Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Reverse (-)

9296180 .. 9297565

Gene Structure 1386 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG056700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1386 bp

ATGCCTGAGAGGGATGTTGTGTCCTGGAACACCATGGTGATTGGTTATGCCCAGAGTGGGGATTGTGATGAGGCTTTGAGGTTTTATAGAGAGTTGCGGAGGTCGCCGGTTGGGTTTAATGAGTTTAGTTTTGCAGGTGTTTTGACTGTCTGTGCGAAGATGAGGGAATGGGAGCTTATTAGGCAAGCTCATGGGCAGGTTTTGGTTGCTGGGTTTTTGTCGAATGTGGTGCTTTCGAGTTCGGTGGTGGACGCTTATGCCAAGTGTGGAGAGATGGTAGATGCTAGGAGATTGTTCGATGAGATGGCTGTGAGGGATGTTCTTGCTTGGACCACACTGGTTTCGGGATATGCCAAGTGGGGTGATATGAAATCAGCTAGTGAGTTGTTTGATTGGATGCCTGAGAAGAACCCGGTGTCATGGACATCTATGATTTCGGGGTTTGCTAGGAATGGATTGGGGCATGAAGCACTTGCATTGTTTGCAGAGATGATGCTGTTTCAAGTCAGGCCTGATCAGTTTACCTTTAGTAGTTGCCTTTGTGCTTGCGCTAGTATAGCTTCGCTTAAGCATGGTAAACAAATTCATGCCTCTTTAGTACGAAGTAATTTAAGACCCAACACGATTGTTGTGAGTTCTCTTATCGACATGTATTCCAAATGCGGCAATTTGGGGGCCGGAAGGCAGGTATTCAAGCTCATGGGTGATAAGCAAGACACAGTGTTATGGAACACAATGGTGTCTGCCTTAGCACAGCATGGTCATGGTATAGAGGCATTGCAGATGTTTGAAGACATGGTCAGTTCAGGTGTAAAGCCGGTTAATACCACCTTTGTTGTCATTCTCAATGCTTGTAGTCATTCTGGTCTGGTGCAGGAAGGGCGTAGGCTTTTCAAGTCCATGACTGATGATTATGGCATTGTTCCTCATGAGGAACATTATGCATGCTTAATTGATCTCTTAGGTCGAGCTGGATGTTTTGATGAGTTGATGAACCAGCTCAAAAATATGCCATGTAAAGCTGGCGGTCAAGTTTGGAATGCATTACTGGGTGTTTGTAGAATCCATGGAAATACAGAGCTGGGAAGAAAAGTGGCCGAACACCTTATTGAGTTAGAGCCTCAATCTTCTGCTCCCTATGTTTTGCTTTCGAGCATATATGCTGAAGAAGGTAGATGGGAGCTGGTAGAGAAGGTGAGACGGCTTATGGATGAGAGACATGTGAGGAAAGAGCGAGCCATTAGTTGGGTAGAAGTTGAAAGTAGAGTGCATGCTTTCACTGTATCAGACCGGCTGCATCCTCTGAAAGAGGTAATATACTCAGTTTTGAAACAGTTAGCTGACCAGATGGAAGAAGATGCTTCAGTAACAAACGCCGAGAAGTAG

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

461

Amino Acids

51.61

Weight (kDa)

5.99

Isoelectric Point (pI)

45.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	4 - 53	5.1e-07	PPR repeat family
PPR	PF01535	7 - 35	6.6e-07	PPR repeat
PPR_2	PF13041	137 - 184	2.7e-10	PPR repeat family
PPR	PF01535	139 - 165	9.3e-08	PPR repeat
PPR_2	PF13041	239 - 286	1.8e-10	PPR repeat family
PPR	PF01535	241 - 271	1.5e-07	PPR repeat
E_motif	PF20431	356 - 418	5.5e-16	E motif

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: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	125
Acc36I	ACCTGC	3 cut(s)	125, 187, 676
AccB7I	CCANNNNNTGG	1 cut(s)	1245
AciI	CCGC	3 cut(s)	97, 663, 1026
AcoI	YGGCCR	1 cut(s)	1095
AcsI	RAATTY	1 cut(s)	582
AcuI	CTGAAG	2 cut(s)	1185, 1347
AfaI	GTAC	1 cut(s)	600
AfiI	CCNNNNNNNGG	3 cut(s)	57, 58, 1245
AflII	CTTAAG	1 cut(s)	566
AflIII	ACRYGT	2 cut(s)	648, 1219
AgsI	TTSAA	6 cut(s)	503, 694, 791, 895, 1259, 1330
AjnI	CCWGG	1 cut(s)	23
AleI	CACNNNNGTG	2 cut(s)	35, 737
Alw26I	GTCTC	2 cut(s)	1192, 1210
AoxI	GGCC	3 cut(s)	509, 675, 1095
ApeKI	GCWGC	1 cut(s)	1294
ApoI	RAATTY	1 cut(s)	582
AspLEI	GCGC	1 cut(s)	551
AspS9I	GGNCC	2 cut(s)	330, 675
AsuC2I	CCSGG	1 cut(s)	413
AsuHPI	GGTGA	4 cut(s)	49, 374, 716, 1207
AvaII	GGWCC	1 cut(s)	330
BbsI	GAAGAC	1 cut(s)	798
BbvI	GCAGC	1 cut(s)	1281
BccI	CCATC	4 cut(s)	268, 298, 1170, 1342
BceAI	ACGGC	1 cut(s)	1217
BcgI	CGANNNNNNTGC	2 cut(s)	211, 245
BciT130I	CCWGG	1 cut(s)	25
BclI	TGATCA	1 cut(s)	514
BcnI	CCSGG	1 cut(s)	413
BcoDI	GTCTC	2 cut(s)	1192, 1210
BfaI	CTAG	4 cut(s)	285, 378, 447, 552
BfrI	CTTAAG	1 cut(s)	566
BfuAI	ACCTGC	3 cut(s)	125, 187, 676
BisI	GCNGC	2 cut(s)	664, 1295
BlsI	GCNGC	2 cut(s)	665, 1296
Bme1390I	CCNGG	2 cut(s)	25, 413
Bme18I	GGWCC	1 cut(s)	330
BmgT120I	GGNCC	2 cut(s)	330, 675
BmiI	GGNNCC	1 cut(s)	676
BmrFI	CCNGG	2 cut(s)	25, 413
BmrI	ACTGGG	1 cut(s)	1058
BmsI	GCATC	5 cut(s)	271, 387, 483, 1306, 1348
BmuI	ACTGGG	1 cut(s)	1058
BpiI	GAAGAC	1 cut(s)	798
Bpu10I	CCTNAGC	1 cut(s)	748
BpuMI	CCSGG	1 cut(s)	413
BsaJI	CCNNGG	2 cut(s)	33, 1066
BsaXI	ACNNNNNCTCC	2 cut(s)	261, 291
Bsc4I	CCNNNNNNNGG	3 cut(s)	57, 58, 1245
Bse118I	RCCGGY	3 cut(s)	106, 817, 1290
Bse1I	ACTGG	2 cut(s)	342, 1053
Bse3DI	GCAATG	1 cut(s)	776
BseBI	CCWGG	1 cut(s)	25
BseDI	CCNNGG	2 cut(s)	33, 1066
BseGI	GGATG	6 cut(s)	19, 322, 402, 980, 1216, 1297
BseLI	CCNNNNNNNGG	3 cut(s)	57, 58, 1245
BseMI	GCAATG	1 cut(s)	776
BseMII	CTCAG	2 cut(s)	393, 1335
BseNI	ACTGG	2 cut(s)	342, 1053
BseXI	GCAGC	1 cut(s)	1281
BseYI	CCCAGC	2 cut(s)	209, 1081
BsgI	GTGCAG	1 cut(s)	893
BshFI	GGCC	3 cut(s)	511, 677, 1097
BsiSI	CCGG	5 cut(s)	107, 413, 678, 818, 1291
BslI	CCNNNNNNNGG	3 cut(s)	57, 58, 1245
BsmAI	GTCTC	2 cut(s)	1192, 1210
BsmBI	CGTCTC	1 cut(s)	1192
BsmI	GAATGC	1 cut(s)	1045
BsnI	GGCC	3 cut(s)	511, 677, 1097
Bsp143I	GATC	2 cut(s)	514, 955
Bsp19I	CCATGG	2 cut(s)	33, 1066
BspACI	CCGC	3 cut(s)	97, 663, 1026
BspANI	GGCC	3 cut(s)	511, 677, 1097
BspCNI	CTCAG	2 cut(s)	394, 1334
BspHI	TCATGA	1 cut(s)	928
BspLI	GGNNCC	1 cut(s)	676
BspMI	ACCTGC	3 cut(s)	125, 187, 676
BspTI	CTTAAG	1 cut(s)	566
BsrDI	GCAATG	1 cut(s)	776
BsrFI	RCCGGY	3 cut(s)	106, 817, 1290
BsrI	ACTGG	2 cut(s)	342, 1053
BssAI	RCCGGY	3 cut(s)	106, 817, 1290
BssECI	CCNNGG	2 cut(s)	33, 1066
BssMI	GATC	2 cut(s)	514, 955
BssT1I	CCWWGG	2 cut(s)	33, 1066
Bst2UI	CCWGG	1 cut(s)	25
Bst4CI	ACNGT	4 cut(s)	148, 721, 1282, 1335
BstAFI	CTTAAG	1 cut(s)	566
BstAPI	GCANNNNNTGC	1 cut(s)	482
BstC8I	GCNNGC	6 cut(s)	186, 547, 946, 1024, 1236, 1272
BstDEI	CTNAG	5 cut(s)	6, 402, 748, 961, 1321
BstDSI	CCRYGG	2 cut(s)	33, 1066
BstF5I	GGATG	6 cut(s)	19, 322, 402, 980, 1216, 1297
BstHHI	GCGC	1 cut(s)	551
BstKTI	GATC	2 cut(s)	517, 958
BstMAI	GTCTC	2 cut(s)	1192, 1210
BstMBI	GATC	2 cut(s)	514, 955
BstMWI	GCNNNNNNNGC	5 cut(s)	103, 181, 482, 557, 880
BstNI	CCWGG	1 cut(s)	25
BstNSI	RCATGY	4 cut(s)	652, 948, 1223, 1274
BstSCI	CCNGG	2 cut(s)	23, 411
BstV1I	GCAGC	1 cut(s)	1281
BstV2I	GAAGAC	1 cut(s)	798
BsuRI	GGCC	3 cut(s)	511, 677, 1097
BtgI	CCRYGG	2 cut(s)	33, 1066
BtsCI	GGATG	6 cut(s)	19, 322, 402, 980, 1216, 1297
BtsIMutI	CAGTG	3 cut(s)	335, 726, 1278
BveI	ACCTGC	3 cut(s)	125, 187, 676
Cac8I	GCNNGC	6 cut(s)	186, 547, 946, 1024, 1236, 1272
CciI	TCATGA	1 cut(s)	928
CfoI	GCGC	1 cut(s)	551
Cfr10I	RCCGGY	3 cut(s)	106, 817, 1290
Cfr13I	GGNCC	2 cut(s)	330, 675
CseI	GACGC	1 cut(s)	260
Csp6I	GTAC	1 cut(s)	599
CspCI	CAANNNNNGTGG	2 cut(s)	817, 852
CviQI	GTAC	1 cut(s)	599
DdeI	CTNAG	5 cut(s)	6, 402, 748, 961, 1321
DpnI	GATC	2 cut(s)	516, 957
DpnII	GATC	2 cut(s)	514, 955
EaeI	YGGCCR	1 cut(s)	1095
Eco130I	CCWWGG	2 cut(s)	33, 1066
Eco147I	AGGCCT	1 cut(s)	511
Eco47I	GGWCC	1 cut(s)	330
Eco57I	CTGAAG	2 cut(s)	1185, 1347
EcoRII	CCWGG	1 cut(s)	23
EcoT14I	CCWWGG	2 cut(s)	33, 1066
EcoT22I	ATGCAT	2 cut(s)	946, 1045
ErhI	CCWWGG	2 cut(s)	33, 1066
Esp3I	CGTCTC	1 cut(s)	1192
FbaI	TGATCA	1 cut(s)	514
Fnu4HI	GCNGC	2 cut(s)	664, 1295
FokI	GGATG	6 cut(s)	26, 329, 409, 987, 1223, 1284
Fsp4HI	GCNGC	2 cut(s)	664, 1295
FspBI	CTAG	4 cut(s)	285, 378, 447, 552
GlaI	GCGC	1 cut(s)	550
GluI	GCNGC	2 cut(s)	664, 1295
GsaI	CCCAGC	2 cut(s)	213, 1085
HaeIII	GGCC	3 cut(s)	511, 677, 1097
HapII	CCGG	5 cut(s)	107, 413, 678, 818, 1291
HgaI	GACGC	1 cut(s)	260
HhaI	GCGC	1 cut(s)	551
Hin6I	GCGC	1 cut(s)	549
HinP1I	GCGC	1 cut(s)	549
HinfI	GANTC	1 cut(s)	1062
HpaII	CCGG	5 cut(s)	107, 413, 678, 818, 1291
HphI	GGTGA	4 cut(s)	49, 374, 716, 1207
Hpy166II	GTNNAC	3 cut(s)	250, 522, 578
Hpy188I	TCNGA	2 cut(s)	1288, 1305
Hpy188III	TCNNGA	2 cut(s)	345, 929
Hpy8I	GTNNAC	3 cut(s)	250, 522, 578
HpyAV	CCTTC	4 cut(s)	675, 872, 1163, 1186
HpyCH4III	ACNGT	4 cut(s)	148, 721, 1282, 1335
HpyCH4V	TGCA	9 cut(s)	134, 476, 485, 781, 874, 944, 1043, 1270, 1297
HpyF10VI	GCNNNNNNNGC	5 cut(s)	103, 181, 482, 557, 880
HpyF3I	CTNAG	5 cut(s)	6, 402, 748, 961, 1321
HspAI	GCGC	1 cut(s)	549
Ksp22I	TGATCA	1 cut(s)	514
Kzo9I	GATC	2 cut(s)	514, 955
LmnI	GCTCC	3 cut(s)	172, 1138, 1180
Lsp1109I	GCAGC	1 cut(s)	1281
LweI	GCATC	5 cut(s)	271, 387, 483, 1306, 1348
MaeI	CTAG	4 cut(s)	285, 378, 447, 552
MaeIII	GTNAC	1 cut(s)	1366
MalI	GATC	2 cut(s)	516, 957
MboI	GATC	2 cut(s)	514, 955
MboII	GAAGA	8 cut(s)	169, 418, 803, 1098, 1119, 1178, 1364, 1367
MluCI	AATT	4 cut(s)	582, 607, 667, 951
Mph1103I	ATGCAT	2 cut(s)	946, 1045
MseI	TTAA	5 cut(s)	117, 567, 611, 822, 950
MslI	CAYNNNNRTG	3 cut(s)	35, 737, 762
MspCI	CTTAAG	1 cut(s)	566
MspI	CCGG	5 cut(s)	107, 413, 678, 818, 1291
MspR9I	CCNGG	2 cut(s)	25, 413
Mva1269I	GAATGC	1 cut(s)	1045
MvaI	CCWGG	1 cut(s)	25
MwoI	GCNNNNNNNGC	5 cut(s)	103, 181, 482, 557, 880
NciI	CCSGG	1 cut(s)	413
NcoI	CCATGG	2 cut(s)	33, 1066
NdeII	GATC	2 cut(s)	514, 955
NlaIV	GGNNCC	1 cut(s)	676
NsiI	ATGCAT	2 cut(s)	946, 1045
NspI	RCATGY	4 cut(s)	652, 948, 1223, 1274
OliI	CACNNNNGTG	2 cut(s)	35, 737
PaeI	GCATGC	2 cut(s)	948, 1274
PagI	TCATGA	1 cut(s)	928
PaqCI	CACCTGC	1 cut(s)	125
PceI	AGGCCT	1 cut(s)	511
PciI	ACATGT	2 cut(s)	648, 1219
PctI	GAATGC	1 cut(s)	1045
PfeI	GAWTC	1 cut(s)	1062
PflFI	GACNNNGTC	1 cut(s)	797
PflMI	CCANNNNNTGG	1 cut(s)	1245
PfoI	TCCNGGA	1 cut(s)	23
PkrI	GCNGC	2 cut(s)	665, 1296
PscI	ACATGT	2 cut(s)	648, 1219
Psp6I	CCWGG	1 cut(s)	23
PspFI	CCCAGC	2 cut(s)	209, 1081
PspGI	CCWGG	1 cut(s)	23
PspN4I	GGNNCC	1 cut(s)	676
PspPI	GGNCC	2 cut(s)	330, 675
PsyI	GACNNNGTC	1 cut(s)	797
RsaI	GTAC	1 cut(s)	600
RsaNI	GTAC	1 cut(s)	599
RseI	CAYNNNNRTG	3 cut(s)	35, 737, 762
SaqAI	TTAA	5 cut(s)	117, 567, 611, 822, 950
SatI	GCNGC	2 cut(s)	664, 1295
Sau3AI	GATC	2 cut(s)	514, 955
Sau96I	GGNCC	2 cut(s)	330, 675
ScrFI	CCNGG	2 cut(s)	25, 413
SfaNI	GCATC	5 cut(s)	271, 387, 483, 1306, 1348
SinI	GGWCC	1 cut(s)	330
SmiMI	CAYNNNNRTG	3 cut(s)	35, 737, 762
SmlI	CTYRAG	1 cut(s)	566
SmoI	CTYRAG	1 cut(s)	566
SphI	GCATGC	2 cut(s)	948, 1274
Sse9I	AATT	4 cut(s)	582, 607, 667, 951
SseBI	AGGCCT	1 cut(s)	511
SsiI	CCGC	3 cut(s)	97, 663, 1026
SspMI	CTAG	4 cut(s)	285, 378, 447, 552
StuI	AGGCCT	1 cut(s)	511
StyD4I	CCNGG	2 cut(s)	23, 411
StyI	CCWWGG	2 cut(s)	33, 1066
TaaI	ACNGT	4 cut(s)	148, 721, 1282, 1335
TaqI	TCGA	6 cut(s)	221, 236, 297, 645, 967, 1151
TasI	AATT	4 cut(s)	582, 607, 667, 951
TauI	GCSGC	1 cut(s)	666
TfiI	GAWTC	1 cut(s)	1062
Tru1I	TTAA	5 cut(s)	117, 567, 611, 822, 950
Tru9I	TTAA	5 cut(s)	117, 567, 611, 822, 950
TscAI	CASTG	3 cut(s)	342, 726, 1285
TseI	GCWGC	1 cut(s)	1294
TspDTI	ATGAA	4 cut(s)	383, 480, 575, 1007
TspRI	CASTG	3 cut(s)	342, 726, 1285
Tth111I	GACNNNGTC	1 cut(s)	797
Van91I	CCANNNNNTGG	1 cut(s)	1245
Vha464I	CTTAAG	1 cut(s)	566
VpaK11BI	GGWCC	1 cut(s)	330
XapI	RAATTY	1 cut(s)	582
XceI	RCATGY	4 cut(s)	652, 948, 1223, 1274
XspI	CTAG	4 cut(s)	285, 378, 447, 552
Zsp2I	ATGCAT	2 cut(s)	946, 1045

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