Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0015114

Physical Location & Seq

Genomic Coordinates Forward (+)

59871944 .. 59874659

Gene Structure 2716 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00379540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1254 bp

ATGGCGACCCGTCTATCTCTTCTACCAGTACACCCAGACCAATCCCAGTTTCACCCACACCGCCGTATCACTGAACAAAATGGTCGACGTCGTCGAAAGTCCCAGAACATCAAGCTGTTCTGGGACTTGGTTAATGAGATGGGACGGCGCCGTTTGGTGAATGACAGGACTTTTGTTATTGGTTTGAGGACTCTGGCCAAGGCCAGAGAGTTGAAGAAGTGTGTGGAGTTTTTTCATGTGATGAGTGGGTGTGGGATTGAGTGTAATGTGGAGACTTTGAACAAGGTGATCAAGAGTCTTTGTGGGTTGAAACTTGTTGAAGAGGCTAAGTTTGTGGTGTTTAAGTTGAAGGAGAGGATTAGGCCTGATGGGGTTACTTATAAGTGTTTGATTGAAGGGTTTTGTGATATGGGGGATTTGGTTGAGGCTGGGAAGATTTGGAATTTGATGGTGGATGAAGGGTTTGATCCTTGTGTTGGTGCTGTTGAGAAGATGATGGAGACTCTTTTCAAGACGAATCGGGATGCTGAGGCGATGAAGCTGTTCCAGATGATGAGGTTGAAGAGGATGGAGGAGTTGGGGCTTTCGAGTTATAGGCTTGTGATTGAGTGGATGTGTAAGAAGGGGAAGGTGGAGAATGCACATGTGGTTTATGATGAAATGCGCAAGAGAGGGATCGAAGTGGATAACTTGACATGGGGGTCGCTGGTTTATGGTCTTTTGGCGAGAAGGAGAGTAAATGAAGCTTATGGGATTGTGGAAGGGATTGAGAAGCCGGATATCAGTGTGTACCATGGCTTGATGAAGGGGCTGTTGAGGTTAAAAAGGCCGGGGGAAGCGACACAAGTGTTTAGGGAGATGATCAAGAGGGGGTGTGAGCCTAACATGCACACATATGTCATGTTATTGCAAGGGCATTTGGGAAAGAGAGGGAGGAAGGGAAAGGATCCGCTTGTGAATTTTGACACCATTTTTGTTGGGGGTTTGGTTAATGCAGGGAAGTCATTGGAAGCCACCAAGTATGTCGAGAGAGCGACTAAAAGAGGGCTTGAGGTGCCTAGATTCGATTATAACAAGTTTTTGCATTACTACTCGAATGAGGAAGGGGTGGCAATGTTTGAGGAGGTGGGGAAGAAATTAAGGGAGGCCGGAATGGTTGATTTGGCAGATATTTTCCAGAGATATGGGGAGAAAATGGCAACGAGAGATAGAAGAAGAGATAGAGCTGTCGAGCCATCAGTAGAGCCTTCATAA

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

Protein Analysis

417

Amino Acids

48.18

Weight (kDa)

9.45

Isoelectric Point (pI)

41.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	120 - 150	1.7e-06	PPR repeat
PPR_2	PF13041	197 - 240	3.5e-10	PPR repeat family
PPR_2	PF13041	259 - 306	2.1e-11	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0015114)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G26500
fragaria_vesca	FvH4_4g30220
malus_domestica	MD09G1267500.v1.1
prunus_persica	Prupe.1G285700_v2.0.a1
pyrus_communis	pycom09g18040
rosa_chinensis	RchiOBHm_Chr4g0438541
rosa_laevigata	RLG00000006353
rosa_multiflora	Rmu_sc0002327.1_g000006
rosa_roxburghii	Rroxscaffold_5G00379540
rosa_rugosa	Rorug04G0311200
rosa_samantha	Rh4AG361700 Rh4BG373000 Rh4CG387000 Rh4DG367700
rosa_wichuraiana	Rw0G006630 Rw0G016580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	381, 1071
AasI	GACNNNNNNGTC	1 cut(s)	700
AatII	GACGTC	1 cut(s)	91
Acc16I	TGCGCA	1 cut(s)	665
AccB1I	GGYRCC	2 cut(s)	147, 1054
AccI	GTMKAC	1 cut(s)	85
AciI	CCGC	2 cut(s)	61, 950
AclWI	GGATC	4 cut(s)	461, 683, 941, 954
AcoI	YGGCCR	1 cut(s)	195
AcsI	RAATTY	2 cut(s)	442, 958
AcyI	GRCGYC	2 cut(s)	88, 148
AfaI	GTAC	2 cut(s)	30, 791
AfiI	CCNNNNNNNGG	1 cut(s)	476
AflIII	ACRYGT	1 cut(s)	643
AgsI	TTSAA	8 cut(s)	214, 280, 310, 320, 349, 395, 511, 562
AjuI	GAANNNNNNNTTGG	2 cut(s)	33, 65
AluBI	AGCT	4 cut(s)	115, 541, 746, 1226
AluI	AGCT	4 cut(s)	115, 541, 746, 1226
Alw26I	GTCTC	2 cut(s)	266, 494
AlwI	GGATC	4 cut(s)	461, 683, 941, 954
AoxI	GGCC	5 cut(s)	195, 201, 362, 827, 1146
ApoI	RAATTY	2 cut(s)	442, 958
ArsI	GACNNNNNNTTYG	4 cut(s)	155, 187, 956, 988
Asp700I	GAANNNNTTC	1 cut(s)	542
AspLEI	GCGC	2 cut(s)	150, 666
AsuC2I	CCSGG	1 cut(s)	831
AsuHPI	GGTGA	3 cut(s)	44, 169, 298
BaeI	ACNNNNGTAYC	2 cut(s)	49, 82
BalI	TGGCCA	1 cut(s)	197
BamHI	GGATCC	1 cut(s)	946
BanI	GGYRCC	2 cut(s)	147, 1054
BbvCI	CCTCAGC	1 cut(s)	528
BccI	CCATC	6 cut(s)	133, 362, 442, 490, 562, 1243
BceAI	ACGGC	3 cut(s)	48, 135, 161
BclI	TGATCA	2 cut(s)	288, 861
BcnI	CCSGG	1 cut(s)	831
BcoDI	GTCTC	2 cut(s)	266, 494
BfaI	CTAG	1 cut(s)	1059
BfoI	RGCGCY	1 cut(s)	151
Bme1390I	CCNGG	1 cut(s)	831
BmiI	GGNNCC	3 cut(s)	149, 948, 1056
BmrFI	CCNGG	1 cut(s)	831
BmrI	ACTGGG	1 cut(s)	40
BmsI	GCATC	1 cut(s)	514
BmuI	ACTGGG	1 cut(s)	40
Bpu10I	CCTNAGC	1 cut(s)	528
BpuEI	CTTGAG	1 cut(s)	1070
BpuMI	CCSGG	1 cut(s)	831
BsaHI	GRCGYC	2 cut(s)	88, 148
BsaJI	CCNNGG	3 cut(s)	198, 793, 830
Bsc4I	CCNNNNNNNGG	1 cut(s)	476
Bse1I	ACTGG	2 cut(s)	26, 46
Bse3DI	GCAATG	1 cut(s)	1119
BseDI	CCNNGG	3 cut(s)	198, 793, 830
BseGI	GGATG	4 cut(s)	460, 529, 573, 618
BseLI	CCNNNNNNNGG	1 cut(s)	476
BseMI	GCAATG	1 cut(s)	1119
BseMII	CTCAG	1 cut(s)	519
BseNI	ACTGG	2 cut(s)	26, 46
BseRI	GAGGAG	2 cut(s)	587, 1136
BseYI	CCCAGC	1 cut(s)	428
BshFI	GGCC	5 cut(s)	197, 203, 364, 829, 1148
BshNI	GGYRCC	2 cut(s)	147, 1054
BsiSI	CCGG	3 cut(s)	776, 830, 1149
BslFI	GGGAC	3 cut(s)	85, 137, 156
BslI	CCNNNNNNNGG	1 cut(s)	476
BsmAI	GTCTC	2 cut(s)	266, 494
BsmFI	GGGAC	3 cut(s)	85, 137, 156
BsmI	GAATGC	1 cut(s)	643
BsnI	GGCC	5 cut(s)	197, 203, 364, 829, 1148
Bsp143I	GATC	5 cut(s)	288, 466, 675, 861, 946
Bsp19I	CCATGG	1 cut(s)	793
BspACI	CCGC	2 cut(s)	61, 950
BspANI	GGCC	5 cut(s)	197, 203, 364, 829, 1148
BspCNI	CTCAG	1 cut(s)	520
BspLI	GGNNCC	3 cut(s)	149, 948, 1056
BspPI	GGATC	4 cut(s)	461, 683, 941, 954
BspT107I	GGYRCC	2 cut(s)	147, 1054
BsrDI	GCAATG	1 cut(s)	1119
BsrI	ACTGG	2 cut(s)	26, 46
BssECI	CCNNGG	3 cut(s)	198, 793, 830
BssMI	GATC	5 cut(s)	288, 466, 675, 861, 946
BssNI	GRCGYC	2 cut(s)	88, 148
BssT1I	CCWWGG	2 cut(s)	198, 793
Bst6I	CTCTTC	4 cut(s)	24, 315, 557, 1210
BstACI	GRCGYC	2 cut(s)	88, 148
BstDEI	CTNAG	2 cut(s)	327, 528
BstDSI	CCRYGG	1 cut(s)	793
BstF5I	GGATG	4 cut(s)	460, 529, 573, 618
BstH2I	RGCGCY	1 cut(s)	151
BstHHI	GCGC	2 cut(s)	150, 666
BstKTI	GATC	5 cut(s)	291, 469, 678, 864, 949
BstMAI	GTCTC	2 cut(s)	266, 494
BstMBI	GATC	5 cut(s)	288, 466, 675, 861, 946
BstMWI	GCNNNNNNNGC	2 cut(s)	886, 1054
BstNSI	RCATGY	2 cut(s)	647, 889
BstSCI	CCNGG	1 cut(s)	829
BstX2I	RGATCY	1 cut(s)	946
BstXI	CCANNNNNNTGG	1 cut(s)	1184
BstYI	RGATCY	1 cut(s)	946
BsuRI	GGCC	5 cut(s)	197, 203, 364, 829, 1148
BtgI	CCRYGG	1 cut(s)	793
BtgZI	GCGATG	1 cut(s)	548
BtsCI	GGATG	4 cut(s)	460, 529, 573, 618
BtsIMutI	CAGTG	2 cut(s)	69, 790
CfoI	GCGC	2 cut(s)	150, 666
Csp6I	GTAC	2 cut(s)	29, 790
CviAII	CATG	6 cut(s)	236, 644, 696, 794, 886, 901
CviQI	GTAC	2 cut(s)	29, 790
DdeI	CTNAG	2 cut(s)	327, 528
DinI	GGCGCC	1 cut(s)	149
DpnI	GATC	5 cut(s)	290, 468, 677, 863, 948
DpnII	GATC	5 cut(s)	288, 466, 675, 861, 946
DrdI	GACNNNNNNGTC	1 cut(s)	700
DseDI	GACNNNNNNGTC	1 cut(s)	700
EaeI	YGGCCR	1 cut(s)	195
Eam1104I	CTCTTC	4 cut(s)	24, 315, 557, 1210
EarI	CTCTTC	4 cut(s)	24, 315, 557, 1210
Eco130I	CCWWGG	2 cut(s)	198, 793
Eco147I	AGGCCT	1 cut(s)	364
Eco32I	GATATC	1 cut(s)	781
EcoRV	GATATC	1 cut(s)	781
EcoT14I	CCWWGG	2 cut(s)	198, 793
EgeI	GGCGCC	1 cut(s)	149
EheI	GGCGCC	1 cut(s)	149
ErhI	CCWWGG	2 cut(s)	198, 793
FaeI	CATG	6 cut(s)	239, 647, 699, 797, 889, 904
FaqI	GGGAC	3 cut(s)	85, 137, 156
FatI	CATG	6 cut(s)	235, 643, 695, 793, 885, 900
FauNDI	CATATG	1 cut(s)	895
FbaI	TGATCA	2 cut(s)	288, 861
FblI	GTMKAC	1 cut(s)	85
FokI	GGATG	4 cut(s)	467, 536, 580, 625
FspBI	CTAG	1 cut(s)	1059
FspI	TGCGCA	1 cut(s)	665
GlaI	GCGC	2 cut(s)	149, 665
GsaI	CCCAGC	1 cut(s)	432
HaeII	RGCGCY	1 cut(s)	151
HaeIII	GGCC	5 cut(s)	197, 203, 364, 829, 1148
HapII	CCGG	3 cut(s)	776, 830, 1149
HhaI	GCGC	2 cut(s)	150, 666
Hin1I	GRCGYC	2 cut(s)	88, 148
Hin1II	CATG	6 cut(s)	239, 647, 699, 797, 889, 904
Hin6I	GCGC	2 cut(s)	148, 664
HinP1I	GCGC	2 cut(s)	148, 664
HincII	GTYRAC	1 cut(s)	86
HindII	GTYRAC	1 cut(s)	86
HindIII	AAGCTT	1 cut(s)	744
HinfI	GANTC	5 cut(s)	190, 295, 502, 517, 1062
HpaII	CCGG	3 cut(s)	776, 830, 1149
HphI	GGTGA	3 cut(s)	44, 169, 298
Hpy166II	GTNNAC	3 cut(s)	31, 86, 790
Hpy188III	TCNNGA	7 cut(s)	292, 511, 521, 547, 865, 1027, 1177
Hpy8I	GTNNAC	3 cut(s)	31, 86, 790
Hpy99I	CGWCG	3 cut(s)	90, 93, 96
HpyCH4IV	ACGT	1 cut(s)	88
HpyCH4V	TGCA	5 cut(s)	641, 889, 910, 995, 1084
HpyF10VI	GCNNNNNNNGC	2 cut(s)	886, 1054
HpyF3I	CTNAG	2 cut(s)	327, 528
HpySE526I	ACGT	1 cut(s)	88
Hsp92I	GRCGYC	2 cut(s)	88, 148
Hsp92II	CATG	6 cut(s)	239, 647, 699, 797, 889, 904
HspAI	GCGC	2 cut(s)	148, 664
KasI	GGCGCC	1 cut(s)	147
Ksp22I	TGATCA	2 cut(s)	288, 861
Kzo9I	GATC	5 cut(s)	288, 466, 675, 861, 946
LweI	GCATC	1 cut(s)	514
MaeI	CTAG	1 cut(s)	1059
MaeII	ACGT	1 cut(s)	88
MaeIII	GTNAC	1 cut(s)	373
MalI	GATC	5 cut(s)	290, 468, 677, 863, 948
MboI	GATC	5 cut(s)	288, 466, 675, 861, 946
MboII	GAAGA	9 cut(s)	11, 226, 332, 445, 502, 574, 1144, 1224, 1227
MflI	RGATCY	1 cut(s)	946
MlsI	TGGCCA	1 cut(s)	197
MluCI	AATT	3 cut(s)	442, 958, 1136
MluNI	TGGCCA	1 cut(s)	197
Mly113I	GGCGCC	1 cut(s)	148
MlyI	GAGTC	3 cut(s)	184, 304, 496
Mox20I	TGGCCA	1 cut(s)	197
MroXI	GAANNNNTTC	1 cut(s)	542
MscI	TGGCCA	1 cut(s)	197
MseI	TTAA	5 cut(s)	132, 342, 821, 990, 1139
MslI	CAYNNNNRTG	1 cut(s)	894
Msp20I	TGGCCA	1 cut(s)	197
MspI	CCGG	3 cut(s)	776, 830, 1149
MspR9I	CCNGG	1 cut(s)	831
Mva1269I	GAATGC	1 cut(s)	643
MwoI	GCNNNNNNNGC	2 cut(s)	886, 1054
NarI	GGCGCC	1 cut(s)	148
NciI	CCSGG	1 cut(s)	831
NcoI	CCATGG	1 cut(s)	793
NdeI	CATATG	1 cut(s)	895
NdeII	GATC	5 cut(s)	288, 466, 675, 861, 946
NlaIII	CATG	6 cut(s)	239, 647, 699, 797, 889, 904
NlaIV	GGNNCC	3 cut(s)	149, 948, 1056
NsbI	TGCGCA	1 cut(s)	665
NspI	RCATGY	2 cut(s)	647, 889
PceI	AGGCCT	1 cut(s)	364
PciI	ACATGT	1 cut(s)	643
PcsI	WCGNNNNNNNCGW	1 cut(s)	91
PctI	GAATGC	1 cut(s)	643
PdmI	GAANNNNTTC	1 cut(s)	542
PfeI	GAWTC	2 cut(s)	517, 1062
PflFI	GACNNNGTC	1 cut(s)	90
PleI	GAGTC	3 cut(s)	184, 303, 496
PluTI	GGCGCC	1 cut(s)	151
PpsI	GAGTC	3 cut(s)	184, 303, 496
PscI	ACATGT	1 cut(s)	643
PsiI	TTATAA	2 cut(s)	381, 1071
PspFI	CCCAGC	1 cut(s)	428
PspN4I	GGNNCC	3 cut(s)	149, 948, 1056
PsuI	RGATCY	1 cut(s)	946
PsyI	GACNNNGTC	1 cut(s)	90
RsaI	GTAC	2 cut(s)	30, 791
RsaNI	GTAC	2 cut(s)	29, 790
RseI	CAYNNNNRTG	1 cut(s)	894
SalI	GTCGAC	1 cut(s)	84
SaqAI	TTAA	5 cut(s)	132, 342, 821, 990, 1139
Sau3AI	GATC	5 cut(s)	288, 466, 675, 861, 946
SchI	GAGTC	3 cut(s)	184, 304, 496
ScrFI	CCNGG	1 cut(s)	831
SfaNI	GCATC	1 cut(s)	514
SfoI	GGCGCC	1 cut(s)	149
SmiMI	CAYNNNNRTG	1 cut(s)	894
SmlI	CTYRAG	1 cut(s)	1049
SmoI	CTYRAG	1 cut(s)	1049
Sse9I	AATT	3 cut(s)	442, 958, 1136
SseBI	AGGCCT	1 cut(s)	364
SsiI	CCGC	2 cut(s)	61, 950
SspDI	GGCGCC	1 cut(s)	147
SspMI	CTAG	1 cut(s)	1059
StuI	AGGCCT	1 cut(s)	364
StyD4I	CCNGG	1 cut(s)	829
StyI	CCWWGG	2 cut(s)	198, 793
TaiI	ACGT	1 cut(s)	91
TaqI	TCGA	8 cut(s)	85, 94, 587, 678, 1026, 1065, 1094, 1230
TasI	AATT	3 cut(s)	442, 958, 1136
TatI	WGTACW	1 cut(s)	28
TfiI	GAWTC	2 cut(s)	517, 1062
Tru1I	TTAA	5 cut(s)	132, 342, 821, 990, 1139
Tru9I	TTAA	5 cut(s)	132, 342, 821, 990, 1139
TscAI	CASTG	2 cut(s)	76, 790
TspDTI	ATGAA	7 cut(s)	224, 471, 551, 672, 756, 818, 1239
TspRI	CASTG	2 cut(s)	76, 790
Tth111I	GACNNNGTC	1 cut(s)	90
XapI	RAATTY	2 cut(s)	442, 958
XceI	RCATGY	2 cut(s)	647, 889
XmiI	GTMKAC	1 cut(s)	85
XmnI	GAANNNNTTC	1 cut(s)	542
XspI	CTAG	1 cut(s)	1059
ZraI	GACGTC	1 cut(s)	89

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