Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0001526

Physical Location & Seq

Genomic Coordinates Forward (+)

43802069 .. 43805042

Gene Structure 2974 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG396200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1149 bp

ATGTTATGTTTAATCTTTCAGGTTTTTGAACTCCTACAAGAGCAGCTCTGGTACCGGCCCAATCCTGGTGTCTACAATAAGCTAATTGTCATGCTAGGAAAATGTAAACAACCAGAAAAAGCTGAGGAGCTTTTTCAAGCTATGATTGACGAAGGCTGTGGTGTCAGCCATGAATCTTATACTGCTCTTATATCTGCCTATGGTAGGAGCAGTCTCTTTGACAAAGCATTTTCCCTCCTTGAGCAGATGAAGAATACTCCTGACTGCCAGCCTGACGTCCATACTTATTCTATCCTCATAAAATCTTGCCTGCAGGTTTTTGCATATGACAAAGTGCAGGCTATGCTTTCAGATATGGAAATTCAGCACATTAGACCGAACACCATCACATACAATACCCTGATCGATGCTTACGGGAAATCTAAAAAATTTGCAGAGATGGAGTCGACACTTGTGGCAATGCTTAGCCAACAGGATTGTGAGCCTGATGTCTGGACCATGAATTCTGTAGTGAGAGCCTTTGGCAGCAGTGGGCAAATAGAAACAATGGAGAAATGTTTTGAGAAGTTCCACAGTGCCGGAATCCAACCAAACATCATGACTTTCAACATTCTCCTCGATTCCTATGGAAAAGCTGGGAATTGTAAAAAAATGAGTGCTGTGATGGAATACATGCAGAAATACCATTACTCATGGACAATCGTTACATACAATGTGGTGATAGATGCATTTGGGAGGGCTGGGGATTTAACACAAATGGAGTATCTGTTTAGGCTAATGCGGTCAGAGCGGATCAAACCAAGCTGTGTCACACTTTGCTCACTCGTAAGGGCTTATGGGAAAGCAGGTAAACCTGAAAAAATTAGTGGTGTTTTACGTTTTGTGGAGAATTCAGACGTGATATTGGATACTGTGTTTTTCAATTGTCTGGTTGATGCTTATGGGAGGCTGGGATGCTTCACAGAAATGAAGGGGGTGCTTGAGATAATGAAGCAAAAAGGATGTTCTCCTGATAAGATCACATATAGAACCATGATTAAAGCTTATTCATTTAACAATATGACTGGCCATGTAAAGGAACTCCATGAACTTATGCAATCGGCAGGAAGTCAGATGACTTGGTCACAGAGACAAAAACCTGACTTTTGA

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

382

Amino Acids

43.6

Weight (kDa)

7.01

Isoelectric Point (pI)

34.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	20 - 67	5.4e-07	PPR repeat family
PPR_2	PF13041	59 - 103	4.5e-12	PPR repeat family
PPR	PF01535	59 - 84	2.1e-06	PPR repeat
PPR_3	PF13812	79 - 140	1.4e-09	Pentatricopeptide repeat domain
PPR_long	PF17177	107 - 239	9.9e-07	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	126 - 174	2.3e-08	PPR repeat family
PPR_3	PF13812	155 - 211	7.6e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	162 - 210	2.3e-08	PPR repeat family
PPR_3	PF13812	187 - 245	2.1e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	234 - 280	4.3e-08	PPR repeat family
TPR_24	PF23276	280 - 351	1.3e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	303 - 349	4.8e-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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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)
AatII	GACGTC	1 cut(s)	279
Acc36I	ACCTGC	2 cut(s)	304, 836
Acc65I	GGTACC	1 cut(s)	51
AccB1I	GGYRCC	1 cut(s)	51
AccBSI	CCGCTC	1 cut(s)	790
AccI	GTMKAC	2 cut(s)	72, 446
AciI	CCGC	2 cut(s)	781, 790
AclWI	GGATC	1 cut(s)	800
AcoI	YGGCCR	1 cut(s)	1066
AcsI	RAATTY	4 cut(s)	360, 428, 502, 889
AcyI	GRCGYC	1 cut(s)	276
AfaI	GTAC	1 cut(s)	53
AfiI	CCNNNNNNNGG	3 cut(s)	65, 204, 1075
AgsI	TTSAA	4 cut(s)	29, 137, 607, 922
AjiI	CACGTC	1 cut(s)	898
AjnI	CCWGG	1 cut(s)	64
AluBI	AGCT	8 cut(s)	46, 82, 122, 130, 140, 635, 804, 1043
AluI	AGCT	8 cut(s)	46, 82, 122, 130, 140, 635, 804, 1043
Alw26I	GTCTC	2 cut(s)	218, 1123
AlwI	GGATC	1 cut(s)	800
AoxI	GGCC	2 cut(s)	56, 1066
ApeKI	GCWGC	2 cut(s)	43, 525
ApoI	RAATTY	4 cut(s)	360, 428, 502, 889
Asp718I	GGTACC	1 cut(s)	51
AspS9I	GGNCC	2 cut(s)	57, 495
AsuHPI	GGTGA	1 cut(s)	730
AvaII	GGWCC	1 cut(s)	495
BalI	TGGCCA	1 cut(s)	1068
BanI	GGYRCC	1 cut(s)	51
BbvCI	CCTCAGC	1 cut(s)	123
BbvI	GCAGC	2 cut(s)	55, 537
BccI	CCATC	3 cut(s)	392, 433, 658
BciT130I	CCWGG	1 cut(s)	66
BciVI	GTATCC	1 cut(s)	901
BcoDI	GTCTC	2 cut(s)	218, 1123
BfaI	CTAG	1 cut(s)	95
BfmI	CTRYAG	2 cut(s)	311, 507
BfuAI	ACCTGC	2 cut(s)	304, 836
BfuI	GTATCC	1 cut(s)	901
BisI	GCNGC	2 cut(s)	44, 526
BlpI	GCTNAGC	1 cut(s)	464
BlsI	GCNGC	2 cut(s)	45, 527
Bme1390I	CCNGG	1 cut(s)	66
Bme18I	GGWCC	1 cut(s)	495
BmgBI	CACGTC	1 cut(s)	898
BmgT120I	GGNCC	2 cut(s)	57, 495
BmiI	GGNNCC	1 cut(s)	53
BmrFI	CCNGG	1 cut(s)	66
BmsI	GCATC	4 cut(s)	397, 715, 925, 944
Bpu10I	CCTNAGC	1 cut(s)	123
Bpu1102I	GCTNAGC	1 cut(s)	464
BpuEI	CTTGAG	2 cut(s)	260, 1001
Bsa29I	ATCGAT	1 cut(s)	405
BsaHI	GRCGYC	1 cut(s)	276
BsaXI	ACNNNNNCTCC	2 cut(s)	752, 782
Bsc4I	CCNNNNNNNGG	3 cut(s)	65, 204, 1075
Bse118I	RCCGGY	1 cut(s)	54
Bse1I	ACTGG	1 cut(s)	1069
Bse3DI	GCAATG	1 cut(s)	465
BseBI	CCWGG	1 cut(s)	66
BseCI	ATCGAT	1 cut(s)	405
BseGI	GGATG	2 cut(s)	959, 1007
BseLI	CCNNNNNNNGG	3 cut(s)	65, 204, 1075
BseMI	GCAATG	1 cut(s)	465
BseMII	CTCAG	1 cut(s)	114
BseNI	ACTGG	1 cut(s)	1069
BseRI	GAGGAG	2 cut(s)	140, 605
BseXI	GCAGC	2 cut(s)	55, 537
BseYI	CCCAGC	3 cut(s)	635, 740, 949
BsgI	GTGCAG	1 cut(s)	356
BshFI	GGCC	2 cut(s)	58, 1068
BshNI	GGYRCC	1 cut(s)	51
BshVI	ATCGAT	1 cut(s)	405
BsiSI	CCGG	2 cut(s)	55, 579
BslI	CCNNNNNNNGG	3 cut(s)	65, 204, 1075
BsmAI	GTCTC	2 cut(s)	218, 1123
BsnI	GGCC	2 cut(s)	58, 1068
Bsp143I	GATC	3 cut(s)	402, 792, 1017
Bsp1720I	GCTNAGC	1 cut(s)	464
BspACI	CCGC	2 cut(s)	781, 790
BspANI	GGCC	2 cut(s)	58, 1068
BspCNI	CTCAG	1 cut(s)	115
BspDI	ATCGAT	1 cut(s)	405
BspHI	TCATGA	1 cut(s)	597
BspLI	GGNNCC	1 cut(s)	53
BspMAI	CTGCAG	1 cut(s)	315
BspMI	ACCTGC	2 cut(s)	304, 836
BspPI	GGATC	1 cut(s)	800
BspT107I	GGYRCC	1 cut(s)	51
BsrBI	CCGCTC	1 cut(s)	790
BsrDI	GCAATG	1 cut(s)	465
BsrFI	RCCGGY	1 cut(s)	54
BsrI	ACTGG	1 cut(s)	1069
BssAI	RCCGGY	1 cut(s)	54
BssMI	GATC	3 cut(s)	402, 792, 1017
BssNI	GRCGYC	1 cut(s)	276
Bst2UI	CCWGG	1 cut(s)	66
Bst4CI	ACNGT	2 cut(s)	575, 913
BstACI	GRCGYC	1 cut(s)	276
BstAPI	GCANNNNNTGC	1 cut(s)	343
BstC8I	GCNNGC	3 cut(s)	269, 311, 339
BstDEI	CTNAG	2 cut(s)	123, 464
BstENI	CCTNNNNNAGG	1 cut(s)	202
BstF5I	GGATG	2 cut(s)	959, 1007
BstKTI	GATC	3 cut(s)	405, 795, 1020
BstMAI	GTCTC	2 cut(s)	218, 1123
BstMBI	GATC	3 cut(s)	402, 792, 1017
BstMWI	GCNNNNNNNGC	2 cut(s)	343, 787
BstNI	CCWGG	1 cut(s)	66
BstNSI	RCATGY	1 cut(s)	676
BstSCI	CCNGG	1 cut(s)	64
BstSFI	CTRYAG	2 cut(s)	311, 507
BstV1I	GCAGC	2 cut(s)	55, 537
Bsu15I	ATCGAT	1 cut(s)	405
BsuI	GTATCC	1 cut(s)	901
BsuRI	GGCC	2 cut(s)	58, 1068
BsuTUI	ATCGAT	1 cut(s)	405
BtrI	CACGTC	1 cut(s)	898
BtsCI	GGATG	2 cut(s)	959, 1007
BtsI	GCAGTG	1 cut(s)	535
BtsIMutI	CAGTG	2 cut(s)	535, 580
BveI	ACCTGC	2 cut(s)	304, 836
Cac8I	GCNNGC	3 cut(s)	269, 311, 339
CciI	TCATGA	1 cut(s)	597
Cfr10I	RCCGGY	1 cut(s)	54
Cfr13I	GGNCC	2 cut(s)	57, 495
ClaI	ATCGAT	1 cut(s)	405
Csp6I	GTAC	1 cut(s)	52
CviAII	CATG	9 cut(s)	91, 170, 499, 598, 673, 693, 1033, 1070, 1085
CviQI	GTAC	1 cut(s)	52
DdeI	CTNAG	2 cut(s)	123, 464
DpnI	GATC	3 cut(s)	404, 794, 1019
DpnII	GATC	3 cut(s)	402, 792, 1017
EaeI	YGGCCR	1 cut(s)	1066
Eco47I	GGWCC	1 cut(s)	495
EcoNI	CCTNNNNNAGG	1 cut(s)	202
EcoRI	GAATTC	2 cut(s)	502, 889
EcoRII	CCWGG	1 cut(s)	64
EcoT22I	ATGCAT	1 cut(s)	730
FaeI	CATG	9 cut(s)	94, 173, 502, 601, 676, 696, 1036, 1073, 1088
FatI	CATG	9 cut(s)	90, 169, 498, 597, 672, 692, 1032, 1069, 1084
FauNDI	CATATG	1 cut(s)	325
FblI	GTMKAC	2 cut(s)	72, 446
Fnu4HI	GCNGC	2 cut(s)	44, 526
FokI	GGATG	2 cut(s)	966, 1014
Fsp4HI	GCNGC	2 cut(s)	44, 526
FspBI	CTAG	1 cut(s)	95
GluI	GCNGC	2 cut(s)	44, 526
GsaI	CCCAGC	3 cut(s)	639, 744, 953
HaeIII	GGCC	2 cut(s)	58, 1068
HapII	CCGG	2 cut(s)	55, 579
Hin1I	GRCGYC	1 cut(s)	276
Hin1II	CATG	9 cut(s)	94, 173, 502, 601, 676, 696, 1036, 1073, 1088
HincII	GTYRAC	1 cut(s)	447
HindII	GTYRAC	1 cut(s)	447
HindIII	AAGCTT	1 cut(s)	1041
HinfI	GANTC	4 cut(s)	173, 443, 582, 620
HpaII	CCGG	2 cut(s)	55, 579
HphI	GGTGA	1 cut(s)	730
Hpy166II	GTNNAC	4 cut(s)	73, 107, 447, 851
Hpy188I	TCNGA	4 cut(s)	352, 787, 895, 1113
Hpy188III	TCNNGA	4 cut(s)	260, 493, 598, 1010
Hpy8I	GTNNAC	4 cut(s)	73, 107, 447, 851
HpyAV	CCTTC	2 cut(s)	146, 964
HpyCH4III	ACNGT	2 cut(s)	575, 913
HpyCH4IV	ACGT	3 cut(s)	276, 877, 897
HpyCH4V	TGCA	7 cut(s)	313, 323, 337, 434, 676, 728, 1096
HpyF10VI	GCNNNNNNNGC	2 cut(s)	343, 787
HpyF3I	CTNAG	2 cut(s)	123, 464
HpySE526I	ACGT	3 cut(s)	276, 877, 897
Hsp92I	GRCGYC	1 cut(s)	276
Hsp92II	CATG	9 cut(s)	94, 173, 502, 601, 676, 696, 1036, 1073, 1088
KpnI	GGTACC	1 cut(s)	55
Kzo9I	GATC	3 cut(s)	402, 792, 1017
LmnI	GCTCC	2 cut(s)	127, 207
Lsp1109I	GCAGC	2 cut(s)	55, 537
LweI	GCATC	4 cut(s)	397, 715, 925, 944
MaeI	CTAG	1 cut(s)	95
MaeII	ACGT	3 cut(s)	276, 877, 897
MaeIII	GTNAC	3 cut(s)	703, 808, 1122
MalI	GATC	3 cut(s)	404, 794, 1019
MbiI	CCGCTC	1 cut(s)	790
MboI	GATC	3 cut(s)	402, 792, 1017
MboII	GAAGA	1 cut(s)	262
MfeI	CAATTG	1 cut(s)	922
MlsI	TGGCCA	1 cut(s)	1068
MluCI	AATT	8 cut(s)	84, 360, 428, 502, 640, 861, 889, 922
MluNI	TGGCCA	1 cut(s)	1068
MlyI	GAGTC	1 cut(s)	452
MmeI	TCCRAC	1 cut(s)	610
MnlI	CCTC	6 cut(s)	118, 245, 305, 626, 729, 939
Mox20I	TGGCCA	1 cut(s)	1068
Mph1103I	ATGCAT	1 cut(s)	730
MscI	TGGCCA	1 cut(s)	1068
MseI	TTAA	4 cut(s)	11, 749, 1038, 1053
MslI	CAYNNNNRTG	1 cut(s)	965
Msp20I	TGGCCA	1 cut(s)	1068
MspI	CCGG	2 cut(s)	55, 579
MspR9I	CCNGG	1 cut(s)	66
MunI	CAATTG	1 cut(s)	922
MvaI	CCWGG	1 cut(s)	66
MwoI	GCNNNNNNNGC	2 cut(s)	343, 787
NdeI	CATATG	1 cut(s)	325
NdeII	GATC	3 cut(s)	402, 792, 1017
NlaIII	CATG	9 cut(s)	94, 173, 502, 601, 676, 696, 1036, 1073, 1088
NlaIV	GGNNCC	1 cut(s)	53
NmuCI	GTSAC	2 cut(s)	808, 1122
NsiI	ATGCAT	1 cut(s)	730
NspI	RCATGY	1 cut(s)	676
PagI	TCATGA	1 cut(s)	597
PfeI	GAWTC	3 cut(s)	173, 582, 620
PflFI	GACNNNGTC	1 cut(s)	1120
PkrI	GCNGC	2 cut(s)	45, 527
PleI	GAGTC	1 cut(s)	451
PpsI	GAGTC	1 cut(s)	451
Psp6I	CCWGG	1 cut(s)	64
PspFI	CCCAGC	3 cut(s)	635, 740, 949
PspGI	CCWGG	1 cut(s)	64
PspN4I	GGNNCC	1 cut(s)	53
PspPI	GGNCC	2 cut(s)	57, 495
PstI	CTGCAG	1 cut(s)	315
PsyI	GACNNNGTC	1 cut(s)	1120
RsaI	GTAC	1 cut(s)	53
RsaNI	GTAC	1 cut(s)	52
RseI	CAYNNNNRTG	1 cut(s)	965
SalI	GTCGAC	1 cut(s)	445
SaqAI	TTAA	4 cut(s)	11, 749, 1038, 1053
SatI	GCNGC	2 cut(s)	44, 526
Sau3AI	GATC	3 cut(s)	402, 792, 1017
Sau96I	GGNCC	2 cut(s)	57, 495
SbfI	CCTGCAGG	1 cut(s)	315
SchI	GAGTC	1 cut(s)	452
ScrFI	CCNGG	1 cut(s)	66
SdaI	CCTGCAGG	1 cut(s)	315
SfaNI	GCATC	4 cut(s)	397, 715, 925, 944
SfcI	CTRYAG	2 cut(s)	311, 507
SinI	GGWCC	1 cut(s)	495
SmiMI	CAYNNNNRTG	1 cut(s)	965
SmlI	CTYRAG	2 cut(s)	239, 980
SmoI	CTYRAG	2 cut(s)	239, 980
Sse8387I	CCTGCAGG	1 cut(s)	315
Sse9I	AATT	8 cut(s)	84, 360, 428, 502, 640, 861, 889, 922
SsiI	CCGC	2 cut(s)	781, 790
SspMI	CTAG	1 cut(s)	95
StyD4I	CCNGG	1 cut(s)	64
TaaI	ACNGT	2 cut(s)	575, 913
TaiI	ACGT	3 cut(s)	279, 880, 900
TaqI	TCGA	3 cut(s)	405, 446, 618
TaqII	GACCGA	1 cut(s)	391
TasI	AATT	8 cut(s)	84, 360, 428, 502, 640, 861, 889, 922
TfiI	GAWTC	3 cut(s)	173, 582, 620
Tru1I	TTAA	4 cut(s)	11, 749, 1038, 1053
Tru9I	TTAA	4 cut(s)	11, 749, 1038, 1053
TscAI	CASTG	2 cut(s)	535, 580
TseFI	GTSAC	2 cut(s)	808, 1122
TseI	GCWGC	2 cut(s)	43, 525
Tsp45I	GTSAC	2 cut(s)	808, 1122
TspDTI	ATGAA	7 cut(s)	186, 263, 515, 983, 1004, 1038, 1101
TspRI	CASTG	2 cut(s)	535, 580
Tth111I	GACNNNGTC	1 cut(s)	1120
VpaK11BI	GGWCC	1 cut(s)	495
XagI	CCTNNNNNAGG	1 cut(s)	202
XapI	RAATTY	4 cut(s)	360, 428, 502, 889
XceI	RCATGY	1 cut(s)	676
XmiI	GTMKAC	2 cut(s)	72, 446
XspI	CTAG	1 cut(s)	95
ZraI	GACGTC	1 cut(s)	277
Zsp2I	ATGCAT	1 cut(s)	730

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