Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Forward (+)

34024604 .. 34025625

Gene Structure 1022 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029172

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGCCAGCTGCTTCCTCAAGGCGTTTCCAATGCCATAGAGCAGCAGAGCTATTCAAACCTCCTCTAGCCGCTCAAAGAAACCATCTTTACCTCATAACGCAAATCTTCAAGCTCGCAATTGCTTCCAAAATTCAACCTTTAAACTCAAATTGTTATCTCACTGTAACCAAAGCCTTTGCAAAGGCAAGTGATTGTGTTGTGGAGCTGCTCAGTTTTACCGAGCAAGTATTGGAATTGACCCAACCGAGCATGACAGTAATAAACAGGCTTCTCTTTGCATTGGGTCAATGCAAAAAGACCGATAATGTGATTTTGATCTTCACACAGGTGAAAGATCGAAACTTTACACCGGATATGTACACATACAACACTGTTCTTGAGATATTGGGCCGGGCGGGTCGGACAGGTGAGATGCTGGGGGTGTTTGGGGAAATGAAGGAAGCTGGGATCGACCCGGATTTGGTTTCTTACAATACAGTGGTAAACCATGTGAGGAAGTTTGGGGAAGTTGATATGTGCTTGTTGTATTTCAAGGAAATGTGTGAAAAGGGTGTTCAGCCTGATTTGCTTACTTACACTGCAGTCATTGATGGGTTAGGGAGGTCAGGAAACATTGATGAGTCGTTGAAGTTGTTTGGTGAGATGAAGGAGAGGCGGATTCGGCCTTCGTCGTATCTTTATAGAGCAGTGATTAGTAATCTGAAGAAGTTGGGGAAGGTGGAGATGGCGGCGAGTTTTATGGAGGAGATGAATTCGTGTGCTTCAAGTCTTCGTGCTAGTCGTAAATAG

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_2 PPR_3

Protein Analysis

263

Amino Acids

29.48

Weight (kDa)

9.0

Isoelectric Point (pI)

26.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	86 - 250	1.5e-09	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	106 - 162	1e-10	Pentatricopeptide repeat domain
PPR	PF01535	120 - 150	4.8e-06	PPR repeat
PPR_2	PF13041	121 - 162	6.3e-09	PPR repeat family
PPR_2	PF13041	152 - 200	1.1e-11	PPR repeat family
PPR_3	PF13812	177 - 232	2.2e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	183 - 216	1e-09	PPR repeat
PPR_2	PF13041	187 - 234	4e-10	PPR repeat family
PPR	PF01535	191 - 220	1.7e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	71
AciI	CCGC	4 cut(s)	69, 395, 655, 728
AclWI	GGATC	1 cut(s)	455
AcsI	RAATTY	2 cut(s)	129, 751
AcuI	CTGAAG	1 cut(s)	722
AfaI	GTAC	1 cut(s)	359
AfiI	CCNNNNNNNGG	1 cut(s)	460
AgsI	TTSAA	6 cut(s)	55, 109, 134, 532, 628, 765
AleI	CACNNNNGTG	1 cut(s)	326
AluBI	AGCT	5 cut(s)	8, 49, 112, 205, 443
AluI	AGCT	5 cut(s)	8, 49, 112, 205, 443
AlwI	GGATC	1 cut(s)	455
AoxI	GGCC	2 cut(s)	388, 662
ApeKI	GCWGC	3 cut(s)	8, 41, 205
ApoI	RAATTY	2 cut(s)	129, 751
AspS9I	GGNCC	1 cut(s)	388
AsuC2I	CCSGG	2 cut(s)	392, 455
AsuHPI	GGTGA	3 cut(s)	340, 419, 650
BbsI	GAAGAC	1 cut(s)	761
BbvI	GCAGC	2 cut(s)	53, 192
BccI	CCATC	3 cut(s)	90, 584, 718
BcnI	CCSGG	2 cut(s)	392, 455
BfaI	CTAG	2 cut(s)	65, 777
BfmI	CTRYAG	1 cut(s)	579
BisI	GCNGC	5 cut(s)	9, 42, 69, 206, 729
BlsI	GCNGC	5 cut(s)	10, 43, 70, 207, 730
Bme1390I	CCNGG	2 cut(s)	392, 455
BmgT120I	GGNCC	1 cut(s)	388
BmrFI	CCNGG	2 cut(s)	392, 455
BmsI	GCATC	1 cut(s)	402
BpiI	GAAGAC	1 cut(s)	761
BpuEI	CTTGAG	1 cut(s)	398
BpuMI	CCSGG	2 cut(s)	392, 455
BsaBI	GATNNNNATC	1 cut(s)	314
BsaWI	WCCGGW	1 cut(s)	349
Bsc4I	CCNNNNNNNGG	1 cut(s)	460
Bse8I	GATNNNNATC	1 cut(s)	314
BseJI	GATNNNNATC	1 cut(s)	314
BseLI	CCNNNNNNNGG	1 cut(s)	460
BseMII	CTCAG	1 cut(s)	223
BseRI	GAGGAG	2 cut(s)	51, 758
BseXI	GCAGC	2 cut(s)	53, 192
BseYI	CCCAGC	2 cut(s)	415, 443
BshFI	GGCC	2 cut(s)	390, 664
BsiSI	CCGG	3 cut(s)	350, 391, 455
BslI	CCNNNNNNNGG	1 cut(s)	460
BsnI	GGCC	2 cut(s)	390, 664
Bsp1407I	TGTACA	1 cut(s)	357
Bsp143I	GATC	3 cut(s)	315, 334, 447
BspACI	CCGC	4 cut(s)	69, 395, 655, 728
BspANI	GGCC	2 cut(s)	390, 664
BspCNI	CTCAG	1 cut(s)	222
BspMAI	CTGCAG	1 cut(s)	583
BspPI	GGATC	1 cut(s)	455
BsrBI	CCGCTC	1 cut(s)	71
BsrGI	TGTACA	1 cut(s)	357
BssMI	GATC	3 cut(s)	315, 334, 447
Bst4CI	ACNGT	4 cut(s)	163, 256, 373, 478
BstAUI	TGTACA	1 cut(s)	357
BstC8I	GCNNGC	2 cut(s)	6, 114
BstDEI	CTNAG	1 cut(s)	209
BstKTI	GATC	3 cut(s)	318, 337, 450
BstMBI	GATC	3 cut(s)	315, 334, 447
BstMWI	GCNNNNNNNGC	2 cut(s)	565, 661
BstSCI	CCNGG	2 cut(s)	390, 453
BstSFI	CTRYAG	1 cut(s)	579
BstV1I	GCAGC	2 cut(s)	53, 192
BstV2I	GAAGAC	1 cut(s)	761
BsuRI	GGCC	2 cut(s)	390, 664
BtsI	GCAGTG	2 cut(s)	576, 693
BtsIMutI	CAGTG	5 cut(s)	159, 369, 483, 576, 693
Cac8I	GCNNGC	2 cut(s)	6, 114
Cfr13I	GGNCC	1 cut(s)	388
Csp6I	GTAC	1 cut(s)	358
CviAII	CATG	2 cut(s)	250, 488
CviQI	GTAC	1 cut(s)	358
DdeI	CTNAG	1 cut(s)	209
DpnI	GATC	3 cut(s)	317, 336, 449
DpnII	GATC	3 cut(s)	315, 334, 447
DraI	TTTAAA	1 cut(s)	141
EciI	GGCGGA	1 cut(s)	670
Eco57I	CTGAAG	1 cut(s)	722
EcoRI	GAATTC	1 cut(s)	751
FaeI	CATG	2 cut(s)	253, 491
FaiI	YATR	9 cut(s)	36, 95, 251, 356, 364, 489, 515, 681, 740
FatI	CATG	2 cut(s)	249, 487
FauI	CCCGC	1 cut(s)	388
Fnu4HI	GCNGC	5 cut(s)	9, 42, 69, 206, 729
Fsp4HI	GCNGC	5 cut(s)	9, 42, 69, 206, 729
FspBI	CTAG	2 cut(s)	65, 777
GluI	GCNGC	5 cut(s)	9, 42, 69, 206, 729
GsaI	CCCAGC	2 cut(s)	419, 447
HaeIII	GGCC	2 cut(s)	390, 664
HapII	CCGG	3 cut(s)	350, 391, 455
Hin1II	CATG	2 cut(s)	253, 491
HinfI	GANTC	2 cut(s)	620, 658
HpaII	CCGG	3 cut(s)	350, 391, 455
HphI	GGTGA	3 cut(s)	340, 419, 650
Hpy166II	GTNNAC	2 cut(s)	360, 484
Hpy188I	TCNGA	2 cut(s)	402, 702
Hpy188III	TCNNGA	2 cut(s)	377, 606
Hpy8I	GTNNAC	2 cut(s)	360, 484
Hpy99I	CGWCG	1 cut(s)	673
HpyAV	CCTTC	4 cut(s)	430, 640, 675, 709
HpyCH4III	ACNGT	4 cut(s)	163, 256, 373, 478
HpyCH4V	TGCA	4 cut(s)	179, 278, 291, 581
HpyF10VI	GCNNNNNNNGC	2 cut(s)	565, 661
HpyF3I	CTNAG	1 cut(s)	209
Hsp92II	CATG	2 cut(s)	253, 491
Kzo9I	GATC	3 cut(s)	315, 334, 447
LmnI	GCTCC	1 cut(s)	202
Lsp1109I	GCAGC	2 cut(s)	53, 192
LweI	GCATC	1 cut(s)	402
MaeI	CTAG	2 cut(s)	65, 777
MaeIII	GTNAC	1 cut(s)	163
MalI	GATC	3 cut(s)	317, 336, 449
MbiI	CCGCTC	1 cut(s)	71
MboI	GATC	3 cut(s)	315, 334, 447
MboII	GAAGA	4 cut(s)	97, 310, 715, 761
MfeI	CAATTG	1 cut(s)	117
MluCI	AATT	5 cut(s)	117, 129, 148, 233, 751
MlyI	GAGTC	1 cut(s)	629
MmeI	TCCRAC	1 cut(s)	380
MnlI	CCTC	8 cut(s)	25, 69, 72, 101, 486, 594, 645, 736
MseI	TTAA	1 cut(s)	140
MslI	CAYNNNNRTG	1 cut(s)	326
MspA1I	CMGCKG	1 cut(s)	8
MspI	CCGG	3 cut(s)	350, 391, 455
MspR9I	CCNGG	2 cut(s)	392, 455
MunI	CAATTG	1 cut(s)	117
MwoI	GCNNNNNNNGC	2 cut(s)	565, 661
NciI	CCSGG	2 cut(s)	392, 455
NdeII	GATC	3 cut(s)	315, 334, 447
NlaIII	CATG	2 cut(s)	253, 491
OliI	CACNNNNGTG	1 cut(s)	326
PcsI	WCGNNNNNNNCGW	1 cut(s)	778
PfeI	GAWTC	1 cut(s)	658
PkrI	GCNGC	5 cut(s)	10, 43, 70, 207, 730
PleI	GAGTC	1 cut(s)	628
PpsI	GAGTC	1 cut(s)	628
PspFI	CCCAGC	2 cut(s)	415, 443
PspPI	GGNCC	1 cut(s)	388
PstI	CTGCAG	1 cut(s)	583
PvuII	CAGCTG	1 cut(s)	8
RsaI	GTAC	1 cut(s)	359
RsaNI	GTAC	1 cut(s)	358
RseI	CAYNNNNRTG	1 cut(s)	326
SaqAI	TTAA	1 cut(s)	140
SatI	GCNGC	5 cut(s)	9, 42, 69, 206, 729
Sau3AI	GATC	3 cut(s)	315, 334, 447
Sau96I	GGNCC	1 cut(s)	388
SchI	GAGTC	1 cut(s)	629
ScrFI	CCNGG	2 cut(s)	392, 455
SfaNI	GCATC	1 cut(s)	402
SfcI	CTRYAG	1 cut(s)	579
SmiMI	CAYNNNNRTG	1 cut(s)	326
SmlI	CTYRAG	2 cut(s)	16, 377
SmoI	CTYRAG	2 cut(s)	16, 377
Sse9I	AATT	5 cut(s)	117, 129, 148, 233, 751
SsiI	CCGC	4 cut(s)	69, 395, 655, 728
SspMI	CTAG	2 cut(s)	65, 777
StyD4I	CCNGG	2 cut(s)	390, 453
TaaI	ACNGT	4 cut(s)	163, 256, 373, 478
TaqI	TCGA	2 cut(s)	337, 450
TaqII	GACCGA	1 cut(s)	314
TasI	AATT	5 cut(s)	117, 129, 148, 233, 751
TatI	WGTACW	1 cut(s)	357
TauI	GCSGC	2 cut(s)	71, 731
TfiI	GAWTC	1 cut(s)	658
Tru1I	TTAA	1 cut(s)	140
Tru9I	TTAA	1 cut(s)	140
TscAI	CASTG	5 cut(s)	166, 376, 483, 583, 693
TseI	GCWGC	3 cut(s)	8, 41, 205
TspDTI	ATGAA	3 cut(s)	449, 659, 764
TspRI	CASTG	5 cut(s)	166, 376, 483, 583, 693
XapI	RAATTY	2 cut(s)	129, 751
XspI	CTAG	2 cut(s)	65, 777

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