Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0014256

Physical Location & Seq

Genomic Coordinates Forward (+)

5460984 .. 5465031

Gene Structure 4048 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010927

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1455 bp

ATGGATTTGATAATGTGTTTTGTTATAAAGGGATTGGGCGGGGCGAGGAGGATCGATGAGGCATTTGAAGTGCTTGAATCCATCGAACGCGGTGTTGCTGTGGGAAGTCCAAAGTTGTCAGCACCTCTTATTTTTGGACTGCTGAATGCTTTGGTTGAAGCAGGAGATTTACGCCGAGCTAATGGACTTCTTGCACGGTATGGTTTTCTGCTTCGAGAAGGTGGCAGTCTTTCGCTCAGAGTCTACAACTTATTAATGAAGGGATGTATTAATTCAGGCCTTCCTCAGGGTGCGATAGACATGCACAACGAATTAATACGTGTAGGGTTGAAGCCTGATAGGCTCACCTATAATACTCTAATATCTGCATGTGTAAAAGCTGGGGAGTTGGATGCCGCAATGCAATACTTTGAGGAAATGAAGGATGAAGCGCAGAAATTTAGTGATGCTGGTCTATTCCCTGATGTCATCACCTATAGTACATTGCTTAAGGGTTTTGGGGATTCCAAAGATGTCCTTATGGTTCATAAGATTGTTTCCGAAATGAAAACATATATTGGTTTGTTCATTGATCGAACAGCATATACGGCAGCAGTTGATGCTTTGCTAAATTGTGACGCAATAAAGGGTGCTTTATGTATTTTCGGAGAATTATTAAAGCAGGCTGGTGGAAATCCAGAGTTGCGACCCAAACCTCACCTCTATCTTTCCTTTATGCGTGCCTTTGCTGTTAGAGGAGATTATGACACAGTAAACAGTCTACATAAGCACATGTGGCTAGATACTGCTGGAACTATCTACCCAATGATTCATGAAGAAGCTGATCATCTTGTAATGGAGTCAGCTTTAAATGATGGGCAGGTAGATTTGGCCAAAAATTACCTTGGAACCATCATTACAAGGTGGAAGAGAATAGCGTGGACAAGTCGAGGAGGCATGGTTGCTCTACGCACAGAGGCCTTGTTGGGAAACACAAAATCGATATTGACTCCTTATCTACTTCCTCAGGTATTGGCTAGTGATCCGATTGAGAGTGTGATGATGCCCTTTGAAGCAGCTCGGCCACTTCTTGGGACTGTGAAGTTGAGTGAGGTGGCTGTGCGTTTCTTTAGTGATTCAGCAGTGCCAATCATAGATGACTGGGGTAACTGCATTGGAGTATTGCACCGTGAAGACTGTACAGAGTTGGATGCCCCTCTTTCTTCAATGATGAGAAGCCCACCTCCCTGTGCCGTAACAACAACATCGATTGGCCATGTGGTGGATCTAATTGTGAAGCACAGATTCAAAATGGTAGTTGTAGTAAACCATAGCTCCTTGTTTGGTGGTACTGCAAATTTGAGGGCTGTTGGTGTTTTTACAGCTGAGCAACTGTGTAAACTTGTCACACCAGTATCAGAAACACCACGATTGAAACCTTCTTTCTGTAGAAGTTTAACAATGTGCTGTGTATGA

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:0005737 GO:0005829 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:0044444 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

CBS PPR PPR_2

Protein Analysis

485

Amino Acids

53.01

Weight (kDa)

6.43

Isoelectric Point (pI)

31.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	81 - 126	5.9e-10	PPR repeat family
PPR_3	PF13812	104 - 143	7.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	109 - 141	1.6e-09	PPR repeat
PPR	PF01535	116 - 142	2.9e-08	PPR repeat
PPR_2	PF13041	116 - 144	6.1e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014256)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10690 AT5G10690
fragaria_vesca	FvH4_2g36670 FvH4_2g36670
malus_domestica	MD08G1128000.v1.1
prunus_persica	Prupe.1G459800_v2.0.a1
pyrus_communis	pycom08g10700
rosa_chinensis	RchiOBHm_Chr6g0305021
rosa_laevigata	RLG00000010927
rosa_multiflora	Rmu_sc0000061.1_g000039
rosa_roxburghii	Rroxscaffold_7G00163250
rosa_rugosa	Rorug06G0336800
rosa_samantha	Rh6AG448400 Rh6BG452500 Rh6CG462100 Rh6DG449000
rosa_wichuraiana	Rw6G039050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	26
Acc36I	ACCTGC	1 cut(s)	850
AccB7I	CCANNNNNTGG	2 cut(s)	1070, 1261
AccI	GTMKAC	2 cut(s)	243, 760
AccII	CGCG	1 cut(s)	90
AciI	CCGC	3 cut(s)	39, 90, 396
AclWI	GGATC	3 cut(s)	59, 1016, 1272
AcoI	YGGCCR	3 cut(s)	870, 1061, 1252
AcsI	RAATTY	2 cut(s)	437, 1336
AfaI	GTAC	3 cut(s)	481, 1180, 1330
AfiI	CCNNNNNNNGG	3 cut(s)	286, 1070, 1261
AflII	CTTAAG	1 cut(s)	488
AflIII	ACRYGT	2 cut(s)	319, 771
AgsI	TTSAA	8 cut(s)	68, 77, 158, 331, 1052, 1206, 1288, 1414
AluBI	AGCT	7 cut(s)	179, 380, 821, 845, 1058, 1314, 1364
AluI	AGCT	7 cut(s)	179, 380, 821, 845, 1058, 1314, 1364
AlwI	GGATC	3 cut(s)	59, 1016, 1272
AoxI	GGCC	5 cut(s)	277, 870, 957, 1061, 1252
ApeKI	GCWGC	2 cut(s)	590, 1055
ApoI	RAATTY	2 cut(s)	437, 1336
AseI	ATTAAT	3 cut(s)	254, 270, 314
AspLEI	GCGC	1 cut(s)	433
AsuHPI	GGTGA	3 cut(s)	337, 463, 689
AxyI	CCTNAGG	2 cut(s)	285, 1005
BaeI	ACNNNNGTAYC	2 cut(s)	1377, 1410
BalI	TGGCCA	2 cut(s)	872, 1254
BbsI	GAAGAC	1 cut(s)	1179
BbvI	GCAGC	2 cut(s)	602, 1067
BccI	CCATC	3 cut(s)	89, 848, 899
BceAI	ACGGC	2 cut(s)	603, 1217
BcgI	CGANNNNNNTGC	2 cut(s)	283, 317
BclI	TGATCA	1 cut(s)	823
BfaI	CTAG	2 cut(s)	779, 1017
BfmI	CTRYAG	2 cut(s)	475, 1426
BfrI	CTTAAG	1 cut(s)	488
BfuAI	ACCTGC	1 cut(s)	850
BglI	GCCNNNNNGGC	1 cut(s)	340
BisI	GCNGC	3 cut(s)	396, 591, 1056
BlpI	GCTNAGC	1 cut(s)	1365
BlsI	GCNGC	3 cut(s)	397, 592, 1057
BmiI	GGNNCC	1 cut(s)	889
BmrI	ACTGGG	1 cut(s)	1150
BmsI	GCATC	5 cut(s)	382, 436, 589, 1032, 1180
BmuI	ACTGGG	1 cut(s)	1150
BpiI	GAAGAC	1 cut(s)	1179
Bpu1102I	GCTNAGC	1 cut(s)	1365
Bsa29I	ATCGAT	3 cut(s)	54, 980, 1247
BsaAI	YACGTR	1 cut(s)	320
BsaJI	CCNNGG	1 cut(s)	883
BsaXI	ACNNNNNCTCC	4 cut(s)	924, 954, 1298, 1328
Bsc4I	CCNNNNNNNGG	3 cut(s)	286, 1070, 1261
Bse1I	ACTGG	2 cut(s)	1145, 1391
Bse21I	CCTNAGG	2 cut(s)	285, 1005
Bse3DI	GCAATG	2 cut(s)	405, 482
BseCI	ATCGAT	3 cut(s)	54, 980, 1247
BseDI	CCNNGG	1 cut(s)	883
BseGI	GGATG	4 cut(s)	269, 397, 430, 1195
BseLI	CCNNNNNNNGG	3 cut(s)	286, 1070, 1261
BseMI	GCAATG	2 cut(s)	405, 482
BseMII	CTCAG	4 cut(s)	250, 299, 1019, 1356
BseNI	ACTGG	2 cut(s)	1145, 1391
BseRI	GAGGAG	3 cut(s)	61, 750, 945
BseXI	GCAGC	2 cut(s)	602, 1067
BseYI	CCCAGC	1 cut(s)	380
Bsh1236I	CGCG	1 cut(s)	90
BshFI	GGCC	5 cut(s)	279, 872, 959, 1063, 1254
BshVI	ATCGAT	3 cut(s)	54, 980, 1247
BslFI	GGGAC	1 cut(s)	1087
BslI	CCNNNNNNNGG	3 cut(s)	286, 1070, 1261
BsmFI	GGGAC	1 cut(s)	1087
BsmI	GAATGC	1 cut(s)	151
BsnI	GGCC	5 cut(s)	279, 872, 959, 1063, 1254
Bsp1407I	TGTACA	1 cut(s)	1178
Bsp143I	GATC	5 cut(s)	51, 571, 823, 1021, 1264
Bsp1720I	GCTNAGC	1 cut(s)	1365
BspACI	CCGC	3 cut(s)	39, 90, 396
BspANI	GGCC	5 cut(s)	279, 872, 959, 1063, 1254
BspCNI	CTCAG	4 cut(s)	249, 298, 1018, 1357
BspDI	ATCGAT	3 cut(s)	54, 980, 1247
BspFNI	CGCG	1 cut(s)	90
BspHI	TCATGA	1 cut(s)	811
BspLI	GGNNCC	1 cut(s)	889
BspMI	ACCTGC	1 cut(s)	850
BspPI	GGATC	3 cut(s)	59, 1016, 1272
BspTI	CTTAAG	1 cut(s)	488
BsrDI	GCAATG	2 cut(s)	405, 482
BsrGI	TGTACA	1 cut(s)	1178
BsrI	ACTGG	2 cut(s)	1145, 1391
BssECI	CCNNGG	1 cut(s)	883
BssMI	GATC	5 cut(s)	51, 571, 823, 1021, 1264
BssT1I	CCWWGG	1 cut(s)	883
Bst4CI	ACNGT	7 cut(s)	198, 751, 758, 1078, 1169, 1178, 1374
Bst6I	CTCTTC	1 cut(s)	902
BstAFI	CTTAAG	1 cut(s)	488
BstAPI	GCANNNNNTGC	1 cut(s)	599
BstAUI	TGTACA	1 cut(s)	1178
BstBAI	YACGTR	1 cut(s)	320
BstC8I	GCNNGC	2 cut(s)	663, 720
BstDEI	CTNAG	4 cut(s)	236, 285, 1005, 1365
BstENI	CCTNNNNNAGG	1 cut(s)	284
BstF5I	GGATG	4 cut(s)	269, 397, 430, 1195
BstFNI	CGCG	1 cut(s)	90
BstHHI	GCGC	1 cut(s)	433
BstKTI	GATC	5 cut(s)	54, 574, 826, 1024, 1267
BstMBI	GATC	5 cut(s)	51, 571, 823, 1021, 1264
BstMWI	GCNNNNNNNGC	4 cut(s)	340, 587, 599, 775
BstNSI	RCATGY	3 cut(s)	304, 372, 775
BstSFI	CTRYAG	2 cut(s)	475, 1426
BstUI	CGCG	1 cut(s)	90
BstV1I	GCAGC	2 cut(s)	602, 1067
BstV2I	GAAGAC	1 cut(s)	1179
BstX2I	RGATCY	1 cut(s)	1264
BstYI	RGATCY	1 cut(s)	1264
Bsu15I	ATCGAT	3 cut(s)	54, 980, 1247
Bsu36I	CCTNAGG	2 cut(s)	285, 1005
BsuRI	GGCC	5 cut(s)	279, 872, 959, 1063, 1254
BsuTUI	ATCGAT	3 cut(s)	54, 980, 1247
BtsCI	GGATG	4 cut(s)	269, 397, 430, 1195
BtsI	GCAGTG	1 cut(s)	1128
BtsIMutI	CAGTG	1 cut(s)	1128
BveI	ACCTGC	1 cut(s)	850
Cac8I	GCNNGC	2 cut(s)	663, 720
CciI	TCATGA	1 cut(s)	811
CfoI	GCGC	1 cut(s)	433
ClaI	ATCGAT	3 cut(s)	54, 980, 1247
CseI	GACGC	1 cut(s)	626
Csp6I	GTAC	3 cut(s)	480, 1179, 1329
CviAII	CATG	6 cut(s)	301, 369, 772, 812, 937, 1256
CviQI	GTAC	3 cut(s)	480, 1179, 1329
DdeI	CTNAG	4 cut(s)	236, 285, 1005, 1365
DpnI	GATC	5 cut(s)	53, 573, 825, 1023, 1266
DpnII	GATC	5 cut(s)	51, 571, 823, 1021, 1264
DraI	TTTAAA	1 cut(s)	849
EaeI	YGGCCR	3 cut(s)	870, 1061, 1252
Eam1104I	CTCTTC	1 cut(s)	902
EarI	CTCTTC	1 cut(s)	902
Eco130I	CCWWGG	1 cut(s)	883
Eco147I	AGGCCT	2 cut(s)	279, 959
Eco81I	CCTNAGG	2 cut(s)	285, 1005
EcoNI	CCTNNNNNAGG	1 cut(s)	284
EcoT14I	CCWWGG	1 cut(s)	883
ErhI	CCWWGG	1 cut(s)	883
FaeI	CATG	6 cut(s)	304, 372, 775, 815, 940, 1259
FalI	AAGNNNNNCTT	2 cut(s)	501, 533
FaqI	GGGAC	1 cut(s)	1087
FatI	CATG	6 cut(s)	300, 368, 771, 811, 936, 1255
FauI	CCCGC	1 cut(s)	32
FbaI	TGATCA	1 cut(s)	823
FblI	GTMKAC	2 cut(s)	243, 760
Fnu4HI	GCNGC	3 cut(s)	396, 591, 1056
FokI	GGATG	4 cut(s)	276, 404, 437, 1202
Fsp4HI	GCNGC	3 cut(s)	396, 591, 1056
FspBI	CTAG	2 cut(s)	779, 1017
GlaI	GCGC	1 cut(s)	432
GluI	GCNGC	3 cut(s)	396, 591, 1056
GsaI	CCCAGC	1 cut(s)	384
HaeIII	GGCC	5 cut(s)	279, 872, 959, 1063, 1254
HgaI	GACGC	1 cut(s)	626
HhaI	GCGC	1 cut(s)	433
Hin1II	CATG	6 cut(s)	304, 372, 775, 815, 940, 1259
Hin6I	GCGC	1 cut(s)	431
HinP1I	GCGC	1 cut(s)	431
HinfI	GANTC	8 cut(s)	77, 240, 503, 808, 839, 988, 1115, 1284
HphI	GGTGA	3 cut(s)	337, 463, 689
Hpy166II	GTNNAC	6 cut(s)	244, 754, 761, 921, 1306, 1379
Hpy188I	TCNGA	5 cut(s)	239, 541, 647, 1026, 1399
Hpy188III	TCNNGA	3 cut(s)	215, 677, 812
Hpy8I	GTNNAC	6 cut(s)	244, 754, 761, 921, 1306, 1379
HpyAV	CCTTC	5 cut(s)	212, 253, 290, 415, 1428
HpyCH4III	ACNGT	7 cut(s)	198, 751, 758, 1078, 1169, 1178, 1374
HpyCH4IV	ACGT	1 cut(s)	319
HpyCH4V	TGCA	7 cut(s)	194, 304, 368, 403, 1152, 1165, 1334
HpyF10VI	GCNNNNNNNGC	4 cut(s)	340, 587, 599, 775
HpyF3I	CTNAG	4 cut(s)	236, 285, 1005, 1365
HpySE526I	ACGT	1 cut(s)	319
Hsp92II	CATG	6 cut(s)	304, 372, 775, 815, 940, 1259
HspAI	GCGC	1 cut(s)	431
Ksp22I	TGATCA	1 cut(s)	823
Kzo9I	GATC	5 cut(s)	51, 571, 823, 1021, 1264
LmnI	GCTCC	1 cut(s)	1319
Lsp1109I	GCAGC	2 cut(s)	602, 1067
LweI	GCATC	5 cut(s)	382, 436, 589, 1032, 1180
MaeI	CTAG	2 cut(s)	779, 1017
MaeII	ACGT	1 cut(s)	319
MaeIII	GTNAC	4 cut(s)	614, 1145, 1234, 1384
MalI	GATC	5 cut(s)	53, 573, 825, 1023, 1266
MboI	GATC	5 cut(s)	51, 571, 823, 1021, 1264
MboII	GAAGA	4 cut(s)	827, 919, 1184, 1194
MflI	RGATCY	1 cut(s)	1264
MlsI	TGGCCA	2 cut(s)	872, 1254
MluCI	AATT	8 cut(s)	271, 311, 437, 610, 650, 877, 1269, 1336
MluNI	TGGCCA	2 cut(s)	872, 1254
MlyI	GAGTC	3 cut(s)	249, 848, 982
MmeI	TCCRAC	2 cut(s)	369, 1167
Mox20I	TGGCCA	2 cut(s)	872, 1254
MscI	TGGCCA	2 cut(s)	872, 1254
MseI	TTAA	7 cut(s)	254, 270, 314, 489, 656, 848, 1436
Msp20I	TGGCCA	2 cut(s)	872, 1254
MspA1I	CMGCKG	1 cut(s)	1364
MspCI	CTTAAG	1 cut(s)	488
Mva1269I	GAATGC	1 cut(s)	151
MvnI	CGCG	1 cut(s)	90
MwoI	GCNNNNNNNGC	4 cut(s)	340, 587, 599, 775
NdeII	GATC	5 cut(s)	51, 571, 823, 1021, 1264
NlaIII	CATG	6 cut(s)	304, 372, 775, 815, 940, 1259
NlaIV	GGNNCC	1 cut(s)	889
NmeAIII	GCCGAG	2 cut(s)	200, 1039
NmuCI	GTSAC	2 cut(s)	614, 1384
NspI	RCATGY	3 cut(s)	304, 372, 775
PagI	TCATGA	1 cut(s)	811
PceI	AGGCCT	2 cut(s)	279, 959
PciI	ACATGT	1 cut(s)	771
PctI	GAATGC	1 cut(s)	151
PfeI	GAWTC	5 cut(s)	77, 503, 808, 1115, 1284
PflMI	CCANNNNNTGG	2 cut(s)	1070, 1261
PkrI	GCNGC	3 cut(s)	397, 592, 1057
PleI	GAGTC	3 cut(s)	248, 847, 982
PpsI	GAGTC	3 cut(s)	248, 847, 982
Ppu21I	YACGTR	1 cut(s)	320
PscI	ACATGT	1 cut(s)	771
PshBI	ATTAAT	3 cut(s)	254, 270, 314
PsiI	TTATAA	1 cut(s)	26
PspFI	CCCAGC	1 cut(s)	380
PspN4I	GGNNCC	1 cut(s)	889
PsrI	GAACNNNNNNTAC	4 cut(s)	568, 600, 880, 912
PsuI	RGATCY	1 cut(s)	1264
PvuII	CAGCTG	1 cut(s)	1364
RsaI	GTAC	3 cut(s)	481, 1180, 1330
RsaNI	GTAC	3 cut(s)	480, 1179, 1329
SaqAI	TTAA	7 cut(s)	254, 270, 314, 489, 656, 848, 1436
SatI	GCNGC	3 cut(s)	396, 591, 1056
Sau3AI	GATC	5 cut(s)	51, 571, 823, 1021, 1264
SchI	GAGTC	3 cut(s)	249, 848, 982
SfaNI	GCATC	5 cut(s)	382, 436, 589, 1032, 1180
SfcI	CTRYAG	2 cut(s)	475, 1426
SmlI	CTYRAG	1 cut(s)	488
SmoI	CTYRAG	1 cut(s)	488
Sse9I	AATT	8 cut(s)	271, 311, 437, 610, 650, 877, 1269, 1336
SseBI	AGGCCT	2 cut(s)	279, 959
SsiI	CCGC	3 cut(s)	39, 90, 396
SspMI	CTAG	2 cut(s)	779, 1017
StuI	AGGCCT	2 cut(s)	279, 959
StyI	CCWWGG	1 cut(s)	883
TaaI	ACNGT	7 cut(s)	198, 751, 758, 1078, 1169, 1178, 1374
TaiI	ACGT	1 cut(s)	322
TaqI	TCGA	7 cut(s)	54, 84, 214, 574, 928, 980, 1247
TasI	AATT	8 cut(s)	271, 311, 437, 610, 650, 877, 1269, 1336
TatI	WGTACW	2 cut(s)	479, 1178
TauI	GCSGC	1 cut(s)	398
TfiI	GAWTC	5 cut(s)	77, 503, 808, 1115, 1284
Tru1I	TTAA	7 cut(s)	254, 270, 314, 489, 656, 848, 1436
Tru9I	TTAA	7 cut(s)	254, 270, 314, 489, 656, 848, 1436
TscAI	CASTG	1 cut(s)	1128
TseFI	GTSAC	2 cut(s)	614, 1384
TseI	GCWGC	2 cut(s)	590, 1055
Tsp45I	GTSAC	2 cut(s)	614, 1384
TspDTI	ATGAA	8 cut(s)	272, 434, 441, 515, 556, 560, 800, 828
TspRI	CASTG	1 cut(s)	1128
Van91I	CCANNNNNTGG	2 cut(s)	1070, 1261
Vha464I	CTTAAG	1 cut(s)	488
VspI	ATTAAT	3 cut(s)	254, 270, 314
XagI	CCTNNNNNAGG	1 cut(s)	284
XapI	RAATTY	2 cut(s)	437, 1336
XceI	RCATGY	3 cut(s)	304, 372, 775
XmiI	GTMKAC	2 cut(s)	243, 760
XspI	CTAG	2 cut(s)	779, 1017

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