Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0004842

Physical Location & Seq

Genomic Coordinates Reverse (-)

27017123 .. 27018019

Gene Structure 897 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG166900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGCCGCTGAGAAACACTGTTTGTGCAAACGCACTTTTATCAGGTTATGGTGATGCCAAGTTGTGGACAGAGGCAGTAGAATTGACCAGGAAGATGCCGGCACTGAGTTTGGAGTATGATCACTTGACATTGTCCGCGGCATTACGTGCTTGTGCTGGGCTAGCTGCAGTTGAATTGAGTAGGCAGGTACATGGTTATTTGATGCGTTCGGTTTATGATGTGGGAAGTGATATGTTTCTGCTGAGTTCATTGATTGAAATGTATGGTAAATGTGGGCTGGTAGCCAAGGCTCAGAAAGTTTTAAATTTTGATGGAAAAGGAGAGGGGAAAAGAGATGTGGTTATGTGGACTTCACTGCTTGGTGTGTATGGTAGAAATGGATACTATAAAGAGGTACTTGAACTATTCAAAGATATGATGATGGAAGGAATTAGCCCAGATGGGGTGGCATTTGTGACAGTCATCTCAGCATGTGCTCGCACCGGTCAATTGCGGCTCGGCATTGAGTATTTTGAATCCATGGAACTCAAGTTCAGCTTGAAACCAGGTCCAGAACACTACAGCTGTCTAGTTGATTTGCTGTGTAGAGCTGGTGAATTGGGCAAGGCATGGAAGCTCGTTGATGAGATGCTTAATAAAGGTCACAGCAGCTGCACTGTCCCTATGTGGGGAGCTTTGCTTAATGCTTGCAAAGATCAAGGTGATCTTGAATTGTGTAAACTGGCTGCTCAAAGGGCACTTGAGTTGAATCCTCATAATGATGGTATTTATGTTTTGCTATCAAATTTATATGCCAGGTTCGGTATGTGGCATGAGATTAATCATTTGAGGGAGTTGATGAAAGAGAAGGGGTTAAGGAAAGATGTCGGATATAGCCGTATTGAAGTCACAAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

298

Amino Acids

33.19

Weight (kDa)

6.66

Isoelectric Point (pI)

34.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	111 - 160	1e-10	PPR repeat family
PPR	PF01535	114 - 144	1.4e-07	PPR repeat
PPR_1	PF12854	181 - 210	4.3e-07	PPR repeat
E_motif	PF20431	235 - 295	8.1e-18	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: OG0004842)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g10791
rosa_chinensis	RchiOBHm_Chr6g0268571 RchiOBHm_Chr6g0268611 RchiOBHm_Chr6g0268691 RchiOBHm_Chr6g0268791 RchiOBHm_Chr6g0268801
rosa_laevigata	RLG00000013896 RLG00000013900
rosa_multiflora	Rmu_sc0000869.1_g000012 Rmu_sc0005121.1_g000006 Rmu_sc0005125.1_g000014 Rmu_sc0006115.1_g000001
rosa_roxburghii	Rroxscaffold_4G00312470 Rroxscaffold_7G00199160 Rroxscaffold_7G00199690
rosa_rugosa	Rorug06G0043200
rosa_samantha	Rh6AG162800 Rh6AG163800 Rh6BG166900 Rh6BG167800 Rh6BG168400 Rh6CG160900 Rh6CG161400 Rh6CG162000 Rh6CG162600 Rh6DG152200 Rh6DG152900 Rh6DG153600 Rh6DG154200
rosa_wichuraiana	Rw0G004740 Rw6G014050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	175
AccB7I	CCANNNNNTGG	1 cut(s)	63
AccII	CGCG	1 cut(s)	137
AciI	CCGC	4 cut(s)	5, 135, 137, 493
AcsI	RAATTY	2 cut(s)	304, 784
AfaI	GTAC	2 cut(s)	189, 396
AfiI	CCNNNNNNNGG	4 cut(s)	63, 442, 667, 668
AgeI	ACCGGT	1 cut(s)	482
AgsI	TTSAA	9 cut(s)	173, 257, 401, 409, 515, 541, 710, 748, 884
AjnI	CCWGG	3 cut(s)	86, 544, 794
AloI	GAACNNNNNNTCC	2 cut(s)	515, 547
AluBI	AGCT	7 cut(s)	164, 537, 564, 590, 616, 651, 674
AluI	AGCT	7 cut(s)	164, 537, 564, 590, 616, 651, 674
Alw21I	GWGCWC	1 cut(s)	478
AlwNI	CAGNNNCTG	1 cut(s)	651
ApeKI	GCWGC	4 cut(s)	164, 648, 651, 725
ApoI	RAATTY	2 cut(s)	304, 784
AseI	ATTAAT	1 cut(s)	819
AsiGI	ACCGGT	1 cut(s)	482
AspS9I	GGNCC	1 cut(s)	548
AsuHPI	GGTGA	3 cut(s)	62, 605, 713
AsuNHI	GCTAGC	1 cut(s)	160
AvaII	GGWCC	1 cut(s)	548
BaeGI	GKGCMC	1 cut(s)	739
Bbv12I	GWGCWC	1 cut(s)	478
BbvI	GCAGC	4 cut(s)	151, 638, 660, 712
BccI	CCATC	4 cut(s)	305, 415, 434, 755
BceAI	ACGGC	1 cut(s)	861
BciT130I	CCWGG	3 cut(s)	88, 546, 796
BciVI	GTATCC	1 cut(s)	374
BclI	TGATCA	1 cut(s)	118
BfaI	CTAG	2 cut(s)	161, 569
BfmI	CTRYAG	2 cut(s)	165, 559
BfuAI	ACCTGC	1 cut(s)	175
BfuI	GTATCC	1 cut(s)	374
BisI	GCNGC	7 cut(s)	5, 138, 165, 494, 649, 652, 726
BlsI	GCNGC	7 cut(s)	6, 139, 166, 495, 650, 653, 727
Bme1390I	CCNGG	3 cut(s)	88, 546, 796
Bme18I	GGWCC	1 cut(s)	548
BmgT120I	GGNCC	1 cut(s)	548
BmrFI	CCNGG	3 cut(s)	88, 546, 796
BmsI	GCATC	4 cut(s)	43, 84, 192, 618
BmtI	GCTAGC	1 cut(s)	164
BpuEI	CTTGAG	2 cut(s)	512, 761
BsaAI	YACGTR	1 cut(s)	146
BsaJI	CCNNGG	3 cut(s)	135, 285, 519
BsaWI	WCCGGW	1 cut(s)	482
Bsc4I	CCNNNNNNNGG	4 cut(s)	63, 442, 667, 668
Bse118I	RCCGGY	2 cut(s)	97, 482
Bse1I	ACTGG	1 cut(s)	726
BseBI	CCWGG	3 cut(s)	88, 546, 796
BseDI	CCNNGG	3 cut(s)	135, 285, 519
BseLI	CCNNNNNNNGG	4 cut(s)	63, 442, 667, 668
BseMII	CTCAG	4 cut(s)	95, 233, 305, 480
BseNI	ACTGG	1 cut(s)	726
BseSI	GKGCMC	1 cut(s)	739
BseXI	GCAGC	4 cut(s)	151, 638, 660, 712
BseYI	CCCAGC	1 cut(s)	155
BsgI	GTGCAG	1 cut(s)	637
Bsh1236I	CGCG	1 cut(s)	137
BshTI	ACCGGT	1 cut(s)	482
BsiHKAI	GWGCWC	1 cut(s)	478
BsiSI	CCGG	2 cut(s)	98, 483
BslFI	GGGAC	1 cut(s)	644
BslI	CCNNNNNNNGG	4 cut(s)	63, 442, 667, 668
BsmFI	GGGAC	1 cut(s)	644
Bsp1286I	GDGCHC	2 cut(s)	478, 739
Bsp143I	GATC	3 cut(s)	118, 694, 703
Bsp19I	CCATGG	1 cut(s)	519
BspACI	CCGC	4 cut(s)	5, 135, 137, 493
BspCNI	CTCAG	4 cut(s)	96, 234, 304, 479
BspFNI	CGCG	1 cut(s)	137
BspMAI	CTGCAG	1 cut(s)	169
BspMI	ACCTGC	1 cut(s)	175
BspOI	GCTAGC	1 cut(s)	164
BsrFI	RCCGGY	2 cut(s)	97, 482
BsrI	ACTGG	1 cut(s)	726
BssAI	RCCGGY	2 cut(s)	97, 482
BssECI	CCNNGG	3 cut(s)	135, 285, 519
BssMI	GATC	3 cut(s)	118, 694, 703
BssT1I	CCWWGG	2 cut(s)	285, 519
Bst2UI	CCWGG	3 cut(s)	88, 546, 796
Bst4CI	ACNGT	3 cut(s)	19, 460, 658
BstAPI	GCANNNNNTGC	1 cut(s)	146
BstBAI	YACGTR	1 cut(s)	146
BstC8I	GCNNGC	4 cut(s)	99, 162, 478, 688
BstDEI	CTNAG	5 cut(s)	8, 104, 242, 291, 466
BstDSI	CCRYGG	2 cut(s)	135, 519
BstFNI	CGCG	1 cut(s)	137
BstKTI	GATC	3 cut(s)	121, 697, 706
BstMBI	GATC	3 cut(s)	118, 694, 703
BstMWI	GCNNNNNNNGC	3 cut(s)	146, 161, 734
BstNI	CCWGG	3 cut(s)	88, 546, 796
BstNSI	RCATGY	1 cut(s)	474
BstSCI	CCNGG	3 cut(s)	86, 544, 794
BstSFI	CTRYAG	2 cut(s)	165, 559
BstSLI	GKGCMC	1 cut(s)	739
BstUI	CGCG	1 cut(s)	137
BstV1I	GCAGC	4 cut(s)	151, 638, 660, 712
BsuI	GTATCC	1 cut(s)	374
BtgI	CCRYGG	2 cut(s)	135, 519
BtsI	GCAGTG	1 cut(s)	353
BtsIMutI	CAGTG	4 cut(s)	15, 101, 353, 654
BveI	ACCTGC	1 cut(s)	175
Cac8I	GCNNGC	4 cut(s)	99, 162, 478, 688
CaiI	CAGNNNCTG	1 cut(s)	651
Cfr10I	RCCGGY	2 cut(s)	97, 482
Cfr13I	GGNCC	1 cut(s)	548
Cfr42I	CCGCGG	1 cut(s)	138
CsiI	ACCWGGT	1 cut(s)	544
Csp6I	GTAC	2 cut(s)	188, 395
CspAI	ACCGGT	1 cut(s)	482
CviAII	CATG	5 cut(s)	191, 471, 520, 609, 812
CviQI	GTAC	2 cut(s)	188, 395
DdeI	CTNAG	5 cut(s)	8, 104, 242, 291, 466
DpnI	GATC	3 cut(s)	120, 696, 705
DpnII	GATC	3 cut(s)	118, 694, 703
DraI	TTTAAA	1 cut(s)	303
Eco130I	CCWWGG	2 cut(s)	285, 519
Eco47I	GGWCC	1 cut(s)	548
EcoRII	CCWGG	3 cut(s)	86, 544, 794
EcoT14I	CCWWGG	2 cut(s)	285, 519
ErhI	CCWWGG	2 cut(s)	285, 519
FaeI	CATG	5 cut(s)	194, 474, 523, 612, 815
FalI	AAGNNNNNCTT	6 cut(s)	381, 413, 521, 553, 690, 722
FaqI	GGGAC	1 cut(s)	644
FatI	CATG	5 cut(s)	190, 470, 519, 608, 811
FbaI	TGATCA	1 cut(s)	118
Fnu4HI	GCNGC	7 cut(s)	5, 138, 165, 494, 649, 652, 726
Fsp4HI	GCNGC	7 cut(s)	5, 138, 165, 494, 649, 652, 726
FspBI	CTAG	2 cut(s)	161, 569
GluI	GCNGC	7 cut(s)	5, 138, 165, 494, 649, 652, 726
GsaI	CCCAGC	1 cut(s)	159
HapII	CCGG	2 cut(s)	98, 483
Hin1II	CATG	5 cut(s)	194, 474, 523, 612, 815
HinfI	GANTC	2 cut(s)	515, 748
HpaII	CCGG	2 cut(s)	98, 483
HphI	GGTGA	3 cut(s)	62, 605, 713
Hpy166II	GTNNAC	3 cut(s)	66, 348, 719
Hpy188I	TCNGA	2 cut(s)	294, 869
Hpy188III	TCNNGA	2 cut(s)	551, 707
Hpy8I	GTNNAC	3 cut(s)	66, 348, 719
HpyAV	CCTTC	2 cut(s)	419, 841
HpyCH4III	ACNGT	3 cut(s)	19, 460, 658
HpyCH4IV	ACGT	1 cut(s)	145
HpyCH4V	TGCA	4 cut(s)	26, 167, 654, 690
HpyF10VI	GCNNNNNNNGC	3 cut(s)	146, 161, 734
HpyF3I	CTNAG	5 cut(s)	8, 104, 242, 291, 466
HpySE526I	ACGT	1 cut(s)	145
Hsp92II	CATG	5 cut(s)	194, 474, 523, 612, 815
KroI	GCCGGC	1 cut(s)	97
KroNI	GCCGGC	1 cut(s)	99
Ksp22I	TGATCA	1 cut(s)	118
KspI	CCGCGG	1 cut(s)	138
Kzo9I	GATC	3 cut(s)	118, 694, 703
LmnI	GCTCC	1 cut(s)	671
Lsp1109I	GCAGC	4 cut(s)	151, 638, 660, 712
LweI	GCATC	4 cut(s)	43, 84, 192, 618
MabI	ACCWGGT	1 cut(s)	544
MaeI	CTAG	2 cut(s)	161, 569
MaeII	ACGT	1 cut(s)	145
MaeIII	GTNAC	3 cut(s)	454, 641, 886
MalI	GATC	3 cut(s)	120, 696, 705
MboI	GATC	3 cut(s)	118, 694, 703
MboII	GAAGA	1 cut(s)	103
MfeI	CAATTG	1 cut(s)	488
MhlI	GDGCHC	2 cut(s)	478, 739
MluCI	AATT	9 cut(s)	80, 173, 304, 429, 488, 596, 710, 784, 892
MmeI	TCCRAC	1 cut(s)	847
MnlI	CCTC	5 cut(s)	64, 316, 385, 762, 822
MroNI	GCCGGC	1 cut(s)	97
MseI	TTAA	5 cut(s)	302, 633, 681, 819, 854
MslI	CAYNNNNRTG	1 cut(s)	759
MspA1I	CMGCKG	4 cut(s)	7, 137, 564, 651
MspI	CCGG	2 cut(s)	98, 483
MspR9I	CCNGG	3 cut(s)	88, 546, 796
MunI	CAATTG	1 cut(s)	488
MvaI	CCWGG	3 cut(s)	88, 546, 796
MvnI	CGCG	1 cut(s)	137
MwoI	GCNNNNNNNGC	3 cut(s)	146, 161, 734
NaeI	GCCGGC	1 cut(s)	99
NcoI	CCATGG	1 cut(s)	519
NdeII	GATC	3 cut(s)	118, 694, 703
NgoMIV	GCCGGC	1 cut(s)	97
NheI	GCTAGC	1 cut(s)	160
NlaIII	CATG	5 cut(s)	194, 474, 523, 612, 815
NmeAIII	GCCGAG	1 cut(s)	477
NmuCI	GTSAC	3 cut(s)	454, 641, 886
NspI	RCATGY	1 cut(s)	474
PdiI	GCCGGC	1 cut(s)	99
PfeI	GAWTC	2 cut(s)	515, 748
PflFI	GACNNNGTC	1 cut(s)	130
PflMI	CCANNNNNTGG	1 cut(s)	63
PinAI	ACCGGT	1 cut(s)	482
PkrI	GCNGC	7 cut(s)	6, 139, 166, 495, 650, 653, 727
Ppu21I	YACGTR	1 cut(s)	146
PshBI	ATTAAT	1 cut(s)	819
Psp6I	CCWGG	3 cut(s)	86, 544, 794
PspFI	CCCAGC	1 cut(s)	155
PspGI	CCWGG	3 cut(s)	86, 544, 794
PspPI	GGNCC	1 cut(s)	548
PstI	CTGCAG	1 cut(s)	169
PstNI	CAGNNNCTG	1 cut(s)	651
PsyI	GACNNNGTC	1 cut(s)	130
PvuII	CAGCTG	2 cut(s)	564, 651
RsaI	GTAC	2 cut(s)	189, 396
RsaNI	GTAC	2 cut(s)	188, 395
RseI	CAYNNNNRTG	1 cut(s)	759
SacII	CCGCGG	1 cut(s)	138
SaqAI	TTAA	5 cut(s)	302, 633, 681, 819, 854
SatI	GCNGC	7 cut(s)	5, 138, 165, 494, 649, 652, 726
Sau3AI	GATC	3 cut(s)	118, 694, 703
Sau96I	GGNCC	1 cut(s)	548
ScrFI	CCNGG	3 cut(s)	88, 546, 796
SduI	GDGCHC	2 cut(s)	478, 739
SexAI	ACCWGGT	1 cut(s)	544
SfaNI	GCATC	4 cut(s)	43, 84, 192, 618
SfcI	CTRYAG	2 cut(s)	165, 559
Sfr303I	CCGCGG	1 cut(s)	138
SgrBI	CCGCGG	1 cut(s)	138
SinI	GGWCC	1 cut(s)	548
SmiMI	CAYNNNNRTG	1 cut(s)	759
SmlI	CTYRAG	2 cut(s)	527, 740
SmoI	CTYRAG	2 cut(s)	527, 740
Sse9I	AATT	9 cut(s)	80, 173, 304, 429, 488, 596, 710, 784, 892
SsiI	CCGC	4 cut(s)	5, 135, 137, 493
SspMI	CTAG	2 cut(s)	161, 569
StyD4I	CCNGG	3 cut(s)	86, 544, 794
StyI	CCWWGG	2 cut(s)	285, 519
TaaI	ACNGT	3 cut(s)	19, 460, 658
TaiI	ACGT	1 cut(s)	148
TasI	AATT	9 cut(s)	80, 173, 304, 429, 488, 596, 710, 784, 892
TauI	GCSGC	3 cut(s)	7, 140, 496
TfiI	GAWTC	2 cut(s)	515, 748
Tru1I	TTAA	5 cut(s)	302, 633, 681, 819, 854
Tru9I	TTAA	5 cut(s)	302, 633, 681, 819, 854
TscAI	CASTG	4 cut(s)	22, 108, 360, 661
TseFI	GTSAC	3 cut(s)	454, 641, 886
TseI	GCWGC	4 cut(s)	164, 648, 651, 725
Tsp45I	GTSAC	3 cut(s)	454, 641, 886
TspDTI	ATGAA	2 cut(s)	237, 854
TspRI	CASTG	4 cut(s)	22, 108, 360, 661
Tth111I	GACNNNGTC	1 cut(s)	130
Van91I	CCANNNNNTGG	1 cut(s)	63
VpaK11BI	GGWCC	1 cut(s)	548
VspI	ATTAAT	1 cut(s)	819
XapI	RAATTY	2 cut(s)	304, 784
XceI	RCATGY	1 cut(s)	474
XspI	CTAG	2 cut(s)	161, 569

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