Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

33256536 .. 33257907

Gene Structure 1372 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000013566

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1299 bp

ATGCCCGACGAGAAATTACGTGGGGTTTTTCTTCAGAAATTGAAGGGTATAGCTGTAATTGAGCATGCGCTCGACAATGTTGGTGTGGATTTGAGCGTTGATGTTGTTGCACAAGTAGTGAATAGAGGTTGTTTAGGCGGTGAAGCAATGCTTGTGTTTTTTAATTGGGCGATTAAGAAGCCAAATGTAGCTAAGCATGTTCATACATACCATATAATCCTCAAAGCATTGGGTAGAAGAAATTTTGTGAGGGCTGGACATGTCTCGAAAGCAATCCAAGTGTTCCGAAACTCGGCAGAGTTTGGGTTGGATTGCGATACTGAGTGTCTGAATGTGCTTCTGCAGTGTCTGTGTCAGCGGTCTCATGTAGCGGCTGCAAATTCGTATCTTAATTCTGTGAAGGGGAAAGTGCGATTCAATGGCACTACGTATAACATTGTTATTGGTGGGTGGTCGAAATATGGTAGAGTTGGTGAGATGGAGAGGACTTTGGAAGCAATGGTAGCAGATGGGTTTAGTCCTGATAGTGCAACTTTCAGTTACATTCTTGAGGGTCTAGGAAGAGTTGATCGGATTGACGATGCAGTTGAGATTTTTGAGAGCATGAAGGGGAAAGGTTGCGTGCCAGACACCATTACATACAATGCAATGATCTCTAACTTCATCTCTGTTGCAAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGCGATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCCGGAAAGTGGCGGATGCACTGGAGATGTTTGATGAGATGTTAAGTCGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCCTATGTAGCTATGGTCCACCATATGCTGCTATGATGATTTACCAGAAAGCAAGAAAGGTCGGATGTAGAATATCACTGACTGCTTATAAGCTATTGCTTATGCGCCTTTCTAGATTTGGTAAATGTGGAATGTTGCTAAACATTTGGGAAGAGATGCAGGAATGTGGATATGCTTCTGATATCGAAGTTTATGAGTATGTAATCAGTGGACTTTGCAACATTGGGCAGCTTGAAAATGCTGTACTTGTCATGGAAGAGTCTCTACGAAAAGGTTTTTGCCCAAGCAGGCTTACCTATAGCAAACTAAGTAACAAACTTCTTGCTTCAAATAAGTTAGAGAGGGCTTATAAGCTATACTTGAAGATTAAAGCTGCTCGTCGTTTTGACAAGACACGGAGAATTTGGCGTGCTAGGGGATGGCATTTCTGA

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

433

Amino Acids

48.47

Weight (kDa)

9.04

Isoelectric Point (pI)

32.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	143 - 187	4.6e-08	PPR repeat family
PPR_3	PF13812	164 - 220	4e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	178 - 221	6.4e-10	PPR repeat family
PPR_long	PF17177	191 - 288	8e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	209 - 258	5.4e-11	PPR repeat family
PPR_1	PF12854	242 - 272	8.7e-07	PPR repeat
PPR_2	PF13041	244 - 292	1e-10	PPR repeat family
PPR	PF01535	248 - 277	5.6e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43820
fragaria_vesca	FvH4_5g24880 FvH4_5g25350 FvH4_5g25520
malus_domestica	MD16G1284000.v1.1
prunus_persica	Prupe.5G009500_v2.0.a1
pyrus_communis	pycom16g26010
rosa_chinensis	RchiOBHm_Chr6g0271861 RchiOBHm_Chr6g0271871 RchiOBHm_Chr6g0271981 RchiOBHm_Chr7g0215761 RchiOBHm_Chr7g0215771 RchiOBHm_Chr7g0215901 RchiOBHm_Chr7g0217231 RchiOBHm_Chr7g0219831
rosa_laevigata	RLG00000002611 RLG00000002625 RLG00000013566
rosa_multiflora	Rmu_sc0000055.1_g000008 Rmu_sc0000055.1_g000009 Rmu_sc0000516.1_g000005 Rmu_sc0000516.1_g000006 Rmu_sc0004379.1_g000016 Rmu_sc0006240.1_g000009 Rmu_sc0007857.1_g000006 Rmu_sc0016364.1_g000002 Rmu_sc0016407.1_g000001 Rmu_sc0023052.1_g000001
rosa_roxburghii	Rroxscaffold_2G00114980 Rroxscaffold_3G00243850 Rroxscaffold_5G00342010 Rroxscaffold_7G00186190
rosa_rugosa	Rorug06G0064100 Rorug07G0156600 Rorug07G0157900 Rorug07G0158000
rosa_samantha	Rh1BG116200 Rh6AG181800 Rh6BG185400 Rh6CG182900 Rh6CG183200 Rh6DG174300 Rh6DG174600 Rh7AG294600 Rh7AG306400 Rh7AG306500 Rh7BG286400 Rh7CG314600 Rh7CG325500 Rh7DG296900 Rh7DG299400 Rh7DG306200
rosa_wichuraiana	Rw6G015640 Rw7G026030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	957, 1218
AciI	CCGC	4 cut(s)	138, 358, 371, 788
AclWI	GGATC	1 cut(s)	722
AcsI	RAATTY	3 cut(s)	241, 379, 1269
AcuI	CTGAAG	1 cut(s)	17
AfaI	GTAC	1 cut(s)	1113
AfiI	CCNNNNNNNGG	3 cut(s)	292, 784, 842
AflIII	ACRYGT	1 cut(s)	259
AgsI	TTSAA	6 cut(s)	43, 418, 703, 1103, 1197, 1231
AluBI	AGCT	7 cut(s)	53, 191, 879, 961, 1099, 1222, 1241
AluI	AGCT	7 cut(s)	53, 191, 879, 961, 1099, 1222, 1241
Alw26I	GTCTC	3 cut(s)	268, 366, 1134
AlwI	GGATC	1 cut(s)	722
AlwNI	CAGNNNCTG	1 cut(s)	349
ApeKI	GCWGC	4 cut(s)	374, 896, 1096, 1241
ApoI	RAATTY	3 cut(s)	241, 379, 1269
AspLEI	GCGC	2 cut(s)	70, 975
AspS9I	GGNCC	1 cut(s)	884
AsuC2I	CCSGG	1 cut(s)	778
AsuHPI	GGTGA	2 cut(s)	152, 485
AvaII	GGWCC	1 cut(s)	884
BarI	GAAGNNNNNNTAC	2 cut(s)	1116, 1148
BbvI	GCAGC	4 cut(s)	361, 883, 1108, 1228
BccI	CCATC	3 cut(s)	472, 503, 1281
BcnI	CCSGG	1 cut(s)	778
BcoDI	GTCTC	3 cut(s)	268, 366, 1134
BfaI	CTAG	3 cut(s)	557, 981, 1281
BfmI	CTRYAG	2 cut(s)	341, 1165
BisI	GCNGC	5 cut(s)	372, 375, 897, 1097, 1242
BlpI	GCTNAGC	1 cut(s)	192
BlsI	GCNGC	5 cut(s)	373, 376, 898, 1098, 1243
Bme1390I	CCNGG	1 cut(s)	778
Bme18I	GGWCC	1 cut(s)	884
BmgT120I	GGNCC	1 cut(s)	884
BmiI	GGNNCC	1 cut(s)	867
BmrFI	CCNGG	1 cut(s)	778
BmsI	GCATC	3 cut(s)	571, 781, 1014
BpmI	CTGGAG	1 cut(s)	818
Bpu1102I	GCTNAGC	1 cut(s)	192
BpuEI	CTTGAG	1 cut(s)	569
BpuMI	CCSGG	1 cut(s)	778
BsaAI	YACGTR	2 cut(s)	20, 429
BsaI	GGTCTC	1 cut(s)	366
Bsc4I	CCNNNNNNNGG	3 cut(s)	292, 784, 842
Bse1I	ACTGG	1 cut(s)	801
Bse3DI	GCAATG	3 cut(s)	153, 504, 654
BseGI	GGATG	3 cut(s)	796, 938, 1292
BseLI	CCNNNNNNNGG	3 cut(s)	292, 784, 842
BseMI	GCAATG	3 cut(s)	153, 504, 654
BseMII	CTCAG	1 cut(s)	312
BseNI	ACTGG	1 cut(s)	801
BseXI	GCAGC	4 cut(s)	361, 883, 1108, 1228
BsiSI	CCGG	1 cut(s)	778
BslFI	GGGAC	1 cut(s)	859
BslI	CCNNNNNNNGG	3 cut(s)	292, 784, 842
BsmAI	GTCTC	3 cut(s)	268, 366, 1134
BsmFI	GGGAC	1 cut(s)	859
Bso31I	GGTCTC	1 cut(s)	366
Bsp143I	GATC	3 cut(s)	568, 651, 727
Bsp1720I	GCTNAGC	1 cut(s)	192
BspACI	CCGC	4 cut(s)	138, 358, 371, 788
BspCNI	CTCAG	1 cut(s)	313
BspLI	GGNNCC	1 cut(s)	867
BspMAI	CTGCAG	1 cut(s)	345
BspPI	GGATC	1 cut(s)	722
BspTNI	GGTCTC	1 cut(s)	366
BsrDI	GCAATG	3 cut(s)	153, 504, 654
BsrI	ACTGG	1 cut(s)	801
BssMI	GATC	3 cut(s)	568, 651, 727
Bst6I	CTCTTC	3 cut(s)	556, 1014, 1119
BstBAI	YACGTR	2 cut(s)	20, 429
BstC8I	GCNNGC	5 cut(s)	66, 623, 724, 1157, 1278
BstDEI	CTNAG	3 cut(s)	192, 321, 1175
BstF5I	GGATG	3 cut(s)	796, 938, 1292
BstHHI	GCGC	2 cut(s)	70, 975
BstKTI	GATC	3 cut(s)	571, 654, 730
BstMAI	GTCTC	3 cut(s)	268, 366, 1134
BstMBI	GATC	3 cut(s)	568, 651, 727
BstMWI	GCNNNNNNNGC	1 cut(s)	503
BstNSI	RCATGY	3 cut(s)	68, 200, 263
BstSCI	CCNGG	1 cut(s)	776
BstSFI	CTRYAG	2 cut(s)	341, 1165
BstSNI	TACGTA	1 cut(s)	429
BstV1I	GCAGC	4 cut(s)	361, 883, 1108, 1228
BtsCI	GGATG	3 cut(s)	796, 938, 1292
BtsI	GCAGTG	1 cut(s)	350
BtsIMutI	CAGTG	4 cut(s)	350, 794, 944, 1081
Cac8I	GCNNGC	5 cut(s)	66, 623, 724, 1157, 1278
CaiI	CAGNNNCTG	1 cut(s)	349
CfoI	GCGC	2 cut(s)	70, 975
Cfr13I	GGNCC	1 cut(s)	884
Csp6I	GTAC	1 cut(s)	1112
CviAII	CATG	6 cut(s)	65, 197, 260, 365, 604, 1120
CviQI	GTAC	1 cut(s)	1112
DdeI	CTNAG	3 cut(s)	192, 321, 1175
DpnI	GATC	3 cut(s)	570, 653, 729
DpnII	GATC	3 cut(s)	568, 651, 727
Eam1104I	CTCTTC	3 cut(s)	556, 1014, 1119
EarI	CTCTTC	3 cut(s)	556, 1014, 1119
EciI	GGCGGA	1 cut(s)	803
Eco105I	TACGTA	1 cut(s)	429
Eco31I	GGTCTC	1 cut(s)	366
Eco32I	GATATC	1 cut(s)	1051
Eco47I	GGWCC	1 cut(s)	884
Eco57I	CTGAAG	1 cut(s)	17
EcoRV	GATATC	1 cut(s)	1051
FaeI	CATG	6 cut(s)	68, 200, 263, 368, 607, 1123
FalI	AAGNNNNNCTT	4 cut(s)	135, 167, 1211, 1243
FaqI	GGGAC	1 cut(s)	859
FatI	CATG	6 cut(s)	64, 196, 259, 364, 603, 1119
FauNDI	CATATG	1 cut(s)	892
Fnu4HI	GCNGC	5 cut(s)	372, 375, 897, 1097, 1242
FokI	GGATG	2 cut(s)	803, 945
Fsp4HI	GCNGC	5 cut(s)	372, 375, 897, 1097, 1242
FspBI	CTAG	3 cut(s)	557, 981, 1281
GlaI	GCGC	2 cut(s)	69, 974
GluI	GCNGC	5 cut(s)	372, 375, 897, 1097, 1242
GsuI	CTGGAG	1 cut(s)	818
HapII	CCGG	1 cut(s)	778
HhaI	GCGC	2 cut(s)	70, 975
Hin1II	CATG	6 cut(s)	68, 200, 263, 368, 607, 1123
Hin6I	GCGC	2 cut(s)	68, 973
HinP1I	GCGC	2 cut(s)	68, 973
HinfI	GANTC	2 cut(s)	414, 1127
HpaII	CCGG	1 cut(s)	778
HphI	GGTGA	2 cut(s)	152, 485
Hpy166II	GTNNAC	3 cut(s)	694, 887, 1079
Hpy188I	TCNGA	7 cut(s)	36, 287, 330, 573, 932, 1048, 1298
Hpy188III	TCNNGA	5 cut(s)	265, 521, 548, 703, 981
Hpy8I	GTNNAC	3 cut(s)	694, 887, 1079
Hpy99I	CGWCG	2 cut(s)	11, 1251
HpyAV	CCTTC	3 cut(s)	37, 394, 601
HpyCH4IV	ACGT	2 cut(s)	19, 428
HpyF10VI	GCNNNNNNNGC	1 cut(s)	503
HpyF3I	CTNAG	3 cut(s)	192, 321, 1175
HpySE526I	ACGT	2 cut(s)	19, 428
Hsp92II	CATG	6 cut(s)	68, 200, 263, 368, 607, 1123
HspAI	GCGC	2 cut(s)	68, 973
Kzo9I	GATC	3 cut(s)	568, 651, 727
LpnPI	CCDG	9 cut(s)	240, 534, 639, 747, 782, 791, 926, 1013, 1141
Lsp1109I	GCAGC	4 cut(s)	361, 883, 1108, 1228
LweI	GCATC	3 cut(s)	571, 781, 1014
MaeI	CTAG	3 cut(s)	557, 981, 1281
MaeII	ACGT	2 cut(s)	19, 428
MaeIII	GTNAC	2 cut(s)	539, 1178
MalI	GATC	3 cut(s)	570, 653, 729
MboI	GATC	3 cut(s)	568, 651, 727
MboII	GAAGA	6 cut(s)	23, 249, 573, 1031, 1136, 1243
MluCI	AATT	9 cut(s)	14, 38, 57, 163, 241, 379, 391, 752, 1269
MlyI	GAGTC	1 cut(s)	1136
MmeI	TCCRAC	2 cut(s)	288, 910
MnlI	CCTC	8 cut(s)	119, 230, 243, 477, 544, 818, 865, 1203
MseI	TTAA	6 cut(s)	162, 174, 390, 771, 818, 1236
MspA1I	CMGCKG	1 cut(s)	358
MspI	CCGG	1 cut(s)	778
MspR9I	CCNGG	1 cut(s)	778
MwoI	GCNNNNNNNGC	1 cut(s)	503
NciI	CCSGG	1 cut(s)	778
NdeI	CATATG	1 cut(s)	892
NdeII	GATC	3 cut(s)	568, 651, 727
NlaIII	CATG	6 cut(s)	68, 200, 263, 368, 607, 1123
NlaIV	GGNNCC	1 cut(s)	867
NmeAIII	GCCGAG	1 cut(s)	272
NspI	RCATGY	3 cut(s)	68, 200, 263
PaeI	GCATGC	1 cut(s)	68
PciI	ACATGT	1 cut(s)	259
PfeI	GAWTC	1 cut(s)	414
PkrI	GCNGC	5 cut(s)	373, 376, 898, 1098, 1243
PleI	GAGTC	1 cut(s)	1135
PpsI	GAGTC	1 cut(s)	1135
Ppu21I	YACGTR	2 cut(s)	20, 429
PscI	ACATGT	1 cut(s)	259
PsiI	TTATAA	2 cut(s)	957, 1218
PspN4I	GGNNCC	1 cut(s)	867
PspPI	GGNCC	1 cut(s)	884
PstI	CTGCAG	1 cut(s)	345
PstNI	CAGNNNCTG	1 cut(s)	349
RsaI	GTAC	1 cut(s)	1113
RsaNI	GTAC	1 cut(s)	1112
SaqAI	TTAA	6 cut(s)	162, 174, 390, 771, 818, 1236
SatI	GCNGC	5 cut(s)	372, 375, 897, 1097, 1242
Sau3AI	GATC	3 cut(s)	568, 651, 727
Sau96I	GGNCC	1 cut(s)	884
SchI	GAGTC	1 cut(s)	1136
ScrFI	CCNGG	1 cut(s)	778
SfaNI	GCATC	3 cut(s)	571, 781, 1014
SfcI	CTRYAG	2 cut(s)	341, 1165
SinI	GGWCC	1 cut(s)	884
SmlI	CTYRAG	1 cut(s)	548
SmoI	CTYRAG	1 cut(s)	548
SnaBI	TACGTA	1 cut(s)	429
SphI	GCATGC	1 cut(s)	68
Sse9I	AATT	9 cut(s)	14, 38, 57, 163, 241, 379, 391, 752, 1269
SsiI	CCGC	4 cut(s)	138, 358, 371, 788
SspI	AATATT	1 cut(s)	679
SspMI	CTAG	3 cut(s)	557, 981, 1281
StyD4I	CCNGG	1 cut(s)	776
TaiI	ACGT	2 cut(s)	22, 431
TaqI	TCGA	6 cut(s)	72, 266, 455, 713, 823, 1053
TasI	AATT	9 cut(s)	14, 38, 57, 163, 241, 379, 391, 752, 1269
TatI	WGTACW	1 cut(s)	1111
TauI	GCSGC	1 cut(s)	374
TfiI	GAWTC	1 cut(s)	414
Tru1I	TTAA	6 cut(s)	162, 174, 390, 771, 818, 1236
Tru9I	TTAA	6 cut(s)	162, 174, 390, 771, 818, 1236
TscAI	CASTG	4 cut(s)	350, 801, 951, 1081
TseI	GCWGC	4 cut(s)	374, 896, 1096, 1241
TspDTI	ATGAA	4 cut(s)	191, 620, 652, 699
TspGWI	ACGGA	1 cut(s)	1279
TspRI	CASTG	4 cut(s)	350, 801, 951, 1081
VpaK11BI	GGWCC	1 cut(s)	884
XapI	RAATTY	3 cut(s)	241, 379, 1269
XbaI	TCTAGA	1 cut(s)	980
XceI	RCATGY	3 cut(s)	68, 200, 263
XspI	CTAG	3 cut(s)	557, 981, 1281

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