Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0010071

Physical Location & Seq

Genomic Coordinates Forward (+)

5951847 .. 5953280

Gene Structure 1434 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG068700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 852 bp

ATGGGGAGTAGAACCCTGTTTAAATGGTCGAAGCAAATTACTAATTCCCAAGTTGGGCAGCTGATAAAAGCTGAGAAGGACCTCCAGAAAGCGCTTATCATATTTGATTCCGCAACAGCTGAGTACACCAATGGTTTTCGGCATGATCATAGCACGTTTGGGATCATGATCTCTAGATTAGTCTCTGCAAACCAGTTCAGGTCTGCGGAGGCGCTGCTTGATAGGATGAAGGAGGAGAAGTGTAGTGTTACGGAAGATATATTCTTGTCTGTTTGTAGAGGGTATGCTAGAGTTCACAGGCCACTGGATTCTGTCAGGGTGTTCGACAAGATGGAGGACTTCCAGTGCAAACCAACTGAAAAGTCTTACATTACGATATTTGGGATTCTTGTTGAAGAAAACCAGTTAAAGGTTGCTTTCAGATTCTACAGGTATATGAGGAAAACGGGCATTCCAGCTAGTGTTGTTTCACTTAATATCCTGATTAAAGCGCTTTGTAAGAACAGCAGTTCCATGGATGCAGCTCTTCGGATACTTCGTGAGATGCCTGATCATGGGTGCACCCCTGATTCATATACATATGGTACTTTGATTAATGGATTGTGCAAGTTAGGAAAGATTGGTAAAGCAAAGGAGCTATTCTGTGAGATGGGAACAAAAGTGAAATGCATTTCTAAGAAAGGTGACCTGCACAAAGCTTATCGAATTGTTGATGAGATGGTGCTTGATGGATGCATTCCAGACTATGGAATTTGGAATGCTGTGGTCAAAGGGTTTTGGGATCGCACAAAGGTGCGTGAACCTGCCGAGTTGTTGCAGGCTGAGCTGATGAGCGAATTAGCTGATGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

283

Amino Acids

32.14

Weight (kDa)

8.75

Isoelectric Point (pI)

27.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	104 - 215	2.5e-08	Fungal tetratrico peptide repeats
PPR_2	PF13041	122 - 167	4.4e-09	PPR repeat family
PPR_2	PF13041	154 - 203	1.7e-16	PPR repeat family
PPR_1	PF12854	186 - 217	4.1e-13	PPR repeat
PPR	PF01535	192 - 217	1.4e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010071)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G46100
fragaria_vesca	FvH4_3g08550 FvH4_3g08550 FvH4_4g07830 FvH4_4g07830
malus_domestica	MD10G1288900.v1.1
prunus_persica	Prupe.4G052800_v2.0.a1 Prupe.4G052800_v2.0.a1 Prupe.4G052800_v2.0.a1 Prupe.4G052800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0009291
rosa_laevigata	RLG00000031645
rosa_multiflora	Rmu_sc0006233.1_g000011
rosa_roxburghii	Rroxscaffold_1G00066790 Rroxscaffold_1G00067490
rosa_rugosa	Rorug04G0441700
rosa_samantha	Rh5AG072000 Rh5BG068500 Rh5CG080900 Rh5DG068700
rosa_wichuraiana	Rw5G006730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	696, 811
AccB7I	CCANNNNNTGG	1 cut(s)	746
AciI	CCGC	2 cut(s)	111, 206
AclWI	GGATC	2 cut(s)	170, 789
AcsI	RAATTY	1 cut(s)	750
AfaI	GTAC	2 cut(s)	125, 586
AfeI	AGCGCT	2 cut(s)	93, 492
AfiI	CCNNNNNNNGG	4 cut(s)	54, 409, 554, 746
AgsI	TTSAA	1 cut(s)	395
AleI	CACNNNNGTG	1 cut(s)	791
AloI	GAACNNNNNNTCC	2 cut(s)	494, 526
AluBI	AGCT	9 cut(s)	61, 71, 119, 458, 524, 637, 698, 826, 842
AluI	AGCT	9 cut(s)	61, 71, 119, 458, 524, 637, 698, 826, 842
Alw21I	GWGCWC	1 cut(s)	563
Alw26I	GTCTC	1 cut(s)	187
Alw44I	GTGCAC	1 cut(s)	559
AlwI	GGATC	2 cut(s)	170, 789
Aor51HI	AGCGCT	2 cut(s)	93, 492
AoxI	GGCC	1 cut(s)	299
ApaLI	GTGCAC	1 cut(s)	559
ApeKI	GCWGC	3 cut(s)	58, 214, 521
ApoI	RAATTY	1 cut(s)	750
AseI	ATTAAT	1 cut(s)	594
AspLEI	GCGC	3 cut(s)	94, 214, 493
AspS9I	GGNCC	1 cut(s)	79
AsuHPI	GGTGA	1 cut(s)	695
AvaII	GGWCC	1 cut(s)	79
BaeGI	GKGCMC	1 cut(s)	563
Bbv12I	GWGCWC	1 cut(s)	563
BbvI	GCAGC	3 cut(s)	70, 201, 533
BccI	CCATC	4 cut(s)	325, 643, 712, 722
BciVI	GTATCC	1 cut(s)	525
BclI	TGATCA	2 cut(s)	145, 550
BcoDI	GTCTC	1 cut(s)	187
BfaI	CTAG	3 cut(s)	174, 288, 459
BfmI	CTRYAG	1 cut(s)	427
BfoI	RGCGCY	3 cut(s)	95, 215, 494
BfuAI	ACCTGC	2 cut(s)	696, 811
BfuI	GTATCC	1 cut(s)	525
BisI	GCNGC	3 cut(s)	59, 215, 522
BlpI	GCTNAGC	1 cut(s)	822
BlsI	GCNGC	3 cut(s)	60, 216, 523
Bme18I	GGWCC	1 cut(s)	79
BmgT120I	GGNCC	1 cut(s)	79
BmsI	GCATC	3 cut(s)	508, 534, 722
BpmI	CTGGAG	1 cut(s)	68
Bpu1102I	GCTNAGC	1 cut(s)	822
BsaBI	GATNNNNATC	1 cut(s)	167
BsaJI	CCNNGG	1 cut(s)	513
BsaXI	ACNNNNNCTCC	2 cut(s)	224, 254
Bsc4I	CCNNNNNNNGG	4 cut(s)	54, 409, 554, 746
Bse1I	ACTGG	4 cut(s)	193, 309, 343, 403
Bse8I	GATNNNNATC	1 cut(s)	167
BseDI	CCNNGG	1 cut(s)	513
BseGI	GGATG	3 cut(s)	231, 523, 737
BseJI	GATNNNNATC	1 cut(s)	167
BseLI	CCNNNNNNNGG	4 cut(s)	54, 409, 554, 746
BseMII	CTCAG	3 cut(s)	63, 111, 813
BseNI	ACTGG	4 cut(s)	193, 309, 343, 403
BseRI	GAGGAG	1 cut(s)	248
BseSI	GKGCMC	1 cut(s)	563
BseXI	GCAGC	3 cut(s)	70, 201, 533
BsgI	GTGCAG	1 cut(s)	674
BshFI	GGCC	1 cut(s)	301
BsiHKAI	GWGCWC	1 cut(s)	563
BslI	CCNNNNNNNGG	4 cut(s)	54, 409, 554, 746
BsmAI	GTCTC	1 cut(s)	187
BsmI	GAATGC	3 cut(s)	450, 735, 763
BsnI	GGCC	1 cut(s)	301
Bsp1286I	GDGCHC	1 cut(s)	563
Bsp143I	GATC	5 cut(s)	145, 162, 168, 550, 781
Bsp1720I	GCTNAGC	1 cut(s)	822
Bsp19I	CCATGG	1 cut(s)	513
BspACI	CCGC	2 cut(s)	111, 206
BspANI	GGCC	1 cut(s)	301
BspCNI	CTCAG	3 cut(s)	64, 112, 814
BspHI	TCATGA	1 cut(s)	165
BspMI	ACCTGC	2 cut(s)	696, 811
BspPI	GGATC	2 cut(s)	170, 789
BspQI	GCTCTTC	1 cut(s)	531
BsrI	ACTGG	4 cut(s)	193, 309, 343, 403
BssECI	CCNNGG	1 cut(s)	513
BssMI	GATC	5 cut(s)	145, 162, 168, 550, 781
BssT1I	CCWWGG	1 cut(s)	513
Bst6I	CTCTTC	1 cut(s)	531
BstC8I	GCNNGC	1 cut(s)	819
BstDEI	CTNAG	4 cut(s)	72, 120, 675, 822
BstDSI	CCRYGG	1 cut(s)	513
BstEII	GGTNACC	1 cut(s)	683
BstF5I	GGATG	3 cut(s)	231, 523, 737
BstH2I	RGCGCY	3 cut(s)	95, 215, 494
BstHHI	GCGC	3 cut(s)	94, 214, 493
BstKTI	GATC	5 cut(s)	148, 165, 171, 553, 784
BstMAI	GTCTC	1 cut(s)	187
BstMBI	GATC	5 cut(s)	145, 162, 168, 550, 781
BstMWI	GCNNNNNNNGC	1 cut(s)	823
BstPI	GGTNACC	1 cut(s)	683
BstSFI	CTRYAG	1 cut(s)	427
BstSLI	GKGCMC	1 cut(s)	563
BstV1I	GCAGC	3 cut(s)	70, 201, 533
BsuI	GTATCC	1 cut(s)	525
BsuRI	GGCC	1 cut(s)	301
BtgI	CCRYGG	1 cut(s)	513
BtsCI	GGATG	3 cut(s)	231, 523, 737
BtsIMutI	CAGTG	2 cut(s)	302, 350
BveI	ACCTGC	2 cut(s)	696, 811
Cac8I	GCNNGC	1 cut(s)	819
CciI	TCATGA	1 cut(s)	165
CfoI	GCGC	3 cut(s)	94, 214, 493
Cfr13I	GGNCC	1 cut(s)	79
Csp6I	GTAC	2 cut(s)	124, 585
CviAII	CATG	4 cut(s)	143, 166, 514, 554
CviQI	GTAC	2 cut(s)	124, 585
DdeI	CTNAG	4 cut(s)	72, 120, 675, 822
DpnI	GATC	5 cut(s)	147, 164, 170, 552, 783
DpnII	GATC	5 cut(s)	145, 162, 168, 550, 781
DraI	TTTAAA	1 cut(s)	22
Eam1104I	CTCTTC	1 cut(s)	531
EarI	CTCTTC	1 cut(s)	531
Eco130I	CCWWGG	1 cut(s)	513
Eco47I	GGWCC	1 cut(s)	79
Eco47III	AGCGCT	2 cut(s)	93, 492
Eco91I	GGTNACC	1 cut(s)	683
EcoO109I	RGGNCCY	1 cut(s)	79
EcoO65I	GGTNACC	1 cut(s)	683
EcoT14I	CCWWGG	1 cut(s)	513
EcoT22I	ATGCAT	2 cut(s)	671, 737
ErhI	CCWWGG	1 cut(s)	513
FaeI	CATG	4 cut(s)	146, 169, 517, 557
FatI	CATG	4 cut(s)	142, 165, 513, 553
FauNDI	CATATG	1 cut(s)	580
FbaI	TGATCA	2 cut(s)	145, 550
Fnu4HI	GCNGC	3 cut(s)	59, 215, 522
FokI	GGATG	3 cut(s)	238, 530, 744
Fsp4HI	GCNGC	3 cut(s)	59, 215, 522
FspBI	CTAG	3 cut(s)	174, 288, 459
GlaI	GCGC	3 cut(s)	93, 213, 492
GluI	GCNGC	3 cut(s)	59, 215, 522
GsuI	CTGGAG	1 cut(s)	68
HaeII	RGCGCY	3 cut(s)	95, 215, 494
HaeIII	GGCC	1 cut(s)	301
HhaI	GCGC	3 cut(s)	94, 214, 493
Hin1II	CATG	4 cut(s)	146, 169, 517, 557
Hin6I	GCGC	3 cut(s)	92, 212, 491
HinP1I	GCGC	3 cut(s)	92, 212, 491
HindIII	AAGCTT	1 cut(s)	696
HinfI	GANTC	5 cut(s)	107, 308, 385, 423, 569
HphI	GGTGA	1 cut(s)	695
Hpy166II	GTNNAC	4 cut(s)	126, 295, 561, 800
Hpy188I	TCNGA	2 cut(s)	422, 531
Hpy188III	TCNNGA	6 cut(s)	85, 166, 174, 481, 539, 740
Hpy8I	GTNNAC	4 cut(s)	126, 295, 561, 800
HpyAV	CCTTC	2 cut(s)	70, 223
HpyCH4IV	ACGT	1 cut(s)	155
HpyCH4V	TGCA	9 cut(s)	188, 348, 521, 561, 606, 669, 691, 735, 817
HpyF10VI	GCNNNNNNNGC	1 cut(s)	823
HpyF3I	CTNAG	4 cut(s)	72, 120, 675, 822
HpySE526I	ACGT	1 cut(s)	155
Hsp92II	CATG	4 cut(s)	146, 169, 517, 557
HspAI	GCGC	3 cut(s)	92, 212, 491
Ksp22I	TGATCA	2 cut(s)	145, 550
Kzo9I	GATC	5 cut(s)	145, 162, 168, 550, 781
LguI	GCTCTTC	1 cut(s)	531
LmnI	GCTCC	1 cut(s)	634
Lsp1109I	GCAGC	3 cut(s)	70, 201, 533
LweI	GCATC	3 cut(s)	508, 534, 722
MaeI	CTAG	3 cut(s)	174, 288, 459
MaeII	ACGT	1 cut(s)	155
MaeIII	GTNAC	2 cut(s)	247, 683
MalI	GATC	5 cut(s)	147, 164, 170, 552, 783
MboI	GATC	5 cut(s)	145, 162, 168, 550, 781
MboII	GAAGA	3 cut(s)	266, 407, 518
MhlI	GDGCHC	1 cut(s)	563
MluCI	AATT	5 cut(s)	36, 43, 705, 750, 836
MnlI	CCTC	6 cut(s)	92, 202, 226, 272, 328, 432
Mph1103I	ATGCAT	2 cut(s)	671, 737
MseI	TTAA	5 cut(s)	21, 407, 474, 486, 594
MslI	CAYNNNNRTG	1 cut(s)	791
MspA1I	CMGCKG	2 cut(s)	61, 119
Mva1269I	GAATGC	3 cut(s)	450, 735, 763
MwoI	GCNNNNNNNGC	1 cut(s)	823
NcoI	CCATGG	1 cut(s)	513
NdeI	CATATG	1 cut(s)	580
NdeII	GATC	5 cut(s)	145, 162, 168, 550, 781
NlaIII	CATG	4 cut(s)	146, 169, 517, 557
NmeAIII	GCCGAG	1 cut(s)	832
NmuCI	GTSAC	1 cut(s)	683
NsiI	ATGCAT	2 cut(s)	671, 737
OliI	CACNNNNGTG	1 cut(s)	791
PagI	TCATGA	1 cut(s)	165
PciSI	GCTCTTC	1 cut(s)	531
PcsI	WCGNNNNNNNCGW	1 cut(s)	535
PctI	GAATGC	3 cut(s)	450, 735, 763
PfeI	GAWTC	5 cut(s)	107, 308, 385, 423, 569
PflMI	CCANNNNNTGG	1 cut(s)	746
PkrI	GCNGC	3 cut(s)	60, 216, 523
PpuMI	RGGWCCY	1 cut(s)	79
PshBI	ATTAAT	1 cut(s)	594
Psp5II	RGGWCCY	1 cut(s)	79
PspEI	GGTNACC	1 cut(s)	683
PspPI	GGNCC	1 cut(s)	79
PspPPI	RGGWCCY	1 cut(s)	79
PvuII	CAGCTG	2 cut(s)	61, 119
RsaI	GTAC	2 cut(s)	125, 586
RsaNI	GTAC	2 cut(s)	124, 585
RseI	CAYNNNNRTG	1 cut(s)	791
SapI	GCTCTTC	1 cut(s)	531
SaqAI	TTAA	5 cut(s)	21, 407, 474, 486, 594
SatI	GCNGC	3 cut(s)	59, 215, 522
Sau3AI	GATC	5 cut(s)	145, 162, 168, 550, 781
Sau96I	GGNCC	1 cut(s)	79
SduI	GDGCHC	1 cut(s)	563
SfaNI	GCATC	3 cut(s)	508, 534, 722
SfcI	CTRYAG	1 cut(s)	427
SinI	GGWCC	1 cut(s)	79
SmiMI	CAYNNNNRTG	1 cut(s)	791
Sse9I	AATT	5 cut(s)	36, 43, 705, 750, 836
SsiI	CCGC	2 cut(s)	111, 206
SspMI	CTAG	3 cut(s)	174, 288, 459
StyI	CCWWGG	1 cut(s)	513
TaiI	ACGT	1 cut(s)	158
TaqI	TCGA	3 cut(s)	29, 324, 703
TasI	AATT	5 cut(s)	36, 43, 705, 750, 836
TatI	WGTACW	1 cut(s)	123
TfiI	GAWTC	5 cut(s)	107, 308, 385, 423, 569
Tru1I	TTAA	5 cut(s)	21, 407, 474, 486, 594
Tru9I	TTAA	5 cut(s)	21, 407, 474, 486, 594
TscAI	CASTG	2 cut(s)	309, 350
TseFI	GTSAC	1 cut(s)	683
TseI	GCWGC	3 cut(s)	58, 214, 521
Tsp45I	GTSAC	1 cut(s)	683
TspDTI	ATGAA	2 cut(s)	242, 561
TspGWI	ACGGA	1 cut(s)	266
TspRI	CASTG	2 cut(s)	309, 350
Van91I	CCANNNNNTGG	1 cut(s)	746
VneI	GTGCAC	1 cut(s)	559
VpaK11BI	GGWCC	1 cut(s)	79
VspI	ATTAAT	1 cut(s)	594
XapI	RAATTY	1 cut(s)	750
XbaI	TCTAGA	1 cut(s)	173
XspI	CTAG	3 cut(s)	174, 288, 459
Zsp2I	ATGCAT	2 cut(s)	671, 737

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