Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002831

Physical Location & Seq

Genomic Coordinates Reverse (-)

63247329 .. 63248465

Gene Structure 1137 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG464200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1137 bp

ATGGGTATATTCCTTAATCTCATGAAGCATTTTTCAAAATCGTCTATGCATGAAAGAGTACTTGAAATGCTCTATGCTATCCAGCCAGTAGTTCGGGAAAAGCCATCTCTCAAATGCATTAGTACTTGTTTAAATCTACTGATTGAAGCGAATCAGGTTGATTTGGCCCAACAGTTTCTCATGCATTTGAAGAAGAGTCTTAACTTGAAGCTGAATACATGCATTGTCAACATCTTGGTTAAGCACCATTGCACAAATGGGGATCTTGAATCTGCCTTCGAGGTTGTGAAGGAAATGAAAAAGTCTAAGCTTTCCTATCCTAATTTGATTACTTACTCGACTCTAATTGATGGTTTATGTCAAAGTGGAAGACTAACAGAAGCAATGGACCTGTTTGAGGAAATGATCTCAAAGGATCAGATATTGCCTGATGTGCTAACGTACAACATTTTGATTAATGGTTTTTGCCGTGGTGGGAAAGTTAATAGGGCAAGGATGATATTGGATTTTATGAAGAGCAAAGGATGCAACCCAAATGTATTCAATTACTCAGCTCTGATGAATGGATTCTGTAAGGAGGAACGTAATGACATAAAAACTCTCATAGCTGAGATTGATCTTCCCGTGAGTGCTTGGGATGAGAAGTGGATTGATGTGTACTTGGACATCAATGTAAAGTTGCTCGATATATGCATTGTCTTCAGCTCTGAGATCGCACGCTTAAACCAGGGGCATTTGTTTCTTCAGTTTGTGTTGCATAATTTGAATTCAGCCTCTTCGAAGCAATTTATTCGTGCCCGTTCTTCAATTGATGACTGGAAGAATCATATTGCTTCAAAGAACCCCAGGGTTGAGAACTGTAGCACCATTTTGGACAAGCTTGTGGAATCACTGGATCTACCAAAGGTTAAGAACTCAGCAAAAGGGAAACTTTTAATGTGTGCTATGTATGGAGTGAAGGTGTTGACAGTATCTATTTGTAGTGTCTTTACCGTAGCCTTTTCTGGTTCTGCAAGCAAGTTGTTAGATTTGAATGTTGCCGAGACATATATGTGGGCACAAGCATTTAATGACTTACAGAGTAATGTAAATGGGGAATTAGAAATGTACTTTCTAGTGGTAGAGTTACGGTACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0005575 GO:0005623 GO:0005886 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0010154 GO:0016020 GO:0022414 GO:0022622 GO:0032501 GO:0032502 GO:0044464 GO:0048316 GO:0048364 GO:0048367 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071944 GO:0099402

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BPS1

Protein Analysis

378

Amino Acids

42.91

Weight (kDa)

7.91

Isoelectric Point (pI)

31.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	66 - 117	8.1e-07	Pentatricopeptide repeat domain
PPR_long	PF17177	67 - 138	5.7e-06	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	68 - 100	6.8e-06	PPR repeat
PPR_2	PF13041	72 - 121	2.1e-13	PPR repeat family
PPR_2	PF13041	107 - 157	1.5e-17	PPR repeat family
PPR_1	PF12854	107 - 135	2.5e-13	PPR repeat
PPR	PF01535	110 - 138	1.4e-09	PPR repeat
PPR_3	PF13812	132 - 190	7.9e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	141 - 172	7.9e-12	PPR repeat
PPR_2	PF13041	143 - 192	5.9e-17	PPR repeat family
PPR	PF01535	147 - 176	1.3e-07	PPR repeat
PPR_1	PF12854	174 - 197	7.4e-06	PPR repeat

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: OG0002831)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18475
fragaria_vesca	FvH4_5g35730 FvH4_5g35730 FvH4_5g35730 FvH4_5g35730 FvH4_5g35730
prunus_persica	Prupe.1G528200_v2.0.a1
pyrus_communis	pycom08g16680
rosa_chinensis	RchiOBHm_Chr4g0424581 RchiOBHm_Chr7g0237351
rosa_laevigata	RLG00000001010 RLG00000007454
rosa_multiflora	Rmu_co8091050.1_g000001 Rmu_sc0000281.1_g000013 Rmu_sc0000820.1_g000045 Rmu_sc0002603.1_g000021 Rmu_sc0002923.1_g000038 Rmu_sc0006438.1_g000010
rosa_roxburghii	Rroxscaffold_3G00224290 Rroxscaffold_3G00224300 Rroxscaffold_5G00366500
rosa_rugosa	Rorug04G0198000 Rorug07G0302800 Rorug07G0302800
rosa_samantha	Rh1CG247200 Rh1DG083900 Rh4AG254700 Rh4BG260200 Rh4CG271700 Rh4DG254900 Rh5AG212800 Rh6DG464200 Rh7AG460000 Rh7BG429900 Rh7CG477300 Rh7DG446600
rosa_wichuraiana	Rw1G023340 Rw4G022020 Rw7G038100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	270, 423, 903
AcsI	RAATTY	1 cut(s)	766
AcuI	CTGAAG	2 cut(s)	685, 728
AfaI	GTAC	6 cut(s)	60, 124, 443, 659, 1109, 1133
AfiI	CCNNNNNNNGG	1 cut(s)	397
AjnI	CCWGG	2 cut(s)	726, 845
AluBI	AGCT	6 cut(s)	211, 310, 554, 608, 705, 880
AluI	AGCT	6 cut(s)	211, 310, 554, 608, 705, 880
Alw26I	GTCTC	1 cut(s)	1037
AlwI	GGATC	3 cut(s)	270, 423, 903
AoxI	GGCC	1 cut(s)	165
ApoI	RAATTY	1 cut(s)	766
AseI	ATTAAT	1 cut(s)	456
Asp700I	GAANNNNTTC	1 cut(s)	566
AspS9I	GGNCC	2 cut(s)	166, 388
AsuII	TTCGAA	1 cut(s)	779
AvaII	GGWCC	1 cut(s)	388
BaeGI	GKGCMC	2 cut(s)	799, 1060
BbsI	GAAGAC	2 cut(s)	376, 691
BccI	CCATC	2 cut(s)	112, 344
BceAI	ACGGC	1 cut(s)	453
BcgI	CGANNNNNNTGC	2 cut(s)	773, 807
BciT130I	CCWGG	2 cut(s)	728, 847
BcoDI	GTCTC	1 cut(s)	1037
BfaI	CTAG	1 cut(s)	1115
BfmI	CTRYAG	1 cut(s)	859
BmcAI	AGTACT	2 cut(s)	60, 124
Bme1390I	CCNGG	2 cut(s)	728, 847
Bme18I	GGWCC	1 cut(s)	388
BmgT120I	GGNCC	2 cut(s)	166, 388
BmrFI	CCNGG	2 cut(s)	728, 847
BmsI	GCATC	1 cut(s)	515
BpiI	GAAGAC	2 cut(s)	376, 691
Bpu14I	TTCGAA	1 cut(s)	779
BsaJI	CCNNGG	4 cut(s)	469, 727, 845, 846
BsaXI	ACNNNNNCTCC	2 cut(s)	945, 975
Bsc4I	CCNNNNNNNGG	1 cut(s)	397
Bse1I	ACTGG	3 cut(s)	86, 821, 897
Bse3DI	GCAATG	2 cut(s)	247, 390
BseBI	CCWGG	2 cut(s)	728, 847
BseDI	CCNNGG	4 cut(s)	469, 727, 845, 846
BseGI	GGATG	3 cut(s)	501, 530, 643
BseLI	CCNNNNNNNGG	1 cut(s)	397
BseMI	GCAATG	2 cut(s)	247, 390
BseMII	CTCAG	4 cut(s)	564, 600, 699, 930
BseNI	ACTGG	3 cut(s)	86, 821, 897
BseSI	GKGCMC	2 cut(s)	799, 1060
BshFI	GGCC	1 cut(s)	167
BslI	CCNNNNNNNGG	1 cut(s)	397
BsmAI	GTCTC	1 cut(s)	1037
BsnI	GGCC	1 cut(s)	167
Bsp119I	TTCGAA	1 cut(s)	779
Bsp1286I	GDGCHC	2 cut(s)	799, 1060
Bsp143I	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
BspANI	GGCC	1 cut(s)	167
BspCNI	CTCAG	4 cut(s)	563, 601, 700, 929
BspHI	TCATGA	1 cut(s)	21
BspPI	GGATC	3 cut(s)	270, 423, 903
BspQI	GCTCTTC	1 cut(s)	509
BspT104I	TTCGAA	1 cut(s)	779
BsrDI	GCAATG	2 cut(s)	247, 390
BsrI	ACTGG	3 cut(s)	86, 821, 897
BssECI	CCNNGG	4 cut(s)	469, 727, 845, 846
BssMI	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
Bst2UI	CCWGG	2 cut(s)	728, 847
Bst4CI	ACNGT	5 cut(s)	174, 860, 970, 994, 1131
Bst6I	CTCTTC	3 cut(s)	188, 509, 781
BstAPI	GCANNNNNTGC	1 cut(s)	525
BstBI	TTCGAA	1 cut(s)	779
BstC8I	GCNNGC	2 cut(s)	718, 1015
BstDEI	CTNAG	5 cut(s)	306, 550, 609, 708, 916
BstDSI	CCRYGG	1 cut(s)	469
BstENI	CCTNNNNNAGG	1 cut(s)	395
BstF5I	GGATG	3 cut(s)	501, 530, 643
BstKTI	GATC	6 cut(s)	265, 408, 418, 619, 714, 898
BstMAI	GTCTC	1 cut(s)	1037
BstMBI	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
BstMWI	GCNNNNNNNGC	2 cut(s)	433, 525
BstNI	CCWGG	2 cut(s)	728, 847
BstNSI	RCATGY	1 cut(s)	222
BstSCI	CCNGG	2 cut(s)	726, 845
BstSFI	CTRYAG	1 cut(s)	859
BstSLI	GKGCMC	2 cut(s)	799, 1060
BstV2I	GAAGAC	2 cut(s)	376, 691
BstX2I	RGATCY	2 cut(s)	262, 895
BstYI	RGATCY	2 cut(s)	262, 895
BsuRI	GGCC	1 cut(s)	167
BtgI	CCRYGG	1 cut(s)	469
BtsCI	GGATG	3 cut(s)	501, 530, 643
BtsIMutI	CAGTG	1 cut(s)	890
Cac8I	GCNNGC	2 cut(s)	718, 1015
CciI	TCATGA	1 cut(s)	21
Cfr13I	GGNCC	2 cut(s)	166, 388
Csp6I	GTAC	6 cut(s)	59, 123, 442, 658, 1108, 1132
CviAII	CATG	4 cut(s)	22, 50, 181, 219
CviQI	GTAC	6 cut(s)	59, 123, 442, 658, 1108, 1132
DdeI	CTNAG	5 cut(s)	306, 550, 609, 708, 916
DpnI	GATC	6 cut(s)	264, 407, 417, 618, 713, 897
DpnII	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
DraI	TTTAAA	1 cut(s)	132
Eam1104I	CTCTTC	3 cut(s)	188, 509, 781
EarI	CTCTTC	3 cut(s)	188, 509, 781
Eco47I	GGWCC	1 cut(s)	388
Eco57I	CTGAAG	2 cut(s)	685, 728
EcoNI	CCTNNNNNAGG	1 cut(s)	395
EcoRI	GAATTC	1 cut(s)	766
EcoRII	CCWGG	2 cut(s)	726, 845
EcoT22I	ATGCAT	5 cut(s)	51, 119, 186, 224, 695
FaeI	CATG	4 cut(s)	25, 53, 184, 222
FalI	AAGNNNNNCTT	2 cut(s)	915, 947
FatI	CATG	4 cut(s)	21, 49, 180, 218
FokI	GGATG	3 cut(s)	508, 537, 650
FspBI	CTAG	1 cut(s)	1115
HaeIII	GGCC	1 cut(s)	167
Hin1II	CATG	4 cut(s)	25, 53, 184, 222
HincII	GTYRAC	2 cut(s)	229, 966
HindII	GTYRAC	2 cut(s)	229, 966
HindIII	AAGCTT	2 cut(s)	308, 878
HinfI	GANTC	7 cut(s)	151, 196, 269, 340, 567, 823, 887
Hpy166II	GTNNAC	3 cut(s)	229, 658, 966
Hpy188I	TCNGA	3 cut(s)	420, 558, 709
Hpy188III	TCNNGA	3 cut(s)	22, 95, 266
Hpy8I	GTNNAC	3 cut(s)	229, 658, 966
HpyAV	CCTTC	3 cut(s)	283, 286, 952
HpyCH4III	ACNGT	5 cut(s)	174, 860, 970, 994, 1131
HpyCH4IV	ACGT	2 cut(s)	440, 583
HpyCH4V	TGCA	9 cut(s)	49, 117, 184, 222, 252, 528, 693, 757, 1013
HpyF10VI	GCNNNNNNNGC	2 cut(s)	433, 525
HpyF3I	CTNAG	5 cut(s)	306, 550, 609, 708, 916
HpySE526I	ACGT	2 cut(s)	440, 583
Hsp92II	CATG	4 cut(s)	25, 53, 184, 222
Kzo9I	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
LguI	GCTCTTC	1 cut(s)	509
LweI	GCATC	1 cut(s)	515
MaeI	CTAG	1 cut(s)	1115
MaeII	ACGT	2 cut(s)	440, 583
MaeIII	GTNAC	1 cut(s)	1125
MalI	GATC	6 cut(s)	264, 407, 417, 618, 713, 897
MboI	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
MfeI	CAATTG	1 cut(s)	807
MflI	RGATCY	2 cut(s)	262, 895
MhlI	GDGCHC	2 cut(s)	799, 1060
MluCI	AATT	8 cut(s)	322, 345, 544, 760, 766, 785, 807, 1097
MlyI	GAGTC	2 cut(s)	205, 334
MnlI	CCTC	4 cut(s)	274, 391, 571, 784
Mph1103I	ATGCAT	5 cut(s)	51, 119, 186, 224, 695
MroXI	GAANNNNTTC	1 cut(s)	566
MslI	CAYNNNNRTG	1 cut(s)	1051
MspR9I	CCNGG	2 cut(s)	728, 847
MunI	CAATTG	1 cut(s)	807
MvaI	CCWGG	2 cut(s)	728, 847
MwoI	GCNNNNNNNGC	2 cut(s)	433, 525
NdeII	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
NlaIII	CATG	4 cut(s)	25, 53, 184, 222
NmeAIII	GCCGAG	1 cut(s)	1066
NsiI	ATGCAT	5 cut(s)	51, 119, 186, 224, 695
NspI	RCATGY	1 cut(s)	222
NspV	TTCGAA	1 cut(s)	779
PagI	TCATGA	1 cut(s)	21
PasI	CCCWGGG	1 cut(s)	846
PciSI	GCTCTTC	1 cut(s)	509
PdmI	GAANNNNTTC	1 cut(s)	566
PfeI	GAWTC	5 cut(s)	151, 269, 567, 823, 887
PleI	GAGTC	2 cut(s)	204, 334
PpsI	GAGTC	2 cut(s)	204, 334
PshBI	ATTAAT	1 cut(s)	456
Psp6I	CCWGG	2 cut(s)	726, 845
PspGI	CCWGG	2 cut(s)	726, 845
PspPI	GGNCC	2 cut(s)	166, 388
PsuI	RGATCY	2 cut(s)	262, 895
RsaI	GTAC	6 cut(s)	60, 124, 443, 659, 1109, 1133
RsaNI	GTAC	6 cut(s)	59, 123, 442, 658, 1108, 1132
RseI	CAYNNNNRTG	1 cut(s)	1051
SapI	GCTCTTC	1 cut(s)	509
Sau3AI	GATC	6 cut(s)	262, 405, 415, 616, 711, 895
Sau96I	GGNCC	2 cut(s)	166, 388
ScaI	AGTACT	2 cut(s)	60, 124
SchI	GAGTC	2 cut(s)	205, 334
ScrFI	CCNGG	2 cut(s)	728, 847
SduI	GDGCHC	2 cut(s)	799, 1060
SfaNI	GCATC	1 cut(s)	515
SfcI	CTRYAG	1 cut(s)	859
SfuI	TTCGAA	1 cut(s)	779
SinI	GGWCC	1 cut(s)	388
SmiMI	CAYNNNNRTG	1 cut(s)	1051
Sse9I	AATT	8 cut(s)	322, 345, 544, 760, 766, 785, 807, 1097
SspMI	CTAG	1 cut(s)	1115
StyD4I	CCNGG	2 cut(s)	726, 845
TaaI	ACNGT	5 cut(s)	174, 860, 970, 994, 1131
TaiI	ACGT	2 cut(s)	443, 586
TaqI	TCGA	4 cut(s)	279, 338, 684, 779
TasI	AATT	8 cut(s)	322, 345, 544, 760, 766, 785, 807, 1097
TatI	WGTACW	4 cut(s)	58, 122, 657, 1107
TfiI	GAWTC	5 cut(s)	151, 269, 567, 823, 887
TscAI	CASTG	1 cut(s)	897
TspDTI	ATGAA	5 cut(s)	38, 66, 311, 527, 575
TspRI	CASTG	1 cut(s)	897
VpaK11BI	GGWCC	1 cut(s)	388
VspI	ATTAAT	1 cut(s)	456
XagI	CCTNNNNNAGG	1 cut(s)	395
XapI	RAATTY	1 cut(s)	766
XceI	RCATGY	1 cut(s)	222
XcmI	CCANNNNNNNNNTGG	1 cut(s)	254
XmnI	GAANNNNTTC	1 cut(s)	566
XspI	CTAG	1 cut(s)	1115
ZrmI	AGTACT	2 cut(s)	60, 124
Zsp2I	ATGCAT	5 cut(s)	51, 119, 186, 224, 695

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