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[193725_at] Peptidyl-prolyl cis-trans isomerase

Description Y49A3A.5 /REP_DB=WormBase Gene ID /WP=CE22213 /GEN=cyp-1 /TR=SW:P52009 /GB=CAA22075.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Peptidyl-prolyl cis-trans isomerase
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 40      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 35      6grp_total > 52      4grp_total > 48      6grp_highest_sub > 03      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2770
1 2 3 4 range
A 2876.1
(-3)
P 		5645.6
(3)
P 		5156.5
(1.9)
P 		3655.1
(-1.3)
P 		2770
B 3348.4
(-3)
P 		4363.7
(-0.3)
P 		5621.6
(3)
P 		3490.1
(-2.6)
P 		2273
C 3143.6
(-3)
P 		4679.7
(1.8)
P 		5072.8
(3)
P 		3879.9
(-0.7)
P 		1929
avr 3122.7
(-3) 		4896.3
(1.9) 		5283.6
(3) 		3675
(-1.5) 		2161

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3393
1 2 3 4 5 6 range
A 4070.3
(1)
P 		3056.7
(-1.2)
P 		4973.9
(3)
P 		3084.9
(-1.1)
P 		2910.8
(-1.5)
P 		2208
(-3)
P 		2766
B 3050.6
(-3)
P 		4185.1
(-0.3)
P 		5600.6
(3)
P 		3783.7
(-1.3)
P 		3309.8
(-2.4)
P 		3186.5
(-2.7)
P 		2550
C 2623.6
(-1.8)
P 		3886.9
(1.8)
P 		3148.4
(-0.3)
P 		4316.4
(3)
P 		2210.4
(-3)
P 		3164.4
(-0.3)
P 		2106
avr 3248.2
(-1.5) 		3709.6
(0.1) 		4574.3
(3) 		3728.3
(0.1) 		2810.3
(-3) 		2853
(-2.9) 		1764
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1233
1 2 3 4 range
A 1047.2
(0.8)
P 		1225.5
(2.1)
P 		1348
(3)
P 		535
(-3)
P 		813
B 1067.8
(0.5)
P 		1077.7
(0.6)
P 		1302.6
(3)
P 		743.8
(-3)
P 		559
C 1040.6
(-0.9)
P 		1345.4
(0.7)
P 		1768
(3)
P 		654.2
(-3)
P 		1114
avr 1051.9
(-0) 		1216.2
(1.1) 		1472.9
(3) 		644.3
(-3) 		829

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 855
1 2 3 4 5 6 range
A 750.3
(-0.7)
P 		1087.1
(3)
P 		1083.2
(3)
P 		782.4
(-0.3)
P 		878.4
(0.7)
P 		537.6
(-3)
P 		550
B 1061.4
(-2.1)
P 		1393
(3)
P 		1360
(2.5)
P 		1002.2
(-3)
P 		1344.7
(2.3)
P 		1188.2
(-0.1)
P 		391
C 972.4
(0.3)
P 		1186
(3)
P 		801.3
(-1.9)
P 		868
(-1.1)
P 		715.2
(-3)
P 		1059.3
(1.4)
P 		471
avr 928
(-2.2) 		1222
(3) 		1081.5
(0.5) 		884.2
(-3) 		979.4
(-1.3) 		928.4
(-2.2) 		338
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193725_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12663
Sequence Type Exemplar sequence
Representative Public ID Y49A3A.5 NCBI
Target Description Y49A3A.5 /REP_DB=WormBase Gene ID /WP=CE22213 /GEN=cyp-1 /TR=SW:P52009 /GB=CAA22075.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Peptidyl-prolyl cis-trans isomerase
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_074160(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074160 NCBI Caenorhabditis elegans CYclophyliN family member (cyn-1) (cyn-1) mRNA, complete cds. 11/11 None
SNAP00000021941 ENSEMBL cdna:SNAP chromosome:CEL140:V:14358669:14359310:1 11/11 None
GENEFINDER00000021947 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14358669:14359310:1 11/11 None
Y49A3A.5.2 ENSEMBL cdna:known chromosome:CEL140:V:14358662:14359378:1 gene:Y49A3A.5 11/11 None
Y49A3A.5.1 ENSEMBL cdna:known chromosome:CEL140:V:14358664:14359411:1 gene:Y49A3A.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:14358668-14359310(+) 100.0 100.0
Public Domain and Genome References
Gene Title Peptidyl-prolyl cis-trans isomerase
Gene Symbol cyn-1
Ensembl Y49A3A.5
Entrez Gene 179936 Entrez gene
SwissProt P52009 EMBL-EBI
WormBase CE22213 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:245985_AT peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein at
CANINE:1597888_AT similar to peptidylprolyl isomerase A isoform 1 cfa
CANINE:1584943_AT similar to peptidylprolyl isomerase A isoform 1 cfa
HG-U133_PLUS_2:217602_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:217602_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:217602_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133_PLUS_2:211765_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:211765_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:211765_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U95AV2:33667_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133_PLUS_2:201293_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:201293_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-FOCUS:201293_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:201293_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133_PLUS_2:211378_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:211378_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:211378_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:201293_3P_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HU35KSUBA:RC_D51292_F_AT peptidylprolyl isomerase A (cyclophilin A) hs
HU35KSUBB:RC_AA069924_AT peptidylprolyl isomerase A (cyclophilin A) hs
HUGENEFL:X52851_RNA1_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:G13543665_3P_S_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:G12654762_3P_S_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:G10863926_3P_S_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:HS.272279.0.S1_3P_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:HS.267690.2.S1_3P_S_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:HS.222015.0.A1_3P_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:HS.182937.2.S1_3P_S_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:212661_3P_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:211978_3P_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:211765_3P_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:211378_3P_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:211978_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133_PLUS_2:211978_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:211978_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:212661_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133_PLUS_2:212661_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:212661_X_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A_2:217346_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133_PLUS_2:217346_AT peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133A:217346_AT peptidylprolyl isomerase A (cyclophilin A) hs
HU35KSUBA:RC_D51292_F_AT peptidylprolyl isomerase A-like hs
U133_X3P:HS.272279.0.S1_3P_AT peptidylprolyl isomerase A-like hs
HG-U133A_2:217346_AT peptidylprolyl isomerase A-like hs
HG-U133_PLUS_2:217346_AT peptidylprolyl isomerase A-like hs
HG-U133A:217346_AT peptidylprolyl isomerase A-like hs
HG-U133_PLUS_2:235741_AT Peptidylprolyl isomerase A (cyclophilin A) hs
HG-U133B:235741_AT Peptidylprolyl isomerase A (cyclophilin A) hs
HG-U95E:71892_AT Peptidylprolyl isomerase A (cyclophilin A) hs
HG-U95E:77025_AT Peptidylprolyl isomerase A (cyclophilin A) hs
U133_X3P:HS.143475.0.A1_3P_AT Peptidylprolyl isomerase A (cyclophilin A) hs
YEAST_2:1773181_AT Mitochondrial peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; involved in protein refolding after import into mitochondria Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6457 protein folding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA22075 Hypothetical protein Y49A3A.5 [Caenorhabditis elegans] ref|NP_506561.1| CYclophyliN family member (cyn-1) [Caenorhabditis elegans] sp|P52009|CYP1_CAEEL Peptidyl-prolyl cis-trans isomerase 1 (PPIase) (Rotamase) (Cyclophilin-1) gb|AAC47116.1| cyclophilin-1 1.0E-109
blast CAE60913 Hypothetical protein CBG04630 [Caenorhabditis briggsae] 1.0E-104
Protein Domains
Database ID Description E-Value
Pfam IPR002130 EMBL-EBI Peptidyl-prolyl cis-trans isomerase, cyclophilin type 1.0E-119
Sequence
Target Sequence 
>C. ELEGANS:193725_AT
ttcgattcgcctctcaaagaccgaaggtgtttttcgacgtgagtattggagaagaaccag
caggacgtgtcaccatggagttgttcaacgatgttgtcccaaaaacagcagagaatttcc
gcgcattgtgcaccggtgagaagggcgtcggagagcaaggagttgcacttcacttcaagg
gatcaaaattccacagaatcattccagagttcatgattcagggaggagatttcactcgcc
acaacggaactggtggtgaatcaatctacggaaataaattcaaggacgagaatttcgatc
ttaagcacaccggaccaggatgcctttcaatggccaacgctggaccaaacaccaacggat
ctcagtttttcatttgcacagtcgacactccatggcttgatggaggtcacgtcgttttcg
gacaagtcaccgacggcatgtctgttgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCGATTCGCCTCTCAAAGACCGAA 203 695 56 Antisense
GAAGAACCAGCAGGACGTGTCACCA 252 341 106 Antisense
GTGTCACCATGGAGTTGTTCAACGA 328 487 122 Antisense
AGCAGAGAATTTCCGCGCATTGTGC 290 77 162 Antisense
GGAGTTGCACTTCACTTCAAGGGAT 323 517 214 Antisense
CAGGGAGGAGATTTCACTCGCCACA 246 207 274 Antisense
AATTTCGATCTTAAGCACACCGGAC 141 175 346 Antisense
AGGATGCCTTTCAATGGCCAACGCT 368 57 372 Antisense
TTTTCATTTGCACAGTCGACACTCC 280 675 422 Antisense
GCTTGATGGAGGTCACGTCGTTTTC 389 307 450 Antisense
AAGTCACCGACGGCATGTCTGTTGT 453 155 479 Antisense
Sequence Source Affymetrix Proprietary Database