) 		7033.9
(-0.5) 		8961.1
(3) 		7419.4
(0.2) 		5869.5
(-2.6) 		5676.1
(-3) 		3285
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2259
1 2 3 4 range
A 2660.2
(2.5)
P 		2163.9
(0.9)
P 		2822.5
(3)
P 		946.7
(-3)
P 		1876
B 2253.6
(0.8)
P 		2698.8
(2.7)
P 		2779.3
(3)
P 		1343.1
(-3)
P 		1436
C 2271.6
(0.4)
P 		2937
(2.3)
P 		3205.8
(3)
P 		1028.1
(-3)
P 		2178
avr 2395.1
(1.2) 		2599.9
(1.9) 		2935.9
(3) 		1106
(-3) 		1830

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1501
1 2 3 4 5 6 range
A 1293.7
(-3)
P 		2711.8
(3)
P 		1792.5
(-0.9)
P 		2119.4
(0.5)
P 		1580.7
(-1.8)
P 		1538.5
(-2)
P 		1418
B 2237.2
(2.3)
P 		2298
(2.9)
P 		2305.2
(3)
P 		1728.2
(-3)
P 		2261.1
(2.5)
P 		1927.2
(-0.9)
P 		577
C 2795
(3)
P 		2005.5
(-0.6)
P 		2331.2
(0.9)
P 		1483.5
(-3)
P 		2201.9
(0.3)
P 		1854.8
(-1.3)
P 		1312
avr 2108.6
(0.6) 		2338.4
(3) 		2143
(0.9) 		1777
(-3) 		2014.6
(-0.4) 		1773.5
(-3) 		565
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193776_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13926
Sequence Type Exemplar sequence
Representative Public ID Y75B12B.5 NCBI
Target Description Y75B12B.5 /REP_DB=WormBase Gene ID /WP=CE20374 /GEN=cyp-3 /TR=SW:P52011 /GB=CAA21762.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Peptidyl-prolyl cis-trans isomerases
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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074350(11), U31077(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074350 NCBI Caenorhabditis elegans CYclophyliN family member (cyn-3) (cyn-3) mRNA, complete cds. 11/11 None
U31077 NCBI Caenorhabditis elegans cyclophilin isoform 3 (cyp-3) mRNA, complete cds. 11/11 None
SNAP00000027058 ENSEMBL cdna:SNAP chromosome:CEL140:V:15192538:15193419:1 11/11 None
GENEFINDER00000027070 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15192538:15193419:1 11/11 None
Y75B12B.5.1 ENSEMBL cdna:known chromosome:CEL140:V:15192511:15193512:1 gene:Y75B12B.5 11/11 None
Y75B12B.5.3 ENSEMBL cdna:known chromosome:CEL140:V:15192511:15193419:1 gene:Y75B12B.5 11/11 None
Y75B12B.5.2 ENSEMBL cdna:known chromosome:CEL140:V:15192513:15193555:1 gene:Y75B12B.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
chrV:15192537-15193419(+) 100.0 100.0
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:193776_AT
aaaggtctttttcgacatcaccatcggtggtaaggcttccggacgtatcgtcatggagct
ttacgatgacgttgtcccaaagaccgccggtaatttccgcgctctctgcaccggagaaaa
tggaatcggaaagtctggaaagccactccacttcaagggatccaagtttcatcgcatcat
cccgaacttcatgatccagggaggagacttcacccgcggaaacggaactggaggagaatc
catctacggagagaagttcccagacgagaacttcaaggagaagcacaccggaccaggagt
cctctccatggctaatgctggaccaaacaccaacggatctcaattcttcctctgcaccgt
caagaccgagtggctcgacggaaagcacgtcgttttcggacgtgtcgtcgaaggattgga
cgtcgtgaaggctgtcgaatccaacggatcccaatccggaaagccagtcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGGTCTTTTTCGACATCACCATC 167 121 24 Antisense
CACCATCGGTGGTAAGGCTTCCGGA 233 201 42 Antisense
GGCTTCCGGACGTATCGTCATGGAG 426 537 57 Antisense
GGAGCTTTACGATGACGTTGTCCCA 637 517 78 Antisense
GCGCTCTCTGCACCGGAGAAAATGG 531 287 122 Antisense
GCATCATCCCGAACTTCATGATCCA 138 307 197 Antisense
GTCCTCTCCATGGCTAATGCTGGAC 401 477 322 Antisense
ACCGTCAAGACCGAGTGGCTCGACG 292 87 379 Antisense
GGACGTCGTGAAGGCTGTCGAATCC 323 521 441 Antisense
TGTCGAATCCAACGGATCCCAATCC 664 555 456 Antisense
GATCCCAATCCGGAAAGCCAGTCAA 472 417 470 Antisense
Sequence Source Affymetrix Proprietary Database