Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0012039

Physical Location & Seq

Genomic Coordinates Forward (+)

36753222 .. 36754467

Gene Structure 1246 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029342

Sequence Viewer

CDS Protein Promoter (2k)

Length: 834 bp

ATGATCACGGGTTATGCTCAGAATGGAAGGCTGGAGGAGGCTCTTGAATTGTTTGAGAGGATGCCGGAGAGGGATATGCCTTCGTGGAATACGATGGTTACTGGCTTTATTCAGAATGGGGATTTAAAGCGGGCATGGAACTTGTTTATGAAAATGCCACAGAAGAATGCCATGTCCTGGACTACAATGATCACTGGGTGTGTACAAGATGGAAAAAATGAAGATGCAATGATGATTTTCTCAAAAATGGTGGCAGATGATGGGGTGAAACCTAATCAGGAACTTTTGGAGTTAATCTCTGCTAGGAGGATGTTTGAAGATGGATTGACAGTCCATAGGGATTTGATCTCCTGTAACGGAATAAATGCAGCCTATGCACATCATGGATGTGGTGTTGAGGCAATGAACTTGTATAATGAAATGCGGCAATTGGGGTGCAAACCAGATGATGTTACTTATGTGGGGCTGCTTTCTGCATGCTGCCATGCTGGTTTGGTGGAGGAGGGACTAAATCTTTTTGATGAGCTTCTTAGAGATGGGTCAATACAAGTGAGGGAAGATCATTACACTTGCTTAGTTGATCTTTGTGGTCGAGCAGGAAGGCTGAAGGAGGCTTTTGGTATCCTCGAGAAGCTTGCGACCAACCCATCAGCATCTAATTGGGGCGCTCTTCTTGCTGGATTTATTGATCATCATAACATGGATACCGGGAAGCTAGCTGCAGAGAAGCTCTTAAAGGAGGGACCAGATGATGCAGGCAGGAATTCTTACTTGGGATATCTTCAGACTTATATAGGCAGAATTAAAGTGACACGTGGACTCCATAAGATCTGA

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

DYW_deaminase PPR

Protein Analysis

278

Amino Acids

30.9

Weight (kDa)

5.52

Isoelectric Point (pI)

28.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	1 - 25	2.5e-07	PPR repeat
PPR_2	PF13041	27 - 56	6.6e-06	PPR repeat family
PPR_2	PF13041	56 - 93	1.9e-06	PPR repeat family
PPR	PF01535	59 - 85	4.6e-06	PPR repeat
PPR_2	PF13041	114 - 162	4.7e-11	PPR repeat family
PPR_1	PF12854	145 - 175	9.7e-07	PPR repeat
PPR	PF01535	151 - 180	4.5e-06	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: OG0012039)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G35030
fragaria_vesca	FvH4_7g06880 FvH4_7g06880
prunus_persica	Prupe.7G042800_v2.0.a1
pyrus_communis	pycom12g07780
rosa_chinensis	RchiOBHm_Chr1g0336641 RchiOBHm_Chr1g0336671
rosa_laevigata	RLG00000029341 RLG00000029342
rosa_multiflora	Rmu_co8277885.1_g000001 Rmu_sc0000907.1_g000005 Rmu_sc0000907.1_g000007
rosa_roxburghii	Rroxscaffold_4G00315400
rosa_rugosa	Rorug01G0127400 Rorug04G0097200
rosa_samantha	Rh1AG148300 Rh1BG116300 Rh1CG139700
rosa_wichuraiana	Rw1G011980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	177
AciI	CCGC	2 cut(s)	130, 424
AcsI	RAATTY	1 cut(s)	763
AcuI	CTGAAG	2 cut(s)	626, 767
AcvI	CACGTG	1 cut(s)	815
AdeI	CACNNNGTG	1 cut(s)	198
AfaI	GTAC	1 cut(s)	204
AfiI	CCNNNNNNNGG	1 cut(s)	177
AflIII	ACRYGT	1 cut(s)	812
AgsI	TTSAA	2 cut(s)	47, 317
AjnI	CCWGG	1 cut(s)	176
AjuI	GAANNNNNNNTTGG	2 cut(s)	755, 787
AluBI	AGCT	5 cut(s)	526, 634, 715, 719, 730
AluI	AGCT	5 cut(s)	526, 634, 715, 719, 730
Ama87I	CYCGRG	1 cut(s)	626
ApeKI	GCWGC	4 cut(s)	368, 466, 480, 719
ApoI	RAATTY	1 cut(s)	763
AspLEI	GCGC	1 cut(s)	668
AspS9I	GGNCC	1 cut(s)	743
AsuC2I	CCSGG	1 cut(s)	709
AsuHPI	GGTGA	1 cut(s)	277
AsuNHI	GCTAGC	1 cut(s)	715
AvaI	CYCGRG	1 cut(s)	626
AvaII	GGWCC	1 cut(s)	743
BbrPI	CACGTG	1 cut(s)	815
BbvI	GCAGC	4 cut(s)	380, 453, 467, 706
BccI	CCATC	6 cut(s)	88, 203, 254, 314, 530, 655
BcgI	CGANNNNNNTGC	2 cut(s)	617, 651
BciT130I	CCWGG	1 cut(s)	178
BciVI	GTATCC	2 cut(s)	632, 697
BclI	TGATCA	3 cut(s)	3, 189, 688
BcnI	CCSGG	1 cut(s)	709
BfaI	CTAG	2 cut(s)	303, 716
BfmI	CTRYAG	1 cut(s)	720
BfoI	RGCGCY	1 cut(s)	669
BfuI	GTATCC	2 cut(s)	632, 697
BglII	AGATCT	1 cut(s)	828
BisI	GCNGC	5 cut(s)	369, 425, 467, 481, 720
BlsI	GCNGC	5 cut(s)	370, 426, 468, 482, 721
Bme1390I	CCNGG	2 cut(s)	178, 709
Bme18I	GGWCC	1 cut(s)	743
BmeT110I	CYCGRG	1 cut(s)	626
BmgT120I	GGNCC	1 cut(s)	743
BmiI	GGNNCC	1 cut(s)	744
BmrFI	CCNGG	2 cut(s)	178, 709
BmrI	ACTGGG	1 cut(s)	204
BmsI	GCATC	4 cut(s)	51, 214, 662, 742
BmtI	GCTAGC	1 cut(s)	719
BmuI	ACTGGG	1 cut(s)	204
BplI	GAGNNNNNCTC	2 cut(s)	281, 313
BpmI	CTGGAG	1 cut(s)	53
BpuMI	CCSGG	1 cut(s)	709
BsaAI	YACGTR	1 cut(s)	815
BsaXI	ACNNNNNCTCC	2 cut(s)	804, 834
Bsc4I	CCNNNNNNNGG	1 cut(s)	177
Bse1I	ACTGG	2 cut(s)	106, 199
Bse3DI	GCAATG	2 cut(s)	234, 408
BseBI	CCWGG	1 cut(s)	178
BseGI	GGATG	3 cut(s)	66, 315, 392
BseLI	CCNNNNNNNGG	1 cut(s)	177
BseMI	GCAATG	2 cut(s)	234, 408
BseMII	CTCAG	1 cut(s)	32
BseNI	ACTGG	2 cut(s)	106, 199
BseRI	GAGGAG	2 cut(s)	50, 515
BseXI	GCAGC	4 cut(s)	380, 453, 467, 706
BsiHKCI	CYCGRG	1 cut(s)	626
BsiSI	CCGG	2 cut(s)	65, 708
BslFI	GGGAC	2 cut(s)	519, 756
BslI	CCNNNNNNNGG	1 cut(s)	177
BsmFI	GGGAC	2 cut(s)	519, 756
BsmI	GAATGC	1 cut(s)	172
BsoBI	CYCGRG	1 cut(s)	626
Bsp1407I	TGTACA	1 cut(s)	202
Bsp143I	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
BspACI	CCGC	2 cut(s)	130, 424
BspCNI	CTCAG	1 cut(s)	31
BspLI	GGNNCC	1 cut(s)	744
BspMAI	CTGCAG	1 cut(s)	724
BspOI	GCTAGC	1 cut(s)	719
BspQI	GCTCTTC	1 cut(s)	675
BsrDI	GCAATG	2 cut(s)	234, 408
BsrGI	TGTACA	1 cut(s)	202
BsrI	ACTGG	2 cut(s)	106, 199
BssMI	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
Bst2UI	CCWGG	1 cut(s)	178
Bst4CI	ACNGT	1 cut(s)	331
Bst6I	CTCTTC	1 cut(s)	675
BstAPI	GCANNNNNTGC	1 cut(s)	374
BstAUI	TGTACA	1 cut(s)	202
BstBAI	YACGTR	1 cut(s)	815
BstC8I	GCNNGC	5 cut(s)	132, 478, 636, 717, 757
BstDEI	CTNAG	3 cut(s)	18, 530, 574
BstF5I	GGATG	3 cut(s)	66, 315, 392
BstH2I	RGCGCY	1 cut(s)	669
BstHHI	GCGC	1 cut(s)	668
BstKTI	GATC	7 cut(s)	6, 192, 348, 562, 583, 691, 831
BstMBI	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
BstMWI	GCNNNNNNNGC	2 cut(s)	374, 674
BstNI	CCWGG	1 cut(s)	178
BstNSI	RCATGY	1 cut(s)	480
BstSCI	CCNGG	2 cut(s)	176, 707
BstSFI	CTRYAG	1 cut(s)	720
BstV1I	GCAGC	4 cut(s)	380, 453, 467, 706
BstX2I	RGATCY	1 cut(s)	828
BstYI	RGATCY	1 cut(s)	828
BsuI	GTATCC	2 cut(s)	632, 697
BtsCI	GGATG	3 cut(s)	66, 315, 392
BtsIMutI	CAGTG	1 cut(s)	192
Cac8I	GCNNGC	5 cut(s)	132, 478, 636, 717, 757
CfoI	GCGC	1 cut(s)	668
Cfr13I	GGNCC	1 cut(s)	743
Csp6I	GTAC	1 cut(s)	203
CspCI	CAANNNNNGTGG	2 cut(s)	231, 266
CviAII	CATG	6 cut(s)	135, 172, 383, 477, 485, 700
CviQI	GTAC	1 cut(s)	203
DdeI	CTNAG	3 cut(s)	18, 530, 574
DpnI	GATC	7 cut(s)	5, 191, 347, 561, 582, 690, 830
DpnII	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
DraI	TTTAAA	1 cut(s)	126
DraIII	CACNNNGTG	1 cut(s)	198
Eam1104I	CTCTTC	1 cut(s)	675
EarI	CTCTTC	1 cut(s)	675
Eco32I	GATATC	1 cut(s)	779
Eco47I	GGWCC	1 cut(s)	743
Eco57I	CTGAAG	2 cut(s)	626, 767
Eco72I	CACGTG	1 cut(s)	815
Eco88I	CYCGRG	1 cut(s)	626
EcoRI	GAATTC	1 cut(s)	763
EcoRII	CCWGG	1 cut(s)	176
EcoRV	GATATC	1 cut(s)	779
FaeI	CATG	6 cut(s)	138, 175, 386, 480, 488, 703
FaqI	GGGAC	2 cut(s)	519, 756
FatI	CATG	6 cut(s)	134, 171, 382, 476, 484, 699
FauI	CCCGC	1 cut(s)	123
FbaI	TGATCA	3 cut(s)	3, 189, 688
Fnu4HI	GCNGC	5 cut(s)	369, 425, 467, 481, 720
FokI	GGATG	3 cut(s)	73, 322, 399
Fsp4HI	GCNGC	5 cut(s)	369, 425, 467, 481, 720
FspBI	CTAG	2 cut(s)	303, 716
GlaI	GCGC	1 cut(s)	667
GluI	GCNGC	5 cut(s)	369, 425, 467, 481, 720
GsuI	CTGGAG	1 cut(s)	53
HaeII	RGCGCY	1 cut(s)	669
HapII	CCGG	2 cut(s)	65, 708
HhaI	GCGC	1 cut(s)	668
Hin1II	CATG	6 cut(s)	138, 175, 386, 480, 488, 703
Hin6I	GCGC	1 cut(s)	666
HinP1I	GCGC	1 cut(s)	666
HindIII	AAGCTT	1 cut(s)	632
HinfI	GANTC	1 cut(s)	819
HpaII	CCGG	2 cut(s)	65, 708
HphI	GGTGA	1 cut(s)	277
Hpy166II	GTNNAC	2 cut(s)	203, 818
Hpy188I	TCNGA	4 cut(s)	21, 114, 786, 833
Hpy188III	TCNNGA	3 cut(s)	44, 278, 628
Hpy8I	GTNNAC	2 cut(s)	203, 818
HpyAV	CCTTC	4 cut(s)	21, 90, 594, 601
HpyCH4III	ACNGT	1 cut(s)	331
HpyCH4IV	ACGT	1 cut(s)	814
HpyCH4V	TGCA	7 cut(s)	227, 368, 377, 438, 476, 722, 755
HpyF10VI	GCNNNNNNNGC	2 cut(s)	374, 674
HpyF3I	CTNAG	3 cut(s)	18, 530, 574
HpySE526I	ACGT	1 cut(s)	814
Hsp92II	CATG	6 cut(s)	138, 175, 386, 480, 488, 703
HspAI	GCGC	1 cut(s)	666
Ksp22I	TGATCA	3 cut(s)	3, 189, 688
Kzo9I	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
LguI	GCTCTTC	1 cut(s)	675
Lsp1109I	GCAGC	4 cut(s)	380, 453, 467, 706
LweI	GCATC	4 cut(s)	51, 214, 662, 742
MaeI	CTAG	2 cut(s)	303, 716
MaeII	ACGT	1 cut(s)	814
MaeIII	GTNAC	4 cut(s)	97, 353, 451, 808
MalI	GATC	7 cut(s)	5, 191, 347, 561, 582, 690, 830
MboI	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
MboII	GAAGA	6 cut(s)	175, 233, 329, 569, 662, 773
MfeI	CAATTG	1 cut(s)	428
MflI	RGATCY	1 cut(s)	828
MluCI	AATT	5 cut(s)	47, 428, 658, 763, 801
MlyI	GAGTC	1 cut(s)	813
MseI	TTAA	4 cut(s)	125, 293, 734, 804
MslI	CAYNNNNRTG	1 cut(s)	387
MspI	CCGG	2 cut(s)	65, 708
MspR9I	CCNGG	2 cut(s)	178, 709
MunI	CAATTG	1 cut(s)	428
Mva1269I	GAATGC	1 cut(s)	172
MvaI	CCWGG	1 cut(s)	178
MwoI	GCNNNNNNNGC	2 cut(s)	374, 674
NciI	CCSGG	1 cut(s)	709
NdeII	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
NheI	GCTAGC	1 cut(s)	715
NlaIII	CATG	6 cut(s)	138, 175, 386, 480, 488, 703
NlaIV	GGNNCC	1 cut(s)	744
NmuCI	GTSAC	1 cut(s)	808
NspI	RCATGY	1 cut(s)	480
PaeI	GCATGC	1 cut(s)	480
PaeR7I	CTCGAG	1 cut(s)	626
PciSI	GCTCTTC	1 cut(s)	675
PcsI	WCGNNNNNNNCGW	1 cut(s)	89
PctI	GAATGC	1 cut(s)	172
PflMI	CCANNNNNTGG	1 cut(s)	177
PfoI	TCCNGGA	1 cut(s)	176
PkrI	GCNGC	5 cut(s)	370, 426, 468, 482, 721
PleI	GAGTC	1 cut(s)	813
PmaCI	CACGTG	1 cut(s)	815
PmlI	CACGTG	1 cut(s)	815
PpsI	GAGTC	1 cut(s)	813
Ppu21I	YACGTR	1 cut(s)	815
Psp6I	CCWGG	1 cut(s)	176
PspCI	CACGTG	1 cut(s)	815
PspGI	CCWGG	1 cut(s)	176
PspN4I	GGNNCC	1 cut(s)	744
PspPI	GGNCC	1 cut(s)	743
PstI	CTGCAG	1 cut(s)	724
PsuI	RGATCY	1 cut(s)	828
RsaI	GTAC	1 cut(s)	204
RsaNI	GTAC	1 cut(s)	203
RseI	CAYNNNNRTG	1 cut(s)	387
SapI	GCTCTTC	1 cut(s)	675
SaqAI	TTAA	4 cut(s)	125, 293, 734, 804
SatI	GCNGC	5 cut(s)	369, 425, 467, 481, 720
Sau3AI	GATC	7 cut(s)	3, 189, 345, 559, 580, 688, 828
Sau96I	GGNCC	1 cut(s)	743
SchI	GAGTC	1 cut(s)	813
ScrFI	CCNGG	2 cut(s)	178, 709
SetI	ASST	7 cut(s)	274, 528, 636, 717, 721, 732, 817
SfaNI	GCATC	4 cut(s)	51, 214, 662, 742
SfcI	CTRYAG	1 cut(s)	720
Sfr274I	CTCGAG	1 cut(s)	626
SinI	GGWCC	1 cut(s)	743
SlaI	CTCGAG	1 cut(s)	626
SmiMI	CAYNNNNRTG	1 cut(s)	387
SmlI	CTYRAG	1 cut(s)	626
SmoI	CTYRAG	1 cut(s)	626
SphI	GCATGC	1 cut(s)	480
Sse9I	AATT	5 cut(s)	47, 428, 658, 763, 801
SsiI	CCGC	2 cut(s)	130, 424
SspMI	CTAG	2 cut(s)	303, 716
StyD4I	CCNGG	2 cut(s)	176, 707
TaaI	ACNGT	1 cut(s)	331
TaiI	ACGT	1 cut(s)	817
TaqI	TCGA	2 cut(s)	592, 627
TasI	AATT	5 cut(s)	47, 428, 658, 763, 801
TatI	WGTACW	1 cut(s)	202
TauI	GCSGC	1 cut(s)	427
Tru1I	TTAA	4 cut(s)	125, 293, 734, 804
Tru9I	TTAA	4 cut(s)	125, 293, 734, 804
TscAI	CASTG	1 cut(s)	199
TseFI	GTSAC	1 cut(s)	808
TseI	GCWGC	4 cut(s)	368, 466, 480, 719
Tsp45I	GTSAC	1 cut(s)	808
TspDTI	ATGAA	4 cut(s)	164, 234, 419, 432
TspGWI	ACGGA	1 cut(s)	372
TspRI	CASTG	1 cut(s)	199
Van91I	CCANNNNNTGG	1 cut(s)	177
VpaK11BI	GGWCC	1 cut(s)	743
XapI	RAATTY	1 cut(s)	763
XceI	RCATGY	1 cut(s)	480
XhoI	CTCGAG	1 cut(s)	626
XspI	CTAG	2 cut(s)	303, 716

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