Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0010906

Physical Location & Seq

Genomic Coordinates Forward (+)

65096778 .. 65100086

Gene Structure 3309 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG420600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1452 bp

ATGAACTATATATCTCTGTTTGGTCCGAGGGTTTATCACAGGTTTTCGTGTCGTGTAGTGGTAGCAAGAAAATTAAGCGATGGGTGTTTTGGTGGGAATAGAGGGGAGAATGGGGATGGGTCTATTGAGGAACCCATATCGGAAAGTTCAGATTTTGATCCAATTTTGAAGGAGTATGGTTTGTTAGAGAATGAGAGCCATCCCCAGGAGCAATTCTCGGCGAGACGGAGCTTTTTCGAGAATGTGAGGAGTTGTACTATTAGGATTCTTGAGATTTTACAGCAGGATGAACCCGGGTTTGATGCGAAAGCAGCTCTGGATGAGCTGGACATAAAGGTTTCGGGGATTATTGTGAGGGAAGTGTTGTTTGAGATATTGAAGATAGTGAGTTATGGGAATAAAATGCAGTGTGCGAAGCTGGGGTTTAAGTTTTTCGTGTGGTCTGGTCAGCAGGAGAATTACAAGCACACCGCGGACGCGTACCATTTGATGATGAAGATATTTGCAAACTGTGAGGAGTTTAAGGCAATGTGGAGGCTACTTGATGAGATGATTGAGAAAGGGTATCCAACTACAGCGCGGACGTTTAATATTTTGATATGTACTTGTGGTCAGGCAGGCTTGGCTAGGAAAGTGGTGGAGAGGTTCATAAAGTCGAAGACGTTTAATTTTAGGCCATTTAAACACTCGTATAATGCAATTTTACTTTCCCTTCTTGTAGTGAAGCAGTACAAGTTGATCGAGTGGCTCTATCAACAGATGTTGGCAGAGGGTTACTTGCAGGATATTCTGACTTATAATATTATGATGTGTGCAAAGTATAGATTGGGGAAGTTGGATCAATTTCACAGATTACTTGATGAAATGGGTAGGAGTGGATTCTCACCGGATTTTCATACTTACAACCTTCTTCTTCATGTACTTGGTAAGGGAGACAAACCACTTGCAGCTCTTAATCTTTTGAATCACATGAAGGAAGAAGGTTTCGAGCCAAGGGTTCTTCACTTCACAACATTGATAGATGGACTGAGCAGGGCTGGAAACATGGAGGCCTGCAAGTATTTTTTTGATGAGATGATAAAGTACGACTGCTTGCCTGATGTTGTATGTTATACTGTAATGATCACTGGGTATATTGTGGCTGGGGAACTTGAGAAGGCTCTAGAGTTGTTCGATGTGATGGTCACTGATGGTCAGCTTCCAAATGTATTCACATACAATTCTGTTATTCGTGGGCTTTGTATGGCAGGAAAATTTGAGGAAGCATGCTCCATGCTTAAAGAGATGGAATCCAGAGGTGTTAATCCAAATTTCACTGTATACAGCACACTAGTAAGTTACTTGCGAAATGCTGGAAAGCTTTCTGAAGCACATGAAGTAATAAGACAGATGGTAGAGAAGGGACAGTATGCCCACCTGCTTTCCAATCTCAAGAGGCATAGAAGATGTTGA

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

483

Amino Acids

55.55

Weight (kDa)

6.89

Isoelectric Point (pI)

37.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	160 - 203	2.3e-06	PPR repeat family
PPR_2	PF13041	262 - 309	1.4e-10	PPR repeat family
PPR_3	PF13812	284 - 340	9.1e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	332 - 378	4.2e-11	PPR repeat family
PPR_3	PF13812	356 - 410	4.2e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	363 - 395	7.1e-07	PPR repeat
PPR_2	PF13041	366 - 414	4.5e-16	PPR repeat family
PPR	PF01535	369 - 398	9.8e-07	PPR repeat
PPR_long	PF17177	388 - 466	2e-06	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	398 - 430	1.9e-11	PPR repeat
PPR_2	PF13041	401 - 446	6.7e-14	PPR repeat family
PPR	PF01535	404 - 434	9.7e-10	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0010906)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55630 AT3G60050 AT3G60050
fragaria_vesca	FvH4_7g29500 FvH4_7g29500 FvH4_7g29500 FvH4_7g29500
malus_domestica	MD01G1201100.v1.1
prunus_persica	Prupe.2G083800_v2.0.a1 Prupe.2G294500_v2.0.a1
pyrus_communis	pycom01g21080
rosa_chinensis	RchiOBHm_Chr1g0377341
rosa_laevigata	RLG00000026527
rosa_multiflora	Rmu_sc0001944.1_g000006
rosa_rugosa	Rorug01G0402800
rosa_samantha	Rh1AG420600 Rh1BG379400 Rh1CG393400 Rh1DG410400
rosa_wichuraiana	Rw1G036870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	798
AarI	CACCTGC	1 cut(s)	1425
Acc36I	ACCTGC	1 cut(s)	1425
AccI	GTMKAC	1 cut(s)	1320
AccII	CGCG	3 cut(s)	473, 479, 580
AciI	CCGC	3 cut(s)	471, 473, 580
AclWI	GGATC	2 cut(s)	152, 846
AcsI	RAATTY	2 cut(s)	1253, 1309
AcuI	CTGAAG	1 cut(s)	1386
AfaI	GTAC	6 cut(s)	256, 482, 604, 731, 921, 1085
AfiI	CCNNNNNNNGG	1 cut(s)	205
AflIII	ACRYGT	1 cut(s)	477
AgsI	TTSAA	3 cut(s)	169, 379, 964
AhlI	ACTAGT	1 cut(s)	1330
AjnI	CCWGG	1 cut(s)	204
AluBI	AGCT	7 cut(s)	231, 314, 325, 418, 950, 1198, 1360
AluI	AGCT	7 cut(s)	231, 314, 325, 418, 950, 1198, 1360
Alw26I	GTCTC	2 cut(s)	217, 927
AlwI	GGATC	2 cut(s)	152, 846
Ama87I	CYCGRG	1 cut(s)	293
AoxI	GGCC	2 cut(s)	674, 1050
ApeKI	GCWGC	2 cut(s)	311, 947
ApoI	RAATTY	2 cut(s)	1253, 1309
Asp700I	GAANNNNTTC	1 cut(s)	1360
AspLEI	GCGC	1 cut(s)	580
AspS9I	GGNCC	1 cut(s)	23
AsuC2I	CCSGG	2 cut(s)	294, 295
AsuHPI	GGTGA	1 cut(s)	876
AvaI	CYCGRG	1 cut(s)	293
AvaII	GGWCC	1 cut(s)	23
BbsI	GAAGAC	1 cut(s)	665
BbvI	GCAGC	2 cut(s)	323, 959
BccI	CCATC	8 cut(s)	74, 110, 207, 1016, 1174, 1184, 1279, 1384
BciT130I	CCWGG	1 cut(s)	206
BciVI	GTATCC	1 cut(s)	576
BclI	TGATCA	1 cut(s)	1122
BcnI	CCSGG	2 cut(s)	294, 295
BcoDI	GTCTC	2 cut(s)	217, 927
BcuI	ACTAGT	1 cut(s)	1330
BfaI	CTAG	3 cut(s)	627, 1163, 1331
BfmI	CTRYAG	1 cut(s)	573
BfuAI	ACCTGC	1 cut(s)	1425
BfuI	GTATCC	1 cut(s)	576
BisI	GCNGC	2 cut(s)	312, 948
BlsI	GCNGC	2 cut(s)	313, 949
Bme1390I	CCNGG	3 cut(s)	206, 294, 295
Bme18I	GGWCC	1 cut(s)	23
BmeT110I	CYCGRG	1 cut(s)	293
BmgT120I	GGNCC	1 cut(s)	23
BmiI	GGNNCC	1 cut(s)	132
BmrFI	CCNGG	3 cut(s)	206, 294, 295
BmrI	ACTGGG	1 cut(s)	1137
BmsI	GCATC	1 cut(s)	292
BmuI	ACTGGG	1 cut(s)	1137
BpiI	GAAGAC	1 cut(s)	665
BplI	GAGNNNNNCTC	2 cut(s)	200, 232
BpuEI	CTTGAG	3 cut(s)	290, 1172, 1415
BpuMI	CCSGG	2 cut(s)	294, 295
BsaBI	GATNNNNATC	1 cut(s)	156
BsaJI	CCNNGG	5 cut(s)	26, 204, 293, 471, 992
BsaWI	WCCGGW	1 cut(s)	886
Bsc4I	CCNNNNNNNGG	1 cut(s)	205
Bse1I	ACTGG	1 cut(s)	1132
Bse3DI	GCAATG	1 cut(s)	534
Bse8I	GATNNNNATC	1 cut(s)	156
BseBI	CCWGG	1 cut(s)	206
BseDI	CCNNGG	5 cut(s)	26, 204, 293, 471, 992
BseGI	GGATG	4 cut(s)	121, 199, 292, 325
BseJI	GATNNNNATC	1 cut(s)	156
BseLI	CCNNNNNNNGG	1 cut(s)	205
BseMI	GCAATG	1 cut(s)	534
BseMII	CTCAG	1 cut(s)	1019
BseNI	ACTGG	1 cut(s)	1132
BseRI	GAGGAG	2 cut(s)	262, 530
BseXI	GCAGC	2 cut(s)	323, 959
BseYI	CCCAGC	2 cut(s)	418, 1142
Bsh1236I	CGCG	3 cut(s)	473, 479, 580
BshFI	GGCC	2 cut(s)	676, 1052
BsiHKCI	CYCGRG	1 cut(s)	293
BsiSI	CCGG	2 cut(s)	294, 887
BslFI	GGGAC	1 cut(s)	1416
BslI	CCNNNNNNNGG	1 cut(s)	205
BsmAI	GTCTC	2 cut(s)	217, 927
BsmBI	CGTCTC	1 cut(s)	217
BsmFI	GGGAC	1 cut(s)	1416
BsnI	GGCC	2 cut(s)	676, 1052
BsoBI	CYCGRG	1 cut(s)	293
Bsp143I	GATC	4 cut(s)	157, 738, 838, 1122
BspACI	CCGC	3 cut(s)	471, 473, 580
BspANI	GGCC	2 cut(s)	676, 1052
BspCNI	CTCAG	1 cut(s)	1020
BspFNI	CGCG	3 cut(s)	473, 479, 580
BspLI	GGNNCC	1 cut(s)	132
BspMI	ACCTGC	1 cut(s)	1425
BspPI	GGATC	2 cut(s)	152, 846
BsrDI	GCAATG	1 cut(s)	534
BsrI	ACTGG	1 cut(s)	1132
BssECI	CCNNGG	5 cut(s)	26, 204, 293, 471, 992
BssMI	GATC	4 cut(s)	157, 738, 838, 1122
BssNAI	GTATAC	1 cut(s)	1321
BssT1I	CCWWGG	1 cut(s)	992
Bst1107I	GTATAC	1 cut(s)	1321
Bst2UI	CCWGG	1 cut(s)	206
Bst4CI	ACNGT	4 cut(s)	512, 1117, 1318, 1407
BstC8I	GCNNGC	4 cut(s)	619, 1054, 1094, 1267
BstDEI	CTNAG	1 cut(s)	1028
BstDSI	CCRYGG	1 cut(s)	471
BstF5I	GGATG	4 cut(s)	121, 199, 292, 325
BstFNI	CGCG	3 cut(s)	473, 479, 580
BstHHI	GCGC	1 cut(s)	580
BstKTI	GATC	4 cut(s)	160, 741, 841, 1125
BstMAI	GTCTC	2 cut(s)	217, 927
BstMBI	GATC	4 cut(s)	157, 738, 838, 1122
BstMWI	GCNNNNNNNGC	2 cut(s)	311, 623
BstNI	CCWGG	1 cut(s)	206
BstNSI	RCATGY	1 cut(s)	1269
BstSCI	CCNGG	3 cut(s)	204, 292, 293
BstSFI	CTRYAG	1 cut(s)	573
BstUI	CGCG	3 cut(s)	473, 479, 580
BstV1I	GCAGC	2 cut(s)	323, 959
BstV2I	GAAGAC	1 cut(s)	665
BstZ17I	GTATAC	1 cut(s)	1321
BsuI	GTATCC	1 cut(s)	576
BsuRI	GGCC	2 cut(s)	676, 1052
BtgI	CCRYGG	1 cut(s)	471
BtgZI	GCGATG	1 cut(s)	93
BtsCI	GGATG	4 cut(s)	121, 199, 292, 325
BtsI	GCAGTG	1 cut(s)	413
BtsIMutI	CAGTG	4 cut(s)	413, 1125, 1185, 1314
BveI	ACCTGC	1 cut(s)	1425
Cac8I	GCNNGC	4 cut(s)	619, 1054, 1094, 1267
CfoI	GCGC	1 cut(s)	580
Cfr13I	GGNCC	1 cut(s)	23
Cfr42I	CCGCGG	1 cut(s)	474
Cfr9I	CCCGGG	1 cut(s)	293
CseI	GACGC	1 cut(s)	485
Csp6I	GTAC	6 cut(s)	255, 481, 603, 730, 920, 1084
CviAII	CATG	6 cut(s)	917, 970, 1045, 1266, 1273, 1373
CviQI	GTAC	6 cut(s)	255, 481, 603, 730, 920, 1084
DdeI	CTNAG	1 cut(s)	1028
DpnI	GATC	4 cut(s)	159, 740, 840, 1124
DpnII	GATC	4 cut(s)	157, 738, 838, 1122
DraI	TTTAAA	1 cut(s)	682
Eco130I	CCWWGG	1 cut(s)	992
Eco147I	AGGCCT	1 cut(s)	1052
Eco47I	GGWCC	1 cut(s)	23
Eco57I	CTGAAG	1 cut(s)	1386
Eco88I	CYCGRG	1 cut(s)	293
EcoRII	CCWGG	1 cut(s)	204
EcoT14I	CCWWGG	1 cut(s)	992
ErhI	CCWWGG	1 cut(s)	992
Esp3I	CGTCTC	1 cut(s)	217
FaeI	CATG	6 cut(s)	920, 973, 1048, 1269, 1276, 1376
FaqI	GGGAC	1 cut(s)	1416
FatI	CATG	6 cut(s)	916, 969, 1044, 1265, 1272, 1372
FbaI	TGATCA	1 cut(s)	1122
FblI	GTMKAC	1 cut(s)	1320
Fnu4HI	GCNGC	2 cut(s)	312, 948
FokI	GGATG	4 cut(s)	128, 186, 299, 332
Fsp4HI	GCNGC	2 cut(s)	312, 948
FspBI	CTAG	3 cut(s)	627, 1163, 1331
GlaI	GCGC	1 cut(s)	579
GluI	GCNGC	2 cut(s)	312, 948
GsaI	CCCAGC	2 cut(s)	422, 1146
HaeIII	GGCC	2 cut(s)	676, 1052
HapII	CCGG	2 cut(s)	294, 887
HgaI	GACGC	1 cut(s)	485
HhaI	GCGC	1 cut(s)	580
Hin1II	CATG	6 cut(s)	920, 973, 1048, 1269, 1276, 1376
Hin6I	GCGC	1 cut(s)	578
HinP1I	GCGC	1 cut(s)	578
HindIII	AAGCTT	1 cut(s)	1358
HinfI	GANTC	4 cut(s)	265, 879, 964, 1289
HpaII	CCGG	2 cut(s)	294, 887
HphI	GGTGA	1 cut(s)	876
Hpy166II	GTNNAC	1 cut(s)	1321
Hpy188I	TCNGA	5 cut(s)	27, 142, 151, 792, 1366
Hpy188III	TCNNGA	6 cut(s)	238, 269, 317, 1163, 1293, 1432
Hpy8I	GTNNAC	1 cut(s)	1321
HpyAV	CCTTC	7 cut(s)	163, 722, 917, 967, 974, 1150, 1393
HpyCH4III	ACNGT	4 cut(s)	512, 1117, 1318, 1407
HpyCH4IV	ACGT	2 cut(s)	584, 662
HpyCH4V	TGCA	7 cut(s)	406, 506, 698, 781, 815, 947, 1056
HpyF10VI	GCNNNNNNNGC	2 cut(s)	311, 623
HpyF3I	CTNAG	1 cut(s)	1028
HpySE526I	ACGT	2 cut(s)	584, 662
Hsp92II	CATG	6 cut(s)	920, 973, 1048, 1269, 1276, 1376
HspAI	GCGC	1 cut(s)	578
Ksp22I	TGATCA	1 cut(s)	1122
KspI	CCGCGG	1 cut(s)	474
Kzo9I	GATC	4 cut(s)	157, 738, 838, 1122
LmnI	GCTCC	3 cut(s)	208, 228, 1274
Lsp1109I	GCAGC	2 cut(s)	323, 959
LweI	GCATC	1 cut(s)	292
MaeI	CTAG	3 cut(s)	627, 1163, 1331
MaeII	ACGT	2 cut(s)	584, 662
MaeIII	GTNAC	3 cut(s)	773, 1183, 1337
MalI	GATC	4 cut(s)	159, 740, 840, 1124
MboI	GATC	4 cut(s)	157, 738, 838, 1122
MboII	GAAGA	7 cut(s)	391, 508, 670, 902, 905, 989, 992
MluI	ACGCGT	1 cut(s)	477
MmeI	TCCRAC	2 cut(s)	593, 816
MroXI	GAANNNNTTC	1 cut(s)	1360
MseI	TTAA	9 cut(s)	74, 426, 522, 588, 666, 681, 954, 1278, 1302
MspA1I	CMGCKG	1 cut(s)	473
MspI	CCGG	2 cut(s)	294, 887
MspR9I	CCNGG	3 cut(s)	206, 294, 295
MvaI	CCWGG	1 cut(s)	206
MvnI	CGCG	3 cut(s)	473, 479, 580
MwoI	GCNNNNNNNGC	2 cut(s)	311, 623
NciI	CCSGG	2 cut(s)	294, 295
NdeII	GATC	4 cut(s)	157, 738, 838, 1122
NlaIII	CATG	6 cut(s)	920, 973, 1048, 1269, 1276, 1376
NlaIV	GGNNCC	1 cut(s)	132
NmeAIII	GCCGAG	1 cut(s)	197
NmuCI	GTSAC	1 cut(s)	1183
NspI	RCATGY	1 cut(s)	1269
PaeI	GCATGC	1 cut(s)	1269
PaqCI	CACCTGC	1 cut(s)	1425
PceI	AGGCCT	1 cut(s)	1052
PdmI	GAANNNNTTC	1 cut(s)	1360
PfeI	GAWTC	4 cut(s)	265, 879, 964, 1289
PkrI	GCNGC	2 cut(s)	313, 949
PsiI	TTATAA	1 cut(s)	798
Psp6I	CCWGG	1 cut(s)	204
PspFI	CCCAGC	2 cut(s)	418, 1142
PspGI	CCWGG	1 cut(s)	204
PspN4I	GGNNCC	1 cut(s)	132
PspPI	GGNCC	1 cut(s)	23
RsaI	GTAC	6 cut(s)	256, 482, 604, 731, 921, 1085
RsaNI	GTAC	6 cut(s)	255, 481, 603, 730, 920, 1084
SacII	CCGCGG	1 cut(s)	474
SaqAI	TTAA	9 cut(s)	74, 426, 522, 588, 666, 681, 954, 1278, 1302
SatI	GCNGC	2 cut(s)	312, 948
Sau3AI	GATC	4 cut(s)	157, 738, 838, 1122
Sau96I	GGNCC	1 cut(s)	23
ScrFI	CCNGG	3 cut(s)	206, 294, 295
SfaNI	GCATC	1 cut(s)	292
SfcI	CTRYAG	1 cut(s)	573
Sfr303I	CCGCGG	1 cut(s)	474
SgrBI	CCGCGG	1 cut(s)	474
SinI	GGWCC	1 cut(s)	23
SmaI	CCCGGG	1 cut(s)	295
SmlI	CTYRAG	3 cut(s)	269, 1151, 1430
SmoI	CTYRAG	3 cut(s)	269, 1151, 1430
SpeI	ACTAGT	1 cut(s)	1330
SphI	GCATGC	1 cut(s)	1269
SseBI	AGGCCT	1 cut(s)	1052
SsiI	CCGC	3 cut(s)	471, 473, 580
SspI	AATATT	2 cut(s)	592, 802
SspMI	CTAG	3 cut(s)	627, 1163, 1331
StuI	AGGCCT	1 cut(s)	1052
StyD4I	CCNGG	3 cut(s)	204, 292, 293
StyI	CCWWGG	1 cut(s)	992
TaaI	ACNGT	4 cut(s)	512, 1117, 1318, 1407
TaiI	ACGT	2 cut(s)	587, 665
TaqI	TCGA	5 cut(s)	237, 656, 741, 987, 1173
TatI	WGTACW	4 cut(s)	254, 602, 729, 919
TfiI	GAWTC	4 cut(s)	265, 879, 964, 1289
Tru1I	TTAA	9 cut(s)	74, 426, 522, 588, 666, 681, 954, 1278, 1302
Tru9I	TTAA	9 cut(s)	74, 426, 522, 588, 666, 681, 954, 1278, 1302
TscAI	CASTG	4 cut(s)	413, 1132, 1192, 1321
TseFI	GTSAC	1 cut(s)	1183
TseI	GCWGC	2 cut(s)	311, 947
Tsp45I	GTSAC	1 cut(s)	1183
TspDTI	ATGAA	9 cut(s)	17, 303, 509, 637, 876, 884, 905, 986, 1389
TspGWI	ACGGA	1 cut(s)	241
TspMI	CCCGGG	1 cut(s)	293
TspRI	CASTG	4 cut(s)	413, 1132, 1192, 1321
VpaK11BI	GGWCC	1 cut(s)	23
XapI	RAATTY	2 cut(s)	1253, 1309
XbaI	TCTAGA	1 cut(s)	1162
XceI	RCATGY	1 cut(s)	1269
XmaI	CCCGGG	1 cut(s)	293
XmiI	GTMKAC	1 cut(s)	1320
XmnI	GAANNNNTTC	1 cut(s)	1360
XspI	CTAG	3 cut(s)	627, 1163, 1331

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