Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Forward (+)

59293005 .. 59294357

Gene Structure 1353 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030302

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1080 bp

ATGGTAATTGGTTATGCCCAGACCGGGGATTGTGATGAGGCTTTGAGGTTTTATAGAGAGTTGCGGAGGTCGTCGGTTGGGTTTATTGTGTTTAGTTTTGCAGGTGTTTTGACTCTGTGTGTGAAGATGAGGGAATGGGAGCTTATTAGGCAGGCTCATGGGCAGGTTTTGGTTGCTGGGTTTTTGTCGAATGTGGTGCTTTCGAGTTCGGTGGTGGATGCTTATGCCAAGTGTGGAGAGATGGTAGATGCTAGGAGATTGTTCGATGAGATGGCTGTGAGGGATGTTCTTGCTTGGACCACACTGGTTTCAGGATATGCCAAGTGGGGTGATATGAAATCAGCTAGTGAGTTGTTTGATCGGATGCCTGAGAAGAACCCGGTGTCATGGACATCTATGATTTTGGGGTATGCTAGGAATGGATTGGGGCATGAAGCGCTTGCATTGTTTGCAGAGATGATGCTGTTTCAAGTCAGGCCTGATCAGTTTACCTTTAGTAGTTGCCTTTGTGCTTGTGCTAGTATAGCTTCGCTTAAGCATGGTAAACAAATTCATGCCTCTTTAATACGAAGTAATTTAAGACCCAACACAATTGTTGTGAGTTCTCTTATAGACATGTATTCCAAATGCGGCAGTTTGGGGGCCGGAAGGCAGGTTTTCAAGCTCATGGGTGATAAGCAAGACATCGTGTTATGGAACACAATGATGTCTGCCTTAGCACAGCATGGTCATGGTATAGAGGTATTGCAGATGTTTGAAGACATGGTCGGTTCAGGTGTAAAGCCGGTTACGACCACCTTTGTTGTCATTCTCAATGCTTGTAGTCATTCTGGTCTAGTGCAGGAAGGGCGTAGGATTTTCAATTCCATGACTGATGATTATGGCGTTGTTCCTGATGAGGAACATTATGCATGCTTAATTGATCTCTTGGGTCGAGCTGGATGTTTTGATGAGTTGATGAACCAGCTCGAAAATATGGCATACCGGCTGCATCCTCTGAAAGAGGAAATATGCTCGGTTTTGAAACAGTTAGCTGACCAGATGGAAGAAGATGCTTCAGTAACTAACGCCGAGAACTAG

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

Protein Analysis

360

Amino Acids

39.88

Weight (kDa)

5.42

Isoelectric Point (pI)

41.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	98 - 126	4.8e-07	PPR repeat
PPR_2	PF13041	126 - 173	4e-10	PPR repeat family
PPR	PF01535	128 - 154	3.3e-07	PPR repeat
PPR_2	PF13041	228 - 275	1.2e-09	PPR repeat family
PPR	PF01535	230 - 260	6.1e-07	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: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	92
Acc36I	ACCTGC	3 cut(s)	92, 154, 643
AciI	CCGC	2 cut(s)	64, 630
AcsI	RAATTY	1 cut(s)	549
AcuI	CTGAAG	1 cut(s)	1041
AfeI	AGCGCT	1 cut(s)	438
AfiI	CCNNNNNNNGG	2 cut(s)	24, 25
AflII	CTTAAG	1 cut(s)	533
AflIII	ACRYGT	1 cut(s)	615
AgsI	TTSAA	5 cut(s)	470, 661, 758, 862, 1024
AluBI	AGCT	7 cut(s)	142, 344, 527, 664, 938, 967, 1034
AluI	AGCT	7 cut(s)	142, 344, 527, 664, 938, 967, 1034
Aor51HI	AGCGCT	1 cut(s)	438
AoxI	GGCC	2 cut(s)	476, 642
ApeKI	GCWGC	1 cut(s)	988
ApoI	RAATTY	1 cut(s)	549
AspLEI	GCGC	1 cut(s)	439
AspS9I	GGNCC	2 cut(s)	297, 642
AsuC2I	CCSGG	2 cut(s)	25, 380
AsuHPI	GGTGA	2 cut(s)	341, 683
AvaII	GGWCC	1 cut(s)	297
BbsI	GAAGAC	1 cut(s)	765
BbvI	GCAGC	1 cut(s)	975
BccI	CCATC	3 cut(s)	235, 265, 1036
BcgI	CGANNNNNNTGC	2 cut(s)	178, 212
BclI	TGATCA	1 cut(s)	481
BcnI	CCSGG	2 cut(s)	25, 380
BfaI	CTAG	6 cut(s)	252, 345, 414, 519, 836, 1078
BfoI	RGCGCY	1 cut(s)	440
BfrI	CTTAAG	1 cut(s)	533
BfuAI	ACCTGC	3 cut(s)	92, 154, 643
BisI	GCNGC	2 cut(s)	631, 989
BlsI	GCNGC	2 cut(s)	632, 990
Bme1390I	CCNGG	2 cut(s)	25, 380
Bme18I	GGWCC	1 cut(s)	297
BmgT120I	GGNCC	2 cut(s)	297, 642
BmiI	GGNNCC	1 cut(s)	643
BmrFI	CCNGG	2 cut(s)	25, 380
BmsI	GCATC	6 cut(s)	208, 238, 354, 450, 1000, 1042
BpiI	GAAGAC	1 cut(s)	765
Bpu10I	CCTNAGC	1 cut(s)	715
BpuMI	CCSGG	2 cut(s)	25, 380
BsaJI	CCNNGG	1 cut(s)	24
BsaXI	ACNNNNNCTCC	2 cut(s)	228, 258
Bsc4I	CCNNNNNNNGG	2 cut(s)	24, 25
Bse118I	RCCGGY	2 cut(s)	784, 984
Bse1I	ACTGG	1 cut(s)	309
BseDI	CCNNGG	1 cut(s)	24
BseGI	GGATG	5 cut(s)	223, 289, 369, 947, 991
BseLI	CCNNNNNNNGG	2 cut(s)	24, 25
BseMII	CTCAG	1 cut(s)	360
BseNI	ACTGG	1 cut(s)	309
BseXI	GCAGC	1 cut(s)	975
BseYI	CCCAGC	1 cut(s)	176
BsgI	GTGCAG	1 cut(s)	860
BshFI	GGCC	2 cut(s)	478, 644
BsiSI	CCGG	5 cut(s)	24, 380, 645, 785, 985
BslI	CCNNNNNNNGG	2 cut(s)	24, 25
BsnI	GGCC	2 cut(s)	478, 644
Bsp143I	GATC	3 cut(s)	358, 481, 922
BspACI	CCGC	2 cut(s)	64, 630
BspANI	GGCC	2 cut(s)	478, 644
BspCNI	CTCAG	1 cut(s)	361
BspLI	GGNNCC	1 cut(s)	643
BspMI	ACCTGC	3 cut(s)	92, 154, 643
BspTI	CTTAAG	1 cut(s)	533
BsrFI	RCCGGY	2 cut(s)	784, 984
BsrI	ACTGG	1 cut(s)	309
BssAI	RCCGGY	2 cut(s)	784, 984
BssECI	CCNNGG	1 cut(s)	24
BssMI	GATC	3 cut(s)	358, 481, 922
Bst4CI	ACNGT	1 cut(s)	1029
BstAFI	CTTAAG	1 cut(s)	533
BstAPI	GCANNNNNTGC	1 cut(s)	449
BstC8I	GCNNGC	3 cut(s)	153, 441, 913
BstDEI	CTNAG	2 cut(s)	369, 715
BstF5I	GGATG	5 cut(s)	223, 289, 369, 947, 991
BstH2I	RGCGCY	1 cut(s)	440
BstHHI	GCGC	1 cut(s)	439
BstKTI	GATC	3 cut(s)	361, 484, 925
BstMBI	GATC	3 cut(s)	358, 481, 922
BstMWI	GCNNNNNNNGC	5 cut(s)	148, 436, 449, 524, 847
BstNSI	RCATGY	2 cut(s)	619, 915
BstSCI	CCNGG	2 cut(s)	23, 378
BstV1I	GCAGC	1 cut(s)	975
BstV2I	GAAGAC	1 cut(s)	765
BsuRI	GGCC	2 cut(s)	478, 644
BtsCI	GGATG	5 cut(s)	223, 289, 369, 947, 991
BtsIMutI	CAGTG	1 cut(s)	302
BveI	ACCTGC	3 cut(s)	92, 154, 643
Cac8I	GCNNGC	3 cut(s)	153, 441, 913
CfoI	GCGC	1 cut(s)	439
Cfr10I	RCCGGY	2 cut(s)	784, 984
Cfr13I	GGNCC	2 cut(s)	297, 642
CspCI	CAANNNNNGTGG	2 cut(s)	784, 819
DdeI	CTNAG	2 cut(s)	369, 715
DpnI	GATC	3 cut(s)	360, 483, 924
DpnII	GATC	3 cut(s)	358, 481, 922
Eco147I	AGGCCT	1 cut(s)	478
Eco47I	GGWCC	1 cut(s)	297
Eco47III	AGCGCT	1 cut(s)	438
Eco57I	CTGAAG	1 cut(s)	1041
EcoT22I	ATGCAT	1 cut(s)	913
FbaI	TGATCA	1 cut(s)	481
Fnu4HI	GCNGC	2 cut(s)	631, 989
FokI	GGATG	5 cut(s)	230, 296, 376, 954, 978
Fsp4HI	GCNGC	2 cut(s)	631, 989
FspBI	CTAG	6 cut(s)	252, 345, 414, 519, 836, 1078
GlaI	GCGC	1 cut(s)	438
GluI	GCNGC	2 cut(s)	631, 989
GsaI	CCCAGC	1 cut(s)	180
HaeII	RGCGCY	1 cut(s)	440
HaeIII	GGCC	2 cut(s)	478, 644
HapII	CCGG	5 cut(s)	24, 380, 645, 785, 985
HhaI	GCGC	1 cut(s)	439
Hin6I	GCGC	1 cut(s)	437
HinP1I	GCGC	1 cut(s)	437
HinfI	GANTC	1 cut(s)	112
HpaII	CCGG	5 cut(s)	24, 380, 645, 785, 985
HphI	GGTGA	2 cut(s)	341, 683
Hpy166II	GTNNAC	2 cut(s)	489, 545
Hpy188I	TCNGA	2 cut(s)	363, 999
Hpy188III	TCNNGA	2 cut(s)	312, 893
Hpy8I	GTNNAC	2 cut(s)	489, 545
Hpy99I	CGWCG	1 cut(s)	76
HpyAV	CCTTC	2 cut(s)	642, 839
HpyCH4III	ACNGT	1 cut(s)	1029
HpyCH4V	TGCA	7 cut(s)	101, 443, 452, 748, 841, 911, 991
HpyF10VI	GCNNNNNNNGC	5 cut(s)	148, 436, 449, 524, 847
HpyF3I	CTNAG	2 cut(s)	369, 715
HspAI	GCGC	1 cut(s)	437
Ksp22I	TGATCA	1 cut(s)	481
Kzo9I	GATC	3 cut(s)	358, 481, 922
LmnI	GCTCC	1 cut(s)	139
Lsp1109I	GCAGC	1 cut(s)	975
LweI	GCATC	6 cut(s)	208, 238, 354, 450, 1000, 1042
MaeI	CTAG	6 cut(s)	252, 345, 414, 519, 836, 1078
MaeIII	GTNAC	2 cut(s)	787, 1060
MalI	GATC	3 cut(s)	360, 483, 924
MboI	GATC	3 cut(s)	358, 481, 922
MboII	GAAGA	5 cut(s)	136, 385, 770, 1058, 1061
MfeI	CAATTG	1 cut(s)	591
MluCI	AATT	6 cut(s)	6, 549, 574, 591, 862, 918
MlyI	GAGTC	1 cut(s)	106
Mph1103I	ATGCAT	1 cut(s)	913
MseI	TTAA	4 cut(s)	534, 563, 578, 917
MslI	CAYNNNNRTG	2 cut(s)	704, 729
MspCI	CTTAAG	1 cut(s)	533
MspI	CCGG	5 cut(s)	24, 380, 645, 785, 985
MspR9I	CCNGG	2 cut(s)	25, 380
MunI	CAATTG	1 cut(s)	591
MwoI	GCNNNNNNNGC	5 cut(s)	148, 436, 449, 524, 847
NciI	CCSGG	2 cut(s)	25, 380
NdeII	GATC	3 cut(s)	358, 481, 922
NlaIV	GGNNCC	1 cut(s)	643
NsiI	ATGCAT	1 cut(s)	913
NspI	RCATGY	2 cut(s)	619, 915
PaeI	GCATGC	1 cut(s)	915
PaqCI	CACCTGC	1 cut(s)	92
PceI	AGGCCT	1 cut(s)	478
PciI	ACATGT	1 cut(s)	615
PflFI	GACNNNGTC	1 cut(s)	764
PkrI	GCNGC	2 cut(s)	632, 990
PleI	GAGTC	1 cut(s)	106
PpsI	GAGTC	1 cut(s)	106
PscI	ACATGT	1 cut(s)	615
PspFI	CCCAGC	1 cut(s)	176
PspN4I	GGNNCC	1 cut(s)	643
PspPI	GGNCC	2 cut(s)	297, 642
PsyI	GACNNNGTC	1 cut(s)	764
RseI	CAYNNNNRTG	2 cut(s)	704, 729
SaqAI	TTAA	4 cut(s)	534, 563, 578, 917
SatI	GCNGC	2 cut(s)	631, 989
Sau3AI	GATC	3 cut(s)	358, 481, 922
Sau96I	GGNCC	2 cut(s)	297, 642
SchI	GAGTC	1 cut(s)	106
ScrFI	CCNGG	2 cut(s)	25, 380
SfaNI	GCATC	6 cut(s)	208, 238, 354, 450, 1000, 1042
SinI	GGWCC	1 cut(s)	297
SmiMI	CAYNNNNRTG	2 cut(s)	704, 729
SmlI	CTYRAG	1 cut(s)	533
SmoI	CTYRAG	1 cut(s)	533
SphI	GCATGC	1 cut(s)	915
Sse9I	AATT	6 cut(s)	6, 549, 574, 591, 862, 918
SseBI	AGGCCT	1 cut(s)	478
SsiI	CCGC	2 cut(s)	64, 630
SspMI	CTAG	6 cut(s)	252, 345, 414, 519, 836, 1078
StuI	AGGCCT	1 cut(s)	478
StyD4I	CCNGG	2 cut(s)	23, 378
TaaI	ACNGT	1 cut(s)	1029
TaqI	TCGA	5 cut(s)	188, 203, 264, 934, 969
TasI	AATT	6 cut(s)	6, 549, 574, 591, 862, 918
TauI	GCSGC	1 cut(s)	633
Tru1I	TTAA	4 cut(s)	534, 563, 578, 917
Tru9I	TTAA	4 cut(s)	534, 563, 578, 917
TscAI	CASTG	1 cut(s)	309
TseI	GCWGC	1 cut(s)	988
TspDTI	ATGAA	4 cut(s)	350, 447, 542, 974
TspRI	CASTG	1 cut(s)	309
Tth111I	GACNNNGTC	1 cut(s)	764
Vha464I	CTTAAG	1 cut(s)	533
VpaK11BI	GGWCC	1 cut(s)	297
XapI	RAATTY	1 cut(s)	549
XceI	RCATGY	2 cut(s)	619, 915
XspI	CTAG	6 cut(s)	252, 345, 414, 519, 836, 1078
Zsp2I	ATGCAT	1 cut(s)	913

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