Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001526

Physical Location & Seq

Genomic Coordinates Forward (+)

56720880 .. 56724057

Gene Structure 3178 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG421500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGTTATTTACTGATCAAGGAATCGTTCATTTAAGATATGTTATGTTTAATCTTCAGGTTTTTGAACTGCTGCAAGAGCAGCTCTGGTACCGGCCCAATCCTGGTGTTTACAATAAGCTAATTGTCATGCTAGGAAAATGTAAACAACCAGAAAAAGCTGAGGAGCTTTTTCAAGCTATGATTGACGAAGGCTGTGGTGTCAGCCATGAATCTATTACTGCTCTTATATCTGCCTATGGTAGGAGCAGTCTCTTTGACAAAGCATTTTCCCTCCTTGAGCAGATGAAGAATACTCCTGACTGCCAGCCTGATGTCCATACTTATTCTATCCTCATAAAATCTTGCCTGCAGGTTTTTGCATATGACAAAGTGCAGGCTCTGCTTTCAGATATGGAAATTCAGCACATTAGACCAAACACCATCACATACAATACCCTGATCGATGCTTACGGGAAATCTAAAAAATTTGCAGAGATGGAGTCGACACTTGTGGCAATGCTTAGCCAACAGGATTGTGAGCCTGATGTCTGGACCATGAATTCCGTAGTGAGAGCCTTTGGCAGCAGTGGGCAAATAGAAACAATGGAGAAATGTTTTGAGAAGTTCCACAGTGCCGGAATCCAACCAAACATCATGACTTTCAACGTTCTCCTTGATTCATATGGAAAAGCTGGGAATTATAAAAAAATGAGTGCTGTGATGGAATACATGCAGAAATACCATTACTCATGGACAATCGTTACATACAATGTGGTGATAGATGCATTTGGGAGGGCTGGGGATTTAACACAAATGGAGTATCTGTTTAGGCTAATGGGGTCAGAGCGGATCAAACCAAGCTGTGTCACACTTTGCTCACTCGTAAGGGCTTATGGGAAAGCAGGTAAACCTGAAAAAATTAGTGGTGTTTTACGTTTTGTGGAGAATTCAGACGTGATATTGGATACTGTGTTTTTCAATTGTCTGGTTGATGCTTATGGGAGGCTGGGATGCTTCACAGAAATGAAGGGGGTGCTTGAGATAATGAAGCAAAAAGGATGTTCTCCTGATAAGATCACATATAGAACCATGATTAAAGCTTATTCATTCAACAATATGACTGGCCATGTGAAGGAACTCCATGAACTTATGCAATCGGCAGGAAGTCAGATGACTTGGTCACAGAGACAAAAACCTGACTTTTGA

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

394

Amino Acids

44.93

Weight (kDa)

6.71

Isoelectric Point (pI)

31.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	72 - 115	1e-10	PPR repeat family
PPR_3	PF13812	91 - 152	1.8e-09	Pentatricopeptide repeat domain
PPR_long	PF17177	119 - 250	2.6e-06	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	138 - 186	2.5e-08	PPR repeat family
PPR_3	PF13812	167 - 223	4.2e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	174 - 222	7.3e-08	PPR repeat family
PPR_3	PF13812	199 - 257	2.3e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	246 - 292	2.4e-07	PPR repeat family
TPR_24	PF23276	292 - 363	1.4e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	315 - 361	5.1e-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)	681
Acc36I	ACCTGC	2 cut(s)	340, 872
Acc65I	GGTACC	1 cut(s)	87
AccB1I	GGYRCC	1 cut(s)	87
AccBSI	CCGCTC	1 cut(s)	826
AccI	GTMKAC	1 cut(s)	482
AciI	CCGC	1 cut(s)	826
AclI	AACGTT	1 cut(s)	645
AclWI	GGATC	1 cut(s)	836
AcoI	YGGCCR	1 cut(s)	1102
AcsI	RAATTY	4 cut(s)	396, 464, 538, 925
AcuI	CTGAAG	1 cut(s)	38
AfaI	GTAC	1 cut(s)	89
AfiI	CCNNNNNNNGG	3 cut(s)	101, 240, 1111
AgsI	TTSAA	5 cut(s)	65, 173, 643, 958, 1090
AjiI	CACGTC	1 cut(s)	934
AjnI	CCWGG	1 cut(s)	100
AluBI	AGCT	8 cut(s)	82, 118, 158, 166, 176, 671, 840, 1079
AluI	AGCT	8 cut(s)	82, 118, 158, 166, 176, 671, 840, 1079
Alw26I	GTCTC	2 cut(s)	254, 1159
AlwI	GGATC	1 cut(s)	836
AlwNI	CAGNNNCTG	1 cut(s)	379
AoxI	GGCC	2 cut(s)	92, 1102
ApeKI	GCWGC	3 cut(s)	70, 79, 561
ApoI	RAATTY	4 cut(s)	396, 464, 538, 925
Asp718I	GGTACC	1 cut(s)	87
AspS9I	GGNCC	2 cut(s)	93, 531
AsuHPI	GGTGA	1 cut(s)	766
AvaII	GGWCC	1 cut(s)	531
BalI	TGGCCA	1 cut(s)	1104
BanI	GGYRCC	1 cut(s)	87
BbvCI	CCTCAGC	1 cut(s)	159
BbvI	GCAGC	3 cut(s)	57, 91, 573
BccI	CCATC	3 cut(s)	428, 469, 694
BciT130I	CCWGG	1 cut(s)	102
BciVI	GTATCC	1 cut(s)	937
BclI	TGATCA	1 cut(s)	13
BcoDI	GTCTC	2 cut(s)	254, 1159
BfaI	CTAG	1 cut(s)	131
BfmI	CTRYAG	1 cut(s)	347
BfuAI	ACCTGC	2 cut(s)	340, 872
BfuI	GTATCC	1 cut(s)	937
BisI	GCNGC	3 cut(s)	71, 80, 562
BlpI	GCTNAGC	1 cut(s)	500
BlsI	GCNGC	3 cut(s)	72, 81, 563
Bme1390I	CCNGG	1 cut(s)	102
Bme18I	GGWCC	1 cut(s)	531
BmgBI	CACGTC	1 cut(s)	934
BmgT120I	GGNCC	2 cut(s)	93, 531
BmiI	GGNNCC	1 cut(s)	89
BmrFI	CCNGG	1 cut(s)	102
BmsI	GCATC	4 cut(s)	433, 751, 961, 980
Bpu10I	CCTNAGC	1 cut(s)	159
Bpu1102I	GCTNAGC	1 cut(s)	500
BpuEI	CTTGAG	2 cut(s)	296, 1037
Bsa29I	ATCGAT	1 cut(s)	441
BsaXI	ACNNNNNCTCC	2 cut(s)	788, 818
Bsc4I	CCNNNNNNNGG	3 cut(s)	101, 240, 1111
Bse118I	RCCGGY	1 cut(s)	90
Bse1I	ACTGG	1 cut(s)	1105
Bse3DI	GCAATG	1 cut(s)	501
BseBI	CCWGG	1 cut(s)	102
BseCI	ATCGAT	1 cut(s)	441
BseGI	GGATG	2 cut(s)	995, 1043
BseLI	CCNNNNNNNGG	3 cut(s)	101, 240, 1111
BseMI	GCAATG	1 cut(s)	501
BseMII	CTCAG	1 cut(s)	150
BseNI	ACTGG	1 cut(s)	1105
BseRI	GAGGAG	1 cut(s)	176
BseXI	GCAGC	3 cut(s)	57, 91, 573
BseYI	CCCAGC	3 cut(s)	671, 776, 985
BsgI	GTGCAG	1 cut(s)	392
BshFI	GGCC	2 cut(s)	94, 1104
BshNI	GGYRCC	1 cut(s)	87
BshVI	ATCGAT	1 cut(s)	441
BsiSI	CCGG	2 cut(s)	91, 615
BslI	CCNNNNNNNGG	3 cut(s)	101, 240, 1111
BsmAI	GTCTC	2 cut(s)	254, 1159
BsnI	GGCC	2 cut(s)	94, 1104
Bsp143I	GATC	4 cut(s)	13, 438, 828, 1053
Bsp1720I	GCTNAGC	1 cut(s)	500
BspACI	CCGC	1 cut(s)	826
BspANI	GGCC	2 cut(s)	94, 1104
BspCNI	CTCAG	1 cut(s)	151
BspDI	ATCGAT	1 cut(s)	441
BspHI	TCATGA	1 cut(s)	633
BspLI	GGNNCC	1 cut(s)	89
BspMAI	CTGCAG	1 cut(s)	351
BspMI	ACCTGC	2 cut(s)	340, 872
BspPI	GGATC	1 cut(s)	836
BspT107I	GGYRCC	1 cut(s)	87
BsrBI	CCGCTC	1 cut(s)	826
BsrDI	GCAATG	1 cut(s)	501
BsrFI	RCCGGY	1 cut(s)	90
BsrI	ACTGG	1 cut(s)	1105
BssAI	RCCGGY	1 cut(s)	90
BssMI	GATC	4 cut(s)	13, 438, 828, 1053
Bst2UI	CCWGG	1 cut(s)	102
Bst4CI	ACNGT	2 cut(s)	611, 949
BstAPI	GCANNNNNTGC	1 cut(s)	379
BstC8I	GCNNGC	3 cut(s)	305, 347, 375
BstDEI	CTNAG	2 cut(s)	159, 500
BstENI	CCTNNNNNAGG	1 cut(s)	238
BstF5I	GGATG	2 cut(s)	995, 1043
BstKTI	GATC	4 cut(s)	16, 441, 831, 1056
BstMAI	GTCTC	2 cut(s)	254, 1159
BstMBI	GATC	4 cut(s)	13, 438, 828, 1053
BstMWI	GCNNNNNNNGC	3 cut(s)	76, 79, 379
BstNI	CCWGG	1 cut(s)	102
BstNSI	RCATGY	1 cut(s)	712
BstSCI	CCNGG	1 cut(s)	100
BstSFI	CTRYAG	1 cut(s)	347
BstV1I	GCAGC	3 cut(s)	57, 91, 573
Bsu15I	ATCGAT	1 cut(s)	441
BsuI	GTATCC	1 cut(s)	937
BsuRI	GGCC	2 cut(s)	94, 1104
BsuTUI	ATCGAT	1 cut(s)	441
BtrI	CACGTC	1 cut(s)	934
BtsCI	GGATG	2 cut(s)	995, 1043
BtsI	GCAGTG	1 cut(s)	571
BtsIMutI	CAGTG	2 cut(s)	571, 616
BveI	ACCTGC	2 cut(s)	340, 872
Cac8I	GCNNGC	3 cut(s)	305, 347, 375
CaiI	CAGNNNCTG	1 cut(s)	379
CciI	TCATGA	1 cut(s)	633
Cfr10I	RCCGGY	1 cut(s)	90
Cfr13I	GGNCC	2 cut(s)	93, 531
ClaI	ATCGAT	1 cut(s)	441
Csp6I	GTAC	1 cut(s)	88
CviAII	CATG	9 cut(s)	127, 206, 535, 634, 709, 729, 1069, 1106, 1121
CviQI	GTAC	1 cut(s)	88
DdeI	CTNAG	2 cut(s)	159, 500
DpnI	GATC	4 cut(s)	15, 440, 830, 1055
DpnII	GATC	4 cut(s)	13, 438, 828, 1053
EaeI	YGGCCR	1 cut(s)	1102
Eco47I	GGWCC	1 cut(s)	531
Eco57I	CTGAAG	1 cut(s)	38
EcoNI	CCTNNNNNAGG	1 cut(s)	238
EcoRI	GAATTC	2 cut(s)	538, 925
EcoRII	CCWGG	1 cut(s)	100
EcoT22I	ATGCAT	1 cut(s)	766
FaeI	CATG	9 cut(s)	130, 209, 538, 637, 712, 732, 1072, 1109, 1124
FatI	CATG	9 cut(s)	126, 205, 534, 633, 708, 728, 1068, 1105, 1120
FauNDI	CATATG	2 cut(s)	361, 661
FbaI	TGATCA	1 cut(s)	13
FblI	GTMKAC	1 cut(s)	482
Fnu4HI	GCNGC	3 cut(s)	71, 80, 562
FokI	GGATG	2 cut(s)	1002, 1050
Fsp4HI	GCNGC	3 cut(s)	71, 80, 562
FspBI	CTAG	1 cut(s)	131
GluI	GCNGC	3 cut(s)	71, 80, 562
GsaI	CCCAGC	3 cut(s)	675, 780, 989
HaeIII	GGCC	2 cut(s)	94, 1104
HapII	CCGG	2 cut(s)	91, 615
Hin1II	CATG	9 cut(s)	130, 209, 538, 637, 712, 732, 1072, 1109, 1124
HincII	GTYRAC	1 cut(s)	483
HindII	GTYRAC	1 cut(s)	483
HindIII	AAGCTT	1 cut(s)	1077
HinfI	GANTC	5 cut(s)	21, 209, 479, 618, 656
HpaII	CCGG	2 cut(s)	91, 615
HphI	GGTGA	1 cut(s)	766
Hpy166II	GTNNAC	4 cut(s)	109, 143, 483, 887
Hpy188I	TCNGA	4 cut(s)	388, 823, 931, 1149
Hpy188III	TCNNGA	4 cut(s)	296, 529, 634, 1046
Hpy8I	GTNNAC	4 cut(s)	109, 143, 483, 887
HpyAV	CCTTC	3 cut(s)	182, 1000, 1105
HpyCH4III	ACNGT	2 cut(s)	611, 949
HpyCH4IV	ACGT	3 cut(s)	645, 913, 933
HpyCH4V	TGCA	8 cut(s)	73, 349, 359, 373, 470, 712, 764, 1132
HpyF10VI	GCNNNNNNNGC	3 cut(s)	76, 79, 379
HpyF3I	CTNAG	2 cut(s)	159, 500
HpySE526I	ACGT	3 cut(s)	645, 913, 933
Hsp92II	CATG	9 cut(s)	130, 209, 538, 637, 712, 732, 1072, 1109, 1124
KpnI	GGTACC	1 cut(s)	91
Ksp22I	TGATCA	1 cut(s)	13
Kzo9I	GATC	4 cut(s)	13, 438, 828, 1053
LmnI	GCTCC	2 cut(s)	163, 243
Lsp1109I	GCAGC	3 cut(s)	57, 91, 573
LweI	GCATC	4 cut(s)	433, 751, 961, 980
MaeI	CTAG	1 cut(s)	131
MaeII	ACGT	3 cut(s)	645, 913, 933
MaeIII	GTNAC	3 cut(s)	739, 844, 1158
MalI	GATC	4 cut(s)	15, 440, 830, 1055
MbiI	CCGCTC	1 cut(s)	826
MboI	GATC	4 cut(s)	13, 438, 828, 1053
MboII	GAAGA	2 cut(s)	44, 298
MfeI	CAATTG	1 cut(s)	958
MlsI	TGGCCA	1 cut(s)	1104
MluCI	AATT	8 cut(s)	120, 396, 464, 538, 676, 897, 925, 958
MluNI	TGGCCA	1 cut(s)	1104
MlyI	GAGTC	1 cut(s)	488
MmeI	TCCRAC	1 cut(s)	646
MnlI	CCTC	5 cut(s)	154, 281, 341, 765, 975
Mox20I	TGGCCA	1 cut(s)	1104
Mph1103I	ATGCAT	1 cut(s)	766
MscI	TGGCCA	1 cut(s)	1104
MseI	TTAA	4 cut(s)	32, 48, 785, 1074
MslI	CAYNNNNRTG	1 cut(s)	1001
Msp20I	TGGCCA	1 cut(s)	1104
MspI	CCGG	2 cut(s)	91, 615
MspR9I	CCNGG	1 cut(s)	102
MunI	CAATTG	1 cut(s)	958
MvaI	CCWGG	1 cut(s)	102
MwoI	GCNNNNNNNGC	3 cut(s)	76, 79, 379
NdeI	CATATG	2 cut(s)	361, 661
NdeII	GATC	4 cut(s)	13, 438, 828, 1053
NlaIII	CATG	9 cut(s)	130, 209, 538, 637, 712, 732, 1072, 1109, 1124
NlaIV	GGNNCC	1 cut(s)	89
NmuCI	GTSAC	2 cut(s)	844, 1158
NsiI	ATGCAT	1 cut(s)	766
NspI	RCATGY	1 cut(s)	712
PagI	TCATGA	1 cut(s)	633
PfeI	GAWTC	4 cut(s)	21, 209, 618, 656
PflFI	GACNNNGTC	1 cut(s)	1156
PkrI	GCNGC	3 cut(s)	72, 81, 563
PleI	GAGTC	1 cut(s)	487
PpsI	GAGTC	1 cut(s)	487
PsiI	TTATAA	1 cut(s)	681
Psp1406I	AACGTT	1 cut(s)	645
Psp6I	CCWGG	1 cut(s)	100
PspFI	CCCAGC	3 cut(s)	671, 776, 985
PspGI	CCWGG	1 cut(s)	100
PspN4I	GGNNCC	1 cut(s)	89
PspPI	GGNCC	2 cut(s)	93, 531
PstI	CTGCAG	1 cut(s)	351
PstNI	CAGNNNCTG	1 cut(s)	379
PsyI	GACNNNGTC	1 cut(s)	1156
RsaI	GTAC	1 cut(s)	89
RsaNI	GTAC	1 cut(s)	88
RseI	CAYNNNNRTG	1 cut(s)	1001
SalI	GTCGAC	1 cut(s)	481
SaqAI	TTAA	4 cut(s)	32, 48, 785, 1074
SatI	GCNGC	3 cut(s)	71, 80, 562
Sau3AI	GATC	4 cut(s)	13, 438, 828, 1053
Sau96I	GGNCC	2 cut(s)	93, 531
SbfI	CCTGCAGG	1 cut(s)	351
SchI	GAGTC	1 cut(s)	488
ScrFI	CCNGG	1 cut(s)	102
SdaI	CCTGCAGG	1 cut(s)	351
SfaNI	GCATC	4 cut(s)	433, 751, 961, 980
SfcI	CTRYAG	1 cut(s)	347
SinI	GGWCC	1 cut(s)	531
SmiMI	CAYNNNNRTG	1 cut(s)	1001
SmlI	CTYRAG	2 cut(s)	275, 1016
SmoI	CTYRAG	2 cut(s)	275, 1016
Sse8387I	CCTGCAGG	1 cut(s)	351
Sse9I	AATT	8 cut(s)	120, 396, 464, 538, 676, 897, 925, 958
SsiI	CCGC	1 cut(s)	826
SspMI	CTAG	1 cut(s)	131
StyD4I	CCNGG	1 cut(s)	100
TaaI	ACNGT	2 cut(s)	611, 949
TaiI	ACGT	3 cut(s)	648, 916, 936
TaqI	TCGA	2 cut(s)	441, 482
TasI	AATT	8 cut(s)	120, 396, 464, 538, 676, 897, 925, 958
TfiI	GAWTC	4 cut(s)	21, 209, 618, 656
Tru1I	TTAA	4 cut(s)	32, 48, 785, 1074
Tru9I	TTAA	4 cut(s)	32, 48, 785, 1074
TscAI	CASTG	2 cut(s)	571, 616
TseFI	GTSAC	2 cut(s)	844, 1158
TseI	GCWGC	3 cut(s)	70, 79, 561
Tsp45I	GTSAC	2 cut(s)	844, 1158
TspDTI	ATGAA	9 cut(s)	17, 222, 299, 551, 648, 1019, 1040, 1074, 1137
TspGWI	ACGGA	1 cut(s)	532
TspRI	CASTG	2 cut(s)	571, 616
Tth111I	GACNNNGTC	1 cut(s)	1156
VpaK11BI	GGWCC	1 cut(s)	531
XagI	CCTNNNNNAGG	1 cut(s)	238
XapI	RAATTY	4 cut(s)	396, 464, 538, 925
XceI	RCATGY	1 cut(s)	712
XmiI	GTMKAC	1 cut(s)	482
XspI	CTAG	1 cut(s)	131
Zsp2I	ATGCAT	1 cut(s)	766

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