Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0001526

Physical Location & Seq

Genomic Coordinates Forward (+)

58245490 .. 58247993

Gene Structure 2504 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG414200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1098 bp

ATGGCCTCACTCTTGAGCTCCACCCAACTACTTCCACCGGCGTTTAACCGAGGACCTGCTCCGGCCACCAAACCCGCAACCCTACGGGCACAGACGACGCCCCATCCTCAACCCACTTCTAACACTAGTGCAGATAACAACGCTAGACTAGCAGTAACACAGAGAAAAGCAGTAGAGCTTCAGAGGCTAAAAGATAAGGAGGCCAAGGACAGAAAGGAGGAGACCAACAACAAGATAGCTTCTCGGAAAGCAATTTCGGTCGTTTTGCGGAGAGAAGCTACCAAATCCCACATCGAGAAGAAGAAAGGCTCCAAGAGACTGCTTCCCAGGACTGTGCTCGAAGCCCTCCATGAGAGAATCACTGCTCTGCGATGGGAATTTGCAGAGATGGAGTCGACACTTGTGGCAATGCTTAGCCAACAGGATTGTGAGCCTGATGTCTGGACCATGAATTCCGTAGTGAGAGCCTTTGGCAGCAGTGGGCAAATAGAAACAATGGAGAAATGTTTTGAGAAGTTCCACAGTGCCGGAATCCAACCAAACATCATGACTTTCAACATTCTCCTCGATTCATATGGAAAAGCTGGGAATTATAAAAAAATGAGTGCTGTGATGGAATACATGCAGAAATACCATTACTCATGGACAATCGTTACATACAATGTGGTGATAGACGCATTTGGGAGGGCTGGGGATTTAACACAAATGGAGTATCTGTTTAGGCTAATGGGGTCAGAGCGGATCAAACCAAGCTGTGTCACACTTTGCTCACTCGTAAGGGCTTATGGGAAAGCAGGTAAACCTGAAAAAATTAGTGGTGTTTTACGTTTTGTGGAGAATTCAGACGTGATATTGGATACTGTGTTTTTCAATTGTCTGGTTGATGCTTATGGGAGGCTGGGATGCTTCACAGAAATGAAGGGGGTGCTTGAGATAATGAAGCAAAAAGGATGTTCTCCTGATAAGATCACATATAGAACCATGATTAAAGCTTATTCATTCAACAATATGACTGGCCATGTGAAGGAACTCCATGAACTTATGCAATCGGCAGGAAGTCAGATGACTTGGTCACAGAGACAAAAACCTGACTTTTGA

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

365

Amino Acids

41.22

Weight (kDa)

9.44

Isoelectric Point (pI)

37.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	138 - 194	7.1e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	145 - 193	2.2e-08	PPR repeat family
PPR_3	PF13812	171 - 228	4.2e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	217 - 263	2.1e-07	PPR repeat family
TPR_24	PF23276	263 - 334	1.3e-06	Fungal tetratrico peptide repeats
PPR_3	PF13812	274 - 332	1e-05	Pentatricopeptide repeat domain
PPR_2	PF13041	286 - 332	4.5e-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: OG0001526)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48730
fragaria_vesca	FvH4_5g33190
malus_domestica	MD10G1163400.v1.1
prunus_persica	Prupe.8G201700_v2.0.a1 Prupe.8G201700_v2.0.a1 Prupe.8G201700_v2.0.a1
pyrus_communis	pycom10g14080
rosa_chinensis	RchiOBHm_Chr1g0373361 RchiOBHm_Chr7g0231531
rosa_laevigata	RLG00000001413 RLG00000008268
rosa_multiflora	Rmu_sc0001565.1_g000030 Rmu_sc0003505.1_g000027 Rmu_sc0005399.1_g000019 Rmu_sc0011314.1_g000012 Rmu_sc0012399.1_g000004 Rmu_sc0013558.1_g000012 Rmu_sc0028716.1_g000001
rosa_roxburghii	Rroxscaffold_1G00016380 Rroxscaffold_1G00029710 Rroxscaffold_3G00229090
rosa_rugosa	Rorug07G0267100 Rorug07G0267100
rosa_samantha	Rh1AG365000 Rh1CG099500 Rh2AG510800 Rh2BG430100 Rh2BG476000 Rh2CG061700 Rh2CG496000 Rh2DG388600 Rh2DG440000 Rh2DG484700 Rh4BG006500 Rh4DG135300 Rh5AG195600 Rh5AG195700 Rh5CG115300 Rh6AG146300 Rh7AG421500 Rh7BG396200 Rh7CG441800 Rh7DG259000 Rh7DG414200
rosa_wichuraiana	Rw0G012110 Rw6G012720 Rw6G032340 Rw6G045030 Rw7G034780 Rw7G034910 Rw7G034940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	594
Acc36I	ACCTGC	2 cut(s)	64, 785
AccBSI	CCGCTC	1 cut(s)	739
AccI	GTMKAC	1 cut(s)	395
AciI	CCGC	3 cut(s)	75, 268, 739
AclWI	GGATC	1 cut(s)	749
AcoI	YGGCCR	2 cut(s)	63, 1015
AcsI	RAATTY	3 cut(s)	377, 451, 838
AcuI	CTGAAG	1 cut(s)	164
AcyI	GRCGYC	1 cut(s)	98
AfiI	CCNNNNNNNGG	1 cut(s)	1024
AgsI	TTSAA	3 cut(s)	556, 871, 1003
AhlI	ACTAGT	1 cut(s)	125
AjiI	CACGTC	1 cut(s)	847
AjnI	CCWGG	1 cut(s)	326
AluBI	AGCT	7 cut(s)	18, 178, 239, 278, 584, 753, 992
AluI	AGCT	7 cut(s)	18, 178, 239, 278, 584, 753, 992
Alw21I	GWGCWC	2 cut(s)	20, 339
Alw26I	GTCTC	3 cut(s)	215, 310, 1072
AlwI	GGATC	1 cut(s)	749
AoxI	GGCC	4 cut(s)	3, 63, 201, 1015
ApeKI	GCWGC	1 cut(s)	474
ApoI	RAATTY	3 cut(s)	377, 451, 838
AspS9I	GGNCC	2 cut(s)	53, 444
AsuHPI	GGTGA	1 cut(s)	679
AvaII	GGWCC	2 cut(s)	53, 444
BaeGI	GKGCMC	1 cut(s)	91
BalI	TGGCCA	1 cut(s)	1017
BanII	GRGCYC	1 cut(s)	20
Bbv12I	GWGCWC	2 cut(s)	20, 339
BbvI	GCAGC	1 cut(s)	486
BccI	CCATC	4 cut(s)	111, 366, 382, 607
BciT130I	CCWGG	1 cut(s)	328
BciVI	GTATCC	1 cut(s)	850
BcoDI	GTCTC	3 cut(s)	215, 310, 1072
BcuI	ACTAGT	1 cut(s)	125
BfaI	CTAG	3 cut(s)	126, 144, 149
BfuAI	ACCTGC	2 cut(s)	64, 785
BfuI	GTATCC	1 cut(s)	850
BisI	GCNGC	1 cut(s)	475
BlpI	GCTNAGC	1 cut(s)	413
BlsI	GCNGC	1 cut(s)	476
Bme1390I	CCNGG	1 cut(s)	328
Bme18I	GGWCC	2 cut(s)	53, 444
BmgBI	CACGTC	1 cut(s)	847
BmgT120I	GGNCC	2 cut(s)	53, 444
BmiI	GGNNCC	1 cut(s)	310
BmrFI	CCNGG	1 cut(s)	328
BmsI	GCATC	2 cut(s)	874, 893
Bpu1102I	GCTNAGC	1 cut(s)	413
BpuEI	CTTGAG	2 cut(s)	34, 950
BsaHI	GRCGYC	1 cut(s)	98
BsaI	GGTCTC	1 cut(s)	215
BsaJI	CCNNGG	3 cut(s)	49, 204, 326
BsaXI	ACNNNNNCTCC	2 cut(s)	701, 731
Bsc4I	CCNNNNNNNGG	1 cut(s)	1024
Bse118I	RCCGGY	1 cut(s)	37
Bse1I	ACTGG	1 cut(s)	1018
Bse3DI	GCAATG	1 cut(s)	414
BseBI	CCWGG	1 cut(s)	328
BseDI	CCNNGG	3 cut(s)	49, 204, 326
BseGI	GGATG	3 cut(s)	103, 908, 956
BseLI	CCNNNNNNNGG	1 cut(s)	1024
BseMI	GCAATG	1 cut(s)	414
BseNI	ACTGG	1 cut(s)	1018
BseRI	GAGGAG	2 cut(s)	233, 554
BseSI	GKGCMC	1 cut(s)	91
BseXI	GCAGC	1 cut(s)	486
BseYI	CCCAGC	3 cut(s)	584, 689, 898
BsgI	GTGCAG	1 cut(s)	150
Bsh1285I	CGRYCG	1 cut(s)	261
BshFI	GGCC	4 cut(s)	5, 65, 203, 1017
BsiEI	CGRYCG	1 cut(s)	261
BsiHKAI	GWGCWC	2 cut(s)	20, 339
BsiSI	CCGG	3 cut(s)	38, 62, 528
BslI	CCNNNNNNNGG	1 cut(s)	1024
BsmAI	GTCTC	3 cut(s)	215, 310, 1072
BsnI	GGCC	4 cut(s)	5, 65, 203, 1017
Bso31I	GGTCTC	1 cut(s)	215
Bsp1286I	GDGCHC	3 cut(s)	20, 91, 339
Bsp143I	GATC	2 cut(s)	741, 966
Bsp1720I	GCTNAGC	1 cut(s)	413
BspACI	CCGC	3 cut(s)	75, 268, 739
BspANI	GGCC	4 cut(s)	5, 65, 203, 1017
BspHI	TCATGA	1 cut(s)	546
BspLI	GGNNCC	1 cut(s)	310
BspMI	ACCTGC	2 cut(s)	64, 785
BspPI	GGATC	1 cut(s)	749
BspTNI	GGTCTC	1 cut(s)	215
BsrBI	CCGCTC	1 cut(s)	739
BsrDI	GCAATG	1 cut(s)	414
BsrFI	RCCGGY	1 cut(s)	37
BsrI	ACTGG	1 cut(s)	1018
BssAI	RCCGGY	1 cut(s)	37
BssECI	CCNNGG	3 cut(s)	49, 204, 326
BssMI	GATC	2 cut(s)	741, 966
BssNI	GRCGYC	1 cut(s)	98
BssT1I	CCWWGG	1 cut(s)	204
Bst2UI	CCWGG	1 cut(s)	328
Bst4CI	ACNGT	3 cut(s)	334, 524, 862
BstACI	GRCGYC	1 cut(s)	98
BstDEI	CTNAG	1 cut(s)	413
BstF5I	GGATG	3 cut(s)	103, 908, 956
BstKTI	GATC	2 cut(s)	744, 969
BstMAI	GTCTC	3 cut(s)	215, 310, 1072
BstMBI	GATC	2 cut(s)	741, 966
BstMCI	CGRYCG	1 cut(s)	261
BstMWI	GCNNNNNNNGC	2 cut(s)	149, 184
BstNI	CCWGG	1 cut(s)	328
BstNSI	RCATGY	1 cut(s)	625
BstSCI	CCNGG	1 cut(s)	326
BstSLI	GKGCMC	1 cut(s)	91
BstV1I	GCAGC	1 cut(s)	486
BsuI	GTATCC	1 cut(s)	850
BsuRI	GGCC	4 cut(s)	5, 65, 203, 1017
BtgZI	GCGATG	1 cut(s)	385
BtrI	CACGTC	1 cut(s)	847
BtsCI	GGATG	3 cut(s)	103, 908, 956
BtsI	GCAGTG	2 cut(s)	360, 484
BtsIMutI	CAGTG	3 cut(s)	360, 484, 529
BveI	ACCTGC	2 cut(s)	64, 785
CciI	TCATGA	1 cut(s)	546
Cfr10I	RCCGGY	1 cut(s)	37
Cfr13I	GGNCC	2 cut(s)	53, 444
CseI	GACGC	2 cut(s)	106, 683
CviAII	CATG	8 cut(s)	350, 448, 547, 622, 642, 982, 1019, 1034
DdeI	CTNAG	1 cut(s)	413
DpnI	GATC	2 cut(s)	743, 968
DpnII	GATC	2 cut(s)	741, 966
EaeI	YGGCCR	2 cut(s)	63, 1015
Ecl136II	GAGCTC	1 cut(s)	18
Eco130I	CCWWGG	1 cut(s)	204
Eco24I	GRGCYC	1 cut(s)	20
Eco31I	GGTCTC	1 cut(s)	215
Eco47I	GGWCC	2 cut(s)	53, 444
Eco53kI	GAGCTC	1 cut(s)	18
Eco57I	CTGAAG	1 cut(s)	164
EcoICRI	GAGCTC	1 cut(s)	18
EcoO109I	RGGNCCY	1 cut(s)	53
EcoRI	GAATTC	2 cut(s)	451, 838
EcoRII	CCWGG	1 cut(s)	326
EcoT14I	CCWWGG	1 cut(s)	204
EcoT38I	GRGCYC	1 cut(s)	20
ErhI	CCWWGG	1 cut(s)	204
FaeI	CATG	8 cut(s)	353, 451, 550, 625, 645, 985, 1022, 1037
FatI	CATG	8 cut(s)	349, 447, 546, 621, 641, 981, 1018, 1033
FauI	CCCGC	1 cut(s)	82
FauNDI	CATATG	1 cut(s)	574
FblI	GTMKAC	1 cut(s)	395
Fnu4HI	GCNGC	1 cut(s)	475
FokI	GGATG	3 cut(s)	90, 915, 963
FriOI	GRGCYC	1 cut(s)	20
Fsp4HI	GCNGC	1 cut(s)	475
FspBI	CTAG	3 cut(s)	126, 144, 149
GluI	GCNGC	1 cut(s)	475
GsaI	CCCAGC	3 cut(s)	588, 693, 902
HaeIII	GGCC	4 cut(s)	5, 65, 203, 1017
HapII	CCGG	3 cut(s)	38, 62, 528
HgaI	GACGC	2 cut(s)	106, 683
Hin1I	GRCGYC	1 cut(s)	98
Hin1II	CATG	8 cut(s)	353, 451, 550, 625, 645, 985, 1022, 1037
HincII	GTYRAC	1 cut(s)	396
HindII	GTYRAC	1 cut(s)	396
HindIII	AAGCTT	1 cut(s)	990
HinfI	GANTC	4 cut(s)	357, 392, 531, 569
HpaII	CCGG	3 cut(s)	38, 62, 528
HphI	GGTGA	1 cut(s)	679
Hpy166II	GTNNAC	2 cut(s)	396, 800
Hpy188I	TCNGA	5 cut(s)	183, 246, 736, 844, 1062
Hpy188III	TCNNGA	5 cut(s)	13, 295, 442, 547, 959
Hpy8I	GTNNAC	2 cut(s)	396, 800
Hpy99I	CGWCG	1 cut(s)	100
HpyAV	CCTTC	2 cut(s)	913, 1018
HpyCH4III	ACNGT	3 cut(s)	334, 524, 862
HpyCH4IV	ACGT	2 cut(s)	826, 846
HpyCH4V	TGCA	4 cut(s)	131, 383, 625, 1045
HpyF10VI	GCNNNNNNNGC	2 cut(s)	149, 184
HpyF3I	CTNAG	1 cut(s)	413
HpySE526I	ACGT	2 cut(s)	826, 846
Hsp92I	GRCGYC	1 cut(s)	98
Hsp92II	CATG	8 cut(s)	353, 451, 550, 625, 645, 985, 1022, 1037
Kzo9I	GATC	2 cut(s)	741, 966
LmnI	GCTCC	3 cut(s)	23, 64, 314
Lsp1109I	GCAGC	1 cut(s)	486
LweI	GCATC	2 cut(s)	874, 893
MaeI	CTAG	3 cut(s)	126, 144, 149
MaeII	ACGT	2 cut(s)	826, 846
MaeIII	GTNAC	4 cut(s)	154, 652, 757, 1071
MalI	GATC	2 cut(s)	743, 968
MbiI	CCGCTC	1 cut(s)	739
MboI	GATC	2 cut(s)	741, 966
MboII	GAAGA	2 cut(s)	310, 313
MfeI	CAATTG	1 cut(s)	871
MhlI	GDGCHC	3 cut(s)	20, 91, 339
MlsI	TGGCCA	1 cut(s)	1017
MluCI	AATT	7 cut(s)	252, 377, 451, 589, 810, 838, 871
MluNI	TGGCCA	1 cut(s)	1017
MlyI	GAGTC	1 cut(s)	401
MmeI	TCCRAC	1 cut(s)	559
Mox20I	TGGCCA	1 cut(s)	1017
MscI	TGGCCA	1 cut(s)	1017
MseI	TTAA	3 cut(s)	45, 698, 987
MslI	CAYNNNNRTG	1 cut(s)	914
Msp20I	TGGCCA	1 cut(s)	1017
MspI	CCGG	3 cut(s)	38, 62, 528
MspR9I	CCNGG	1 cut(s)	328
MunI	CAATTG	1 cut(s)	871
MvaI	CCWGG	1 cut(s)	328
MwoI	GCNNNNNNNGC	2 cut(s)	149, 184
NdeI	CATATG	1 cut(s)	574
NdeII	GATC	2 cut(s)	741, 966
NlaIII	CATG	8 cut(s)	353, 451, 550, 625, 645, 985, 1022, 1037
NlaIV	GGNNCC	1 cut(s)	310
NmuCI	GTSAC	2 cut(s)	757, 1071
NspI	RCATGY	1 cut(s)	625
PagI	TCATGA	1 cut(s)	546
PfeI	GAWTC	3 cut(s)	357, 531, 569
PflFI	GACNNNGTC	1 cut(s)	1069
PkrI	GCNGC	1 cut(s)	476
PleI	GAGTC	1 cut(s)	400
PpsI	GAGTC	1 cut(s)	400
PpuMI	RGGWCCY	1 cut(s)	53
PsiI	TTATAA	1 cut(s)	594
Psp124BI	GAGCTC	1 cut(s)	20
Psp5II	RGGWCCY	1 cut(s)	53
Psp6I	CCWGG	1 cut(s)	326
PspFI	CCCAGC	3 cut(s)	584, 689, 898
PspGI	CCWGG	1 cut(s)	326
PspN4I	GGNNCC	1 cut(s)	310
PspPI	GGNCC	2 cut(s)	53, 444
PspPPI	RGGWCCY	1 cut(s)	53
PsyI	GACNNNGTC	1 cut(s)	1069
RseI	CAYNNNNRTG	1 cut(s)	914
SacI	GAGCTC	1 cut(s)	20
SalI	GTCGAC	1 cut(s)	394
SaqAI	TTAA	3 cut(s)	45, 698, 987
SatI	GCNGC	1 cut(s)	475
Sau3AI	GATC	2 cut(s)	741, 966
Sau96I	GGNCC	2 cut(s)	53, 444
SchI	GAGTC	1 cut(s)	401
ScrFI	CCNGG	1 cut(s)	328
SduI	GDGCHC	3 cut(s)	20, 91, 339
SfaNI	GCATC	2 cut(s)	874, 893
SgrAI	CRCCGGYG	1 cut(s)	37
SinI	GGWCC	2 cut(s)	53, 444
SmiMI	CAYNNNNRTG	1 cut(s)	914
SmlI	CTYRAG	2 cut(s)	13, 929
SmoI	CTYRAG	2 cut(s)	13, 929
SpeI	ACTAGT	1 cut(s)	125
Sse9I	AATT	7 cut(s)	252, 377, 451, 589, 810, 838, 871
SsiI	CCGC	3 cut(s)	75, 268, 739
SspMI	CTAG	3 cut(s)	126, 144, 149
SstI	GAGCTC	1 cut(s)	20
StyD4I	CCNGG	1 cut(s)	326
StyI	CCWWGG	1 cut(s)	204
TaaI	ACNGT	3 cut(s)	334, 524, 862
TaiI	ACGT	2 cut(s)	829, 849
TaqI	TCGA	4 cut(s)	294, 339, 395, 567
TaqII	GACCGA	1 cut(s)	247
TasI	AATT	7 cut(s)	252, 377, 451, 589, 810, 838, 871
TfiI	GAWTC	3 cut(s)	357, 531, 569
Tru1I	TTAA	3 cut(s)	45, 698, 987
Tru9I	TTAA	3 cut(s)	45, 698, 987
TscAI	CASTG	3 cut(s)	367, 484, 529
TseFI	GTSAC	2 cut(s)	757, 1071
TseI	GCWGC	1 cut(s)	474
Tsp45I	GTSAC	2 cut(s)	757, 1071
TspDTI	ATGAA	6 cut(s)	464, 561, 932, 953, 987, 1050
TspGWI	ACGGA	1 cut(s)	445
TspRI	CASTG	3 cut(s)	367, 484, 529
Tth111I	GACNNNGTC	1 cut(s)	1069
VpaK11BI	GGWCC	2 cut(s)	53, 444
XapI	RAATTY	3 cut(s)	377, 451, 838
XceI	RCATGY	1 cut(s)	625
XmiI	GTMKAC	1 cut(s)	395
XspI	CTAG	3 cut(s)	126, 144, 149

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