Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0000874

Physical Location & Seq

Genomic Coordinates Reverse (-)

45060433 .. 45061236

Gene Structure 804 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009015

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGGCCAAGGACCTGAATGTCCCGCTGAATCTCAAGGCCGCAGGTCTACTTGTTCGGTCCATGGGCGCGGCTGGGATGGAGGACGAGGCTCTCACAGTGTTTAACGAGCTTCATTTGGGGTTGAAAACTACTCATATTCGCAATGTGGTGATTGGGTTGTTGCTGAAGATTGGGCGAGTAAATGATGCACTGAAGGTGCTCGACGAAATGCTTCACCCAGAAGCGAAGTTTCGGGTTGATGACTTTACCGGCGATGTTGTGATCGGCTCATTATTGAGGAGAGAGCAGATAGGGAGGAGTGTCAGTGAGGAAGAAATTGTGGAGAATAGGAAGGTTGGTATTGCTTGGGATGTTTTACATGATGTCATGAAGATGGGTGGTGCTGTAGAAGCTGCTTCGTGCAATGCGCTTTTGACAGCTTTGGGAAGAGCTAATGATTTTAAGAGGATGAGTGAGCTTATGGCGAAGATGGAAGAGATGGGCATTAAGCCCGATGTTATAACTTTTGGTATTCTTGTTAATCGATTATGCAAGTCTAGTAGAATAGATGCTGCCTTGGAGGTGTTTGAAAAGATGAGTGGAGGGGTAAAGGGGGTTTCCGCTGAACCAGATGTGATCGTCTATAACACTCTAATTAATGGACTTTGCAAAGTGGGAAGGCAGGAAGAAGGATTGCGTTTGTGGATTCCGATCTGCCTTTTTGTGATAGAAAGGAGAGATGAGTAG

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

242

Amino Acids

26.54

Weight (kDa)

5.72

Isoelectric Point (pI)

43.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	118 - 174	1.4e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	132 - 178	6.1e-11	PPR repeat family
PPR_1	PF12854	160 - 193	3.9e-11	PPR repeat
PPR_1	PF12854	202 - 227	3.2e-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)	500
AasI	GACNNNNNNGTC	1 cut(s)	17
Acc36I	ACCTGC	1 cut(s)	32
AccI	GTMKAC	1 cut(s)	46
AccII	CGCG	1 cut(s)	68
AciI	CCGC	4 cut(s)	23, 39, 68, 600
AcoI	YGGCCR	1 cut(s)	3
AcuI	CTGAAG	2 cut(s)	185, 212
AgsI	TTSAA	2 cut(s)	124, 569
AluBI	AGCT	5 cut(s)	109, 392, 419, 431, 457
AluI	AGCT	5 cut(s)	109, 392, 419, 431, 457
Alw21I	GWGCWC	1 cut(s)	201
AoxI	GGCC	2 cut(s)	3, 36
ApeKI	GCWGC	2 cut(s)	392, 551
AseI	ATTAAT	1 cut(s)	636
Asp700I	GAANNNNTTC	1 cut(s)	210
AspLEI	GCGC	2 cut(s)	68, 409
AspS9I	GGNCC	2 cut(s)	10, 57
AsuHPI	GGTGA	2 cut(s)	160, 206
AvaII	GGWCC	2 cut(s)	10, 57
BalI	TGGCCA	1 cut(s)	5
Bbv12I	GWGCWC	1 cut(s)	201
BbvI	GCAGC	2 cut(s)	379, 538
BccI	CCATC	4 cut(s)	70, 367, 463, 472
BfaI	CTAG	1 cut(s)	537
BfmI	CTRYAG	1 cut(s)	384
BfuAI	ACCTGC	1 cut(s)	32
BisI	GCNGC	4 cut(s)	39, 69, 393, 552
BlsI	GCNGC	4 cut(s)	40, 70, 394, 553
Bme18I	GGWCC	2 cut(s)	10, 57
BmgT120I	GGNCC	2 cut(s)	10, 57
BmsI	GCATC	2 cut(s)	175, 538
BpuEI	CTTGAG	1 cut(s)	17
Bsa29I	ATCGAT	1 cut(s)	523
BsaBI	GATNNNNATC	1 cut(s)	689
BsaJI	CCNNGG	3 cut(s)	6, 60, 555
BsaXI	ACNNNNNCTCC	2 cut(s)	289, 319
Bse118I	RCCGGY	1 cut(s)	248
Bse3DI	GCAATG	2 cut(s)	148, 409
Bse8I	GATNNNNATC	1 cut(s)	689
BseCI	ATCGAT	1 cut(s)	523
BseDI	CCNNGG	3 cut(s)	6, 60, 555
BseGI	GGATG	3 cut(s)	81, 355, 453
BseJI	GATNNNNATC	1 cut(s)	689
BseMI	GCAATG	2 cut(s)	148, 409
BseRI	GAGGAG	2 cut(s)	292, 310
BseXI	GCAGC	2 cut(s)	379, 538
BseYI	CCCAGC	1 cut(s)	71
Bsh1236I	CGCG	1 cut(s)	68
BshFI	GGCC	2 cut(s)	5, 38
BshVI	ATCGAT	1 cut(s)	523
BsiHKAI	GWGCWC	1 cut(s)	201
BsiSI	CCGG	1 cut(s)	249
BslFI	GGGAC	1 cut(s)	5
BsmFI	GGGAC	1 cut(s)	5
BsnI	GGCC	2 cut(s)	5, 38
Bsp1286I	GDGCHC	1 cut(s)	201
Bsp143I	GATC	3 cut(s)	261, 615, 690
Bsp19I	CCATGG	1 cut(s)	60
BspACI	CCGC	4 cut(s)	23, 39, 68, 600
BspANI	GGCC	2 cut(s)	5, 38
BspDI	ATCGAT	1 cut(s)	523
BspFNI	CGCG	1 cut(s)	68
BspHI	TCATGA	1 cut(s)	366
BspMI	ACCTGC	1 cut(s)	32
BspQI	GCTCTTC	1 cut(s)	421
BsrDI	GCAATG	2 cut(s)	148, 409
BsrFI	RCCGGY	1 cut(s)	248
BssAI	RCCGGY	1 cut(s)	248
BssECI	CCNNGG	3 cut(s)	6, 60, 555
BssMI	GATC	3 cut(s)	261, 615, 690
BssT1I	CCWWGG	3 cut(s)	6, 60, 555
Bst4CI	ACNGT	1 cut(s)	97
Bst6I	CTCTTC	2 cut(s)	421, 468
BstDSI	CCRYGG	1 cut(s)	60
BstF5I	GGATG	3 cut(s)	81, 355, 453
BstFNI	CGCG	1 cut(s)	68
BstHHI	GCGC	2 cut(s)	68, 409
BstKTI	GATC	3 cut(s)	264, 618, 693
BstMBI	GATC	3 cut(s)	261, 615, 690
BstMWI	GCNNNNNNNGC	1 cut(s)	389
BstSFI	CTRYAG	1 cut(s)	384
BstUI	CGCG	1 cut(s)	68
BstV1I	GCAGC	2 cut(s)	379, 538
Bsu15I	ATCGAT	1 cut(s)	523
BsuRI	GGCC	2 cut(s)	5, 38
BsuTUI	ATCGAT	1 cut(s)	523
BtgI	CCRYGG	1 cut(s)	60
BtgZI	GCGATG	1 cut(s)	267
BtsCI	GGATG	3 cut(s)	81, 355, 453
BtsIMutI	CAGTG	3 cut(s)	102, 188, 310
BveI	ACCTGC	1 cut(s)	32
CciI	TCATGA	1 cut(s)	366
CfoI	GCGC	2 cut(s)	68, 409
Cfr10I	RCCGGY	1 cut(s)	248
Cfr13I	GGNCC	2 cut(s)	10, 57
ClaI	ATCGAT	1 cut(s)	523
CviAII	CATG	3 cut(s)	61, 359, 367
DpnI	GATC	3 cut(s)	263, 617, 692
DpnII	GATC	3 cut(s)	261, 615, 690
DrdI	GACNNNNNNGTC	1 cut(s)	17
DseDI	GACNNNNNNGTC	1 cut(s)	17
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	2 cut(s)	421, 468
EarI	CTCTTC	2 cut(s)	421, 468
Eco130I	CCWWGG	3 cut(s)	6, 60, 555
Eco47I	GGWCC	2 cut(s)	10, 57
Eco57I	CTGAAG	2 cut(s)	185, 212
EcoO109I	RGGNCCY	1 cut(s)	10
EcoT14I	CCWWGG	3 cut(s)	6, 60, 555
ErhI	CCWWGG	3 cut(s)	6, 60, 555
FaeI	CATG	3 cut(s)	64, 362, 370
FaiI	YATR	8 cut(s)	62, 135, 360, 368, 461, 500, 529, 624
FaqI	GGGAC	1 cut(s)	5
FatI	CATG	3 cut(s)	60, 358, 366
FauI	CCCGC	1 cut(s)	30
FblI	GTMKAC	1 cut(s)	46
Fnu4HI	GCNGC	4 cut(s)	39, 69, 393, 552
FokI	GGATG	3 cut(s)	88, 362, 460
Fsp4HI	GCNGC	4 cut(s)	39, 69, 393, 552
FspBI	CTAG	1 cut(s)	537
GlaI	GCGC	2 cut(s)	67, 408
GluI	GCNGC	4 cut(s)	39, 69, 393, 552
GsaI	CCCAGC	1 cut(s)	75
HaeIII	GGCC	2 cut(s)	5, 38
HapII	CCGG	1 cut(s)	249
HhaI	GCGC	2 cut(s)	68, 409
Hin1II	CATG	3 cut(s)	64, 362, 370
Hin6I	GCGC	2 cut(s)	66, 407
HinP1I	GCGC	2 cut(s)	66, 407
HinfI	GANTC	2 cut(s)	28, 685
HpaII	CCGG	1 cut(s)	249
HphI	GGTGA	2 cut(s)	160, 206
Hpy166II	GTNNAC	1 cut(s)	47
Hpy188I	TCNGA	1 cut(s)	690
Hpy188III	TCNNGA	1 cut(s)	367
Hpy8I	GTNNAC	1 cut(s)	47
Hpy99I	CGWCG	1 cut(s)	206
HpyAV	CCTTC	4 cut(s)	187, 325, 651, 662
HpyCH4III	ACNGT	1 cut(s)	97
HpyCH4V	TGCA	4 cut(s)	188, 402, 531, 648
HpyF10VI	GCNNNNNNNGC	1 cut(s)	389
Hsp92II	CATG	3 cut(s)	64, 362, 370
HspAI	GCGC	2 cut(s)	66, 407
Kzo9I	GATC	3 cut(s)	261, 615, 690
LguI	GCTCTTC	1 cut(s)	421
LpnPI	CCDG	7 cut(s)	26, 27, 57, 231, 262, 621, 647
Lsp1109I	GCAGC	2 cut(s)	379, 538
LweI	GCATC	2 cut(s)	175, 538
MaeI	CTAG	1 cut(s)	537
MalI	GATC	3 cut(s)	263, 617, 692
MboI	GATC	3 cut(s)	261, 615, 690
MboII	GAAGA	7 cut(s)	178, 323, 382, 438, 478, 485, 677
MhlI	GDGCHC	1 cut(s)	201
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	2 cut(s)	315, 633
MluNI	TGGCCA	1 cut(s)	5
MnlI	CCTC	8 cut(s)	73, 79, 270, 288, 301, 438, 553, 575
Mox20I	TGGCCA	1 cut(s)	5
MroXI	GAANNNNTTC	1 cut(s)	210
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	5 cut(s)	102, 441, 486, 519, 636
MslI	CAYNNNNRTG	1 cut(s)	371
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	2 cut(s)	25, 602
MspI	CCGG	1 cut(s)	249
MvnI	CGCG	1 cut(s)	68
MwoI	GCNNNNNNNGC	1 cut(s)	389
NcoI	CCATGG	1 cut(s)	60
NdeII	GATC	3 cut(s)	261, 615, 690
NlaIII	CATG	3 cut(s)	64, 362, 370
PagI	TCATGA	1 cut(s)	366
PciSI	GCTCTTC	1 cut(s)	421
PdmI	GAANNNNTTC	1 cut(s)	210
PfeI	GAWTC	2 cut(s)	28, 685
PkrI	GCNGC	4 cut(s)	40, 70, 394, 553
PpuMI	RGGWCCY	1 cut(s)	10
PshBI	ATTAAT	1 cut(s)	636
PsiI	TTATAA	1 cut(s)	500
Psp5II	RGGWCCY	1 cut(s)	10
PspFI	CCCAGC	1 cut(s)	71
PspPI	GGNCC	2 cut(s)	10, 57
PspPPI	RGGWCCY	1 cut(s)	10
RseI	CAYNNNNRTG	1 cut(s)	371
SapI	GCTCTTC	1 cut(s)	421
SaqAI	TTAA	5 cut(s)	102, 441, 486, 519, 636
SatI	GCNGC	4 cut(s)	39, 69, 393, 552
Sau3AI	GATC	3 cut(s)	261, 615, 690
Sau96I	GGNCC	2 cut(s)	10, 57
SduI	GDGCHC	1 cut(s)	201
SfaNI	GCATC	2 cut(s)	175, 538
SfcI	CTRYAG	1 cut(s)	384
SinI	GGWCC	2 cut(s)	10, 57
SmiMI	CAYNNNNRTG	1 cut(s)	371
SmlI	CTYRAG	1 cut(s)	32
SmoI	CTYRAG	1 cut(s)	32
Sse9I	AATT	2 cut(s)	315, 633
SsiI	CCGC	4 cut(s)	23, 39, 68, 600
SspMI	CTAG	1 cut(s)	537
StyI	CCWWGG	3 cut(s)	6, 60, 555
TaaI	ACNGT	1 cut(s)	97
TaqI	TCGA	2 cut(s)	201, 523
TaqII	GACCGA	1 cut(s)	45
TasI	AATT	2 cut(s)	315, 633
TauI	GCSGC	2 cut(s)	41, 71
TfiI	GAWTC	2 cut(s)	28, 685
Tru1I	TTAA	5 cut(s)	102, 441, 486, 519, 636
Tru9I	TTAA	5 cut(s)	102, 441, 486, 519, 636
TscAI	CASTG	3 cut(s)	102, 195, 310
TseI	GCWGC	2 cut(s)	392, 551
TspDTI	ATGAA	2 cut(s)	101, 383
TspRI	CASTG	3 cut(s)	102, 195, 310
VpaK11BI	GGWCC	2 cut(s)	10, 57
VspI	ATTAAT	1 cut(s)	636
XmiI	GTMKAC	1 cut(s)	46
XmnI	GAANNNNTTC	1 cut(s)	210
XspI	CTAG	1 cut(s)	537

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