Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0013715

Physical Location & Seq

Genomic Coordinates Reverse (-)

30981995 .. 30986316

Gene Structure 4322 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG296700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGCCTTCTCTTCTCTGGCAGAAATTGCCGTGTCCTAAATACAACCCTACTTTTGGTCAAATGCAAATAAGGGCACTTTTCTATTCTCATTGCAGAGCATTGGTATCCAAGATTATGAACTTCCTGCAACGAAGCAATGGCTCCTGGGAGTTTTGCAGCTTGAATCTTCTATTGCATATTATATTGAAGTTCAAACCAGATGTTGTGATTACAGAAAAGGGGCTCAGTGACCTGGCATGCCATTATCTGAGCAAGGCCGGTGTTACTGCAATTAGGAGGTTGAGAAAAACAGATAATAACAGAATTGCCAAGGCTTGTGGGGCAGTTATTGTCAACAGACCCGATGAACTGCAAGAATCTGATATTGGTATTGGGGCTGGATTATTTGAGGTTAAAAAAATTGGAGATGAGTTCTTTACATTCATCGTTGATTGCAAAGATCCCAAGGCATGTACAGTACTCTTAAGAGGTCCGAGTAAGGATATGTTAAACGAAGTGGAAAGAAATTTACAGGATGCCATGGCAGTAGCAAGAAATATCCTGAAGAATCCAAAACTTGTTCCTGGTGGTGGTGCTGCAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000902 GO:0001101 GO:0003674 GO:0003824 GO:0004672 GO:0004674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005832 GO:0005975 GO:0006457 GO:0006458 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0006884 GO:0007154 GO:0007165 GO:0007166 GO:0008150 GO:0008152 GO:0008361 GO:0009311 GO:0009653 GO:0009719 GO:0009725 GO:0009751 GO:0009826 GO:0009987 GO:0009992 GO:0010033 GO:0014070 GO:0016043 GO:0016049 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019538 GO:0019725 GO:0023052 GO:0030104 GO:0032502 GO:0032535 GO:0032989 GO:0032991 GO:0036211 GO:0040007 GO:0042221 GO:0042493 GO:0042592 GO:0043170 GO:0043412 GO:0044183 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044445 GO:0044464 GO:0046677 GO:0048589 GO:0048856 GO:0048869 GO:0048878 GO:0050789 GO:0050794 GO:0050896 GO:0051082 GO:0051716 GO:0055082 GO:0060560 GO:0061077 GO:0065007 GO:0065008 GO:0071704 GO:0071840 GO:0090066 GO:0101031 GO:0140096 GO:1901564 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Cpn60_TCP1

Protein Analysis

194

Amino Acids

21.62

Weight (kDa)

9.21

Isoelectric Point (pI)

48.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Cpn60_TCP1	PF00118	60 - 194	9e-41	TCP-1/cpn60 chaperonin family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Image

Tree File

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Orthologous Genes (Group: OG0013715)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g23851
rosa_chinensis	RchiOBHm_Chr1g0315431 RchiOBHm_Chr1g0324411 RchiOBHm_Chr1g0369591 RchiOBHm_Chr1g0381171 RchiOBHm_Chr2g0121141 RchiOBHm_Chr4g0394831 RchiOBHm_Chr4g0410241
rosa_multiflora	Rmu_sc0002669.1_g000014 Rmu_sc0008148.1_g000053 Rmu_sc0015525.1_g000009
rosa_roxburghii	Rroxscaffold_4G00287500
rosa_samantha	Rh2CG617500 Rh2DG665300 Rh3DG296700 Rh5AG529800 Rh5CG208600
rosa_wichuraiana	Rw2G052700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	434
AcsI	RAATTY	1 cut(s)	505
AcuI	CTGAAG	1 cut(s)	563
AfaI	GTAC	2 cut(s)	454, 459
AfiI	CCNNNNNNNGG	2 cut(s)	53, 569
AflII	CTTAAG	1 cut(s)	463
AgsI	TTSAA	3 cut(s)	163, 187, 193
AjnI	CCWGG	3 cut(s)	143, 231, 562
AjuI	GAANNNNNNNTTGG	2 cut(s)	348, 380
AluBI	AGCT	1 cut(s)	159
AluI	AGCT	1 cut(s)	159
AlwI	GGATC	1 cut(s)	434
AoxI	GGCC	1 cut(s)	255
ApeKI	GCWGC	2 cut(s)	156, 575
ApoI	RAATTY	1 cut(s)	505
AspS9I	GGNCC	1 cut(s)	470
AvaII	GGWCC	1 cut(s)	470
BaeGI	GKGCMC	1 cut(s)	76
BanII	GRGCYC	1 cut(s)	225
BbvI	GCAGC	2 cut(s)	168, 562
BceAI	ACGGC	1 cut(s)	13
BciT130I	CCWGG	3 cut(s)	145, 233, 564
BciVI	GTATCC	1 cut(s)	115
BfmI	CTRYAG	1 cut(s)	576
BfrI	CTTAAG	1 cut(s)	463
BfuI	GTATCC	1 cut(s)	115
BisI	GCNGC	2 cut(s)	157, 576
BlsI	GCNGC	2 cut(s)	158, 577
BmcAI	AGTACT	1 cut(s)	459
Bme1390I	CCNGG	3 cut(s)	145, 233, 564
Bme18I	GGWCC	1 cut(s)	470
BmgT120I	GGNCC	1 cut(s)	470
BmiI	GGNNCC	1 cut(s)	142
BmrFI	CCNGG	3 cut(s)	145, 233, 564
BmsI	GCATC	1 cut(s)	505
BsaJI	CCNNGG	4 cut(s)	144, 309, 444, 519
Bsc4I	CCNNNNNNNGG	2 cut(s)	53, 569
Bse118I	RCCGGY	1 cut(s)	257
Bse3DI	GCAATG	2 cut(s)	88, 142
BseBI	CCWGG	3 cut(s)	145, 233, 564
BseDI	CCNNGG	4 cut(s)	144, 309, 444, 519
BseGI	GGATG	1 cut(s)	520
BseLI	CCNNNNNNNGG	2 cut(s)	53, 569
BseMI	GCAATG	2 cut(s)	88, 142
BseMII	CTCAG	2 cut(s)	238, 239
BseSI	GKGCMC	1 cut(s)	76
BseXI	GCAGC	2 cut(s)	168, 562
BshFI	GGCC	1 cut(s)	257
BsiSI	CCGG	1 cut(s)	258
BslI	CCNNNNNNNGG	2 cut(s)	53, 569
BsnI	GGCC	1 cut(s)	257
Bsp1286I	GDGCHC	2 cut(s)	76, 225
Bsp1407I	TGTACA	1 cut(s)	452
Bsp143I	GATC	1 cut(s)	439
Bsp19I	CCATGG	1 cut(s)	519
BspANI	GGCC	1 cut(s)	257
BspCNI	CTCAG	2 cut(s)	237, 240
BspLI	GGNNCC	1 cut(s)	142
BspMAI	CTGCAG	1 cut(s)	580
BspPI	GGATC	1 cut(s)	434
BspTI	CTTAAG	1 cut(s)	463
BsrDI	GCAATG	2 cut(s)	88, 142
BsrFI	RCCGGY	1 cut(s)	257
BsrGI	TGTACA	1 cut(s)	452
BssAI	RCCGGY	1 cut(s)	257
BssECI	CCNNGG	4 cut(s)	144, 309, 444, 519
BssMI	GATC	1 cut(s)	439
BssT1I	CCWWGG	3 cut(s)	309, 444, 519
Bst2UI	CCWGG	3 cut(s)	145, 233, 564
Bst4CI	ACNGT	1 cut(s)	457
Bst6I	CTCTTC	1 cut(s)	15
BstAFI	CTTAAG	1 cut(s)	463
BstAPI	GCANNNNNTGC	1 cut(s)	25
BstAUI	TGTACA	1 cut(s)	452
BstC8I	GCNNGC	1 cut(s)	238
BstDEI	CTNAG	2 cut(s)	224, 248
BstDSI	CCRYGG	1 cut(s)	519
BstF5I	GGATG	1 cut(s)	520
BstKTI	GATC	1 cut(s)	442
BstMBI	GATC	1 cut(s)	439
BstMWI	GCNNNNNNNGC	2 cut(s)	25, 320
BstNI	CCWGG	3 cut(s)	145, 233, 564
BstNSI	RCATGY	2 cut(s)	240, 453
BstSCI	CCNGG	3 cut(s)	143, 231, 562
BstSFI	CTRYAG	1 cut(s)	576
BstSLI	GKGCMC	1 cut(s)	76
BstV1I	GCAGC	2 cut(s)	168, 562
BstX2I	RGATCY	1 cut(s)	439
BstYI	RGATCY	1 cut(s)	439
BsuI	GTATCC	1 cut(s)	115
BsuRI	GGCC	1 cut(s)	257
BtgI	CCRYGG	1 cut(s)	519
BtsCI	GGATG	1 cut(s)	520
BtsIMutI	CAGTG	1 cut(s)	232
Cac8I	GCNNGC	1 cut(s)	238
Cfr10I	RCCGGY	1 cut(s)	257
Cfr13I	GGNCC	1 cut(s)	470
Csp6I	GTAC	2 cut(s)	453, 458
CspCI	CAANNNNNGTGG	2 cut(s)	298, 333
CviAII	CATG	3 cut(s)	237, 450, 520
CviJI	RGCY	6 cut(s)	141, 159, 223, 257, 314, 377
CviKI_1	RGCY	6 cut(s)	141, 159, 223, 257, 314, 377
CviQI	GTAC	2 cut(s)	453, 458
DdeI	CTNAG	2 cut(s)	224, 248
DpnI	GATC	1 cut(s)	441
DpnII	GATC	1 cut(s)	439
Eam1104I	CTCTTC	1 cut(s)	15
EarI	CTCTTC	1 cut(s)	15
Eco130I	CCWWGG	3 cut(s)	309, 444, 519
Eco24I	GRGCYC	1 cut(s)	225
Eco47I	GGWCC	1 cut(s)	470
Eco57I	CTGAAG	1 cut(s)	563
EcoRII	CCWGG	3 cut(s)	143, 231, 562
EcoT14I	CCWWGG	3 cut(s)	309, 444, 519
EcoT38I	GRGCYC	1 cut(s)	225
ErhI	CCWWGG	3 cut(s)	309, 444, 519
FaeI	CATG	3 cut(s)	240, 453, 523
FaiI	YATR	7 cut(s)	116, 177, 182, 238, 451, 485, 521
FatI	CATG	3 cut(s)	236, 449, 519
Fnu4HI	GCNGC	2 cut(s)	157, 576
FokI	GGATG	1 cut(s)	527
FriOI	GRGCYC	1 cut(s)	225
Fsp4HI	GCNGC	2 cut(s)	157, 576
GluI	GCNGC	2 cut(s)	157, 576
HaeIII	GGCC	1 cut(s)	257
HapII	CCGG	1 cut(s)	258
Hin1II	CATG	3 cut(s)	240, 453, 523
HincII	GTYRAC	1 cut(s)	334
HindII	GTYRAC	1 cut(s)	334
HinfI	GANTC	3 cut(s)	163, 356, 547
HpaII	CCGG	1 cut(s)	258
Hpy166II	GTNNAC	1 cut(s)	334
Hpy188I	TCNGA	3 cut(s)	249, 361, 474
Hpy188III	TCNNGA	1 cut(s)	541
Hpy8I	GTNNAC	1 cut(s)	334
HpyAV	CCTTC	1 cut(s)	15
HpyCH4III	ACNGT	1 cut(s)	457
HpyCH4V	TGCA	9 cut(s)	64, 93, 127, 156, 175, 269, 352, 435, 578
HpyF10VI	GCNNNNNNNGC	2 cut(s)	25, 320
HpyF3I	CTNAG	2 cut(s)	224, 248
Hsp92II	CATG	3 cut(s)	240, 453, 523
Kzo9I	GATC	1 cut(s)	439
LmnI	GCTCC	1 cut(s)	146
Lsp1109I	GCAGC	2 cut(s)	168, 562
LweI	GCATC	1 cut(s)	505
MaeIII	GTNAC	2 cut(s)	227, 262
MalI	GATC	1 cut(s)	441
MboI	GATC	1 cut(s)	439
MboII	GAAGA	2 cut(s)	158, 556
MflI	RGATCY	1 cut(s)	439
MhlI	GDGCHC	2 cut(s)	76, 225
MluCI	AATT	5 cut(s)	23, 270, 303, 399, 505
MnlI	CCTC	3 cut(s)	270, 382, 461
MseI	TTAA	3 cut(s)	393, 464, 488
MspCI	CTTAAG	1 cut(s)	463
MspI	CCGG	1 cut(s)	258
MspR9I	CCNGG	3 cut(s)	145, 233, 564
MvaI	CCWGG	3 cut(s)	145, 233, 564
MwoI	GCNNNNNNNGC	2 cut(s)	25, 320
NcoI	CCATGG	1 cut(s)	519
NdeII	GATC	1 cut(s)	439
NlaIII	CATG	3 cut(s)	240, 453, 523
NlaIV	GGNNCC	1 cut(s)	142
NmuCI	GTSAC	1 cut(s)	227
NspI	RCATGY	2 cut(s)	240, 453
PaeI	GCATGC	1 cut(s)	240
PfeI	GAWTC	3 cut(s)	163, 356, 547
PkrI	GCNGC	2 cut(s)	158, 577
Psp6I	CCWGG	3 cut(s)	143, 231, 562
PspGI	CCWGG	3 cut(s)	143, 231, 562
PspN4I	GGNNCC	1 cut(s)	142
PspPI	GGNCC	1 cut(s)	470
PstI	CTGCAG	1 cut(s)	580
PsuI	RGATCY	1 cut(s)	439
RsaI	GTAC	2 cut(s)	454, 459
RsaNI	GTAC	2 cut(s)	453, 458
SaqAI	TTAA	3 cut(s)	393, 464, 488
SatI	GCNGC	2 cut(s)	157, 576
Sau3AI	GATC	1 cut(s)	439
Sau96I	GGNCC	1 cut(s)	470
ScaI	AGTACT	1 cut(s)	459
ScrFI	CCNGG	3 cut(s)	145, 233, 564
SduI	GDGCHC	2 cut(s)	76, 225
SetI	ASST	5 cut(s)	161, 234, 281, 393, 472
SfaNI	GCATC	1 cut(s)	505
SfcI	CTRYAG	1 cut(s)	576
SinI	GGWCC	1 cut(s)	470
SmlI	CTYRAG	1 cut(s)	463
SmoI	CTYRAG	1 cut(s)	463
SphI	GCATGC	1 cut(s)	240
Sse9I	AATT	5 cut(s)	23, 270, 303, 399, 505
StyD4I	CCNGG	3 cut(s)	143, 231, 562
StyI	CCWWGG	3 cut(s)	309, 444, 519
TaaI	ACNGT	1 cut(s)	457
TasI	AATT	5 cut(s)	23, 270, 303, 399, 505
TatI	WGTACW	2 cut(s)	452, 457
TfiI	GAWTC	3 cut(s)	163, 356, 547
Tru1I	TTAA	3 cut(s)	393, 464, 488
Tru9I	TTAA	3 cut(s)	393, 464, 488
TscAI	CASTG	1 cut(s)	232
TseFI	GTSAC	1 cut(s)	227
TseI	GCWGC	2 cut(s)	156, 575
Tsp45I	GTSAC	1 cut(s)	227
TspDTI	ATGAA	3 cut(s)	131, 360, 412
TspRI	CASTG	1 cut(s)	232
Vha464I	CTTAAG	1 cut(s)	463
VpaK11BI	GGWCC	1 cut(s)	470
XapI	RAATTY	1 cut(s)	505
XceI	RCATGY	2 cut(s)	240, 453
ZrmI	AGTACT	1 cut(s)	459

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