Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0003345

Physical Location & Seq

Genomic Coordinates Forward (+)

47023961 .. 47033158

Gene Structure 9198 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG275700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGTTCGATTCTGCATCTGCAACCGGAGAGCGTCTCTCTCGCCATTGCCGAACCGACTCACAAGCAAATTCGAAAGTCCAGAGAGCTTCATCTACGCCTGAAGAGTTGAGATCTTATCAAGGACGATCGATTCAGCTCTTGCAGGATCCGAAGCACCATACAAATTCAAAGGTTCTTTGCATCCGCATACCTGAGGAGGCAATTGATTTGTTTATGGTGGAGATTATGCACATGCGCCATAAATTTGATGCAGATACACGTTTGGTTGAGGGTCTTGTCCTTGATCATGGTTCTAGGCATCCTGATATGAAGCGACGAGCAGAGAATTGTTACATCTTGACAGCCAATGTATCTCTGGAGTACGAGAAAAGGGCAGGGAAATTAGTCACAGCTCTAGCAGCCTTATGTATAAGGGGGAAATACACAATGACATCTCCAAACAATAACTCAGCTCACAAACTTGAAAGACAAAATAAAATCTTCATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005832 GO:0006457 GO:0006458 GO:0008150 GO:0009987 GO:0010035 GO:0010038 GO:0010043 GO:0016020 GO:0032991 GO:0042221 GO:0044183 GO:0044424 GO:0044444 GO:0044445 GO:0044464 GO:0046686 GO:0050896 GO:0051082 GO:0061077 GO:0101031

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Cpn60_TCP1

Protein Analysis

162

Amino Acids

18.49

Weight (kDa)

9.3

Isoelectric Point (pI)

47.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Cpn60_TCP1	PF00118	63 - 124	1.5e-12	TCP-1/cpn60 chaperonin family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0003345)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02530 AT5G16070
fragaria_vesca	FvH4_1g11210
malus_domestica	MD09G1086000.v1.1 MD17G1104900.v1.1
prunus_persica	Prupe.3G238800_v2.0.a1
pyrus_communis	pycom09g01130 pycom17g07580
rosa_chinensis	RchiOBHm_Chr2g0098621 RchiOBHm_Chr2g0138531 RchiOBHm_Chr4g0407281 RchiOBHm_Chr4g0409191 RchiOBHm_Chr6g0270681
rosa_laevigata	RLG00000013776 RLG00000016815
rosa_multiflora	Rmu_co8186612.1_g000001 Rmu_sc0000474.1_g000003 Rmu_sc0002106.1_g000012 Rmu_sc0002776.1_g000012
rosa_roxburghii	Rroxscaffold_2G00143840 Rroxscaffold_7G00197690
rosa_rugosa	Rorug02G0073800 Rorug06G0055700
rosa_samantha	Rh2AG121400 Rh2BG125000 Rh2CG126000 Rh2DG127100 Rh5BG537700 Rh6AG175000 Rh6AG275700 Rh6CG174300 Rh6DG166700 Rh7CG256600
rosa_wichuraiana	Rw0G004140 Rw0G012590 Rw6G014910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	184
AclWI	GGATC	2 cut(s)	140, 153
AcsI	RAATTY	3 cut(s)	67, 163, 242
AcuI	CTGAAG	1 cut(s)	120
AfaI	GTAC	1 cut(s)	362
AflIII	ACRYGT	1 cut(s)	257
AgsI	TTSAA	2 cut(s)	168, 464
AluBI	AGCT	4 cut(s)	86, 136, 392, 452
AluI	AGCT	4 cut(s)	86, 136, 392, 452
Alw26I	GTCTC	1 cut(s)	38
AlwI	GGATC	2 cut(s)	140, 153
ApeKI	GCWGC	1 cut(s)	398
ApoI	RAATTY	3 cut(s)	67, 163, 242
AspLEI	GCGC	1 cut(s)	237
AsuII	TTCGAA	1 cut(s)	71
AxyI	CCTNAGG	1 cut(s)	192
BamHI	GGATCC	1 cut(s)	145
BbvI	GCAGC	1 cut(s)	410
BclI	TGATCA	1 cut(s)	283
BcoDI	GTCTC	1 cut(s)	38
BfaI	CTAG	2 cut(s)	294, 395
BglII	AGATCT	1 cut(s)	110
BisI	GCNGC	1 cut(s)	399
BlsI	GCNGC	1 cut(s)	400
BmiI	GGNNCC	1 cut(s)	147
BmsI	GCATC	4 cut(s)	23, 189, 238, 307
BplI	GAGNNNNNCTC	4 cut(s)	18, 50, 20, 52
BpmI	CTGGAG	1 cut(s)	377
Bpu14I	TTCGAA	1 cut(s)	71
Bsa29I	ATCGAT	1 cut(s)	128
BsaWI	WCCGGW	1 cut(s)	23
Bse21I	CCTNAGG	1 cut(s)	192
Bse3DI	GCAATG	1 cut(s)	43
BseCI	ATCGAT	1 cut(s)	128
BseGI	GGATG	2 cut(s)	180, 298
BseMI	GCAATG	1 cut(s)	43
BseMII	CTCAG	2 cut(s)	183, 462
BseRI	GAGGAG	1 cut(s)	209
BseXI	GCAGC	1 cut(s)	410
Bsh1285I	CGRYCG	1 cut(s)	128
BshVI	ATCGAT	1 cut(s)	128
BsiEI	CGRYCG	1 cut(s)	128
BsiSI	CCGG	1 cut(s)	24
BsmAI	GTCTC	1 cut(s)	38
BsmBI	CGTCTC	1 cut(s)	38
Bsp119I	TTCGAA	1 cut(s)	71
Bsp143I	GATC	4 cut(s)	110, 125, 145, 283
BspACI	CCGC	1 cut(s)	184
BspCNI	CTCAG	2 cut(s)	184, 461
BspDI	ATCGAT	1 cut(s)	128
BspLI	GGNNCC	1 cut(s)	147
BspPI	GGATC	2 cut(s)	140, 153
BspT104I	TTCGAA	1 cut(s)	71
BsrDI	GCAATG	1 cut(s)	43
BssMI	GATC	4 cut(s)	110, 125, 145, 283
Bst6I	CTCTTC	1 cut(s)	96
BstBI	TTCGAA	1 cut(s)	71
BstDEI	CTNAG	2 cut(s)	192, 448
BstF5I	GGATG	2 cut(s)	180, 298
BstHHI	GCGC	1 cut(s)	237
BstKTI	GATC	4 cut(s)	113, 128, 148, 286
BstMAI	GTCTC	1 cut(s)	38
BstMBI	GATC	4 cut(s)	110, 125, 145, 283
BstMCI	CGRYCG	1 cut(s)	128
BstMWI	GCNNNNNNNGC	1 cut(s)	398
BstNSI	RCATGY	1 cut(s)	235
BstV1I	GCAGC	1 cut(s)	410
BstX2I	RGATCY	2 cut(s)	110, 145
BstYI	RGATCY	2 cut(s)	110, 145
Bsu15I	ATCGAT	1 cut(s)	128
Bsu36I	CCTNAGG	1 cut(s)	192
BsuTUI	ATCGAT	1 cut(s)	128
BtsCI	GGATG	2 cut(s)	180, 298
CfoI	GCGC	1 cut(s)	237
ClaI	ATCGAT	1 cut(s)	128
CseI	GACGC	1 cut(s)	20
Csp6I	GTAC	1 cut(s)	361
CviAII	CATG	2 cut(s)	232, 287
CviJI	RGCY	6 cut(s)	86, 136, 344, 392, 401, 452
CviKI_1	RGCY	6 cut(s)	86, 136, 344, 392, 401, 452
CviQI	GTAC	1 cut(s)	361
DdeI	CTNAG	2 cut(s)	192, 448
DpnI	GATC	4 cut(s)	112, 127, 147, 285
DpnII	GATC	4 cut(s)	110, 125, 145, 283
Eam1104I	CTCTTC	1 cut(s)	96
EarI	CTCTTC	1 cut(s)	96
Eco57I	CTGAAG	1 cut(s)	120
Eco81I	CCTNAGG	1 cut(s)	192
Esp3I	CGTCTC	1 cut(s)	38
FaeI	CATG	2 cut(s)	235, 290
FatI	CATG	2 cut(s)	231, 286
FbaI	TGATCA	1 cut(s)	283
Fnu4HI	GCNGC	1 cut(s)	399
FokI	GGATG	2 cut(s)	167, 285
Fsp4HI	GCNGC	1 cut(s)	399
FspBI	CTAG	2 cut(s)	294, 395
GlaI	GCGC	1 cut(s)	236
GluI	GCNGC	1 cut(s)	399
GsuI	CTGGAG	1 cut(s)	377
HapII	CCGG	1 cut(s)	24
HgaI	GACGC	1 cut(s)	20
HhaI	GCGC	1 cut(s)	237
Hin1II	CATG	2 cut(s)	235, 290
Hin6I	GCGC	1 cut(s)	235
HinP1I	GCGC	1 cut(s)	235
HinfI	GANTC	3 cut(s)	8, 56, 130
HpaII	CCGG	1 cut(s)	24
Hpy188I	TCNGA	1 cut(s)	150
Hpy188III	TCNNGA	4 cut(s)	79, 302, 337, 356
Hpy99I	CGWCG	1 cut(s)	318
HpyCH4IV	ACGT	1 cut(s)	259
HpyCH4V	TGCA	6 cut(s)	14, 20, 142, 180, 229, 251
HpyF10VI	GCNNNNNNNGC	1 cut(s)	398
HpyF3I	CTNAG	2 cut(s)	192, 448
HpySE526I	ACGT	1 cut(s)	259
Hsp92II	CATG	2 cut(s)	235, 290
HspAI	GCGC	1 cut(s)	235
Ksp22I	TGATCA	1 cut(s)	283
Kzo9I	GATC	4 cut(s)	110, 125, 145, 283
LpnPI	CCDG	8 cut(s)	37, 92, 111, 128, 204, 315, 341, 360
Lsp1109I	GCAGC	1 cut(s)	410
LweI	GCATC	4 cut(s)	23, 189, 238, 307
MaeI	CTAG	2 cut(s)	294, 395
MaeII	ACGT	1 cut(s)	259
MaeIII	GTNAC	2 cut(s)	329, 385
MalI	GATC	4 cut(s)	112, 127, 147, 285
MboI	GATC	4 cut(s)	110, 125, 145, 283
MboII	GAAGA	2 cut(s)	113, 472
MfeI	CAATTG	1 cut(s)	201
MflI	RGATCY	2 cut(s)	110, 145
MluCI	AATT	6 cut(s)	67, 163, 201, 242, 325, 380
MlyI	GAGTC	1 cut(s)	50
MnlI	CCTC	3 cut(s)	187, 190, 262
MspI	CCGG	1 cut(s)	24
MunI	CAATTG	1 cut(s)	201
MwoI	GCNNNNNNNGC	1 cut(s)	398
NdeII	GATC	4 cut(s)	110, 125, 145, 283
NlaIII	CATG	2 cut(s)	235, 290
NlaIV	GGNNCC	1 cut(s)	147
NmuCI	GTSAC	1 cut(s)	385
NspI	RCATGY	1 cut(s)	235
NspV	TTCGAA	1 cut(s)	71
PcsI	WCGNNNNNNNCGW	1 cut(s)	46
PfeI	GAWTC	2 cut(s)	8, 130
PkrI	GCNGC	1 cut(s)	400
Ple19I	CGATCG	1 cut(s)	128
PleI	GAGTC	1 cut(s)	50
PpsI	GAGTC	1 cut(s)	50
PspN4I	GGNNCC	1 cut(s)	147
PsuI	RGATCY	2 cut(s)	110, 145
PvuI	CGATCG	1 cut(s)	128
RsaI	GTAC	1 cut(s)	362
RsaNI	GTAC	1 cut(s)	361
SatI	GCNGC	1 cut(s)	399
Sau3AI	GATC	4 cut(s)	110, 125, 145, 283
SchI	GAGTC	1 cut(s)	50
SetI	ASST	7 cut(s)	88, 138, 174, 193, 262, 394, 454
SfaNI	GCATC	4 cut(s)	23, 189, 238, 307
SfuI	TTCGAA	1 cut(s)	71
Sse9I	AATT	6 cut(s)	67, 163, 201, 242, 325, 380
SsiI	CCGC	1 cut(s)	184
SspMI	CTAG	2 cut(s)	294, 395
TaiI	ACGT	1 cut(s)	262
TaqI	TCGA	3 cut(s)	6, 71, 128
TasI	AATT	6 cut(s)	67, 163, 201, 242, 325, 380
TfiI	GAWTC	2 cut(s)	8, 130
TseFI	GTSAC	1 cut(s)	385
TseI	GCWGC	1 cut(s)	398
Tsp45I	GTSAC	1 cut(s)	385
TspDTI	ATGAA	3 cut(s)	78, 323, 472
XapI	RAATTY	3 cut(s)	67, 163, 242
XceI	RCATGY	1 cut(s)	235
XcmI	CCANNNNNNNNNTGG	1 cut(s)	352
XspI	CTAG	2 cut(s)	294, 395

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.