Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0005587

Physical Location & Seq

Genomic Coordinates Reverse (-)

43561843 .. 43564442

Gene Structure 2600 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG173700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1560 bp

ATGGAGAGTGTGGTGAACTTCCCGTGTAGCCATTGCAAGATAGCCCATACATGGAGCTTCAAACACAACACCGTCCTCTTCCCCAAAACCCAAACCGCAAAACCCTCCACCAAAACCAAAACCAAATCCCTCCCCTCTACTCTTTCTCGTTGCCATGCCCAGTTCTTCTCACCACCACTACCACCGCATAACACCAGTTCCCCAAAGCACGCCACCCTCCATTCCCATGAATACCACAAGCTCAAAGCCTTACTGGAGATTCTCATGGAGAAGGAGTGTTGCCCTTTGCAAGTGCTTAGAGGTGATGGTGATTGGACCAGAGACCAATTCTGGGCTGTCATCAGATTCCTCATACATGCTTCCAGGCCCAAGGAAATCTTGCAGTTATTTGATATATGGAGGAACATTGAGAAATCGCGGATTAATGAATTCAACTACAGCAAGATAATAGGATTGTTAGTTGAGGAGGACCTGATTGAAGAGGCGGTGCTGTGCTTTCAGGATATGAAGACTCATGGTCTTAGGCTGTCTGTGGAAGTATATAATTCAATTATTCATGGTCTTTCGAGAAATGGAAACTTTGATGATGCCGAACTCTTCCTTAACGAGATGAAAGAAATGAATTTGGCCCCAGACACTGATACTTATGATGGGCTCATTGAAGCTTATGGAAAATATAGAATGTATGATGAGATGGGTATGTGTCTGAAGAAAATGAGATTAAATGGCTGTTCACCAGACCAGATTACCTATAATTTGCTTATTCGAGAGTTTGCACGTGGAGGGTTACTGAAAAGGATGGAAAGAGTATATCAATCCATGGTTTCAAAAAGAATGGATTTGCAGGCTCCTACTTTGATTGCAATGCTGGAAGTTTATGCAAAATTTGGGATCTTGGAGAAGATGGAAGTGTTTTATAGAAGAGTTTTGAACTCGAGAGCAATTTTAAAGGAGGATTTGATTAAGAAAGTTGCAGAAGTTTATATTGAGAACTATATGTTTTCCAGATTAGAGAACTTGCGAGTTGATCCTTCACCGAGATTTGGTCAGACTGATCTCGTTTGGTGTGTGCGTCTCCTTTCTCATGCTGGTATTTTGAGTCGAAGAGGTATGGATTCCGTCATTCTAGAGATGGAAGAAAAAGGTGTCCCATGGAATGCAACGGTGGGAAACATAATAATGCTAGCTTATTTGAAGATGAAAGATTTCACCCGCCTGAGAATCATGTTCTCCCAATCACTAACCCATGGTGTGGAGCCCGATATGATCACTGTTGGAATTCTATTTGATGCAATTAGGATTGGCTATGATGGGTCTGCGACTTTAGATGCATGGAGGAAGCAGGGTTTTCTTTACAAAGCAGTTGAAATGAACACCGATCCTCTTGTTATTACTACATTTGGGAAGGGGCATTTCCTCAGGAACTGTGAAGCAGCATACTCCTCTCTTGAACCTGAAGTTAGAGAAAAGAAAACATGGACTTACCAAGATCTCATTGATTCAGTGTTCAAAGACAATCAGTGTAACCTCAGTAAGAGGGACTTAATGAAGTCAAGATAA

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

519

Amino Acids

60.12

Weight (kDa)

8.58

Isoelectric Point (pI)

44.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	127 - 281	4e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	166 - 225	5.2e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	173 - 205	3.1e-07	PPR repeat
PPR_2	PF13041	178 - 224	8.6e-12	PPR repeat family
PPR	PF01535	180 - 208	3.6e-07	PPR repeat
PPR_2	PF13041	218 - 260	2.7e-07	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: OG0005587)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G14190
fragaria_vesca	FvH4_4g12861 FvH4_4g12861
malus_domestica	MD04G1021700.v1.1
prunus_persica	Prupe.1G171300_v2.0.a1 Prupe.1G171300_v2.0.a1
pyrus_communis	pycom04g01780 pycom07g00080
rosa_chinensis	RchiOBHm_Chr4g0412521
rosa_laevigata	RLG00000008282 RLG00000008292
rosa_multiflora	Rmu_sc0000950.1_g000014 Rmu_sc0000987.1_g000016 Rmu_sc0005941.1_g000004
rosa_roxburghii	Rroxscaffold_1G00043460 Rroxscaffold_2G00094110 Rroxscaffold_4G00290720 Rroxscaffold_5G00347880 Rroxscaffold_5G00356740
rosa_rugosa	Rorug04G0103000 Rorug04G0103000 Rorug04G0103100 Rorug04G0103200
rosa_samantha	Rh4AG173700 Rh4BG173200 Rh4CG184700 Rh4DG169200
rosa_wichuraiana	Rw4G014570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1252
AccII	CGCG	1 cut(s)	418
AciI	CCGC	5 cut(s)	96, 185, 418, 485, 1213
AclWI	GGATC	3 cut(s)	899, 1022, 1373
AcsI	RAATTY	4 cut(s)	428, 622, 884, 1278
AcuI	CTGAAG	2 cut(s)	728, 1476
AcvI	CACGTG	1 cut(s)	779
AfiI	CCNNNNNNNGG	4 cut(s)	51, 331, 1043, 1252
AhdI	GACNNNNNGTC	1 cut(s)	516
AjnI	CCWGG	1 cut(s)	362
AluBI	AGCT	4 cut(s)	57, 241, 665, 1187
AluI	AGCT	4 cut(s)	57, 241, 665, 1187
Alw26I	GTCTC	2 cut(s)	315, 1079
AlwI	GGATC	3 cut(s)	899, 1022, 1373
AlwNI	CAGNNNCTG	2 cut(s)	638, 1425
Ama87I	CYCGRG	1 cut(s)	934
AoxI	GGCC	2 cut(s)	365, 627
ApeKI	GCWGC	1 cut(s)	1433
ApoI	RAATTY	4 cut(s)	428, 622, 884, 1278
AseI	ATTAAT	1 cut(s)	423
Asp700I	GAANNNNTTC	1 cut(s)	1205
AspS9I	GGNCC	4 cut(s)	315, 366, 469, 628
AsuHPI	GGTGA	7 cut(s)	25, 162, 314, 320, 726, 1026, 1201
AsuNHI	GCTAGC	1 cut(s)	1183
AvaI	CYCGRG	1 cut(s)	934
AvaII	GGWCC	2 cut(s)	315, 469
AxyI	CCTNAGG	1 cut(s)	1418
BanII	GRGCYC	2 cut(s)	657, 1260
BbrPI	CACGTG	1 cut(s)	779
BbsI	GAAGAC	1 cut(s)	515
BbvI	GCAGC	1 cut(s)	1445
BccI	CCATC	7 cut(s)	299, 644, 688, 793, 898, 1126, 1304
BciT130I	CCWGG	1 cut(s)	364
BclI	TGATCA	1 cut(s)	1266
BcoDI	GTCTC	2 cut(s)	315, 1079
BfaI	CTAG	2 cut(s)	1127, 1184
BfmI	CTRYAG	1 cut(s)	436
BglII	AGATCT	1 cut(s)	1489
BisI	GCNGC	1 cut(s)	1434
BlsI	GCNGC	1 cut(s)	1435
Bme1390I	CCNGG	1 cut(s)	364
Bme18I	GGWCC	2 cut(s)	315, 469
BmeRI	GACNNNNNGTC	1 cut(s)	516
BmeT110I	CYCGRG	1 cut(s)	934
BmgT120I	GGNCC	4 cut(s)	315, 366, 469, 628
BmiI	GGNNCC	3 cut(s)	630, 849, 1257
BmrFI	CCNGG	1 cut(s)	364
BmrI	ACTGGG	1 cut(s)	154
BmsI	GCATC	3 cut(s)	577, 1279, 1318
BmtI	GCTAGC	1 cut(s)	1187
BmuI	ACTGGG	1 cut(s)	154
BpiI	GAAGAC	1 cut(s)	515
BpmI	CTGGAG	1 cut(s)	275
BsaAI	YACGTR	1 cut(s)	779
BsaI	GGTCTC	1 cut(s)	315
BsaJI	CCNNGG	4 cut(s)	369, 819, 1151, 1246
BsaXI	ACNNNNNCTCC	2 cut(s)	260, 290
Bsc4I	CCNNNNNNNGG	4 cut(s)	51, 331, 1043, 1252
Bse1I	ACTGG	3 cut(s)	160, 195, 258
Bse21I	CCTNAGG	1 cut(s)	1418
Bse3DI	GCAATG	2 cut(s)	31, 870
BseBI	CCWGG	1 cut(s)	364
BseDI	CCNNGG	4 cut(s)	369, 819, 1151, 1246
BseGI	GGATG	1 cut(s)	804
BseLI	CCNNNNNNNGG	4 cut(s)	51, 331, 1043, 1252
BseMI	GCAATG	2 cut(s)	31, 870
BseMII	CTCAG	3 cut(s)	1208, 1432, 1543
BseNI	ACTGG	3 cut(s)	160, 195, 258
BseRI	GAGGAG	2 cut(s)	479, 1432
BseXI	GCAGC	1 cut(s)	1445
Bsh1236I	CGCG	1 cut(s)	418
BshFI	GGCC	2 cut(s)	367, 629
BsiHKCI	CYCGRG	1 cut(s)	934
BslFI	GGGAC	2 cut(s)	1133, 1553
BslI	CCNNNNNNNGG	4 cut(s)	51, 331, 1043, 1252
BsmAI	GTCTC	2 cut(s)	315, 1079
BsmBI	CGTCTC	1 cut(s)	1079
BsmFI	GGGAC	2 cut(s)	1133, 1553
BsmI	GAATGC	1 cut(s)	1162
BsnI	GGCC	2 cut(s)	367, 629
Bso31I	GGTCTC	1 cut(s)	315
BsoBI	CYCGRG	1 cut(s)	934
Bsp1286I	GDGCHC	2 cut(s)	657, 1260
Bsp143I	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
Bsp19I	CCATGG	3 cut(s)	819, 1151, 1246
BspACI	CCGC	5 cut(s)	96, 185, 418, 485, 1213
BspANI	GGCC	2 cut(s)	367, 629
BspCNI	CTCAG	3 cut(s)	1209, 1431, 1542
BspFNI	CGCG	1 cut(s)	418
BspLI	GGNNCC	3 cut(s)	630, 849, 1257
BspOI	GCTAGC	1 cut(s)	1187
BspPI	GGATC	3 cut(s)	899, 1022, 1373
BspTNI	GGTCTC	1 cut(s)	315
BsrDI	GCAATG	2 cut(s)	31, 870
BsrI	ACTGG	3 cut(s)	160, 195, 258
BssECI	CCNNGG	4 cut(s)	369, 819, 1151, 1246
BssMI	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
BssT1I	CCWWGG	4 cut(s)	369, 819, 1151, 1246
Bst2UI	CCWGG	1 cut(s)	364
Bst4CI	ACNGT	4 cut(s)	73, 1165, 1273, 1427
Bst6I	CTCTTC	5 cut(s)	83, 474, 602, 916, 1099
BstBAI	YACGTR	1 cut(s)	779
BstC8I	GCNNGC	3 cut(s)	210, 846, 1185
BstDEI	CTNAG	5 cut(s)	296, 521, 1217, 1418, 1529
BstDSI	CCRYGG	3 cut(s)	819, 1151, 1246
BstF5I	GGATG	1 cut(s)	804
BstFNI	CGCG	1 cut(s)	418
BstKTI	GATC	6 cut(s)	894, 1030, 1057, 1269, 1381, 1492
BstMAI	GTCTC	2 cut(s)	315, 1079
BstMBI	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
BstNI	CCWGG	1 cut(s)	364
BstNSI	RCATGY	1 cut(s)	359
BstSCI	CCNGG	1 cut(s)	362
BstSFI	CTRYAG	1 cut(s)	436
BstUI	CGCG	1 cut(s)	418
BstV1I	GCAGC	1 cut(s)	1445
BstV2I	GAAGAC	1 cut(s)	515
BstX2I	RGATCY	2 cut(s)	891, 1489
BstYI	RGATCY	2 cut(s)	891, 1489
Bsu36I	CCTNAGG	1 cut(s)	1418
BsuRI	GGCC	2 cut(s)	367, 629
BtgI	CCRYGG	3 cut(s)	819, 1151, 1246
BtsCI	GGATG	1 cut(s)	804
BtsIMutI	CAGTG	4 cut(s)	636, 1269, 1509, 1526
Cac8I	GCNNGC	3 cut(s)	210, 846, 1185
CaiI	CAGNNNCTG	2 cut(s)	638, 1425
Cfr13I	GGNCC	4 cut(s)	315, 366, 469, 628
CseI	GACGC	1 cut(s)	1061
DdeI	CTNAG	5 cut(s)	296, 521, 1217, 1418, 1529
DpnI	GATC	6 cut(s)	893, 1029, 1056, 1268, 1380, 1491
DpnII	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
DraI	TTTAAA	1 cut(s)	948
DriI	GACNNNNNGTC	1 cut(s)	516
Eam1104I	CTCTTC	5 cut(s)	83, 474, 602, 916, 1099
Eam1105I	GACNNNNNGTC	1 cut(s)	516
EarI	CTCTTC	5 cut(s)	83, 474, 602, 916, 1099
Eco130I	CCWWGG	4 cut(s)	369, 819, 1151, 1246
Eco24I	GRGCYC	2 cut(s)	657, 1260
Eco31I	GGTCTC	1 cut(s)	315
Eco47I	GGWCC	2 cut(s)	315, 469
Eco57I	CTGAAG	2 cut(s)	728, 1476
Eco72I	CACGTG	1 cut(s)	779
Eco81I	CCTNAGG	1 cut(s)	1418
Eco88I	CYCGRG	1 cut(s)	934
EcoO109I	RGGNCCY	1 cut(s)	469
EcoRI	GAATTC	2 cut(s)	428, 1278
EcoRII	CCWGG	1 cut(s)	362
EcoT14I	CCWWGG	4 cut(s)	369, 819, 1151, 1246
EcoT22I	ATGCAT	1 cut(s)	1333
EcoT38I	GRGCYC	2 cut(s)	657, 1260
ErhI	CCWWGG	4 cut(s)	369, 819, 1151, 1246
Esp3I	CGTCTC	1 cut(s)	1079
FalI	AAGNNNNNCTT	4 cut(s)	362, 394, 1526, 1558
FaqI	GGGAC	2 cut(s)	1133, 1553
FauI	CCCGC	1 cut(s)	1220
FbaI	TGATCA	1 cut(s)	1266
Fnu4HI	GCNGC	1 cut(s)	1434
FokI	GGATG	1 cut(s)	811
FriOI	GRGCYC	2 cut(s)	657, 1260
Fsp4HI	GCNGC	1 cut(s)	1434
FspBI	CTAG	2 cut(s)	1127, 1184
GluI	GCNGC	1 cut(s)	1434
GsuI	CTGGAG	1 cut(s)	275
HaeIII	GGCC	2 cut(s)	367, 629
HgaI	GACGC	1 cut(s)	1061
HindIII	AAGCTT	1 cut(s)	663
HinfI	GANTC	7 cut(s)	259, 345, 511, 1099, 1115, 1221, 1499
HphI	GGTGA	7 cut(s)	25, 162, 314, 320, 726, 1026, 1201
Hpy166II	GTNNAC	2 cut(s)	16, 734
Hpy188I	TCNGA	3 cut(s)	344, 708, 1050
Hpy188III	TCNNGA	9 cut(s)	500, 567, 767, 936, 1005, 1127, 1420, 1448, 1554
Hpy8I	GTNNAC	2 cut(s)	16, 734
HpyAV	CCTTC	3 cut(s)	265, 1041, 1399
HpyCH4III	ACNGT	4 cut(s)	73, 1165, 1273, 1427
HpyCH4IV	ACGT	1 cut(s)	778
HpyF3I	CTNAG	5 cut(s)	296, 521, 1217, 1418, 1529
HpySE526I	ACGT	1 cut(s)	778
Ksp22I	TGATCA	1 cut(s)	1266
Kzo9I	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
LmnI	GCTCC	3 cut(s)	54, 853, 1255
Lsp1109I	GCAGC	1 cut(s)	1445
LweI	GCATC	3 cut(s)	577, 1279, 1318
MaeI	CTAG	2 cut(s)	1127, 1184
MaeII	ACGT	1 cut(s)	778
MaeIII	GTNAC	2 cut(s)	786, 1523
MalI	GATC	6 cut(s)	893, 1029, 1056, 1268, 1380, 1491
MboI	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
MflI	RGATCY	2 cut(s)	891, 1489
MhlI	GDGCHC	2 cut(s)	657, 1260
MlyI	GAGTC	2 cut(s)	505, 1108
MmeI	TCCRAC	1 cut(s)	1255
Mph1103I	ATGCAT	1 cut(s)	1333
MroXI	GAANNNNTTC	1 cut(s)	1205
MseI	TTAA	6 cut(s)	423, 603, 722, 947, 963, 1544
MslI	CAYNNNNRTG	2 cut(s)	225, 1178
MspR9I	CCNGG	1 cut(s)	364
Mva1269I	GAATGC	1 cut(s)	1162
MvaI	CCWGG	1 cut(s)	364
MvnI	CGCG	1 cut(s)	418
NcoI	CCATGG	3 cut(s)	819, 1151, 1246
NdeII	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
NheI	GCTAGC	1 cut(s)	1183
NlaIV	GGNNCC	3 cut(s)	630, 849, 1257
NsiI	ATGCAT	1 cut(s)	1333
NspI	RCATGY	1 cut(s)	359
PaeR7I	CTCGAG	1 cut(s)	934
PctI	GAATGC	1 cut(s)	1162
PdmI	GAANNNNTTC	1 cut(s)	1205
PfeI	GAWTC	5 cut(s)	259, 345, 1115, 1221, 1499
PflMI	CCANNNNNTGG	1 cut(s)	1252
PkrI	GCNGC	1 cut(s)	1435
PleI	GAGTC	2 cut(s)	505, 1107
PmaCI	CACGTG	1 cut(s)	779
PmlI	CACGTG	1 cut(s)	779
PpsI	GAGTC	2 cut(s)	505, 1107
Ppu21I	YACGTR	1 cut(s)	779
PpuMI	RGGWCCY	1 cut(s)	469
PshBI	ATTAAT	1 cut(s)	423
Psp5II	RGGWCCY	1 cut(s)	469
Psp6I	CCWGG	1 cut(s)	362
PspCI	CACGTG	1 cut(s)	779
PspGI	CCWGG	1 cut(s)	362
PspN4I	GGNNCC	3 cut(s)	630, 849, 1257
PspPI	GGNCC	4 cut(s)	315, 366, 469, 628
PspPPI	RGGWCCY	1 cut(s)	469
PstNI	CAGNNNCTG	2 cut(s)	638, 1425
PsuI	RGATCY	2 cut(s)	891, 1489
RseI	CAYNNNNRTG	2 cut(s)	225, 1178
SaqAI	TTAA	6 cut(s)	423, 603, 722, 947, 963, 1544
SatI	GCNGC	1 cut(s)	1434
Sau3AI	GATC	6 cut(s)	891, 1027, 1054, 1266, 1378, 1489
Sau96I	GGNCC	4 cut(s)	315, 366, 469, 628
SchI	GAGTC	2 cut(s)	505, 1108
ScrFI	CCNGG	1 cut(s)	364
SduI	GDGCHC	2 cut(s)	657, 1260
SfaNI	GCATC	3 cut(s)	577, 1279, 1318
SfcI	CTRYAG	1 cut(s)	436
Sfr274I	CTCGAG	1 cut(s)	934
SinI	GGWCC	2 cut(s)	315, 469
SlaI	CTCGAG	1 cut(s)	934
SmiMI	CAYNNNNRTG	2 cut(s)	225, 1178
SmlI	CTYRAG	1 cut(s)	934
SmoI	CTYRAG	1 cut(s)	934
SsiI	CCGC	5 cut(s)	96, 185, 418, 485, 1213
SspMI	CTAG	2 cut(s)	1127, 1184
StyD4I	CCNGG	1 cut(s)	362
StyI	CCWWGG	4 cut(s)	369, 819, 1151, 1246
TaaI	ACNGT	4 cut(s)	73, 1165, 1273, 1427
TaiI	ACGT	1 cut(s)	781
TaqI	TCGA	4 cut(s)	566, 766, 935, 1102
TfiI	GAWTC	5 cut(s)	259, 345, 1115, 1221, 1499
Tru1I	TTAA	6 cut(s)	423, 603, 722, 947, 963, 1544
Tru9I	TTAA	6 cut(s)	423, 603, 722, 947, 963, 1544
TscAI	CASTG	4 cut(s)	643, 1276, 1509, 1526
TseI	GCWGC	1 cut(s)	1433
TspDTI	ATGAA	8 cut(s)	243, 441, 521, 545, 626, 635, 1214, 1385
TspGWI	ACGGA	1 cut(s)	1108
TspRI	CASTG	4 cut(s)	643, 1276, 1509, 1526
Van91I	CCANNNNNTGG	1 cut(s)	1252
VpaK11BI	GGWCC	2 cut(s)	315, 469
VspI	ATTAAT	1 cut(s)	423
XapI	RAATTY	4 cut(s)	428, 622, 884, 1278
XbaI	TCTAGA	1 cut(s)	1126
XceI	RCATGY	1 cut(s)	359
XhoI	CTCGAG	1 cut(s)	934
XmnI	GAANNNNTTC	1 cut(s)	1205
XspI	CTAG	2 cut(s)	1127, 1184
Zsp2I	ATGCAT	1 cut(s)	1333

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