Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0010070

Physical Location & Seq

Genomic Coordinates Reverse (-)

29569514 .. 29573088

Gene Structure 3575 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG171400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGGTCGCCCATAATGAGTTTGAGTTATTAGATTCAGACTATGCAGTCCGCATTGTCTTGATGACAAAAGTCTTTGGTATTGATGCTGCAGAACGGTACTTTGAAGGTCTACCTCCTACTGCAAAAACTAGTGAGACATATACTGCTCTCCTCCACTGCTATGCTGCAGCAAAATTGACTGAAAAGGCTGAGGACCTCTATGAGGGAATAAAGAATTCGAAGCTGTCCCTTAGTGCCCTTACTTACAATGAGATGATGACTATGTACATGTCAGTGGGACAAGTGGAGAAGGTCCCTTTAGTTGTTGAAGAACTAAAACGGCAGAAGGTTGCCCCTGATATCTTCACTTACAATCTTTGGATAAGTTCATGTGCTGCAATGCTAAAGATAGATCAAGTTAAATGGATATTAGATGAAATGAGAGCTGATCCTGGTTTTGCTGAAGGCTGGGAAACATACATTAACCTGGCCAATCTATATATCAATATTGGTCATCTGGTGAATGTAGAATTCAACTCTCTGGTTGAAACTGAGAACGGAATCACACAAAGCGAATGGATTACGTACGACTTCCTCATTATTCTGCATGCTGGTTTAGGAAACAAAGGTAGAATCGATCAGATATGGAAATCCTTGTTAATGACAAAACAAAAGATGACAAGTAGAAATTATATTTGCATCATTTCCTCATATATAATGCTTGGGCAGCTGAAAGAAGTGGGAGAAGTTGTTGATCAGTGGAAGCTTTCAACCACTGCAGATTTTGTTGTTTCTGCCTGTAGGATGGTTTGGAATGCATTCAGAGACATCGGGTTGACTGAAAAAGCCCACGACTTCCAAACACTTCTGATTCAGAAGAACTGCGATTCTTCAATTTCGTTAGAGTAG

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_2 PPR_3

Protein Analysis

295

Amino Acids

33.58

Weight (kDa)

5.03

Isoelectric Point (pI)

30.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	70 - 124	6.3e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	80 - 125	1.6e-08	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0010070)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09450
fragaria_vesca	FvH4_2g11810 FvH4_2g11810
malus_domestica	MD05G1046600.v1.1 MD10G1053300.v1.1
prunus_persica	Prupe.8G066700_v2.0.a1 Prupe.8G066700_v2.0.a1 Prupe.8G066700_v2.0.a1
pyrus_communis	pycom05g03840 pycom10g04040
rosa_chinensis	RchiOBHm_Chr6g0271371
rosa_laevigata	RLG00000013730
rosa_multiflora	Rmu_sc0004866.1_g000034
rosa_roxburghii	Rroxscaffold_7G00197060
rosa_rugosa	Rorug06G0060700 Rorug06G0060700
rosa_samantha	Rh6AG179800 Rh6BG183100 Rh6CG179700 Rh6DG171400
rosa_wichuraiana	Rw6G015450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	44
AccI	GTMKAC	1 cut(s)	109
AciI	CCGC	1 cut(s)	49
AclWI	GGATC	1 cut(s)	422
AcoI	YGGCCR	1 cut(s)	468
AcsI	RAATTY	2 cut(s)	214, 509
AcuI	CTGAAG	1 cut(s)	462
AfaI	GTAC	3 cut(s)	98, 266, 566
AfiI	CCNNNNNNNGG	1 cut(s)	202
AflIII	ACRYGT	1 cut(s)	267
AgsI	TTSAA	6 cut(s)	104, 308, 514, 527, 750, 873
AhlI	ACTAGT	1 cut(s)	128
AjnI	CCWGG	2 cut(s)	430, 465
AluBI	AGCT	4 cut(s)	223, 425, 709, 745
AluI	AGCT	4 cut(s)	223, 425, 709, 745
Alw26I	GTCTC	2 cut(s)	128, 798
AlwI	GGATC	1 cut(s)	422
AoxI	GGCC	1 cut(s)	468
ApeKI	GCWGC	5 cut(s)	86, 164, 167, 374, 706
ApoI	RAATTY	2 cut(s)	214, 509
Asp700I	GAANNNNTTC	1 cut(s)	797
AspS9I	GGNCC	2 cut(s)	193, 292
AsuHPI	GGTGA	1 cut(s)	511
AsuII	TTCGAA	1 cut(s)	218
AvaII	GGWCC	2 cut(s)	193, 292
BaeGI	GKGCMC	1 cut(s)	238
BalI	TGGCCA	1 cut(s)	470
BbvCI	CCTCAGC	1 cut(s)	189
BbvI	GCAGC	5 cut(s)	73, 151, 179, 361, 718
BccI	CCATC	1 cut(s)	778
BceAI	ACGGC	1 cut(s)	335
BciT130I	CCWGG	2 cut(s)	432, 467
BclI	TGATCA	1 cut(s)	733
BcoDI	GTCTC	2 cut(s)	128, 798
BcuI	ACTAGT	1 cut(s)	128
BfaI	CTAG	1 cut(s)	129
BfmI	CTRYAG	4 cut(s)	87, 165, 756, 778
BisI	GCNGC	5 cut(s)	87, 165, 168, 375, 707
BlsI	GCNGC	5 cut(s)	88, 166, 169, 376, 708
Bme1390I	CCNGG	2 cut(s)	432, 467
Bme18I	GGWCC	2 cut(s)	193, 292
BmgT120I	GGNCC	2 cut(s)	193, 292
BmiI	GGNNCC	1 cut(s)	294
BmrFI	CCNGG	2 cut(s)	432, 467
BmsI	GCATC	2 cut(s)	73, 687
BoxI	GACNNNNGTC	1 cut(s)	68
Bpu10I	CCTNAGC	1 cut(s)	189
Bpu14I	TTCGAA	1 cut(s)	218
Bsa29I	ATCGAT	1 cut(s)	615
BsaAI	YACGTR	1 cut(s)	564
BsaXI	ACNNNNNCTCC	2 cut(s)	714, 744
Bsc4I	CCNNNNNNNGG	1 cut(s)	202
Bse3DI	GCAATG	1 cut(s)	384
BseBI	CCWGG	2 cut(s)	432, 467
BseCI	ATCGAT	1 cut(s)	615
BseGI	GGATG	1 cut(s)	789
BseLI	CCNNNNNNNGG	1 cut(s)	202
BseMI	GCAATG	1 cut(s)	384
BseMII	CTCAG	2 cut(s)	180, 522
BseRI	GAGGAG	1 cut(s)	140
BseSI	GKGCMC	1 cut(s)	238
BseXI	GCAGC	5 cut(s)	73, 151, 179, 361, 718
BseYI	CCCAGC	1 cut(s)	447
BshFI	GGCC	1 cut(s)	470
BshVI	ATCGAT	1 cut(s)	615
BsiWI	CGTACG	1 cut(s)	564
BslFI	GGGAC	3 cut(s)	211, 278, 291
BslI	CCNNNNNNNGG	1 cut(s)	202
BsmAI	GTCTC	2 cut(s)	128, 798
BsmFI	GGGAC	3 cut(s)	211, 278, 291
BsmI	GAATGC	2 cut(s)	797, 799
BsnI	GGCC	1 cut(s)	470
Bsp119I	TTCGAA	1 cut(s)	218
Bsp1286I	GDGCHC	1 cut(s)	238
Bsp1407I	TGTACA	1 cut(s)	264
Bsp143I	GATC	4 cut(s)	391, 427, 616, 733
BspACI	CCGC	1 cut(s)	49
BspANI	GGCC	1 cut(s)	470
BspCNI	CTCAG	2 cut(s)	181, 523
BspDI	ATCGAT	1 cut(s)	615
BspLI	GGNNCC	1 cut(s)	294
BspMAI	CTGCAG	3 cut(s)	91, 169, 760
BspPI	GGATC	1 cut(s)	422
BspT104I	TTCGAA	1 cut(s)	218
BsrDI	GCAATG	1 cut(s)	384
BsrGI	TGTACA	1 cut(s)	264
BssMI	GATC	4 cut(s)	391, 427, 616, 733
Bst2UI	CCWGG	2 cut(s)	432, 467
Bst4CI	ACNGT	1 cut(s)	96
BstAUI	TGTACA	1 cut(s)	264
BstBAI	YACGTR	1 cut(s)	564
BstBI	TTCGAA	1 cut(s)	218
BstC8I	GCNNGC	1 cut(s)	588
BstDEI	CTNAG	3 cut(s)	189, 230, 531
BstENI	CCTNNNNNAGG	1 cut(s)	200
BstF5I	GGATG	1 cut(s)	789
BstKTI	GATC	4 cut(s)	394, 430, 619, 736
BstMAI	GTCTC	2 cut(s)	128, 798
BstMBI	GATC	4 cut(s)	391, 427, 616, 733
BstMWI	GCNNNNNNNGC	1 cut(s)	706
BstNI	CCWGG	2 cut(s)	432, 467
BstNSI	RCATGY	2 cut(s)	271, 590
BstPAI	GACNNNNGTC	1 cut(s)	68
BstSCI	CCNGG	2 cut(s)	430, 465
BstSFI	CTRYAG	4 cut(s)	87, 165, 756, 778
BstSLI	GKGCMC	1 cut(s)	238
BstSNI	TACGTA	1 cut(s)	564
BstV1I	GCAGC	5 cut(s)	73, 151, 179, 361, 718
Bsu15I	ATCGAT	1 cut(s)	615
BsuRI	GGCC	1 cut(s)	470
BsuTUI	ATCGAT	1 cut(s)	615
BtsCI	GGATG	1 cut(s)	789
BtsI	GCAGTG	2 cut(s)	154, 753
BtsIMutI	CAGTG	4 cut(s)	154, 279, 743, 753
Cac8I	GCNNGC	1 cut(s)	588
Cfr13I	GGNCC	2 cut(s)	193, 292
ClaI	ATCGAT	1 cut(s)	615
Csp6I	GTAC	3 cut(s)	97, 265, 565
CviAII	CATG	3 cut(s)	268, 369, 587
CviJI	RGCY	8 cut(s)	188, 223, 425, 447, 470, 709, 745, 827
CviKI_1	RGCY	8 cut(s)	188, 223, 425, 447, 470, 709, 745, 827
CviQI	GTAC	3 cut(s)	97, 265, 565
DdeI	CTNAG	3 cut(s)	189, 230, 531
DpnI	GATC	4 cut(s)	393, 429, 618, 735
DpnII	GATC	4 cut(s)	391, 427, 616, 733
DrdI	GACNNNNNNGTC	1 cut(s)	44
DseDI	GACNNNNNNGTC	1 cut(s)	44
EaeI	YGGCCR	1 cut(s)	468
Eco105I	TACGTA	1 cut(s)	564
Eco32I	GATATC	1 cut(s)	340
Eco47I	GGWCC	2 cut(s)	193, 292
Eco57I	CTGAAG	1 cut(s)	462
EcoNI	CCTNNNNNAGG	1 cut(s)	200
EcoO109I	RGGNCCY	2 cut(s)	193, 292
EcoRI	GAATTC	2 cut(s)	214, 509
EcoRII	CCWGG	2 cut(s)	430, 465
EcoRV	GATATC	1 cut(s)	340
EcoT22I	ATGCAT	1 cut(s)	799
FaeI	CATG	3 cut(s)	271, 372, 590
FaqI	GGGAC	3 cut(s)	211, 278, 291
FatI	CATG	3 cut(s)	267, 368, 586
FbaI	TGATCA	1 cut(s)	733
FblI	GTMKAC	1 cut(s)	109
Fnu4HI	GCNGC	5 cut(s)	87, 165, 168, 375, 707
FokI	GGATG	1 cut(s)	796
Fsp4HI	GCNGC	5 cut(s)	87, 165, 168, 375, 707
FspBI	CTAG	1 cut(s)	129
GluI	GCNGC	5 cut(s)	87, 165, 168, 375, 707
GsaI	CCCAGC	1 cut(s)	451
HaeIII	GGCC	1 cut(s)	470
Hin1II	CATG	3 cut(s)	271, 372, 590
HincII	GTYRAC	1 cut(s)	816
HindII	GTYRAC	1 cut(s)	816
HindIII	AAGCTT	1 cut(s)	743
HinfI	GANTC	5 cut(s)	32, 540, 612, 850, 866
HphI	GGTGA	1 cut(s)	511
Hpy166II	GTNNAC	2 cut(s)	110, 816
Hpy188I	TCNGA	5 cut(s)	37, 621, 803, 849, 855
Hpy188III	TCNNGA	1 cut(s)	58
Hpy8I	GTNNAC	2 cut(s)	110, 816
HpyAV	CCTTC	4 cut(s)	98, 283, 319, 437
HpyCH4III	ACNGT	1 cut(s)	96
HpyCH4IV	ACGT	1 cut(s)	563
HpyCH4V	TGCA	9 cut(s)	44, 89, 122, 167, 377, 586, 678, 758, 797
HpyF10VI	GCNNNNNNNGC	1 cut(s)	706
HpyF3I	CTNAG	3 cut(s)	189, 230, 531
HpySE526I	ACGT	1 cut(s)	563
Hsp92II	CATG	3 cut(s)	271, 372, 590
Ksp22I	TGATCA	1 cut(s)	733
Kzo9I	GATC	4 cut(s)	391, 427, 616, 733
Lsp1109I	GCAGC	5 cut(s)	73, 151, 179, 361, 718
LweI	GCATC	2 cut(s)	73, 687
MaeI	CTAG	1 cut(s)	129
MaeII	ACGT	1 cut(s)	563
MalI	GATC	4 cut(s)	393, 429, 618, 735
MboI	GATC	4 cut(s)	391, 427, 616, 733
MboII	GAAGA	4 cut(s)	320, 334, 861, 868
MhlI	GDGCHC	1 cut(s)	238
MlsI	TGGCCA	1 cut(s)	470
MluCI	AATT	5 cut(s)	173, 214, 509, 667, 873
MluNI	TGGCCA	1 cut(s)	470
MnlI	CCTC	7 cut(s)	123, 161, 184, 196, 206, 584, 697
Mox20I	TGGCCA	1 cut(s)	470
Mph1103I	ATGCAT	1 cut(s)	799
MroXI	GAANNNNTTC	1 cut(s)	797
MscI	TGGCCA	1 cut(s)	470
MseI	TTAA	3 cut(s)	399, 462, 638
MslI	CAYNNNNRTG	2 cut(s)	159, 272
Msp20I	TGGCCA	1 cut(s)	470
MspA1I	CMGCKG	1 cut(s)	709
MspR9I	CCNGG	2 cut(s)	432, 467
Mva1269I	GAATGC	2 cut(s)	797, 799
MvaI	CCWGG	2 cut(s)	432, 467
MwoI	GCNNNNNNNGC	1 cut(s)	706
NdeII	GATC	4 cut(s)	391, 427, 616, 733
NlaIII	CATG	3 cut(s)	271, 372, 590
NlaIV	GGNNCC	1 cut(s)	294
NsiI	ATGCAT	1 cut(s)	799
NspI	RCATGY	2 cut(s)	271, 590
NspV	TTCGAA	1 cut(s)	218
PaeI	GCATGC	1 cut(s)	590
PciI	ACATGT	1 cut(s)	267
PctI	GAATGC	2 cut(s)	797, 799
PdmI	GAANNNNTTC	1 cut(s)	797
PfeI	GAWTC	5 cut(s)	32, 540, 612, 850, 866
Pfl23II	CGTACG	1 cut(s)	564
PkrI	GCNGC	5 cut(s)	88, 166, 169, 376, 708
Ppu21I	YACGTR	1 cut(s)	564
PpuMI	RGGWCCY	2 cut(s)	193, 292
PscI	ACATGT	1 cut(s)	267
PshAI	GACNNNNGTC	1 cut(s)	68
Psp5II	RGGWCCY	2 cut(s)	193, 292
Psp6I	CCWGG	2 cut(s)	430, 465
PspFI	CCCAGC	1 cut(s)	447
PspGI	CCWGG	2 cut(s)	430, 465
PspLI	CGTACG	1 cut(s)	564
PspN4I	GGNNCC	1 cut(s)	294
PspPI	GGNCC	2 cut(s)	193, 292
PspPPI	RGGWCCY	2 cut(s)	193, 292
PstI	CTGCAG	3 cut(s)	91, 169, 760
PvuII	CAGCTG	1 cut(s)	709
RsaI	GTAC	3 cut(s)	98, 266, 566
RsaNI	GTAC	3 cut(s)	97, 265, 565
RseI	CAYNNNNRTG	2 cut(s)	159, 272
SaqAI	TTAA	3 cut(s)	399, 462, 638
SatI	GCNGC	5 cut(s)	87, 165, 168, 375, 707
Sau3AI	GATC	4 cut(s)	391, 427, 616, 733
Sau96I	GGNCC	2 cut(s)	193, 292
ScrFI	CCNGG	2 cut(s)	432, 467
SduI	GDGCHC	1 cut(s)	238
SfaNI	GCATC	2 cut(s)	73, 687
SfcI	CTRYAG	4 cut(s)	87, 165, 756, 778
SfuI	TTCGAA	1 cut(s)	218
SinI	GGWCC	2 cut(s)	193, 292
SmiMI	CAYNNNNRTG	2 cut(s)	159, 272
SnaBI	TACGTA	1 cut(s)	564
SpeI	ACTAGT	1 cut(s)	128
SphI	GCATGC	1 cut(s)	590
Sse9I	AATT	5 cut(s)	173, 214, 509, 667, 873
SsiI	CCGC	1 cut(s)	49
SspI	AATATT	1 cut(s)	487
SspMI	CTAG	1 cut(s)	129
StyD4I	CCNGG	2 cut(s)	430, 465
TaaI	ACNGT	1 cut(s)	96
TaiI	ACGT	1 cut(s)	566
TaqI	TCGA	2 cut(s)	218, 615
TasI	AATT	5 cut(s)	173, 214, 509, 667, 873
TatI	WGTACW	1 cut(s)	264
TfiI	GAWTC	5 cut(s)	32, 540, 612, 850, 866
Tru1I	TTAA	3 cut(s)	399, 462, 638
Tru9I	TTAA	3 cut(s)	399, 462, 638
TscAI	CASTG	4 cut(s)	161, 279, 743, 760
TseI	GCWGC	5 cut(s)	86, 164, 167, 374, 706
TspDTI	ATGAA	2 cut(s)	357, 429
TspGWI	ACGGA	1 cut(s)	552
TspRI	CASTG	4 cut(s)	161, 279, 743, 760
VpaK11BI	GGWCC	2 cut(s)	193, 292
XagI	CCTNNNNNAGG	1 cut(s)	200
XapI	RAATTY	2 cut(s)	214, 509
XceI	RCATGY	2 cut(s)	271, 590
XmiI	GTMKAC	1 cut(s)	109
XmnI	GAANNNNTTC	1 cut(s)	797
XspI	CTAG	1 cut(s)	129
Zsp2I	ATGCAT	1 cut(s)	799

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