Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0005824

Physical Location & Seq

Genomic Coordinates Forward (+)

38838215 .. 38846865

Gene Structure 8651 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG216800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGGTCTTGTCTGCTTGTACAAGATTGGTGAATATAGATTATGGTAGACAAGTTCATTGCAGTGTAATTAAGATGGGGCTTGAGTTGGTATCATACTATCAAGGTGCACTTATTGATATGTATGCCAAGTGCACTTGTATAAGTGATGCTCGGCAGATATTTGACAGTGCAGTGGAGTTTGATACCGTCGCTTGGACAACAATGATTTCAGGGGTAGATGATGCATGCGACTTGTTCTCGCAGATGCCCAATCCAAATGATGTGGCATGGAATGTGATGATTTCTGGGCATGCAAAGAGAGGGGATCTGAAGGAAGTAAGGAACCAATTTGAGCTCATAAGCAATCGAGACAATGTATCTTGGAATGCAATTATTGTTGGATATGTGCAGGAAGAAGACGAGGACAAGGCTTTTTGTATGTTCAGAAGAATGATATTGCATAGGATTGTGCCTGATGAAGTATCCTTGGCCAGTATACTACGTGCTTGTGCAAATGTTCAAGCACTGGACATGGGACAGCCAGTCCACTGTCTCTCGATTAAAATTGGTCTAGAAACAAGCCTTTATGCTGGGAGCTCCCTTATTGATATGTATTCCAAATGTGGGCTAATTAGGGATGCACGAAGTGTTCTTGATTTCTTGCCCCATTGCAGTGTGGTCTCGATGAATGCTCTGATTTCTGGCTTTGTTCATAGAAACTTCGAAGAAGCAGTAAACATATTTCGTGAGATGCAGGATATTGGATTGAACCCATCTGAAGTTACTTTTTCAAGTCTTTTAGATGCATGCAATGGACCTATTATGCTACCACTGGGAAGACAAATCCACAACATAGTACTAAAGAAAGGCCTTTTGTTTGATGGACTCAGTCAAAATGATTGTATAGAGGAGGCATTGCAGTTGTATCGAGAAATGCGTAGTGATAATGCCCTACCAGACCAAGCAACTTTTGCCAGTGTTCTTTGA

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

Protein Analysis

321

Amino Acids

35.81

Weight (kDa)

4.88

Isoelectric Point (pI)

49.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	117 - 165	6.7e-08	PPR repeat family
PPR_2	PF13041	218 - 263	3.9e-10	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005824)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G09040 AT3G09040 AT3G09040 AT3G09040
fragaria_vesca	FvH4_2g14640 FvH4_2g14640
malus_domestica	MD05G1015800.v1.1 MD10G1015600.v1.1
prunus_persica	Prupe.8G019100_v2.0.a1
pyrus_communis	pycom05g00870 pycom10g01020
rosa_chinensis	RchiOBHm_Chr6g0277121
rosa_laevigata	RLG00000013330
rosa_multiflora	Rmu_sc0003539.1_g000006 Rmu_sc0006244.1_g000049
rosa_roxburghii	Rroxscaffold_7G00191600
rosa_rugosa	Rorug06G0106300 Rorug06G0106400 Rorug06G0106500 Rorug06G0106500
rosa_samantha	Rh6AG216500 Rh6AG216800 Rh6AG216900 Rh6BG221100 Rh6CG223800 Rh6DG213700
rosa_wichuraiana	Rw6G018890 Rw6G018920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	46, 475
AclWI	GGATC	1 cut(s)	312
AcoI	YGGCCR	1 cut(s)	468
AcuI	CTGAAG	2 cut(s)	329, 777
AdeI	CACNNNGTG	1 cut(s)	626
AfaI	GTAC	2 cut(s)	19, 837
AfiI	CCNNNNNNNGG	2 cut(s)	192, 603
AgsI	TTSAA	3 cut(s)	500, 748, 771
AhdI	GACNNNNNGTC	1 cut(s)	521
AluBI	AGCT	2 cut(s)	334, 576
AluI	AGCT	2 cut(s)	334, 576
Alw21I	GWGCWC	4 cut(s)	109, 134, 336, 578
Alw26I	GTCTC	3 cut(s)	342, 536, 664
Alw44I	GTGCAC	2 cut(s)	105, 130
AlwI	GGATC	1 cut(s)	312
AoxI	GGCC	2 cut(s)	468, 847
ApaLI	GTGCAC	2 cut(s)	105, 130
AspS9I	GGNCC	1 cut(s)	794
AsuHPI	GGTGA	1 cut(s)	40
AsuII	TTCGAA	1 cut(s)	702
AvaII	GGWCC	1 cut(s)	794
BaeGI	GKGCMC	2 cut(s)	109, 134
BalI	TGGCCA	1 cut(s)	470
BanII	GRGCYC	2 cut(s)	336, 578
BbsI	GAAGAC	2 cut(s)	402, 823
Bbv12I	GWGCWC	4 cut(s)	109, 134, 336, 578
BccI	CCATC	3 cut(s)	67, 760, 854
BcgI	CGANNNNNNTGC	2 cut(s)	887, 921
BciVI	GTATCC	1 cut(s)	472
BcoDI	GTCTC	3 cut(s)	342, 536, 664
BfaI	CTAG	1 cut(s)	551
BfuI	GTATCC	1 cut(s)	472
BmcAI	AGTACT	1 cut(s)	837
Bme18I	GGWCC	1 cut(s)	794
BmeRI	GACNNNNNGTC	1 cut(s)	521
BmgT120I	GGNCC	1 cut(s)	794
BmiI	GGNNCC	1 cut(s)	323
BmrI	ACTGGG	1 cut(s)	821
BmsI	GCATC	6 cut(s)	136, 211, 234, 607, 720, 772
BmuI	ACTGGG	1 cut(s)	821
BpiI	GAAGAC	2 cut(s)	402, 823
Bpu14I	TTCGAA	1 cut(s)	702
BpuEI	CTTGAG	1 cut(s)	101
BsaAI	YACGTR	1 cut(s)	482
BsaI	GGTCTC	1 cut(s)	664
BsaJI	CCNNGG	1 cut(s)	465
Bsc4I	CCNNNNNNNGG	2 cut(s)	192, 603
Bse1I	ACTGG	5 cut(s)	471, 510, 521, 816, 954
Bse3DI	GCAATG	4 cut(s)	55, 646, 796, 893
BseDI	CCNNGG	1 cut(s)	465
BseGI	GGATG	1 cut(s)	622
BseLI	CCNNNNNNNGG	2 cut(s)	192, 603
BseMI	GCAATG	4 cut(s)	55, 646, 796, 893
BseMII	CTCAG	1 cut(s)	880
BseNI	ACTGG	5 cut(s)	471, 510, 521, 816, 954
BseRI	GAGGAG	1 cut(s)	902
BseSI	GKGCMC	2 cut(s)	109, 134
BseYI	CCCAGC	1 cut(s)	569
BsgI	GTGCAG	2 cut(s)	189, 407
BshFI	GGCC	2 cut(s)	470, 849
BsiHKAI	GWGCWC	4 cut(s)	109, 134, 336, 578
BslFI	GGGAC	1 cut(s)	528
BslI	CCNNNNNNNGG	2 cut(s)	192, 603
BsmAI	GTCTC	3 cut(s)	342, 536, 664
BsmFI	GGGAC	1 cut(s)	528
BsmI	GAATGC	2 cut(s)	370, 673
BsnI	GGCC	2 cut(s)	470, 849
Bso31I	GGTCTC	1 cut(s)	664
Bsp119I	TTCGAA	1 cut(s)	702
Bsp1286I	GDGCHC	4 cut(s)	109, 134, 336, 578
Bsp1407I	TGTACA	1 cut(s)	17
Bsp143I	GATC	1 cut(s)	304
BspANI	GGCC	2 cut(s)	470, 849
BspCNI	CTCAG	1 cut(s)	879
BspLI	GGNNCC	1 cut(s)	323
BspPI	GGATC	1 cut(s)	312
BspT104I	TTCGAA	1 cut(s)	702
BspTNI	GGTCTC	1 cut(s)	664
BsrDI	GCAATG	4 cut(s)	55, 646, 796, 893
BsrGI	TGTACA	1 cut(s)	17
BsrI	ACTGG	5 cut(s)	471, 510, 521, 816, 954
BssECI	CCNNGG	1 cut(s)	465
BssMI	GATC	1 cut(s)	304
BssNAI	GTATAC	1 cut(s)	476
BssT1I	CCWWGG	1 cut(s)	465
Bst1107I	GTATAC	1 cut(s)	476
Bst4CI	ACNGT	3 cut(s)	167, 187, 530
BstAPI	GCANNNNNTGC	1 cut(s)	950
BstAUI	TGTACA	1 cut(s)	17
BstBAI	YACGTR	1 cut(s)	482
BstBI	TTCGAA	1 cut(s)	702
BstC8I	GCNNGC	3 cut(s)	226, 291, 787
BstDEI	CTNAG	1 cut(s)	866
BstF5I	GGATG	1 cut(s)	622
BstKTI	GATC	1 cut(s)	307
BstMAI	GTCTC	3 cut(s)	342, 536, 664
BstMBI	GATC	1 cut(s)	304
BstMWI	GCNNNNNNNGC	1 cut(s)	950
BstNSI	RCATGY	3 cut(s)	228, 293, 789
BstSLI	GKGCMC	2 cut(s)	109, 134
BstV2I	GAAGAC	2 cut(s)	402, 823
BstX2I	RGATCY	1 cut(s)	304
BstYI	RGATCY	1 cut(s)	304
BstZ17I	GTATAC	1 cut(s)	476
BsuI	GTATCC	1 cut(s)	472
BsuRI	GGCC	2 cut(s)	470, 849
BtsCI	GGATG	1 cut(s)	622
BtsI	GCAGTG	3 cut(s)	67, 177, 658
BtsIMutI	CAGTG	8 cut(s)	67, 172, 177, 503, 526, 658, 809, 961
Cac8I	GCNNGC	3 cut(s)	226, 291, 787
Cfr13I	GGNCC	1 cut(s)	794
Csp6I	GTAC	2 cut(s)	18, 836
CspCI	CAANNNNNGTGG	2 cut(s)	243, 278
CviAII	CATG	5 cut(s)	225, 267, 290, 511, 786
CviQI	GTAC	2 cut(s)	18, 836
DdeI	CTNAG	1 cut(s)	866
DpnI	GATC	1 cut(s)	306
DpnII	GATC	1 cut(s)	304
DraIII	CACNNNGTG	1 cut(s)	626
DriI	GACNNNNNGTC	1 cut(s)	521
EaeI	YGGCCR	1 cut(s)	468
Eam1105I	GACNNNNNGTC	1 cut(s)	521
Ecl136II	GAGCTC	2 cut(s)	334, 576
Eco130I	CCWWGG	1 cut(s)	465
Eco147I	AGGCCT	1 cut(s)	849
Eco24I	GRGCYC	2 cut(s)	336, 578
Eco31I	GGTCTC	1 cut(s)	664
Eco47I	GGWCC	1 cut(s)	794
Eco53kI	GAGCTC	2 cut(s)	334, 576
Eco57I	CTGAAG	2 cut(s)	329, 777
EcoICRI	GAGCTC	2 cut(s)	334, 576
EcoT14I	CCWWGG	1 cut(s)	465
EcoT22I	ATGCAT	2 cut(s)	226, 787
EcoT38I	GRGCYC	2 cut(s)	336, 578
ErhI	CCWWGG	1 cut(s)	465
FaeI	CATG	5 cut(s)	228, 270, 293, 514, 789
FalI	AAGNNNNNCTT	2 cut(s)	93, 125
FaqI	GGGAC	1 cut(s)	528
FatI	CATG	5 cut(s)	224, 266, 289, 510, 785
FblI	GTMKAC	2 cut(s)	46, 475
FokI	GGATG	1 cut(s)	629
FriOI	GRGCYC	2 cut(s)	336, 578
FspBI	CTAG	1 cut(s)	551
GsaI	CCCAGC	1 cut(s)	573
HaeIII	GGCC	2 cut(s)	470, 849
Hin1II	CATG	5 cut(s)	228, 270, 293, 514, 789
HinfI	GANTC	1 cut(s)	864
HphI	GGTGA	1 cut(s)	40
Hpy166II	GTNNAC	6 cut(s)	47, 107, 132, 476, 526, 715
Hpy188I	TCNGA	4 cut(s)	309, 425, 675, 757
Hpy188III	TCNNGA	7 cut(s)	347, 535, 551, 632, 661, 725, 908
Hpy8I	GTNNAC	6 cut(s)	47, 107, 132, 476, 526, 715
Hpy99I	CGWCG	1 cut(s)	191
HpyAV	CCTTC	1 cut(s)	304
HpyCH4III	ACNGT	3 cut(s)	167, 187, 530
HpyCH4IV	ACGT	1 cut(s)	481
HpyF10VI	GCNNNNNNNGC	1 cut(s)	950
HpyF3I	CTNAG	1 cut(s)	866
HpySE526I	ACGT	1 cut(s)	481
Hsp92II	CATG	5 cut(s)	228, 270, 293, 514, 789
Kzo9I	GATC	1 cut(s)	304
LmnI	GCTCC	2 cut(s)	573, 581
LweI	GCATC	6 cut(s)	136, 211, 234, 607, 720, 772
MaeI	CTAG	1 cut(s)	551
MaeII	ACGT	1 cut(s)	481
MaeIII	GTNAC	1 cut(s)	760
MalI	GATC	1 cut(s)	306
MboI	GATC	1 cut(s)	304
MboII	GAAGA	5 cut(s)	404, 407, 438, 716, 828
MflI	RGATCY	1 cut(s)	304
MhlI	GDGCHC	4 cut(s)	109, 134, 336, 578
MlsI	TGGCCA	1 cut(s)	470
MluCI	AATT	5 cut(s)	66, 326, 369, 543, 609
MluNI	TGGCCA	1 cut(s)	470
MlyI	GAGTC	1 cut(s)	858
MmeI	TCCRAC	1 cut(s)	358
MnlI	CCTC	4 cut(s)	293, 394, 880, 883
Mox20I	TGGCCA	1 cut(s)	470
Mph1103I	ATGCAT	2 cut(s)	226, 787
MscI	TGGCCA	1 cut(s)	470
MseI	TTAA	2 cut(s)	69, 540
MslI	CAYNNNNRTG	2 cut(s)	60, 651
Msp20I	TGGCCA	1 cut(s)	470
Mva1269I	GAATGC	2 cut(s)	370, 673
MwoI	GCNNNNNNNGC	1 cut(s)	950
NdeII	GATC	1 cut(s)	304
NlaIII	CATG	5 cut(s)	228, 270, 293, 514, 789
NlaIV	GGNNCC	1 cut(s)	323
NmeAIII	GCCGAG	1 cut(s)	130
NsiI	ATGCAT	2 cut(s)	226, 787
NspI	RCATGY	3 cut(s)	228, 293, 789
NspV	TTCGAA	1 cut(s)	702
PaeI	GCATGC	3 cut(s)	228, 293, 789
PceI	AGGCCT	1 cut(s)	849
PcsI	WCGNNNNNNNCGW	1 cut(s)	913
PctI	GAATGC	2 cut(s)	370, 673
PflFI	GACNNNGTC	1 cut(s)	867
PleI	GAGTC	1 cut(s)	858
PpsI	GAGTC	1 cut(s)	858
Ppu21I	YACGTR	1 cut(s)	482
Psp124BI	GAGCTC	2 cut(s)	336, 578
PspFI	CCCAGC	1 cut(s)	569
PspN4I	GGNNCC	1 cut(s)	323
PspPI	GGNCC	1 cut(s)	794
PsuI	RGATCY	1 cut(s)	304
PsyI	GACNNNGTC	1 cut(s)	867
RsaI	GTAC	2 cut(s)	19, 837
RsaNI	GTAC	2 cut(s)	18, 836
RseI	CAYNNNNRTG	2 cut(s)	60, 651
SacI	GAGCTC	2 cut(s)	336, 578
SaqAI	TTAA	2 cut(s)	69, 540
Sau3AI	GATC	1 cut(s)	304
Sau96I	GGNCC	1 cut(s)	794
ScaI	AGTACT	1 cut(s)	837
SchI	GAGTC	1 cut(s)	858
SduI	GDGCHC	4 cut(s)	109, 134, 336, 578
SetI	ASST	5 cut(s)	106, 336, 484, 578, 799
SfaNI	GCATC	6 cut(s)	136, 211, 234, 607, 720, 772
SfuI	TTCGAA	1 cut(s)	702
SinI	GGWCC	1 cut(s)	794
SmiMI	CAYNNNNRTG	2 cut(s)	60, 651
SmlI	CTYRAG	1 cut(s)	80
SmoI	CTYRAG	1 cut(s)	80
SphI	GCATGC	3 cut(s)	228, 293, 789
Sse9I	AATT	5 cut(s)	66, 326, 369, 543, 609
SseBI	AGGCCT	1 cut(s)	849
SspMI	CTAG	1 cut(s)	551
SstI	GAGCTC	2 cut(s)	336, 578
StuI	AGGCCT	1 cut(s)	849
StyI	CCWWGG	1 cut(s)	465
TaaI	ACNGT	3 cut(s)	167, 187, 530
TaiI	ACGT	1 cut(s)	484
TaqI	TCGA	5 cut(s)	346, 536, 662, 702, 907
TasI	AATT	5 cut(s)	66, 326, 369, 543, 609
TatI	WGTACW	2 cut(s)	17, 835
Tru1I	TTAA	2 cut(s)	69, 540
Tru9I	TTAA	2 cut(s)	69, 540
TscAI	CASTG	8 cut(s)	67, 172, 177, 510, 533, 658, 816, 961
TspDTI	ATGAA	4 cut(s)	44, 471, 680, 680
TspRI	CASTG	8 cut(s)	67, 172, 177, 510, 533, 658, 816, 961
Tth111I	GACNNNGTC	1 cut(s)	867
VneI	GTGCAC	2 cut(s)	105, 130
VpaK11BI	GGWCC	1 cut(s)	794
XbaI	TCTAGA	1 cut(s)	550
XceI	RCATGY	3 cut(s)	228, 293, 789
XmiI	GTMKAC	2 cut(s)	46, 475
XspI	CTAG	1 cut(s)	551
ZrmI	AGTACT	1 cut(s)	837
Zsp2I	ATGCAT	2 cut(s)	226, 787

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