Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0000874

Physical Location & Seq

Genomic Coordinates Reverse (-)

15831151 .. 15832323

Gene Structure 1173 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012161

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGGCGAAGCGAACCAACCACCTGTGCACCAATCCCAATTCCGATCCGAACCAACCACCCCAAGATGACGATTCCCTCATAACCCAAGCCCTTCTGGAGCTCACATTGCGGGAGCCCACCTCGGAAAAGAAGCTCTTTGAGCTTTACAAGATGGCCAAGGACCTGAATGTCCCGCTGAATCTCAAGGCCGCAGGTCTACTTGTTCGGTCCATGGGCGCGGCTGGGATGGAAGACGAGGCTCTCACAGTGTTTAACGAGCTTCATTTGGGTTTGAAAACTACTCATATTCGCAATGTGGTGATTGGGTTGTTGCTGAAGATTGGGCGAGTAAATGATGCACTGAAGGTGCTCGACGAAATGCTTCACCCAGAAGCGAAGTTTCGGGTTGATGACTTTACCGGCGATGTTGTGATCGGCTCATTATTGAGGAGAGAGCAGATAGGGAGGAGTGTCAGTGAGGAAGAAATTGTGGAGTTGGTGTCGAAATTTGGTAAGCATGGTGTGTTTCCTAATAACACAATACTTACGAAATTGGTCACTGTTTTGTGTAGGAATAGGAAGGTTGGTATTGCTTGGGATGTTTTACATGATGTCATGAAGATGGGTGGTGCTGTAGAAGCTGCTTCGTGCAATGCGCTTTTGACAGCTTTGGGAAGAGCTAATGATTTTAAGAGGATGAGTGAGCTTATGGCGAAGATGGAAGAGATGGGCATTAAGCCTGATGTTATAACTTTTGGTATTCTTGTTAATCGATTATGCAAGTCTAGTAGAGTAGATGCTGCCTTGGAGGTGTTTGAAAAGATGAGTGGAGGGGTAAAGGGGGTTTCCGCTGAACCAGATGTGATCGTCTATAACACTCTAATTGATGGACTTTGCAAAGTGGGAAGGCAGGAAGAAGGATTGCGTTTGTGGATTCCGATCTGCCTTTTTGTGATAGAAAGGAGAGATGAGTAG

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

ko03018 map03018

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

318

Amino Acids

35.13

Weight (kDa)

6.14

Isoelectric Point (pI)

41.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	194 - 250	2.3e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	208 - 254	9.4e-11	PPR repeat family
PPR_1	PF12854	236 - 269	1.9e-11	PPR repeat
PPR_1	PF12854	278 - 303	6.4e-08	PPR repeat

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: OG0000874)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61520 AT5G28370 AT5G28460
fragaria_vesca	FvH4_5g03011 FvH4_5g03011 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_7g15360
malus_domestica	MD01G1071400.v1.1 MD07G1131300.v1.1
prunus_persica	Prupe.2G177500_v2.0.a1
pyrus_communis	pycom01g10040 pycom04g02360 pycom07g12830
rosa_chinensis	RchiOBHm_Chr1g0357681 RchiOBHm_Chr3g0468501 RchiOBHm_Chr5g0017031 RchiOBHm_Chr7g0228211 RchiOBHm_Chr7g0228281 RchiOBHm_Chr7g0228291
rosa_laevigata	RLG00000001577 RLG00000005833 RLG00000009015 RLG00000009124 RLG00000012161 RLG00000028007 RLG00000028484
rosa_multiflora	Rmu_sc0001062.1_g000004 Rmu_sc0001626.1_g000014 Rmu_sc0001626.1_g000015 Rmu_sc0002582.1_g000009 Rmu_sc0003490.1_g000025 Rmu_sc0003490.1_g000026 Rmu_sc0004842.1_g000011 Rmu_sc0004842.1_g000012 Rmu_sc0004842.1_g000020 Rmu_ssc0000425.1_g000002
rosa_roxburghii	Rroxscaffold_3G00231300 Rroxscaffold_4G00298600 Rroxscaffold_6G00429570
rosa_rugosa	Rorug01G0257700 Rorug02G0051500 Rorug02G0572600 Rorug07G0246900.1 Rorug07G0247000 Rorug07G0247000
rosa_samantha	Rh1AG271700 Rh1BG238800 Rh1CG255600 Rh1DG267200 Rh3AG143700 Rh3BG166200 Rh3BG166300 Rh5AG043600 Rh7AG400900 Rh7AG401200 Rh7BG382400 Rh7CG420000 Rh7DG396900 Rh7DG397300
rosa_wichuraiana	Rw1G024230 Rw7G033300 Rw7G033330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	728
AasI	GACNNNNNNGTC	1 cut(s)	167
Acc36I	ACCTGC	1 cut(s)	182
AccI	GTMKAC	1 cut(s)	196
AccII	CGCG	1 cut(s)	218
AciI	CCGC	5 cut(s)	109, 173, 189, 218, 828
AclWI	GGATC	1 cut(s)	38
AcoI	YGGCCR	1 cut(s)	153
AcsI	RAATTY	1 cut(s)	485
AcuI	CTGAAG	2 cut(s)	335, 362
AgsI	TTSAA	2 cut(s)	274, 797
AluBI	AGCT	8 cut(s)	100, 133, 142, 259, 620, 647, 659, 685
AluI	AGCT	8 cut(s)	100, 133, 142, 259, 620, 647, 659, 685
Alw21I	GWGCWC	3 cut(s)	29, 102, 351
Alw44I	GTGCAC	1 cut(s)	25
AlwI	GGATC	1 cut(s)	38
AoxI	GGCC	2 cut(s)	153, 186
ApaLI	GTGCAC	1 cut(s)	25
ApeKI	GCWGC	2 cut(s)	620, 779
ApoI	RAATTY	1 cut(s)	485
Asp700I	GAANNNNTTC	1 cut(s)	360
AspLEI	GCGC	2 cut(s)	218, 637
AspS9I	GGNCC	2 cut(s)	160, 207
AsuHPI	GGTGA	2 cut(s)	310, 356
AvaII	GGWCC	2 cut(s)	160, 207
BaeGI	GKGCMC	1 cut(s)	29
BalI	TGGCCA	1 cut(s)	155
BanII	GRGCYC	2 cut(s)	102, 117
BbsI	GAAGAC	1 cut(s)	237
Bbv12I	GWGCWC	3 cut(s)	29, 102, 351
BbvI	GCAGC	2 cut(s)	607, 766
BccI	CCATC	6 cut(s)	145, 220, 595, 691, 700, 860
BfaI	CTAG	1 cut(s)	765
BfmI	CTRYAG	1 cut(s)	612
BfuAI	ACCTGC	1 cut(s)	182
BisI	GCNGC	4 cut(s)	189, 219, 621, 780
BlsI	GCNGC	4 cut(s)	190, 220, 622, 781
Bme18I	GGWCC	2 cut(s)	160, 207
BmgT120I	GGNCC	2 cut(s)	160, 207
BmiI	GGNNCC	1 cut(s)	114
BmsI	GCATC	2 cut(s)	325, 766
BpiI	GAAGAC	1 cut(s)	237
BplI	GAGNNNNNCTC	2 cut(s)	104, 136
BpmI	CTGGAG	1 cut(s)	116
BpuEI	CTTGAG	1 cut(s)	167
Bsa29I	ATCGAT	1 cut(s)	751
BsaBI	GATNNNNATC	1 cut(s)	917
BsaJI	CCNNGG	4 cut(s)	120, 156, 210, 783
BsaXI	ACNNNNNCTCC	4 cut(s)	439, 464, 469, 494
Bse118I	RCCGGY	1 cut(s)	398
Bse3DI	GCAATG	3 cut(s)	104, 298, 637
Bse8I	GATNNNNATC	1 cut(s)	917
BseCI	ATCGAT	1 cut(s)	751
BseDI	CCNNGG	4 cut(s)	120, 156, 210, 783
BseGI	GGATG	3 cut(s)	231, 583, 681
BseJI	GATNNNNATC	1 cut(s)	917
BseMI	GCAATG	3 cut(s)	104, 298, 637
BseRI	GAGGAG	2 cut(s)	442, 460
BseSI	GKGCMC	1 cut(s)	29
BseXI	GCAGC	2 cut(s)	607, 766
BseYI	CCCAGC	1 cut(s)	221
Bsh1236I	CGCG	1 cut(s)	218
BshFI	GGCC	2 cut(s)	155, 188
BshVI	ATCGAT	1 cut(s)	751
BsiHKAI	GWGCWC	3 cut(s)	29, 102, 351
BsiSI	CCGG	1 cut(s)	399
BslFI	GGGAC	1 cut(s)	155
BsmFI	GGGAC	1 cut(s)	155
BsnI	GGCC	2 cut(s)	155, 188
Bsp1286I	GDGCHC	4 cut(s)	29, 102, 117, 351
Bsp143I	GATC	4 cut(s)	43, 411, 843, 918
Bsp19I	CCATGG	1 cut(s)	210
BspACI	CCGC	5 cut(s)	109, 173, 189, 218, 828
BspANI	GGCC	2 cut(s)	155, 188
BspDI	ATCGAT	1 cut(s)	751
BspFNI	CGCG	1 cut(s)	218
BspHI	TCATGA	1 cut(s)	594
BspLI	GGNNCC	1 cut(s)	114
BspMI	ACCTGC	1 cut(s)	182
BspPI	GGATC	1 cut(s)	38
BspQI	GCTCTTC	1 cut(s)	649
BsrDI	GCAATG	3 cut(s)	104, 298, 637
BsrFI	RCCGGY	1 cut(s)	398
BssAI	RCCGGY	1 cut(s)	398
BssECI	CCNNGG	4 cut(s)	120, 156, 210, 783
BssMI	GATC	4 cut(s)	43, 411, 843, 918
BssT1I	CCWWGG	3 cut(s)	156, 210, 783
Bst4CI	ACNGT	2 cut(s)	247, 541
Bst6I	CTCTTC	2 cut(s)	649, 696
BstDSI	CCRYGG	1 cut(s)	210
BstF5I	GGATG	3 cut(s)	231, 583, 681
BstFNI	CGCG	1 cut(s)	218
BstHHI	GCGC	2 cut(s)	218, 637
BstKTI	GATC	4 cut(s)	46, 414, 846, 921
BstMBI	GATC	4 cut(s)	43, 411, 843, 918
BstMWI	GCNNNNNNNGC	3 cut(s)	106, 139, 617
BstSFI	CTRYAG	1 cut(s)	612
BstSLI	GKGCMC	1 cut(s)	29
BstUI	CGCG	1 cut(s)	218
BstV1I	GCAGC	2 cut(s)	607, 766
BstV2I	GAAGAC	1 cut(s)	237
Bsu15I	ATCGAT	1 cut(s)	751
BsuRI	GGCC	2 cut(s)	155, 188
BsuTUI	ATCGAT	1 cut(s)	751
BtgI	CCRYGG	1 cut(s)	210
BtgZI	GCGATG	1 cut(s)	417
BtsCI	GGATG	3 cut(s)	231, 583, 681
BtsIMutI	CAGTG	4 cut(s)	252, 338, 460, 537
BveI	ACCTGC	1 cut(s)	182
CciI	TCATGA	1 cut(s)	594
CfoI	GCGC	2 cut(s)	218, 637
Cfr10I	RCCGGY	1 cut(s)	398
Cfr13I	GGNCC	2 cut(s)	160, 207
ClaI	ATCGAT	1 cut(s)	751
CviAII	CATG	4 cut(s)	211, 497, 587, 595
DpnI	GATC	4 cut(s)	45, 413, 845, 920
DpnII	GATC	4 cut(s)	43, 411, 843, 918
DrdI	GACNNNNNNGTC	1 cut(s)	167
DseDI	GACNNNNNNGTC	1 cut(s)	167
EaeI	YGGCCR	1 cut(s)	153
Eam1104I	CTCTTC	2 cut(s)	649, 696
EarI	CTCTTC	2 cut(s)	649, 696
Ecl136II	GAGCTC	1 cut(s)	100
Eco130I	CCWWGG	3 cut(s)	156, 210, 783
Eco24I	GRGCYC	2 cut(s)	102, 117
Eco47I	GGWCC	2 cut(s)	160, 207
Eco53kI	GAGCTC	1 cut(s)	100
Eco57I	CTGAAG	2 cut(s)	335, 362
EcoICRI	GAGCTC	1 cut(s)	100
EcoO109I	RGGNCCY	1 cut(s)	160
EcoT14I	CCWWGG	3 cut(s)	156, 210, 783
EcoT38I	GRGCYC	2 cut(s)	102, 117
ErhI	CCWWGG	3 cut(s)	156, 210, 783
FaeI	CATG	4 cut(s)	214, 500, 590, 598
FalI	AAGNNNNNCTT	2 cut(s)	119, 151
FaqI	GGGAC	1 cut(s)	155
FatI	CATG	4 cut(s)	210, 496, 586, 594
FauI	CCCGC	2 cut(s)	102, 180
FblI	GTMKAC	1 cut(s)	196
Fnu4HI	GCNGC	4 cut(s)	189, 219, 621, 780
FokI	GGATG	3 cut(s)	238, 590, 688
FriOI	GRGCYC	2 cut(s)	102, 117
Fsp4HI	GCNGC	4 cut(s)	189, 219, 621, 780
FspBI	CTAG	1 cut(s)	765
GlaI	GCGC	2 cut(s)	217, 636
GluI	GCNGC	4 cut(s)	189, 219, 621, 780
GsaI	CCCAGC	1 cut(s)	225
GsuI	CTGGAG	1 cut(s)	116
HaeIII	GGCC	2 cut(s)	155, 188
HapII	CCGG	1 cut(s)	399
HhaI	GCGC	2 cut(s)	218, 637
Hin1II	CATG	4 cut(s)	214, 500, 590, 598
Hin6I	GCGC	2 cut(s)	216, 635
HinP1I	GCGC	2 cut(s)	216, 635
HinfI	GANTC	3 cut(s)	71, 178, 913
HpaII	CCGG	1 cut(s)	399
HphI	GGTGA	2 cut(s)	310, 356
Hpy166II	GTNNAC	2 cut(s)	27, 197
Hpy188I	TCNGA	4 cut(s)	43, 48, 124, 918
Hpy188III	TCNNGA	2 cut(s)	95, 595
Hpy8I	GTNNAC	2 cut(s)	27, 197
Hpy99I	CGWCG	1 cut(s)	356
HpyAV	CCTTC	5 cut(s)	101, 337, 553, 879, 890
HpyCH4III	ACNGT	2 cut(s)	247, 541
HpyCH4V	TGCA	5 cut(s)	27, 338, 630, 759, 876
HpyF10VI	GCNNNNNNNGC	3 cut(s)	106, 139, 617
Hsp92II	CATG	4 cut(s)	214, 500, 590, 598
HspAI	GCGC	2 cut(s)	216, 635
Kzo9I	GATC	4 cut(s)	43, 411, 843, 918
LguI	GCTCTTC	1 cut(s)	649
LmnI	GCTCC	2 cut(s)	97, 112
Lsp1109I	GCAGC	2 cut(s)	607, 766
LweI	GCATC	2 cut(s)	325, 766
MaeI	CTAG	1 cut(s)	765
MaeIII	GTNAC	1 cut(s)	535
MalI	GATC	4 cut(s)	45, 413, 845, 920
MboI	GATC	4 cut(s)	43, 411, 843, 918
MboII	GAAGA	8 cut(s)	242, 328, 473, 610, 666, 706, 713, 905
MhlI	GDGCHC	4 cut(s)	29, 102, 117, 351
MlsI	TGGCCA	1 cut(s)	155
MluCI	AATT	5 cut(s)	37, 465, 485, 530, 861
MluNI	TGGCCA	1 cut(s)	155
MnlI	CCTC	9 cut(s)	86, 130, 229, 420, 438, 451, 666, 781, 803
Mox20I	TGGCCA	1 cut(s)	155
MroXI	GAANNNNTTC	1 cut(s)	360
MscI	TGGCCA	1 cut(s)	155
MseI	TTAA	4 cut(s)	252, 669, 714, 747
MslI	CAYNNNNRTG	1 cut(s)	599
Msp20I	TGGCCA	1 cut(s)	155
MspA1I	CMGCKG	2 cut(s)	175, 830
MspI	CCGG	1 cut(s)	399
MvnI	CGCG	1 cut(s)	218
MwoI	GCNNNNNNNGC	3 cut(s)	106, 139, 617
NcoI	CCATGG	1 cut(s)	210
NdeII	GATC	4 cut(s)	43, 411, 843, 918
NlaIII	CATG	4 cut(s)	214, 500, 590, 598
NlaIV	GGNNCC	1 cut(s)	114
NmuCI	GTSAC	1 cut(s)	535
PagI	TCATGA	1 cut(s)	594
PciSI	GCTCTTC	1 cut(s)	649
PdmI	GAANNNNTTC	1 cut(s)	360
PfeI	GAWTC	3 cut(s)	71, 178, 913
PkrI	GCNGC	4 cut(s)	190, 220, 622, 781
PpuMI	RGGWCCY	1 cut(s)	160
PsiI	TTATAA	1 cut(s)	728
Psp124BI	GAGCTC	1 cut(s)	102
Psp5II	RGGWCCY	1 cut(s)	160
PspFI	CCCAGC	1 cut(s)	221
PspN4I	GGNNCC	1 cut(s)	114
PspPI	GGNCC	2 cut(s)	160, 207
PspPPI	RGGWCCY	1 cut(s)	160
RseI	CAYNNNNRTG	1 cut(s)	599
SacI	GAGCTC	1 cut(s)	102
SapI	GCTCTTC	1 cut(s)	649
SaqAI	TTAA	4 cut(s)	252, 669, 714, 747
SatI	GCNGC	4 cut(s)	189, 219, 621, 780
Sau3AI	GATC	4 cut(s)	43, 411, 843, 918
Sau96I	GGNCC	2 cut(s)	160, 207
SduI	GDGCHC	4 cut(s)	29, 102, 117, 351
SfaNI	GCATC	2 cut(s)	325, 766
SfcI	CTRYAG	1 cut(s)	612
SinI	GGWCC	2 cut(s)	160, 207
SmiMI	CAYNNNNRTG	1 cut(s)	599
SmlI	CTYRAG	1 cut(s)	182
SmoI	CTYRAG	1 cut(s)	182
Sse9I	AATT	5 cut(s)	37, 465, 485, 530, 861
SsiI	CCGC	5 cut(s)	109, 173, 189, 218, 828
SspMI	CTAG	1 cut(s)	765
SstI	GAGCTC	1 cut(s)	102
StyI	CCWWGG	3 cut(s)	156, 210, 783
TaaI	ACNGT	2 cut(s)	247, 541
TaqI	TCGA	3 cut(s)	351, 482, 751
TaqII	GACCGA	1 cut(s)	195
TasI	AATT	5 cut(s)	37, 465, 485, 530, 861
TauI	GCSGC	2 cut(s)	191, 221
TfiI	GAWTC	3 cut(s)	71, 178, 913
Tru1I	TTAA	4 cut(s)	252, 669, 714, 747
Tru9I	TTAA	4 cut(s)	252, 669, 714, 747
TscAI	CASTG	4 cut(s)	252, 345, 460, 544
TseFI	GTSAC	1 cut(s)	535
TseI	GCWGC	2 cut(s)	620, 779
Tsp45I	GTSAC	1 cut(s)	535
TspDTI	ATGAA	2 cut(s)	251, 611
TspRI	CASTG	4 cut(s)	252, 345, 460, 544
VneI	GTGCAC	1 cut(s)	25
VpaK11BI	GGWCC	2 cut(s)	160, 207
XapI	RAATTY	1 cut(s)	485
XmiI	GTMKAC	1 cut(s)	196
XmnI	GAANNNNTTC	1 cut(s)	360
XspI	CTAG	1 cut(s)	765

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