Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0016204

Physical Location & Seq

Genomic Coordinates Reverse (-)

291711 .. 293082

Gene Structure 1372 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00156440.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGGCTGTCCGTACCCGGAAACCCCTAATCAAGTGGCCCTCGCTCTCACCGCCTCCATCTCTGCCTTCCCCTTCCCCTAACCCTAATTTTGACCCCAAATTTTCACAAAATGACTTGTCCGCAATCGCTAACCTGCTCGCGGACCCACCCGGTCCATCGCTTCGGACAGCATTGGACCGGGCCGGAATTGACCCGAGTCCGAGTCTGCTACAGGCTGTGTTCGACCACTTTGATTCGTCTCCCAAATTGCTGCACACGCTGTTTGTTTGGGCTGAGAAGCAGCCCGGGTTTCGATGCTCTGCGACGCTCTTCACCTCCATGATCAATGTGCTTGCCAAGGCTAGGGACTTTGAGTCTGCGTGGTCTATGATTCTTGATCGAATCGGCGGAGATAAGGAGCCTGGGTTGGTTTCTGTAGATGCATTTGTCATCATGATCAGACGGTATGCTCGTGCAGTGAGGAAGCTGAAGAAGGCAGAGCGGCTTTGGGTGGAGATGAAGAGAGACGGCGTGAAACCTAGTGTCGTGACATATGGTACACTTGTAGAAGGATACTGTCGGATGCGTCGTCCTGAAATCTCAATGGAGTTGGTGGGTGAGATGAGGAGGGAAGGAATTGAACCAAATGCGATTGTGTTTAATCCAATAATTGATGCTTTGGGGGAAGCTGGGAGGTTCAAGGAAGCGTGGGGGGATGATGGAGCGGTTTTCAGTTCTGGAATCAGGCCCCACTATTTCGACGTACAATTCTCTGGTAAAGGGCTATTGCAAGGCCGGAAATCTTGTAGAAGCTAG

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:0005634 GO:0005737 GO:0005829 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009787 GO:0009788 GO:0009791 GO:0009845 GO:0009966 GO:0009968 GO:0009987 GO:0010029 GO:0010646 GO:0010648 GO:0016070 GO:0016787 GO:0016788 GO:0023051 GO:0023057 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048519 GO:0048523 GO:0048580 GO:0048583 GO:0048585 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051239 GO:0065007 GO:0071704 GO:0090304 GO:0090305 GO:0090351 GO:0097159 GO:1900140 GO:1901360 GO:1901363 GO:1901419 GO:1901420 GO:1905957 GO:1905958 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

264

Amino Acids

29.34

Weight (kDa)

9.51

Isoelectric Point (pI)

46.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	141 - 187	1.1e-10	PPR repeat family
PPR_3	PF13812	162 - 222	1.8e-13	Pentatricopeptide repeat domain
PPR_1	PF12854	169 - 202	1.6e-08	PPR repeat
PPR_2	PF13041	173 - 220	6.1e-10	PPR repeat family
PPR	PF01535	176 - 206	3.4e-06	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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Orthologous Genes (Group: OG0016204)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G11310
fragaria_vesca	FvH4_2g30070
malus_domestica	MD08G1137400.v1.1
prunus_persica	Prupe.1G467400_v2.0.a1
pyrus_communis	pycom08g11630
rosa_chinensis	RchiOBHm_Chr6g0312841
rosa_laevigata	RLG00000010293
rosa_multiflora	Rmu_sc0008049.1_g000008
rosa_roxburghii	Rroxscaffold_7G00156440
rosa_rugosa	Rorug06G0399900
rosa_samantha	Rh6AG517200 Rh6BG528600 Rh6CG533300 Rh6DG519800
rosa_wichuraiana	Rw6G044930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	141
AccBSI	CCGCTC	2 cut(s)	481, 704
AccII	CGCG	1 cut(s)	140
AciI	CCGC	6 cut(s)	50, 120, 140, 387, 481, 704
AcsI	RAATTY	1 cut(s)	98
AcuI	CTGAAG	1 cut(s)	488
AfaI	GTAC	3 cut(s)	13, 538, 744
AfiI	CCNNNNNNNGG	2 cut(s)	139, 342
AgsI	TTSAA	2 cut(s)	620, 679
AhdI	GACNNNNNGTC	1 cut(s)	352
AjnI	CCWGG	1 cut(s)	400
AluBI	AGCT	3 cut(s)	466, 668, 792
AluI	AGCT	3 cut(s)	466, 668, 792
Alw26I	GTCTC	2 cut(s)	243, 498
Ama87I	CYCGRG	2 cut(s)	193, 284
AoxI	GGCC	4 cut(s)	35, 180, 725, 772
ApeKI	GCWGC	2 cut(s)	250, 280
ApoI	RAATTY	1 cut(s)	98
AspS9I	GGNCC	6 cut(s)	36, 142, 152, 175, 180, 726
AsuC2I	CCSGG	5 cut(s)	16, 150, 179, 285, 286
AsuHPI	GGTGA	3 cut(s)	39, 304, 608
AvaI	CYCGRG	2 cut(s)	193, 284
AvaII	GGWCC	3 cut(s)	142, 152, 175
BaeI	ACNNNNGTAYC	2 cut(s)	528, 561
BauI	CACGAG	1 cut(s)	450
BbvI	GCAGC	2 cut(s)	237, 292
BccI	CCATC	3 cut(s)	64, 163, 692
BceAI	ACGGC	1 cut(s)	523
BciT130I	CCWGG	1 cut(s)	402
BciVI	GTATCC	1 cut(s)	545
BclI	TGATCA	2 cut(s)	321, 435
BcnI	CCSGG	5 cut(s)	16, 150, 179, 285, 286
BcoDI	GTCTC	2 cut(s)	243, 498
BfaI	CTAG	3 cut(s)	342, 519, 793
BfmI	CTRYAG	2 cut(s)	209, 414
BfuAI	ACCTGC	1 cut(s)	141
BfuI	GTATCC	1 cut(s)	545
BisI	GCNGC	3 cut(s)	251, 281, 482
BlsI	GCNGC	3 cut(s)	252, 282, 483
Bme1390I	CCNGG	6 cut(s)	16, 150, 179, 285, 286, 402
Bme18I	GGWCC	3 cut(s)	142, 152, 175
BmeRI	GACNNNNNGTC	1 cut(s)	352
BmeT110I	CYCGRG	2 cut(s)	193, 284
BmgT120I	GGNCC	6 cut(s)	36, 142, 152, 175, 180, 726
BmiI	GGNNCC	3 cut(s)	144, 399, 728
BmrFI	CCNGG	6 cut(s)	16, 150, 179, 285, 286, 402
BmsI	GCATC	4 cut(s)	284, 409, 552, 643
BoxI	GACNNNNGTC	1 cut(s)	195
BpuMI	CCSGG	5 cut(s)	16, 150, 179, 285, 286
BsaJI	CCNNGG	3 cut(s)	284, 336, 401
BsaXI	ACNNNNNCTCC	2 cut(s)	389, 419
Bsc4I	CCNNNNNNNGG	2 cut(s)	139, 342
BseBI	CCWGG	1 cut(s)	402
BseDI	CCNNGG	3 cut(s)	284, 336, 401
BseGI	GGATG	2 cut(s)	567, 700
BseLI	CCNNNNNNNGG	2 cut(s)	139, 342
BseMII	CTCAG	1 cut(s)	264
BseRI	GAGGAG	1 cut(s)	619
BseXI	GCAGC	2 cut(s)	237, 292
BseYI	CCCAGC	1 cut(s)	668
BsgI	GTGCAG	2 cut(s)	236, 474
Bsh1236I	CGCG	1 cut(s)	140
BshFI	GGCC	4 cut(s)	37, 182, 727, 774
BsiHKCI	CYCGRG	2 cut(s)	193, 284
BsiSI	CCGG	6 cut(s)	16, 150, 178, 183, 285, 775
BslFI	GGGAC	1 cut(s)	359
BslI	CCNNNNNNNGG	2 cut(s)	139, 342
BsmAI	GTCTC	2 cut(s)	243, 498
BsmBI	CGTCTC	2 cut(s)	243, 498
BsmFI	GGGAC	1 cut(s)	359
BsnI	GGCC	4 cut(s)	37, 182, 727, 774
BsoBI	CYCGRG	2 cut(s)	193, 284
Bsp143I	GATC	3 cut(s)	321, 376, 435
BspACI	CCGC	6 cut(s)	50, 120, 140, 387, 481, 704
BspANI	GGCC	4 cut(s)	37, 182, 727, 774
BspCNI	CTCAG	1 cut(s)	265
BspFNI	CGCG	1 cut(s)	140
BspHI	TCATGA	1 cut(s)	432
BspLI	GGNNCC	3 cut(s)	144, 399, 728
BspMI	ACCTGC	1 cut(s)	141
BspQI	GCTCTTC	1 cut(s)	314
BsrBI	CCGCTC	2 cut(s)	481, 704
BssECI	CCNNGG	3 cut(s)	284, 336, 401
BssMI	GATC	3 cut(s)	321, 376, 435
BssSI	CACGAG	1 cut(s)	450
BssT1I	CCWWGG	1 cut(s)	336
Bst2BI	CACGAG	1 cut(s)	450
Bst2UI	CCWGG	1 cut(s)	402
Bst4CI	ACNGT	2 cut(s)	444, 557
Bst6I	CTCTTC	2 cut(s)	314, 494
BstC8I	GCNNGC	2 cut(s)	138, 333
BstDEI	CTNAG	1 cut(s)	273
BstF5I	GGATG	2 cut(s)	567, 700
BstFNI	CGCG	1 cut(s)	140
BstKTI	GATC	3 cut(s)	324, 379, 438
BstMAI	GTCTC	2 cut(s)	243, 498
BstMBI	GATC	3 cut(s)	321, 376, 435
BstMWI	GCNNNNNNNGC	2 cut(s)	49, 256
BstNI	CCWGG	1 cut(s)	402
BstPAI	GACNNNNGTC	1 cut(s)	195
BstSCI	CCNGG	6 cut(s)	14, 148, 177, 283, 284, 400
BstSFI	CTRYAG	2 cut(s)	209, 414
BstUI	CGCG	1 cut(s)	140
BstV1I	GCAGC	2 cut(s)	237, 292
BsuI	GTATCC	1 cut(s)	545
BsuRI	GGCC	4 cut(s)	37, 182, 727, 774
BtgZI	GCGATG	1 cut(s)	141
BtsCI	GGATG	2 cut(s)	567, 700
BtsI	GCAGTG	1 cut(s)	462
BtsIMutI	CAGTG	1 cut(s)	462
BveI	ACCTGC	1 cut(s)	141
Cac8I	GCNNGC	2 cut(s)	138, 333
CciI	TCATGA	1 cut(s)	432
Cfr13I	GGNCC	6 cut(s)	36, 142, 152, 175, 180, 726
Cfr9I	CCCGGG	1 cut(s)	284
CseI	GACGC	2 cut(s)	313, 554
Csp6I	GTAC	3 cut(s)	12, 537, 743
CviAII	CATG	2 cut(s)	319, 433
CviQI	GTAC	3 cut(s)	12, 537, 743
DdeI	CTNAG	1 cut(s)	273
DpnI	GATC	3 cut(s)	323, 378, 437
DpnII	GATC	3 cut(s)	321, 376, 435
DriI	GACNNNNNGTC	1 cut(s)	352
Eam1104I	CTCTTC	2 cut(s)	314, 494
Eam1105I	GACNNNNNGTC	1 cut(s)	352
EarI	CTCTTC	2 cut(s)	314, 494
EciI	GGCGGA	1 cut(s)	402
Eco130I	CCWWGG	1 cut(s)	336
Eco47I	GGWCC	3 cut(s)	142, 152, 175
Eco57I	CTGAAG	1 cut(s)	488
Eco88I	CYCGRG	2 cut(s)	193, 284
EcoO109I	RGGNCCY	1 cut(s)	726
EcoRII	CCWGG	1 cut(s)	400
EcoT14I	CCWWGG	1 cut(s)	336
EcoT22I	ATGCAT	1 cut(s)	424
ErhI	CCWWGG	1 cut(s)	336
Esp3I	CGTCTC	2 cut(s)	243, 498
FaeI	CATG	2 cut(s)	322, 436
FaiI	YATR	6 cut(s)	320, 368, 434, 447, 532, 534
FaqI	GGGAC	1 cut(s)	359
FatI	CATG	2 cut(s)	318, 432
FauNDI	CATATG	1 cut(s)	532
FbaI	TGATCA	2 cut(s)	321, 435
Fnu4HI	GCNGC	3 cut(s)	251, 281, 482
FokI	GGATG	2 cut(s)	574, 707
Fsp4HI	GCNGC	3 cut(s)	251, 281, 482
FspBI	CTAG	3 cut(s)	342, 519, 793
GluI	GCNGC	3 cut(s)	251, 281, 482
GsaI	CCCAGC	1 cut(s)	672
HaeIII	GGCC	4 cut(s)	37, 182, 727, 774
HapII	CCGG	6 cut(s)	16, 150, 178, 183, 285, 775
HgaI	GACGC	2 cut(s)	313, 554
Hin1II	CATG	2 cut(s)	322, 436
HinfI	GANTC	7 cut(s)	196, 202, 233, 353, 370, 381, 720
HpaII	CCGG	6 cut(s)	16, 150, 178, 183, 285, 775
HphI	GGTGA	3 cut(s)	39, 304, 608
Hpy166II	GTNNAC	1 cut(s)	539
Hpy188I	TCNGA	4 cut(s)	165, 201, 440, 561
Hpy188III	TCNNGA	5 cut(s)	374, 433, 526, 572, 717
Hpy8I	GTNNAC	1 cut(s)	539
Hpy99I	CGWCG	3 cut(s)	307, 570, 743
HpyAV	CCTTC	5 cut(s)	75, 81, 466, 542, 605
HpyCH4III	ACNGT	2 cut(s)	444, 557
HpyCH4IV	ACGT	1 cut(s)	741
HpyCH4V	TGCA	4 cut(s)	253, 422, 455, 769
HpyF10VI	GCNNNNNNNGC	2 cut(s)	49, 256
HpyF3I	CTNAG	1 cut(s)	273
HpySE526I	ACGT	1 cut(s)	741
Hsp92II	CATG	2 cut(s)	322, 436
Ksp22I	TGATCA	2 cut(s)	321, 435
Kzo9I	GATC	3 cut(s)	321, 376, 435
LguI	GCTCTTC	1 cut(s)	314
LmnI	GCTCC	2 cut(s)	397, 701
Lsp1109I	GCAGC	2 cut(s)	237, 292
LweI	GCATC	4 cut(s)	284, 409, 552, 643
MaeI	CTAG	3 cut(s)	342, 519, 793
MaeII	ACGT	1 cut(s)	741
MaeIII	GTNAC	1 cut(s)	526
MalI	GATC	3 cut(s)	323, 378, 437
MbiI	CCGCTC	2 cut(s)	481, 704
MboI	GATC	3 cut(s)	321, 376, 435
MboII	GAAGA	3 cut(s)	301, 481, 511
MluCI	AATT	7 cut(s)	85, 98, 186, 245, 615, 648, 746
MlyI	GAGTC	3 cut(s)	205, 211, 362
MmeI	TCCRAC	1 cut(s)	539
MnlI	CCTC	7 cut(s)	49, 63, 325, 453, 597, 600, 666
Mph1103I	ATGCAT	1 cut(s)	424
MseI	TTAA	1 cut(s)	639
MslI	CAYNNNNRTG	1 cut(s)	317
MspI	CCGG	6 cut(s)	16, 150, 178, 183, 285, 775
MspR9I	CCNGG	6 cut(s)	16, 150, 179, 285, 286, 402
MvaI	CCWGG	1 cut(s)	402
MvnI	CGCG	1 cut(s)	140
MwoI	GCNNNNNNNGC	2 cut(s)	49, 256
NciI	CCSGG	5 cut(s)	16, 150, 179, 285, 286
NdeI	CATATG	1 cut(s)	532
NdeII	GATC	3 cut(s)	321, 376, 435
NlaIII	CATG	2 cut(s)	322, 436
NlaIV	GGNNCC	3 cut(s)	144, 399, 728
NmuCI	GTSAC	1 cut(s)	526
NsiI	ATGCAT	1 cut(s)	424
PagI	TCATGA	1 cut(s)	432
PciSI	GCTCTTC	1 cut(s)	314
PcsI	WCGNNNNNNNCGW	2 cut(s)	448, 565
PfeI	GAWTC	4 cut(s)	233, 370, 381, 720
PkrI	GCNGC	3 cut(s)	252, 282, 483
PleI	GAGTC	3 cut(s)	204, 210, 361
PpsI	GAGTC	3 cut(s)	204, 210, 361
PshAI	GACNNNNGTC	1 cut(s)	195
Psp6I	CCWGG	1 cut(s)	400
PspFI	CCCAGC	1 cut(s)	668
PspGI	CCWGG	1 cut(s)	400
PspN4I	GGNNCC	3 cut(s)	144, 399, 728
PspPI	GGNCC	6 cut(s)	36, 142, 152, 175, 180, 726
RsaI	GTAC	3 cut(s)	13, 538, 744
RsaNI	GTAC	3 cut(s)	12, 537, 743
RseI	CAYNNNNRTG	1 cut(s)	317
SapI	GCTCTTC	1 cut(s)	314
SaqAI	TTAA	1 cut(s)	639
SatI	GCNGC	3 cut(s)	251, 281, 482
Sau3AI	GATC	3 cut(s)	321, 376, 435
Sau96I	GGNCC	6 cut(s)	36, 142, 152, 175, 180, 726
SchI	GAGTC	3 cut(s)	205, 211, 362
ScrFI	CCNGG	6 cut(s)	16, 150, 179, 285, 286, 402
SetI	ASST	8 cut(s)	135, 317, 468, 520, 670, 677, 744, 794
SfaNI	GCATC	4 cut(s)	284, 409, 552, 643
SfcI	CTRYAG	2 cut(s)	209, 414
SinI	GGWCC	3 cut(s)	142, 152, 175
SmaI	CCCGGG	1 cut(s)	286
SmiMI	CAYNNNNRTG	1 cut(s)	317
Sse9I	AATT	7 cut(s)	85, 98, 186, 245, 615, 648, 746
SsiI	CCGC	6 cut(s)	50, 120, 140, 387, 481, 704
SspMI	CTAG	3 cut(s)	342, 519, 793
StyD4I	CCNGG	6 cut(s)	14, 148, 177, 283, 284, 400
StyI	CCWWGG	1 cut(s)	336
TaaI	ACNGT	2 cut(s)	444, 557
TaiI	ACGT	1 cut(s)	744
TaqI	TCGA	4 cut(s)	222, 292, 379, 738
TasI	AATT	7 cut(s)	85, 98, 186, 245, 615, 648, 746
TauI	GCSGC	1 cut(s)	484
TfiI	GAWTC	4 cut(s)	233, 370, 381, 720
Tru1I	TTAA	1 cut(s)	639
Tru9I	TTAA	1 cut(s)	639
TscAI	CASTG	1 cut(s)	462
TseFI	GTSAC	1 cut(s)	526
TseI	GCWGC	2 cut(s)	250, 280
Tsp45I	GTSAC	1 cut(s)	526
TspDTI	ATGAA	1 cut(s)	512
TspMI	CCCGGG	1 cut(s)	284
TspRI	CASTG	1 cut(s)	462
VpaK11BI	GGWCC	3 cut(s)	142, 152, 175
XapI	RAATTY	1 cut(s)	98
XmaI	CCCGGG	1 cut(s)	284
XspI	CTAG	3 cut(s)	342, 519, 793
Zsp2I	ATGCAT	1 cut(s)	424

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