Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0011933

Physical Location & Seq

Genomic Coordinates Reverse (-)

36592160 .. 36593011

Gene Structure 852 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG340900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 852 bp

ATGATGCAAGGAGAGGGGATGGGGTTCACTTGGGTCACCCTCACCACAGTGTTACCAATATGTGCTAGAATGACTGCACTATATAGTGGGAAGGAGATACATGCCCAGATAGTCAAGTCCACCAAGAGACCTGATGTCCCTGTACTGAACTCACTCATGGACATGTATGCAAAATGTGGAGCGATTGATTACTGTAAGAGGGTGTTTGACAATGTGCACTGTAAAGATTTGACATCTTGGAATACTGTTCTTACAGGGTATGCGGTGAATGGGTTTATTGAACAAGGAATGATATTGTTTGATAAGATGGTAGAGTCTGGAATCAGACTAGATGGAGTAACCTTTATAGCTCTGTTATCTGGCTGTAGCCATGTGGGGCTTACTGACCAAGGACGGAGATTGTTTGATAAAATGAAGTTGGGTTATGGCATATCCCCAACTGTTGAGCATTATGCTTGTCTTGTAGATCTCTTGGGAAGAGCTGGTAGAAATGAGGAGGCCTTAGATGTAGTGGAAAACATGCCTGTGAAGCCGTCTGGAAGCATATGTGGTTCATTACTCAACTCATGCCGGCTCCAAGGCAAAGTTGCTCTTGCGGAGCGTGCTGCAATGGAGTTGTTTGAGCTTGAACCTAACAATCCTGGGAACTATGTGGTGCTCTCACATGTTTATGCAAATGCAGGGATGTGGGAGGGCGTCAATAGGGTTCGAGAACTTATGAAGGAGAGGGGACTTAAAAAGGAGGCTGAATGCAGTTGGTTGCAAATAGGGAGTAGGATCCACACGTTTGTAGTGGGTGGGGTTTTCAGTTTTGTAATTCAGTTGAGTTTAAGAAAGTTTGGAATGAATTGA

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:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016553 GO:0016554 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1900865 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

283

Amino Acids

31.3

Weight (kDa)

8.04

Isoelectric Point (pI)

38.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	76 - 123	7.3e-09	PPR repeat family
PPR	PF01535	79 - 108	2.9e-06	PPR repeat
PPR_3	PF13812	99 - 159	4.4e-08	Pentatricopeptide repeat domain
E_motif	PF20431	196 - 255	1.4e-19	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0011933)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14330
fragaria_vesca	FvH4_1g28620
malus_domestica	MD17G1262400.v1.1
prunus_persica	Prupe.3G163800_v2.0.a1
pyrus_communis	pycom17g26230
rosa_chinensis	RchiOBHm_Chr3g0492571
rosa_laevigata	RLG00000022759
rosa_multiflora	Rmu_sc0000831.1_g000061 Rmu_sc0008694.1_g000001
rosa_roxburghii	Rroxscaffold_4G00325000 Rroxscaffold_4G00325010
rosa_rugosa	Rorug03G0254500
rosa_samantha	Rh3BG340900 Rh3BG341000 Rh3BG341100 Rh3CG338400 Rh3DG340200 Rh3DG340300 Rh5BG302200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	263, 596
AclWI	GGATC	2 cut(s)	772, 785
AcyI	GRCGYC	1 cut(s)	696
AfaI	GTAC	1 cut(s)	144
AflIII	ACRYGT	3 cut(s)	162, 664, 783
AgsI	TTSAA	2 cut(s)	281, 629
AhdI	GACNNNNNGTC	1 cut(s)	134
AjnI	CCWGG	1 cut(s)	640
AleI	CACNNNNGTG	1 cut(s)	47
AluBI	AGCT	3 cut(s)	350, 482, 625
AluI	AGCT	3 cut(s)	350, 482, 625
Alw21I	GWGCWC	2 cut(s)	219, 660
Alw26I	GTCTC	1 cut(s)	121
Alw44I	GTGCAC	1 cut(s)	215
AlwI	GGATC	2 cut(s)	772, 785
AoxI	GGCC	1 cut(s)	498
ApaLI	GTGCAC	1 cut(s)	215
ApeKI	GCWGC	1 cut(s)	605
AsuHPI	GGTGA	3 cut(s)	28, 34, 277
BaeGI	GKGCMC	1 cut(s)	219
BamHI	GGATCC	1 cut(s)	777
Bbv12I	GWGCWC	2 cut(s)	219, 660
BbvI	GCAGC	1 cut(s)	592
BccI	CCATC	3 cut(s)	13, 301, 326
BceAI	ACGGC	1 cut(s)	517
BciT130I	CCWGG	1 cut(s)	642
BcoDI	GTCTC	1 cut(s)	121
BfaI	CTAG	2 cut(s)	66, 329
BfmI	CTRYAG	1 cut(s)	364
BglII	AGATCT	1 cut(s)	466
BisI	GCNGC	1 cut(s)	606
BlsI	GCNGC	1 cut(s)	607
Bme1390I	CCNGG	1 cut(s)	642
BmeRI	GACNNNNNGTC	1 cut(s)	134
BmiI	GGNNCC	2 cut(s)	575, 779
BmrFI	CCNGG	1 cut(s)	642
BsaHI	GRCGYC	1 cut(s)	696
BsaI	GGTCTC	1 cut(s)	121
BsaJI	CCNNGG	3 cut(s)	388, 577, 641
Bse118I	RCCGGY	1 cut(s)	570
Bse3DI	GCAATG	1 cut(s)	615
BseBI	CCWGG	1 cut(s)	642
BseDI	CCNNGG	3 cut(s)	388, 577, 641
BseGI	GGATG	2 cut(s)	24, 690
BseMI	GCAATG	1 cut(s)	615
BseRI	GAGGAG	1 cut(s)	509
BseSI	GKGCMC	1 cut(s)	219
BseXI	GCAGC	1 cut(s)	592
BsgI	GTGCAG	1 cut(s)	60
BshFI	GGCC	1 cut(s)	500
BsiHKAI	GWGCWC	2 cut(s)	219, 660
BsiSI	CCGG	1 cut(s)	571
BslFI	GGGAC	2 cut(s)	122, 744
BsmAI	GTCTC	1 cut(s)	121
BsmFI	GGGAC	2 cut(s)	122, 744
BsmI	GAATGC	1 cut(s)	755
BsnI	GGCC	1 cut(s)	500
Bso31I	GGTCTC	1 cut(s)	121
Bsp1286I	GDGCHC	2 cut(s)	219, 660
Bsp143I	GATC	2 cut(s)	466, 777
BspACI	CCGC	2 cut(s)	263, 596
BspANI	GGCC	1 cut(s)	500
BspLI	GGNNCC	2 cut(s)	575, 779
BspPI	GGATC	2 cut(s)	772, 785
BspQI	GCTCTTC	1 cut(s)	472
BspTNI	GGTCTC	1 cut(s)	121
BsrDI	GCAATG	1 cut(s)	615
BsrFI	RCCGGY	1 cut(s)	570
BssAI	RCCGGY	1 cut(s)	570
BssECI	CCNNGG	3 cut(s)	388, 577, 641
BssMI	GATC	2 cut(s)	466, 777
BssNI	GRCGYC	1 cut(s)	696
BssT1I	CCWWGG	2 cut(s)	388, 577
Bst2UI	CCWGG	1 cut(s)	642
Bst4CI	ACNGT	5 cut(s)	49, 194, 221, 247, 442
Bst6I	CTCTTC	1 cut(s)	472
BstACI	GRCGYC	1 cut(s)	696
BstC8I	GCNNGC	2 cut(s)	572, 603
BstDEI	CTNAG	1 cut(s)	502
BstEII	GGTNACC	1 cut(s)	34
BstF5I	GGATG	2 cut(s)	24, 690
BstKTI	GATC	2 cut(s)	469, 780
BstMAI	GTCTC	1 cut(s)	121
BstMBI	GATC	2 cut(s)	466, 777
BstMWI	GCNNNNNNNGC	2 cut(s)	529, 602
BstNI	CCWGG	1 cut(s)	642
BstNSI	RCATGY	4 cut(s)	104, 166, 523, 668
BstPI	GGTNACC	1 cut(s)	34
BstSCI	CCNGG	1 cut(s)	640
BstSFI	CTRYAG	1 cut(s)	364
BstSLI	GKGCMC	1 cut(s)	219
BstV1I	GCAGC	1 cut(s)	592
BstX2I	RGATCY	2 cut(s)	466, 777
BstYI	RGATCY	2 cut(s)	466, 777
BsuRI	GGCC	1 cut(s)	500
BtsCI	GGATG	2 cut(s)	24, 690
BtsIMutI	CAGTG	2 cut(s)	54, 217
Cac8I	GCNNGC	2 cut(s)	572, 603
Cfr10I	RCCGGY	1 cut(s)	570
CseI	GACGC	1 cut(s)	685
Csp6I	GTAC	1 cut(s)	143
CviAII	CATG	7 cut(s)	101, 157, 163, 371, 520, 567, 665
CviQI	GTAC	1 cut(s)	143
DdeI	CTNAG	1 cut(s)	502
DpnI	GATC	2 cut(s)	468, 779
DpnII	GATC	2 cut(s)	466, 777
DriI	GACNNNNNGTC	1 cut(s)	134
Eam1104I	CTCTTC	1 cut(s)	472
Eam1105I	GACNNNNNGTC	1 cut(s)	134
EarI	CTCTTC	1 cut(s)	472
Eco130I	CCWWGG	2 cut(s)	388, 577
Eco147I	AGGCCT	1 cut(s)	500
Eco31I	GGTCTC	1 cut(s)	121
Eco91I	GGTNACC	1 cut(s)	34
EcoO65I	GGTNACC	1 cut(s)	34
EcoRII	CCWGG	1 cut(s)	640
EcoT14I	CCWWGG	2 cut(s)	388, 577
ErhI	CCWWGG	2 cut(s)	388, 577
FaeI	CATG	7 cut(s)	104, 160, 166, 374, 523, 570, 668
FalI	AAGNNNNNCTT	2 cut(s)	576, 608
FaqI	GGGAC	2 cut(s)	122, 744
FatI	CATG	7 cut(s)	100, 156, 162, 370, 519, 566, 664
FauNDI	CATATG	1 cut(s)	545
Fnu4HI	GCNGC	1 cut(s)	606
FokI	GGATG	2 cut(s)	31, 697
Fsp4HI	GCNGC	1 cut(s)	606
FspBI	CTAG	2 cut(s)	66, 329
GluI	GCNGC	1 cut(s)	606
HaeIII	GGCC	1 cut(s)	500
HapII	CCGG	1 cut(s)	571
HgaI	GACGC	1 cut(s)	685
Hin1I	GRCGYC	1 cut(s)	696
Hin1II	CATG	7 cut(s)	104, 160, 166, 374, 523, 570, 668
HinfI	GANTC	2 cut(s)	314, 321
HpaII	CCGG	1 cut(s)	571
HphI	GGTGA	3 cut(s)	28, 34, 277
Hpy166II	GTNNAC	3 cut(s)	27, 120, 217
Hpy188I	TCNGA	1 cut(s)	326
Hpy188III	TCNNGA	3 cut(s)	318, 537, 710
Hpy8I	GTNNAC	3 cut(s)	27, 120, 217
HpyAV	CCTTC	2 cut(s)	85, 715
HpyCH4III	ACNGT	5 cut(s)	49, 194, 221, 247, 442
HpyCH4IV	ACGT	1 cut(s)	785
HpyCH4V	TGCA	9 cut(s)	7, 77, 170, 217, 608, 674, 680, 753, 763
HpyF10VI	GCNNNNNNNGC	2 cut(s)	529, 602
HpyF3I	CTNAG	1 cut(s)	502
HpySE526I	ACGT	1 cut(s)	785
Hsp92I	GRCGYC	1 cut(s)	696
Hsp92II	CATG	7 cut(s)	104, 160, 166, 374, 523, 570, 668
KroI	GCCGGC	1 cut(s)	570
KroNI	GCCGGC	1 cut(s)	572
Kzo9I	GATC	2 cut(s)	466, 777
LguI	GCTCTTC	1 cut(s)	472
LmnI	GCTCC	3 cut(s)	179, 579, 598
Lsp1109I	GCAGC	1 cut(s)	592
MaeI	CTAG	2 cut(s)	66, 329
MaeII	ACGT	1 cut(s)	785
MaeIII	GTNAC	3 cut(s)	34, 51, 337
MalI	GATC	2 cut(s)	468, 779
MboI	GATC	2 cut(s)	466, 777
MboII	GAAGA	1 cut(s)	489
MflI	RGATCY	2 cut(s)	466, 777
MhlI	GDGCHC	2 cut(s)	219, 660
MluCI	AATT	2 cut(s)	816, 847
MlyI	GAGTC	1 cut(s)	323
MnlI	CCTC	8 cut(s)	7, 50, 192, 487, 490, 685, 720, 736
MroNI	GCCGGC	1 cut(s)	570
MseI	TTAA	2 cut(s)	735, 830
MslI	CAYNNNNRTG	4 cut(s)	47, 161, 524, 669
MspI	CCGG	1 cut(s)	571
MspR9I	CCNGG	1 cut(s)	642
Mva1269I	GAATGC	1 cut(s)	755
MvaI	CCWGG	1 cut(s)	642
MwoI	GCNNNNNNNGC	2 cut(s)	529, 602
NaeI	GCCGGC	1 cut(s)	572
NdeI	CATATG	1 cut(s)	545
NdeII	GATC	2 cut(s)	466, 777
NgoMIV	GCCGGC	1 cut(s)	570
NlaIII	CATG	7 cut(s)	104, 160, 166, 374, 523, 570, 668
NlaIV	GGNNCC	2 cut(s)	575, 779
NmuCI	GTSAC	1 cut(s)	34
NspI	RCATGY	4 cut(s)	104, 166, 523, 668
OliI	CACNNNNGTG	1 cut(s)	47
PceI	AGGCCT	1 cut(s)	500
PciI	ACATGT	2 cut(s)	162, 664
PciSI	GCTCTTC	1 cut(s)	472
PctI	GAATGC	1 cut(s)	755
PdiI	GCCGGC	1 cut(s)	572
PfeI	GAWTC	1 cut(s)	321
PkrI	GCNGC	1 cut(s)	607
PleI	GAGTC	1 cut(s)	322
PpsI	GAGTC	1 cut(s)	322
PscI	ACATGT	2 cut(s)	162, 664
Psp6I	CCWGG	1 cut(s)	640
PspEI	GGTNACC	1 cut(s)	34
PspGI	CCWGG	1 cut(s)	640
PspN4I	GGNNCC	2 cut(s)	575, 779
PsuI	RGATCY	2 cut(s)	466, 777
RsaI	GTAC	1 cut(s)	144
RsaNI	GTAC	1 cut(s)	143
RseI	CAYNNNNRTG	4 cut(s)	47, 161, 524, 669
SapI	GCTCTTC	1 cut(s)	472
SaqAI	TTAA	2 cut(s)	735, 830
SatI	GCNGC	1 cut(s)	606
Sau3AI	GATC	2 cut(s)	466, 777
SchI	GAGTC	1 cut(s)	323
ScrFI	CCNGG	1 cut(s)	642
SduI	GDGCHC	2 cut(s)	219, 660
SetI	ASST	7 cut(s)	133, 344, 352, 484, 627, 634, 788
SfcI	CTRYAG	1 cut(s)	364
SmiMI	CAYNNNNRTG	4 cut(s)	47, 161, 524, 669
Sse9I	AATT	2 cut(s)	816, 847
SseBI	AGGCCT	1 cut(s)	500
SsiI	CCGC	2 cut(s)	263, 596
SspMI	CTAG	2 cut(s)	66, 329
StuI	AGGCCT	1 cut(s)	500
StyD4I	CCNGG	1 cut(s)	640
StyI	CCWWGG	2 cut(s)	388, 577
TaaI	ACNGT	5 cut(s)	49, 194, 221, 247, 442
TaiI	ACGT	1 cut(s)	788
TaqI	TCGA	1 cut(s)	709
TasI	AATT	2 cut(s)	816, 847
TatI	WGTACW	1 cut(s)	142
TfiI	GAWTC	1 cut(s)	321
Tru1I	TTAA	2 cut(s)	735, 830
Tru9I	TTAA	2 cut(s)	735, 830
TscAI	CASTG	2 cut(s)	54, 224
TseFI	GTSAC	1 cut(s)	34
TseI	GCWGC	1 cut(s)	605
Tsp45I	GTSAC	1 cut(s)	34
TspDTI	ATGAA	3 cut(s)	428, 543, 734
TspGWI	ACGGA	1 cut(s)	409
TspRI	CASTG	2 cut(s)	54, 224
VneI	GTGCAC	1 cut(s)	215
XceI	RCATGY	4 cut(s)	104, 166, 523, 668
XspI	CTAG	2 cut(s)	66, 329

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