Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0003199

Physical Location & Seq

Genomic Coordinates Forward (+)

56919129 .. 56920004

Gene Structure 876 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00207040.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 855 bp

ATGACCAACCTCGTCATTAGGAGAACGATTCTGGGCAATGCACCAATTGGTTTCCTATTCCGATTCTTGCCCAATCGTTCCTTTGCCTCAACTTCGAAACCCAACAGTTCAACTGTGCCCAAACACCCAGACTTGTTTTCAATTAACAAAAACATGTCCCATTTGATTCGAACTGGTTGGATAGTCCAAGCTAGGGAAGTGTTTGATAAGATGAAGCACCGAAATCTCGTAACGTGGAACTCAATGATGGTGTGTGAAACGCAGGGAGATGGCCAAGGCCCGGAACTTAGATGTTGTGTCATGGAATCTGATGATCTCCGGGTATATTTCGTGCCGCGAGCTTGGTACATTGAGGAGAGGAGGAGTTTGTTTGATCAAACGCCAGTGAGGGATTGTGTTTCTTGGAACACAGTGATTAGTGGGTGTGCCAAGAATGGGAGGATGGGGGAGGCATTGCGGCTTTTCAAGTCTATGCCTGAGAGGAGTGTTGTGTCTTGGAATGCAATGATTACTGGGTTTTTGCAGAATGGTGATGTTGTGAGTGCAGTTGAGTTTTTTGAGAGAATGCCACAGCGGGATGGAGCTTCTGTTAGTGCACTTGTGTCGGGACTTACTCAAAACGGCGAGCTGGATGAAGCTGCGAGGATTGTTGTTCAATGTGGGGATAGGGGTGAGGGTGTGGAGGTTATTGTCAGAGAGGAAGGTTTAAAGAAGCTCGTCACATTTTTGATCGAATTCCATTCTGTCATGATAAGGGGAAAGAGGGGCGGTAGGAGGTTTGAGAGAAATGTCATAACATGGAATTCCATGATTTTGTGCCATGTGAAACTAGGAAATGTTGTTTCTGCTAGGTAA

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:0016553 GO:0016554 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

Protein Analysis

284

Amino Acids

32.15

Weight (kDa)

9.44

Isoelectric Point (pI)

37.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	130 - 158	2.4e-07	PPR repeat
PPR_2	PF13041	131 - 163	3.3e-08	PPR repeat family
PPR	PF01535	133 - 162	1e-09	PPR repeat
PPR_2	PF13041	162 - 192	9.3e-07	PPR repeat family
PPR	PF01535	164 - 192	5.3e-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: OG0003199)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G62260
fragaria_vesca	FvH4_2g07250
malus_domestica	MD10G1129300.v1.1
prunus_persica	Prupe.8G170100_v2.0.a1 Prupe.8G170100_v2.0.a1
pyrus_communis	pycom06g17110 pycom10g11090
rosa_chinensis	RchiOBHm_Chr6g0259851 RchiOBHm_Chr6g0279101
rosa_laevigata	RLG00000013168 RLG00000014504
rosa_multiflora	Rmu_co8522155.1_g000002 Rmu_sc0002080.1_g000004 Rmu_sc0009049.1_g000004 Rmu_sc0037609.1_g000001 Rmu_sc0037609.1_g000002 Rmu_sc0037609.1_g000003
rosa_roxburghii	Rroxscaffold_7G00189130 Rroxscaffold_7G00207040 Rroxscaffold_7G00207050 Rroxscaffold_7G00207060 Rroxscaffold_7G00207180 Rroxscaffold_7G00207190 Rroxscaffold_7G00207200
rosa_rugosa	Rorug05G0590700 Rorug05G0590800 Rorug06G0122200
rosa_samantha	Rh6AG107400 Rh6AG230900 Rh6BG102900 Rh6BG235800 Rh6DG090200 Rh6DG229500
rosa_wichuraiana	Rw0G019930 Rw0G021150 Rw6G009260 Rw6G020220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	337
AciI	CCGC	4 cut(s)	335, 457, 574, 768
AcoI	YGGCCR	1 cut(s)	271
AcsI	RAATTY	2 cut(s)	734, 802
AfaI	GTAC	1 cut(s)	347
AfiI	CCNNNNNNNGG	3 cut(s)	193, 280, 435
AflIII	ACRYGT	1 cut(s)	153
AgsI	TTSAA	4 cut(s)	111, 141, 466, 656
AluBI	AGCT	6 cut(s)	191, 341, 584, 628, 638, 715
AluI	AGCT	6 cut(s)	191, 341, 584, 628, 638, 715
Alw21I	GWGCWC	1 cut(s)	598
Alw44I	GTGCAC	1 cut(s)	594
AoxI	GGCC	2 cut(s)	271, 277
ApaLI	GTGCAC	1 cut(s)	594
ApeKI	GCWGC	1 cut(s)	638
ApoI	RAATTY	2 cut(s)	734, 802
AspS9I	GGNCC	1 cut(s)	278
AsuC2I	CCSGG	2 cut(s)	281, 320
AsuHPI	GGTGA	2 cut(s)	542, 683
AsuII	TTCGAA	2 cut(s)	95, 169
BaeGI	GKGCMC	2 cut(s)	120, 598
BalI	TGGCCA	1 cut(s)	273
Bbv12I	GWGCWC	1 cut(s)	598
BbvI	GCAGC	1 cut(s)	625
BccI	CCATC	4 cut(s)	241, 263, 436, 572
BceAI	ACGGC	1 cut(s)	637
BcgI	CGANNNNNNTGC	2 cut(s)	585, 619
BclI	TGATCA	1 cut(s)	373
BcnI	CCSGG	2 cut(s)	281, 320
BfaI	CTAG	3 cut(s)	192, 830, 849
BisI	GCNGC	3 cut(s)	335, 458, 639
BlsI	GCNGC	3 cut(s)	336, 459, 640
Bme1390I	CCNGG	2 cut(s)	281, 320
BmgT120I	GGNCC	1 cut(s)	278
BmrFI	CCNGG	2 cut(s)	281, 320
BmrI	ACTGGG	1 cut(s)	522
BmuI	ACTGGG	1 cut(s)	522
Bpu14I	TTCGAA	2 cut(s)	95, 169
BpuMI	CCSGG	2 cut(s)	281, 320
BsaJI	CCNNGG	1 cut(s)	274
BsaXI	ACNNNNNCTCC	2 cut(s)	573, 603
Bsc4I	CCNNNNNNNGG	3 cut(s)	193, 280, 435
Bse1I	ACTGG	3 cut(s)	178, 383, 517
Bse3DI	GCAATG	3 cut(s)	43, 452, 510
BseDI	CCNNGG	1 cut(s)	274
BseGI	GGATG	3 cut(s)	447, 583, 637
BseLI	CCNNNNNNNGG	3 cut(s)	193, 280, 435
BseMI	GCAATG	3 cut(s)	43, 452, 510
BseMII	CTCAG	1 cut(s)	468
BseNI	ACTGG	3 cut(s)	178, 383, 517
BseRI	GAGGAG	4 cut(s)	368, 373, 376, 496
BseSI	GKGCMC	2 cut(s)	120, 598
BseXI	GCAGC	1 cut(s)	625
BsgI	GTGCAG	1 cut(s)	564
Bsh1236I	CGCG	1 cut(s)	337
BshFI	GGCC	2 cut(s)	273, 279
BsiHKAI	GWGCWC	1 cut(s)	598
BsiSI	CCGG	2 cut(s)	281, 319
BslFI	GGGAC	2 cut(s)	142, 621
BslI	CCNNNNNNNGG	3 cut(s)	193, 280, 435
BsmFI	GGGAC	2 cut(s)	142, 621
BsmI	GAATGC	2 cut(s)	505, 570
BsnI	GGCC	2 cut(s)	273, 279
Bsp119I	TTCGAA	2 cut(s)	95, 169
Bsp1286I	GDGCHC	2 cut(s)	120, 598
Bsp143I	GATC	3 cut(s)	313, 373, 729
BspACI	CCGC	4 cut(s)	335, 457, 574, 768
BspANI	GGCC	2 cut(s)	273, 279
BspCNI	CTCAG	1 cut(s)	469
BspFNI	CGCG	1 cut(s)	337
BspHI	TCATGA	1 cut(s)	747
BspT104I	TTCGAA	2 cut(s)	95, 169
BsrDI	GCAATG	3 cut(s)	43, 452, 510
BsrI	ACTGG	3 cut(s)	178, 383, 517
BssECI	CCNNGG	1 cut(s)	274
BssMI	GATC	3 cut(s)	313, 373, 729
BssT1I	CCWWGG	1 cut(s)	274
Bst4CI	ACNGT	3 cut(s)	107, 115, 412
BstBI	TTCGAA	2 cut(s)	95, 169
BstC8I	GCNNGC	2 cut(s)	339, 626
BstDEI	CTNAG	2 cut(s)	287, 477
BstF5I	GGATG	3 cut(s)	447, 583, 637
BstFNI	CGCG	1 cut(s)	337
BstKTI	GATC	3 cut(s)	316, 376, 732
BstMBI	GATC	3 cut(s)	313, 373, 729
BstNSI	RCATGY	1 cut(s)	157
BstSCI	CCNGG	2 cut(s)	279, 318
BstSLI	GKGCMC	2 cut(s)	120, 598
BstUI	CGCG	1 cut(s)	337
BstV1I	GCAGC	1 cut(s)	625
BsuRI	GGCC	2 cut(s)	273, 279
BtsCI	GGATG	3 cut(s)	447, 583, 637
BtsIMutI	CAGTG	2 cut(s)	390, 417
Cac8I	GCNNGC	2 cut(s)	339, 626
CciI	TCATGA	1 cut(s)	747
Cfr13I	GGNCC	1 cut(s)	278
Csp6I	GTAC	1 cut(s)	346
CviAII	CATG	6 cut(s)	154, 301, 748, 798, 808, 821
CviJI	RGCY	9 cut(s)	191, 273, 279, 341, 460, 584, 628, 638, 715
CviKI_1	RGCY	9 cut(s)	191, 273, 279, 341, 460, 584, 628, 638, 715
CviQI	GTAC	1 cut(s)	346
DdeI	CTNAG	2 cut(s)	287, 477
DpnI	GATC	3 cut(s)	315, 375, 731
DpnII	GATC	3 cut(s)	313, 373, 729
DraI	TTTAAA	1 cut(s)	708
EaeI	YGGCCR	1 cut(s)	271
Eco130I	CCWWGG	1 cut(s)	274
EcoRI	GAATTC	2 cut(s)	734, 802
EcoT14I	CCWWGG	1 cut(s)	274
ErhI	CCWWGG	1 cut(s)	274
FaeI	CATG	6 cut(s)	157, 304, 751, 801, 811, 824
FaiI	YATR	9 cut(s)	155, 302, 325, 473, 749, 794, 799, 809, 822
FaqI	GGGAC	2 cut(s)	142, 621
FatI	CATG	6 cut(s)	153, 300, 747, 797, 807, 820
FauI	CCCGC	1 cut(s)	567
FbaI	TGATCA	1 cut(s)	373
Fnu4HI	GCNGC	3 cut(s)	335, 458, 639
FokI	GGATG	3 cut(s)	454, 590, 644
Fsp4HI	GCNGC	3 cut(s)	335, 458, 639
FspBI	CTAG	3 cut(s)	192, 830, 849
GluI	GCNGC	3 cut(s)	335, 458, 639
HaeIII	GGCC	2 cut(s)	273, 279
HapII	CCGG	2 cut(s)	281, 319
Hin1II	CATG	6 cut(s)	157, 304, 751, 801, 811, 824
HinfI	GANTC	4 cut(s)	28, 63, 166, 305
HpaII	CCGG	2 cut(s)	281, 319
HphI	GGTGA	2 cut(s)	542, 683
Hpy166II	GTNNAC	1 cut(s)	596
Hpy188I	TCNGA	3 cut(s)	62, 310, 695
Hpy188III	TCNNGA	2 cut(s)	606, 748
Hpy8I	GTNNAC	1 cut(s)	596
HpyAV	CCTTC	1 cut(s)	695
HpyCH4III	ACNGT	3 cut(s)	107, 115, 412
HpyCH4IV	ACGT	1 cut(s)	233
HpyCH4V	TGCA	5 cut(s)	41, 503, 523, 545, 596
HpyF3I	CTNAG	2 cut(s)	287, 477
HpySE526I	ACGT	1 cut(s)	233
Hsp92II	CATG	6 cut(s)	157, 304, 751, 801, 811, 824
Ksp22I	TGATCA	1 cut(s)	373
Kzo9I	GATC	3 cut(s)	313, 373, 729
LmnI	GCTCC	1 cut(s)	581
Lsp1109I	GCAGC	1 cut(s)	625
MaeI	CTAG	3 cut(s)	192, 830, 849
MaeII	ACGT	1 cut(s)	233
MaeIII	GTNAC	2 cut(s)	229, 718
MalI	GATC	3 cut(s)	315, 375, 731
MboI	GATC	3 cut(s)	313, 373, 729
MfeI	CAATTG	1 cut(s)	45
MhlI	GDGCHC	2 cut(s)	120, 598
MlsI	TGGCCA	1 cut(s)	273
MluCI	AATT	4 cut(s)	45, 141, 734, 802
MluNI	TGGCCA	1 cut(s)	273
MmeI	TCCRAC	1 cut(s)	158
Mox20I	TGGCCA	1 cut(s)	273
MscI	TGGCCA	1 cut(s)	273
MseI	TTAA	2 cut(s)	144, 707
Msp20I	TGGCCA	1 cut(s)	273
MspA1I	CMGCKG	1 cut(s)	574
MspI	CCGG	2 cut(s)	281, 319
MspR9I	CCNGG	2 cut(s)	281, 320
MunI	CAATTG	1 cut(s)	45
Mva1269I	GAATGC	2 cut(s)	505, 570
MvnI	CGCG	1 cut(s)	337
NciI	CCSGG	2 cut(s)	281, 320
NdeII	GATC	3 cut(s)	313, 373, 729
NlaIII	CATG	6 cut(s)	157, 304, 751, 801, 811, 824
NmuCI	GTSAC	1 cut(s)	718
NspI	RCATGY	1 cut(s)	157
NspV	TTCGAA	2 cut(s)	95, 169
PagI	TCATGA	1 cut(s)	747
PciI	ACATGT	1 cut(s)	153
PctI	GAATGC	2 cut(s)	505, 570
PfeI	GAWTC	4 cut(s)	28, 63, 166, 305
PkrI	GCNGC	3 cut(s)	336, 459, 640
PscI	ACATGT	1 cut(s)	153
PspPI	GGNCC	1 cut(s)	278
RsaI	GTAC	1 cut(s)	347
RsaNI	GTAC	1 cut(s)	346
SaqAI	TTAA	2 cut(s)	144, 707
SatI	GCNGC	3 cut(s)	335, 458, 639
Sau3AI	GATC	3 cut(s)	313, 373, 729
Sau96I	GGNCC	1 cut(s)	278
ScrFI	CCNGG	2 cut(s)	281, 320
SduI	GDGCHC	2 cut(s)	120, 598
SfuI	TTCGAA	2 cut(s)	95, 169
Sse9I	AATT	4 cut(s)	45, 141, 734, 802
SsiI	CCGC	4 cut(s)	335, 457, 574, 768
SspMI	CTAG	3 cut(s)	192, 830, 849
StyD4I	CCNGG	2 cut(s)	279, 318
StyI	CCWWGG	1 cut(s)	274
TaaI	ACNGT	3 cut(s)	107, 115, 412
TaiI	ACGT	1 cut(s)	236
TaqI	TCGA	3 cut(s)	95, 169, 732
TasI	AATT	4 cut(s)	45, 141, 734, 802
TauI	GCSGC	2 cut(s)	337, 460
TfiI	GAWTC	4 cut(s)	28, 63, 166, 305
Tru1I	TTAA	2 cut(s)	144, 707
Tru9I	TTAA	2 cut(s)	144, 707
TscAI	CASTG	2 cut(s)	390, 417
TseFI	GTSAC	1 cut(s)	718
TseI	GCWGC	1 cut(s)	638
Tsp45I	GTSAC	1 cut(s)	718
TspDTI	ATGAA	2 cut(s)	227, 648
TspRI	CASTG	2 cut(s)	390, 417
VneI	GTGCAC	1 cut(s)	594
XapI	RAATTY	2 cut(s)	734, 802
XceI	RCATGY	1 cut(s)	157
XspI	CTAG	3 cut(s)	192, 830, 849

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