Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0015288

Physical Location & Seq

Genomic Coordinates Forward (+)

40661084 .. 40663030

Gene Structure 1947 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000024949

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1476 bp

ATGGTGAGAGCCTCTTCTCTCACACCCAGAAGCAAATTCTTCTTAAGAAAACACAGAAAATGGCCAGTCTCACCCTCCAACGCCAAATGGCACACCCTCTTCAATCAACACCAAGCACTACAAACCCTCAAACACTCCCCACTAAACCCACCCCAAAACCTTCTCTCCACACTCATCCACTCTTTCAAAACCTTCAACTCTGACCCAACCCCTGAAGCTTACAACTTTGTCCTCAAAACCCTAACTAAAACCTCACAACTGACCCACATCCCTTCTGTTCTTGACCGCCTTGAATCTGTAGAAAAATTCCACACCCCCGAATCGATTTTCGCCAATCTGATTAGATTTTATGGCAGTGCCAATCGAATTGGGGATGCCATTGATGTTTTCTACAGGATTCCCAAGTTCAGGTGTGACCCTTCTGCGGTTTCACTCAATTCTCTGTTATATGTGCTTTGTGGGAGTAGTGAAGGTCTTAAAATGGTGCCCCAGATTTTGTTGAACAGCCGAGCTATGGGGATCAGGCTCGAAGAGTCGAGCTTTCGGATTTTAATCACTGCATTGTGTGGAATTGGAAGGGTTGGGTATGCCATTGAGATAATGAAGTGCATGATCAGAAATGGGTATGATTTGGATGTAAAAATTTGCTCTTTGGTGCTGTCATCATTGTGTGAGCAAAAGGGTTTAGCTGGTTTGGAGGTTGTGGGTTTTTTGGAAGAAATGAAGAGAGTTGGGTTTTGTGCTGGGATGATGGACTATTCAAATGTGATTAGGTTTTTGGTGAAACAGGGGAAGGGTTTGGATGCTTTGAGGGTTTTGGGGAAGATGAAAGTGGAGGGAATGAAGCCTGATGTTGTTTGTTATACCATGGTTTTACATGGGGTTATTGCAGACGGGGATTACAAAAATGCGGATAAGGTGTTCGATGAATTGCTTGTGTTGGGTTTGGTTCCTGATGTTTATACTTGCAATGTGTATATAAATGGGTTGTGCAAGCAGAACAATGTGGAAGCTGGAATACAGATGATTACTTGTATGGAAGAGTTGGGGTGCAAGCCGAATTTGATTACTTATAACATGTTGTTGAAGGCGTTATGTAAGGATGGGGAGCTAGGTCCGGCGAAGGAGCTTGTGAATGAGATGACCTTAAAGGGTGTTGGGGTAAACTTGCAGACACATAGAATTATGCTGGATGGTCTGTTTTGTAAAGGTGACATTGATGAAGCTTGTATCTTTATGGAGGAAATGTTGGATAAGTTTCTCTGTCATTGTTGTTCGGCATATGATGATGTTATCTTTGGGTTGTGCCAGAGGGGTTTTGTTTTTAAAGCAATGGATTTGCTGCTGAAAATGGTTAACAAGAATGTTGTGCCCGGGACAAGAGCTTGGGAAGCACTACTTCTTAGCTCAGGAACTAGACCTTGCTTGGTAGAGACTACTTGGACTGGTTTAGTGAACCCAATTGAAGTTGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003725 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031053 GO:0031054 GO:0032296 GO:0034470 GO:0034641 GO:0034660 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 dsrm

Protein Analysis

492

Amino Acids

54.84

Weight (kDa)

8.15

Isoelectric Point (pI)

31.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	238 - 292	1.4e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	253 - 294	2.6e-07	PPR repeat family
PPR_2	PF13041	283 - 332	5e-12	PPR repeat family
PPR_3	PF13812	306 - 365	2.7e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	318 - 367	1.2e-14	PPR repeat family
PPR_1	PF12854	350 - 382	2.1e-11	PPR repeat
PPR_2	PF13041	353 - 400	1.9e-11	PPR repeat family

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: OG0015288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38420
fragaria_vesca	FvH4_6g10340
malus_domestica	MD04G1169100.v1.1 MD12G1182800.v1.1
prunus_persica	Prupe.6G287300_v2.0.a1
pyrus_communis	pycom04g14980 pycom12g17160
rosa_laevigata	RLG00000024949
rosa_multiflora	Rmu_sc0001521.1_g000049
rosa_roxburghii	Rroxscaffold_6G00418830
rosa_rugosa	Rorug03G0048500 Rorug03G0048700
rosa_samantha	Rh3BG110100 Rh3CG111600 Rh3DG111700
rosa_wichuraiana	Rw3G009060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1074
AccB1I	GGYRCC	1 cut(s)	484
AciI	CCGC	3 cut(s)	286, 425, 911
AclWI	GGATC	1 cut(s)	527
AcoI	YGGCCR	1 cut(s)	62
AcsI	RAATTY	4 cut(s)	35, 305, 642, 1060
AcuI	CTGAAG	1 cut(s)	234
AfiI	CCNNNNNNNGG	3 cut(s)	408, 424, 514
AflII	CTTAAG	1 cut(s)	43
AflIII	ACRYGT	1 cut(s)	1077
AgsI	TTSAA	8 cut(s)	103, 187, 196, 293, 502, 762, 1087, 1466
AloI	GAACNNNNNNTCC	2 cut(s)	905, 937
Alw26I	GTCTC	2 cut(s)	73, 1427
AlwI	GGATC	1 cut(s)	527
Ama87I	CYCGRG	1 cut(s)	1373
AoxI	GGCC	1 cut(s)	62
ApeKI	GCWGC	1 cut(s)	1342
ApoI	RAATTY	4 cut(s)	35, 305, 642, 1060
AspS9I	GGNCC	1 cut(s)	1115
AsuC2I	CCSGG	2 cut(s)	1374, 1375
AsuHPI	GGTGA	4 cut(s)	16, 63, 793, 1223
AvaI	CYCGRG	1 cut(s)	1373
AvaII	GGWCC	1 cut(s)	1115
BaeGI	GKGCMC	2 cut(s)	489, 1374
BalI	TGGCCA	1 cut(s)	64
BanI	GGYRCC	1 cut(s)	484
BarI	GAAGNNNNNNTAC	2 cut(s)	1002, 1034
BbvI	GCAGC	1 cut(s)	1329
BccI	CCATC	3 cut(s)	745, 1097, 1187
BclI	TGATCA	1 cut(s)	612
BcnI	CCSGG	2 cut(s)	1374, 1375
BcoDI	GTCTC	2 cut(s)	73, 1427
BfaI	CTAG	2 cut(s)	1112, 1416
BfmI	CTRYAG	2 cut(s)	297, 391
BfrI	CTTAAG	1 cut(s)	43
BisI	GCNGC	1 cut(s)	1343
BlsI	GCNGC	1 cut(s)	1344
Bme1390I	CCNGG	2 cut(s)	1374, 1375
Bme18I	GGWCC	1 cut(s)	1115
BmeT110I	CYCGRG	1 cut(s)	1373
BmgT120I	GGNCC	1 cut(s)	1115
BmiI	GGNNCC	2 cut(s)	486, 951
BmrFI	CCNGG	2 cut(s)	1374, 1375
BmsI	GCATC	2 cut(s)	364, 793
Bpu10I	CCTNAGC	1 cut(s)	1408
BpuMI	CCSGG	2 cut(s)	1374, 1375
Bsa29I	ATCGAT	1 cut(s)	323
BsaBI	GATNNNNATC	1 cut(s)	551
BsaJI	CCNNGG	2 cut(s)	867, 1373
BsaXI	ACNNNNNCTCC	4 cut(s)	149, 179, 1232, 1262
Bsc4I	CCNNNNNNNGG	3 cut(s)	408, 424, 514
Bse1I	ACTGG	2 cut(s)	65, 1450
Bse3DI	GCAATG	2 cut(s)	976, 1338
Bse8I	GATNNNNATC	1 cut(s)	551
BseCI	ATCGAT	1 cut(s)	323
BseDI	CCNNGG	2 cut(s)	867, 1373
BseGI	GGATG	8 cut(s)	174, 267, 379, 640, 753, 808, 1108, 1198
BseJI	GATNNNNATC	1 cut(s)	551
BseLI	CCNNNNNNNGG	3 cut(s)	408, 424, 514
BseMI	GCAATG	2 cut(s)	976, 1338
BseMII	CTCAG	1 cut(s)	1422
BseNI	ACTGG	2 cut(s)	65, 1450
BseSI	GKGCMC	2 cut(s)	489, 1374
BseXI	GCAGC	1 cut(s)	1329
BseYI	CCCAGC	1 cut(s)	743
BshFI	GGCC	1 cut(s)	64
BshNI	GGYRCC	1 cut(s)	484
BshVI	ATCGAT	1 cut(s)	323
BsiHKCI	CYCGRG	1 cut(s)	1373
BsiSI	CCGG	2 cut(s)	1118, 1374
BslFI	GGGAC	1 cut(s)	1390
BslI	CCNNNNNNNGG	3 cut(s)	408, 424, 514
BsmAI	GTCTC	2 cut(s)	73, 1427
BsmFI	GGGAC	1 cut(s)	1390
BsnI	GGCC	1 cut(s)	64
BsoBI	CYCGRG	1 cut(s)	1373
Bsp1286I	GDGCHC	2 cut(s)	489, 1374
Bsp143I	GATC	2 cut(s)	519, 612
Bsp19I	CCATGG	1 cut(s)	867
BspACI	CCGC	3 cut(s)	286, 425, 911
BspANI	GGCC	1 cut(s)	64
BspCNI	CTCAG	1 cut(s)	1421
BspDI	ATCGAT	1 cut(s)	323
BspLI	GGNNCC	2 cut(s)	486, 951
BspPI	GGATC	1 cut(s)	527
BspT107I	GGYRCC	1 cut(s)	484
BspTI	CTTAAG	1 cut(s)	43
BsrDI	GCAATG	2 cut(s)	976, 1338
BsrI	ACTGG	2 cut(s)	65, 1450
BssECI	CCNNGG	2 cut(s)	867, 1373
BssMI	GATC	2 cut(s)	519, 612
BssT1I	CCWWGG	1 cut(s)	867
Bst6I	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
BstAFI	CTTAAG	1 cut(s)	43
BstC8I	GCNNGC	2 cut(s)	995, 1055
BstDEI	CTNAG	2 cut(s)	1403, 1408
BstDSI	CCRYGG	1 cut(s)	867
BstF5I	GGATG	8 cut(s)	174, 267, 379, 640, 753, 808, 1108, 1198
BstKTI	GATC	2 cut(s)	522, 615
BstMAI	GTCTC	2 cut(s)	73, 1427
BstMBI	GATC	2 cut(s)	519, 612
BstMWI	GCNNNNNNNGC	1 cut(s)	1391
BstNSI	RCATGY	1 cut(s)	1081
BstSCI	CCNGG	2 cut(s)	1372, 1373
BstSFI	CTRYAG	2 cut(s)	297, 391
BstSLI	GKGCMC	2 cut(s)	489, 1374
BstV1I	GCAGC	1 cut(s)	1329
Bsu15I	ATCGAT	1 cut(s)	323
BsuRI	GGCC	1 cut(s)	64
BsuTUI	ATCGAT	1 cut(s)	323
BtgI	CCRYGG	1 cut(s)	867
BtsCI	GGATG	8 cut(s)	174, 267, 379, 640, 753, 808, 1108, 1198
BtsI	GCAGTG	2 cut(s)	361, 555
BtsIMutI	CAGTG	2 cut(s)	361, 555
Cac8I	GCNNGC	2 cut(s)	995, 1055
Cfr13I	GGNCC	1 cut(s)	1115
Cfr9I	CCCGGG	1 cut(s)	1373
ClaI	ATCGAT	1 cut(s)	323
CviAII	CATG	4 cut(s)	610, 868, 878, 1078
DdeI	CTNAG	2 cut(s)	1403, 1408
DpnI	GATC	2 cut(s)	521, 614
DpnII	GATC	2 cut(s)	519, 612
DraI	TTTAAA	1 cut(s)	1327
EaeI	YGGCCR	1 cut(s)	62
Eam1104I	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
EarI	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
Eco130I	CCWWGG	1 cut(s)	867
Eco47I	GGWCC	1 cut(s)	1115
Eco57I	CTGAAG	1 cut(s)	234
Eco88I	CYCGRG	1 cut(s)	1373
EcoT14I	CCWWGG	1 cut(s)	867
ErhI	CCWWGG	1 cut(s)	867
FaeI	CATG	4 cut(s)	613, 871, 881, 1081
FalI	AAGNNNNNCTT	2 cut(s)	1383, 1415
FaqI	GGGAC	1 cut(s)	1390
FatI	CATG	4 cut(s)	609, 867, 877, 1077
FauNDI	CATATG	1 cut(s)	1282
FbaI	TGATCA	1 cut(s)	612
Fnu4HI	GCNGC	1 cut(s)	1343
FokI	GGATG	8 cut(s)	161, 254, 386, 647, 760, 815, 1115, 1205
Fsp4HI	GCNGC	1 cut(s)	1343
FspBI	CTAG	2 cut(s)	1112, 1416
GluI	GCNGC	1 cut(s)	1343
GsaI	CCCAGC	1 cut(s)	747
HaeIII	GGCC	1 cut(s)	64
HapII	CCGG	2 cut(s)	1118, 1374
Hin1II	CATG	4 cut(s)	613, 871, 881, 1081
HincII	GTYRAC	1 cut(s)	1357
HindII	GTYRAC	1 cut(s)	1357
HindIII	AAGCTT	2 cut(s)	216, 1224
HinfI	GANTC	4 cut(s)	293, 320, 397, 533
HpaI	GTTAAC	1 cut(s)	1357
HpaII	CCGG	2 cut(s)	1118, 1374
HphI	GGTGA	4 cut(s)	16, 63, 793, 1223
Hpy166II	GTNNAC	3 cut(s)	1165, 1357, 1456
Hpy188I	TCNGA	4 cut(s)	202, 339, 546, 617
Hpy188III	TCNNGA	3 cut(s)	281, 953, 1410
Hpy8I	GTNNAC	3 cut(s)	1165, 1357, 1456
HpyAV	CCTTC	9 cut(s)	170, 202, 282, 429, 464, 570, 787, 1081, 1117
HpyCH4V	TGCA	7 cut(s)	560, 609, 890, 969, 993, 1053, 1171
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1391
HpyF3I	CTNAG	2 cut(s)	1403, 1408
Hsp92II	CATG	4 cut(s)	613, 871, 881, 1081
Ksp22I	TGATCA	1 cut(s)	612
KspAI	GTTAAC	1 cut(s)	1357
Kzo9I	GATC	2 cut(s)	519, 612
LmnI	GCTCC	2 cut(s)	1108, 1126
Lsp1109I	GCAGC	1 cut(s)	1329
LweI	GCATC	2 cut(s)	364, 793
MaeI	CTAG	2 cut(s)	1112, 1416
MaeIII	GTNAC	2 cut(s)	413, 1211
MalI	GATC	2 cut(s)	521, 614
MboI	GATC	2 cut(s)	519, 612
MboII	GAAGA	8 cut(s)	6, 31, 91, 542, 728, 736, 835, 1052
MfeI	CAATTG	1 cut(s)	1461
MhlI	GDGCHC	2 cut(s)	489, 1374
MlsI	TGGCCA	1 cut(s)	64
MluNI	TGGCCA	1 cut(s)	64
MlyI	GAGTC	1 cut(s)	542
MmeI	TCCRAC	2 cut(s)	102, 1230
Mox20I	TGGCCA	1 cut(s)	64
MscI	TGGCCA	1 cut(s)	64
MseI	TTAA	6 cut(s)	44, 477, 551, 1148, 1326, 1356
MslI	CAYNNNNRTG	1 cut(s)	667
Msp20I	TGGCCA	1 cut(s)	64
MspCI	CTTAAG	1 cut(s)	43
MspI	CCGG	2 cut(s)	1118, 1374
MspR9I	CCNGG	2 cut(s)	1374, 1375
MunI	CAATTG	1 cut(s)	1461
MwoI	GCNNNNNNNGC	1 cut(s)	1391
NciI	CCSGG	2 cut(s)	1374, 1375
NcoI	CCATGG	1 cut(s)	867
NdeI	CATATG	1 cut(s)	1282
NdeII	GATC	2 cut(s)	519, 612
NlaIII	CATG	4 cut(s)	613, 871, 881, 1081
NlaIV	GGNNCC	2 cut(s)	486, 951
NmeAIII	GCCGAG	1 cut(s)	533
NmuCI	GTSAC	2 cut(s)	413, 1211
NspI	RCATGY	1 cut(s)	1081
PciI	ACATGT	1 cut(s)	1077
PfeI	GAWTC	3 cut(s)	293, 320, 397
PkrI	GCNGC	1 cut(s)	1344
PleI	GAGTC	1 cut(s)	541
PpsI	GAGTC	1 cut(s)	541
PscI	ACATGT	1 cut(s)	1077
PsiI	TTATAA	1 cut(s)	1074
PspFI	CCCAGC	1 cut(s)	743
PspN4I	GGNNCC	2 cut(s)	486, 951
PspPI	GGNCC	1 cut(s)	1115
RseI	CAYNNNNRTG	1 cut(s)	667
SaqAI	TTAA	6 cut(s)	44, 477, 551, 1148, 1326, 1356
SatI	GCNGC	1 cut(s)	1343
Sau3AI	GATC	2 cut(s)	519, 612
Sau96I	GGNCC	1 cut(s)	1115
SchI	GAGTC	1 cut(s)	542
ScrFI	CCNGG	2 cut(s)	1374, 1375
SduI	GDGCHC	2 cut(s)	489, 1374
SfaNI	GCATC	2 cut(s)	364, 793
SfcI	CTRYAG	2 cut(s)	297, 391
SinI	GGWCC	1 cut(s)	1115
SmaI	CCCGGG	1 cut(s)	1375
SmiMI	CAYNNNNRTG	1 cut(s)	667
SmlI	CTYRAG	1 cut(s)	43
SmoI	CTYRAG	1 cut(s)	43
SsiI	CCGC	3 cut(s)	286, 425, 911
SspMI	CTAG	2 cut(s)	1112, 1416
StyD4I	CCNGG	2 cut(s)	1372, 1373
StyI	CCWWGG	1 cut(s)	867
TaqI	TCGA	5 cut(s)	323, 364, 528, 536, 924
TfiI	GAWTC	3 cut(s)	293, 320, 397
Tru1I	TTAA	6 cut(s)	44, 477, 551, 1148, 1326, 1356
Tru9I	TTAA	6 cut(s)	44, 477, 551, 1148, 1326, 1356
TscAI	CASTG	2 cut(s)	361, 562
TseFI	GTSAC	2 cut(s)	413, 1211
TseI	GCWGC	1 cut(s)	1342
Tsp45I	GTSAC	2 cut(s)	413, 1211
TspDTI	ATGAA	6 cut(s)	617, 737, 842, 857, 942, 1236
TspMI	CCCGGG	1 cut(s)	1373
TspRI	CASTG	2 cut(s)	361, 562
Vha464I	CTTAAG	1 cut(s)	43
VpaK11BI	GGWCC	1 cut(s)	1115
XapI	RAATTY	4 cut(s)	35, 305, 642, 1060
XceI	RCATGY	1 cut(s)	1081
XmaI	CCCGGG	1 cut(s)	1373
XspI	CTAG	2 cut(s)	1112, 1416

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