Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0013159

Physical Location & Seq

Genomic Coordinates Reverse (-)

72568289 .. 72570158

Gene Structure 1870 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000035845

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1422 bp

ATGACTCCCATCACCCAACACCGTACATTTCAATCCTCGCCTGACCTGTACTCAAAGCTGATCGGAATCTACGCTCGTGATCGAGAATTGCAGCCAGCAAGACTACTCCACGCCCATTTGATCACCACCGGGTTGGCCCGTTTGACCCATTTTGCCTCCAAGCTCATAGTCTTGTACGCTTCCTGCGGCCGAGTAGCCCATGCCCGTAACCTGTTCGACCAAATTCCCAAGACCAACATACGCCGCTGGTTTGCTCTGATCGGAGCCTGCGCTCGCTCTGGGTTTTATCAGCAAGCCATGGATGTGTTCAGTGAGATGCAAGGAGCCGGTTCGAGGCCGAATAGGATTGTTATTCCCAGTGTTCTCAAGGCATGTGGGCATCTCTCTGATGTTAAAACCGGTGAGAAACTACATGCTGTTGTGCTCAGGCAGTCGTTTGAGTTTGATGCTTTTATTAGCAGCGCGCTCATTGACATGTACTCGAAGAATGGGAGCGTGGAGAAGGCACGCCGGGTTTTTGATATGATGGTGGAGAAAGATTTGGTGGCTTTGAATGCTGTTGTTTCGGGGTTTTGTCAGCATGGCATGGCGGAAGAAGCATTGGTTTTGGTGGAGGAAATGCAGCTGGTGGGGATTAAGCCTAATTTGATTACTTGGAACACTTTGGTTGCTGGGTTTTCGCAGAAGGGTGATGAAGCAATGGCCTCTAGGCTGTTTAAATTGATGCGTGTGAACGGGATTGAGCCTGATGTTGTTTCTTGGACTTCGGTTATATCTGGGTTTGTGAAGAATTTTCAAAACAGTAAGGCTTTTTATACATTTAAGCAAATGTTGGATCATGGAATATGTCCAACTTCGGCTACAATCAGTAGCCTCTTGCCTGCTTGTGCAGCTGTGACGAACTTGAGGTCTGGTAAGGAGATACATGCTTATGCATTGGTGATTGGAGTTGAAGCTGATGTATATGTGAGGAGTGCTCTTGTTGATATGTATGCGAAATGCGGATTTATATACGAAGCAACGAAATTGTTTTGCAAGATGTCTGAAAGGAACACCGTAACGTGGAACTCAATGATTTTTGGATACACGAATCATGGGTATTGCACCGAAGCAATTGAGCTTTTCAACAAGATGAAGACAGAAGACAACAGGAAACTTGATTACTTGACTTTCGTAGCAGTCCTTACTGCTTGTTGTCATGCTGGAATGATTGAACTTGGCAAAAGCTTGTTTAGTTCGATGCAGGAAGAACATGGGATCATGCCAAGACTAGAACATTATGCATGTATGGTTGATCTTCTAGGTCGAGCAGGGAATCTTACTGAGGCATATGATATGATTAAGGCAATGCCCATGGAGCCAGATTTGTTTAAGAGACCTGAAGAGAAGGAAATCTACGGGTATAAGGCACCTGAGCATTAA

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

474

Amino Acids

52.95

Weight (kDa)

8.17

Isoelectric Point (pI)

46.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	180 - 226	3.9e-10	PPR repeat family
PPR_long	PF17177	196 - 299	1.1e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	203 - 264	3.4e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	214 - 255	4e-08	PPR repeat family
PPR_3	PF13812	238 - 296	1.3e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	249 - 297	1.8e-10	PPR repeat family
PPR_2	PF13041	350 - 400	7.6e-10	PPR repeat family
PPR_1	PF12854	350 - 379	7.3e-06	PPR repeat
PPR	PF01535	353 - 381	3e-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: OG0013159)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G59600
fragaria_vesca	FvH4_3g36900
malus_domestica	MD11G1095800.v1.1
prunus_persica	Prupe.6G071300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0066131 RchiOBHm_Chr5g0066221 RchiOBHm_Chr5g0066241 RchiOBHm_Chr5g0066281
rosa_laevigata	RLG00000035845
rosa_multiflora	Rmu_sc0002406.1_g000015 Rmu_sc0019146.1_g000002
rosa_roxburghii	Rroxscaffold_1G00014840
rosa_rugosa	Rorug05G0376700
rosa_samantha	Rh5AG435300 Rh5BG451400 Rh5CG473600 Rh5DG466100
rosa_wichuraiana	Rw5G040750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	1408
AccII	CGCG	1 cut(s)	464
AciI	CCGC	4 cut(s)	186, 244, 590, 1002
AclWI	GGATC	2 cut(s)	843, 1265
AcoI	YGGCCR	1 cut(s)	187
AcsI	RAATTY	2 cut(s)	222, 790
AcuI	CTGAAG	1 cut(s)	1401
AfaI	GTAC	4 cut(s)	25, 50, 176, 479
AfiI	CCNNNNNNNGG	2 cut(s)	333, 1062
AflIII	ACRYGT	1 cut(s)	474
AgeI	ACCGGT	1 cut(s)	398
AgsI	TTSAA	6 cut(s)	32, 553, 797, 953, 1126, 1214
AluBI	AGCT	7 cut(s)	58, 163, 625, 893, 956, 1120, 1227
AluI	AGCT	7 cut(s)	58, 163, 625, 893, 956, 1120, 1227
Alw21I	GWGCWC	2 cut(s)	426, 979
Alw26I	GTCTC	1 cut(s)	1369
AlwI	GGATC	2 cut(s)	843, 1265
AoxI	GGCC	4 cut(s)	135, 187, 335, 702
ApeKI	GCWGC	4 cut(s)	91, 459, 622, 890
ApoI	RAATTY	2 cut(s)	222, 790
ArsI	GACNNNNNNTTYG	2 cut(s)	893, 925
AsiGI	ACCGGT	1 cut(s)	398
AspLEI	GCGC	3 cut(s)	272, 464, 466
AspS9I	GGNCC	1 cut(s)	136
AsuC2I	CCSGG	2 cut(s)	130, 512
AsuHPI	GGTGA	5 cut(s)	4, 115, 413, 701, 952
BanI	GGYRCC	1 cut(s)	1408
BarI	GAAGNNNNNNTAC	2 cut(s)	1379, 1411
BauI	CACGAG	1 cut(s)	75
BbsI	GAAGAC	2 cut(s)	1142, 1149
Bbv12I	GWGCWC	2 cut(s)	426, 979
BbvI	GCAGC	4 cut(s)	103, 471, 634, 902
BccI	CCATC	2 cut(s)	17, 520
BciVI	GTATCC	1 cut(s)	1076
BclI	TGATCA	1 cut(s)	120
BcnI	CCSGG	2 cut(s)	130, 512
BcoDI	GTCTC	1 cut(s)	1369
BfaI	CTAG	3 cut(s)	708, 1271, 1301
BfuI	GTATCC	1 cut(s)	1076
BisI	GCNGC	6 cut(s)	92, 187, 244, 460, 623, 891
BlsI	GCNGC	6 cut(s)	93, 188, 245, 461, 624, 892
Bme1390I	CCNGG	2 cut(s)	130, 512
BmgT120I	GGNCC	1 cut(s)	136
BmiI	GGNNCC	4 cut(s)	265, 325, 1359, 1410
BmrFI	CCNGG	2 cut(s)	130, 512
BmrI	ACTGGG	1 cut(s)	351
BmsI	GCATC	5 cut(s)	306, 388, 436, 714, 1230
BmuI	ACTGGG	1 cut(s)	351
BpiI	GAAGAC	2 cut(s)	1142, 1149
BplI	GAGNNNNNCTC	2 cut(s)	961, 993
Bpu10I	CCTNAGC	2 cut(s)	425, 1413
BpuEI	CTTGAG	2 cut(s)	350, 925
BpuMI	CCSGG	2 cut(s)	130, 512
BsaBI	GATNNNNATC	1 cut(s)	65
BsaI	GGTCTC	1 cut(s)	1369
BsaJI	CCNNGG	2 cut(s)	297, 1353
BsaWI	WCCGGW	1 cut(s)	398
Bsc4I	CCNNNNNNNGG	2 cut(s)	333, 1062
Bse118I	RCCGGY	2 cut(s)	326, 398
Bse1I	ACTGG	1 cut(s)	357
Bse3DI	GCAATG	2 cut(s)	705, 1353
Bse8I	GATNNNNATC	1 cut(s)	65
BseDI	CCNNGG	2 cut(s)	297, 1353
BseGI	GGATG	1 cut(s)	307
BseJI	GATNNNNATC	1 cut(s)	65
BseLI	CCNNNNNNNGG	2 cut(s)	333, 1062
BseMI	GCAATG	2 cut(s)	705, 1353
BseMII	CTCAG	3 cut(s)	439, 1314, 1404
BseNI	ACTGG	1 cut(s)	357
BsePI	GCGCGC	1 cut(s)	462
BseRI	GAGGAG	1 cut(s)	985
BseX3I	CGGCCG	1 cut(s)	187
BseXI	GCAGC	4 cut(s)	103, 471, 634, 902
BseYI	CCCAGC	1 cut(s)	671
BsgI	GTGCAG	1 cut(s)	909
Bsh1236I	CGCG	1 cut(s)	464
Bsh1285I	CGRYCG	1 cut(s)	190
BshFI	GGCC	4 cut(s)	137, 189, 337, 704
BshNI	GGYRCC	1 cut(s)	1408
BshTI	ACCGGT	1 cut(s)	398
BsiEI	CGRYCG	1 cut(s)	190
BsiHKAI	GWGCWC	2 cut(s)	426, 979
BsiSI	CCGG	4 cut(s)	129, 327, 399, 511
BslI	CCNNNNNNNGG	2 cut(s)	333, 1062
BsmAI	GTCTC	1 cut(s)	1369
BsmI	GAATGC	1 cut(s)	559
BsnI	GGCC	4 cut(s)	137, 189, 337, 704
Bso31I	GGTCTC	1 cut(s)	1369
Bsp1286I	GDGCHC	2 cut(s)	426, 979
Bsp143I	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
Bsp19I	CCATGG	2 cut(s)	297, 1353
BspACI	CCGC	4 cut(s)	186, 244, 590, 1002
BspANI	GGCC	4 cut(s)	137, 189, 337, 704
BspCNI	CTCAG	3 cut(s)	438, 1315, 1405
BspFNI	CGCG	1 cut(s)	464
BspLI	GGNNCC	4 cut(s)	265, 325, 1359, 1410
BspPI	GGATC	2 cut(s)	843, 1265
BspT107I	GGYRCC	1 cut(s)	1408
BspTNI	GGTCTC	1 cut(s)	1369
BsrDI	GCAATG	2 cut(s)	705, 1353
BsrFI	RCCGGY	2 cut(s)	326, 398
BsrI	ACTGG	1 cut(s)	357
BssAI	RCCGGY	2 cut(s)	326, 398
BssECI	CCNNGG	2 cut(s)	297, 1353
BssHII	GCGCGC	1 cut(s)	462
BssMI	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
BssSI	CACGAG	1 cut(s)	75
BssT1I	CCWWGG	2 cut(s)	297, 1353
Bst2BI	CACGAG	1 cut(s)	75
Bst4CI	ACNGT	3 cut(s)	23, 803, 1057
Bst6I	CTCTTC	1 cut(s)	1377
BstC8I	GCNNGC	7 cut(s)	96, 268, 274, 294, 464, 508, 882
BstDEI	CTNAG	3 cut(s)	425, 1323, 1413
BstDSI	CCRYGG	2 cut(s)	297, 1353
BstF5I	GGATG	1 cut(s)	307
BstFNI	CGCG	1 cut(s)	464
BstHHI	GCGC	3 cut(s)	272, 464, 466
BstKTI	GATC	7 cut(s)	63, 82, 123, 261, 838, 1260, 1297
BstMAI	GTCTC	1 cut(s)	1369
BstMBI	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
BstMCI	CGRYCG	1 cut(s)	190
BstMWI	GCNNNNNNNGC	4 cut(s)	554, 596, 890, 1357
BstNSI	RCATGY	5 cut(s)	375, 416, 478, 929, 1287
BstSCI	CCNGG	2 cut(s)	128, 510
BstUI	CGCG	1 cut(s)	464
BstV1I	GCAGC	4 cut(s)	103, 471, 634, 902
BstV2I	GAAGAC	2 cut(s)	1142, 1149
BstXI	CCANNNNNNTGG	1 cut(s)	133
BstZI	CGGCCG	1 cut(s)	187
BsuI	GTATCC	1 cut(s)	1076
BsuRI	GGCC	4 cut(s)	137, 189, 337, 704
BtgI	CCRYGG	2 cut(s)	297, 1353
BtsCI	GGATG	1 cut(s)	307
BtsIMutI	CAGTG	2 cut(s)	316, 364
Cac8I	GCNNGC	7 cut(s)	96, 268, 274, 294, 464, 508, 882
CfoI	GCGC	3 cut(s)	272, 464, 466
Cfr10I	RCCGGY	2 cut(s)	326, 398
Cfr13I	GGNCC	1 cut(s)	136
Csp6I	GTAC	4 cut(s)	24, 49, 175, 478
CspAI	ACCGGT	1 cut(s)	398
CspCI	CAANNNNNGTGG	2 cut(s)	355, 390
CviQI	GTAC	4 cut(s)	24, 49, 175, 478
DdeI	CTNAG	3 cut(s)	425, 1323, 1413
DpnI	GATC	7 cut(s)	62, 81, 122, 260, 837, 1259, 1296
DpnII	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
DraI	TTTAAA	1 cut(s)	718
EaeI	YGGCCR	1 cut(s)	187
EagI	CGGCCG	1 cut(s)	187
Eam1104I	CTCTTC	1 cut(s)	1377
EarI	CTCTTC	1 cut(s)	1377
EciI	GGCGGA	1 cut(s)	605
EclXI	CGGCCG	1 cut(s)	187
Eco130I	CCWWGG	2 cut(s)	297, 1353
Eco31I	GGTCTC	1 cut(s)	1369
Eco52I	CGGCCG	1 cut(s)	187
Eco57I	CTGAAG	1 cut(s)	1401
EcoT14I	CCWWGG	2 cut(s)	297, 1353
EcoT22I	ATGCAT	2 cut(s)	937, 1285
ErhI	CCWWGG	2 cut(s)	297, 1353
FauNDI	CATATG	1 cut(s)	1330
FbaI	TGATCA	1 cut(s)	120
Fnu4HI	GCNGC	6 cut(s)	92, 187, 244, 460, 623, 891
FokI	GGATG	1 cut(s)	314
Fsp4HI	GCNGC	6 cut(s)	92, 187, 244, 460, 623, 891
FspBI	CTAG	3 cut(s)	708, 1271, 1301
GlaI	GCGC	3 cut(s)	271, 463, 465
GluI	GCNGC	6 cut(s)	92, 187, 244, 460, 623, 891
GsaI	CCCAGC	1 cut(s)	675
HaeIII	GGCC	4 cut(s)	137, 189, 337, 704
HapII	CCGG	4 cut(s)	129, 327, 399, 511
HhaI	GCGC	3 cut(s)	272, 464, 466
Hin6I	GCGC	3 cut(s)	270, 462, 464
HinP1I	GCGC	3 cut(s)	270, 462, 464
HindIII	AAGCTT	1 cut(s)	1225
HinfI	GANTC	4 cut(s)	4, 66, 1090, 1315
HpaII	CCGG	4 cut(s)	129, 327, 399, 511
HphI	GGTGA	5 cut(s)	4, 115, 413, 701, 952
Hpy166II	GTNNAC	1 cut(s)	733
Hpy188I	TCNGA	5 cut(s)	65, 258, 263, 388, 1045
Hpy188III	TCNNGA	2 cut(s)	77, 83
Hpy8I	GTNNAC	1 cut(s)	733
HpyAV	CCTTC	3 cut(s)	496, 679, 1381
HpyCH4III	ACNGT	3 cut(s)	23, 803, 1057
HpyCH4IV	ACGT	1 cut(s)	1061
HpyCH4V	TGCA	9 cut(s)	91, 319, 622, 890, 935, 1035, 1104, 1243, 1283
HpyF10VI	GCNNNNNNNGC	4 cut(s)	554, 596, 890, 1357
HpyF3I	CTNAG	3 cut(s)	425, 1323, 1413
HpySE526I	ACGT	1 cut(s)	1061
HspAI	GCGC	3 cut(s)	270, 462, 464
Ksp22I	TGATCA	1 cut(s)	120
Kzo9I	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
LmnI	GCTCC	4 cut(s)	263, 323, 492, 1357
Lsp1109I	GCAGC	4 cut(s)	103, 471, 634, 902
LweI	GCATC	5 cut(s)	306, 388, 436, 714, 1230
MaeI	CTAG	3 cut(s)	708, 1271, 1301
MaeII	ACGT	1 cut(s)	1061
MaeIII	GTNAC	3 cut(s)	206, 895, 1057
MalI	GATC	7 cut(s)	62, 81, 122, 260, 837, 1259, 1296
MboI	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
MboII	GAAGA	8 cut(s)	496, 605, 799, 1147, 1154, 1259, 1289, 1394
MfeI	CAATTG	1 cut(s)	1113
MhlI	GDGCHC	2 cut(s)	426, 979
MluCI	AATT	7 cut(s)	86, 222, 643, 719, 790, 1025, 1113
MmeI	TCCRAC	2 cut(s)	813, 875
MnlI	CCTC	9 cut(s)	46, 166, 327, 607, 715, 884, 900, 963, 1318
Mph1103I	ATGCAT	2 cut(s)	937, 1285
MseI	TTAA	7 cut(s)	393, 636, 717, 822, 1341, 1371, 1420
MslI	CAYNNNNRTG	3 cut(s)	302, 473, 930
MspA1I	CMGCKG	3 cut(s)	246, 625, 893
MspI	CCGG	4 cut(s)	129, 327, 399, 511
MspR9I	CCNGG	2 cut(s)	130, 512
MunI	CAATTG	1 cut(s)	1113
Mva1269I	GAATGC	1 cut(s)	559
MvnI	CGCG	1 cut(s)	464
MwoI	GCNNNNNNNGC	4 cut(s)	554, 596, 890, 1357
NciI	CCSGG	2 cut(s)	130, 512
NcoI	CCATGG	2 cut(s)	297, 1353
NdeI	CATATG	1 cut(s)	1330
NdeII	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
NlaIV	GGNNCC	4 cut(s)	265, 325, 1359, 1410
NmeAIII	GCCGAG	1 cut(s)	215
NmuCI	GTSAC	1 cut(s)	895
NsiI	ATGCAT	2 cut(s)	937, 1285
NspI	RCATGY	5 cut(s)	375, 416, 478, 929, 1287
PauI	GCGCGC	1 cut(s)	462
PciI	ACATGT	1 cut(s)	474
PctI	GAATGC	1 cut(s)	559
PfeI	GAWTC	3 cut(s)	66, 1090, 1315
PinAI	ACCGGT	1 cut(s)	398
PkrI	GCNGC	6 cut(s)	93, 188, 245, 461, 624, 892
PscI	ACATGT	1 cut(s)	474
PspFI	CCCAGC	1 cut(s)	671
PspN4I	GGNNCC	4 cut(s)	265, 325, 1359, 1410
PspPI	GGNCC	1 cut(s)	136
PteI	GCGCGC	1 cut(s)	462
PvuII	CAGCTG	2 cut(s)	625, 893
RsaI	GTAC	4 cut(s)	25, 50, 176, 479
RsaNI	GTAC	4 cut(s)	24, 49, 175, 478
RseI	CAYNNNNRTG	3 cut(s)	302, 473, 930
SaqAI	TTAA	7 cut(s)	393, 636, 717, 822, 1341, 1371, 1420
SatI	GCNGC	6 cut(s)	92, 187, 244, 460, 623, 891
Sau3AI	GATC	7 cut(s)	60, 79, 120, 258, 835, 1257, 1294
Sau96I	GGNCC	1 cut(s)	136
ScrFI	CCNGG	2 cut(s)	130, 512
SduI	GDGCHC	2 cut(s)	426, 979
SfaNI	GCATC	5 cut(s)	306, 388, 436, 714, 1230
SmiMI	CAYNNNNRTG	3 cut(s)	302, 473, 930
SmlI	CTYRAG	2 cut(s)	365, 904
SmoI	CTYRAG	2 cut(s)	365, 904
Sse9I	AATT	7 cut(s)	86, 222, 643, 719, 790, 1025, 1113
SsiI	CCGC	4 cut(s)	186, 244, 590, 1002
SspMI	CTAG	3 cut(s)	708, 1271, 1301
StyD4I	CCNGG	2 cut(s)	128, 510
StyI	CCWWGG	2 cut(s)	297, 1353
TaaI	ACNGT	3 cut(s)	23, 803, 1057
TaiI	ACGT	1 cut(s)	1064
TaqI	TCGA	6 cut(s)	82, 216, 332, 482, 1238, 1306
TasI	AATT	7 cut(s)	86, 222, 643, 719, 790, 1025, 1113
TatI	WGTACW	2 cut(s)	48, 477
TauI	GCSGC	2 cut(s)	189, 246
TfiI	GAWTC	3 cut(s)	66, 1090, 1315
Tru1I	TTAA	7 cut(s)	393, 636, 717, 822, 1341, 1371, 1420
Tru9I	TTAA	7 cut(s)	393, 636, 717, 822, 1341, 1371, 1420
TscAI	CASTG	2 cut(s)	316, 364
TseFI	GTSAC	1 cut(s)	895
TseI	GCWGC	4 cut(s)	91, 459, 622, 890
Tsp45I	GTSAC	1 cut(s)	895
TspDTI	ATGAA	2 cut(s)	708, 1148
TspRI	CASTG	2 cut(s)	316, 364
XapI	RAATTY	2 cut(s)	222, 790
XceI	RCATGY	5 cut(s)	375, 416, 478, 929, 1287
XspI	CTAG	3 cut(s)	708, 1271, 1301
Zsp2I	ATGCAT	2 cut(s)	937, 1285

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