Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002871

Physical Location & Seq

Genomic Coordinates Forward (+)

59128321 .. 59130258

Gene Structure 1938 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG373600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGGGTTCTTGCAGCAGAAGAAGAGAGGATGAAGACTCTGAATTTCCAGGCTTCTACAAGTGTGTTGATTATTCTGTTCTTCTAAAGGGGAAGCTTAATATCCCCCGAGATTTTTGCGAGAACTTTGAAGGAAAGATGCCTCAGCAGTGCCGTCTTCAGACTCTTTCTGGAACTTGGCATGTTGATGTGAAAAATACTAGCGGAGACAAGAGTTCAAAGGCAATGAGAAGTGAGAGGCTTCTTGATGATGACTCTGATGATCATAATGTTGTTTTTGTTGACTCGGATTCTGATTCTGAACCTCGAAACAGTGAAACCAGCTTGGAGTCTGAAACTGAGTGTCCTAGGAAATCAGGTTATGGAAAAAAATTGTCAAGAAGAGGTAGAGCTGGTAACTCAGCCACCATAAGATGTTTTGGTAATCCTTGCTTCAGTGTTAAGATGTGCCAAACTCATGTGACCAAGGGACCACTGCTCACACCAAGGAGCTTCATGAGGAACATACATAAGCCAAAGAAAGTCGAGCTTCAAGTTGGAGACATGGCCTGGGATGTGAACTGGATCCATCCTTACCAGCAATCTAGCAGGTTCAGTGGAGGTTGGCTACACTTTGCTAGCCAGAACAGGTTGCAAGAGGGAGATTTCTGTGACTTTGAGCTGATTTCAAAGACAATTGAGGTTGCAGTGATGAAGGTTTCTATTAGGAAAATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009909 GO:0010048 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048580 GO:0048831 GO:0050789 GO:0050793 GO:0050896 GO:0051239 GO:0065007 GO:0070013 GO:0097159 GO:1901363 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

237

Amino Acids

27.05

Weight (kDa)

8.34

Isoelectric Point (pI)

56.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	150 - 225	8.5e-11	B3 DNA binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: OG0002871)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g12870 FvH4_7g12880
rosa_chinensis	RchiOBHm_Chr1g0351951 RchiOBHm_Chr2g0089651 RchiOBHm_Chr2g0123231 RchiOBHm_Chr4g0439191
rosa_laevigata	RLG00000006289 RLG00000016048 RLG00000028372
rosa_multiflora	Rmu_sc0000665.1_g000025 Rmu_sc0002236.1_g000010 Rmu_sc0007728.1_g000009
rosa_roxburghii	Rroxscaffold_2G00151690 Rroxscaffold_4G00303430 Rroxscaffold_5G00380180
rosa_rugosa	Rorug01G0223100 Rorug02G0002200 Rorug02G0002300 Rorug02G0002400 Rorug04G0316500.1 Rorug04G0316600 Rorug04G0316700 Rorug04G0316800 Rorug04G0316800 Rorug04G0316900
rosa_samantha	Rh1AG237100 Rh1BG207300 Rh1CG221500 Rh1DG234300 Rh2AG047700 Rh2BG046300 Rh2CG048300 Rh2DG047700 Rh4AG367400 Rh4BG379000 Rh4CG393400 Rh4DG373600
rosa_wichuraiana	Rw1G020620 Rw2G004280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	576
AciI	CCGC	1 cut(s)	201
AclWI	GGATC	2 cut(s)	556, 569
AcsI	RAATTY	1 cut(s)	41
AcuI	CTGAAG	2 cut(s)	140, 415
AgsI	TTSAA	4 cut(s)	128, 216, 530, 666
AjnI	CCWGG	2 cut(s)	46, 545
AluBI	AGCT	6 cut(s)	94, 321, 389, 489, 526, 658
AluI	AGCT	6 cut(s)	94, 321, 389, 489, 526, 658
Alw26I	GTCTC	2 cut(s)	198, 531
AlwI	GGATC	2 cut(s)	556, 569
Ama87I	CYCGRG	1 cut(s)	105
AoxI	GGCC	1 cut(s)	543
ApeKI	GCWGC	1 cut(s)	12
ApoI	RAATTY	1 cut(s)	41
AspA2I	CCTAGG	1 cut(s)	344
AspS9I	GGNCC	1 cut(s)	467
AsuNHI	GCTAGC	1 cut(s)	614
AvaI	CYCGRG	1 cut(s)	105
AvaII	GGWCC	1 cut(s)	467
AvrII	CCTAGG	1 cut(s)	344
BamHI	GGATCC	1 cut(s)	561
BbsI	GAAGAC	2 cut(s)	39, 146
BbvCI	CCTCAGC	1 cut(s)	141
BbvI	GCAGC	1 cut(s)	24
BccI	CCATC	1 cut(s)	573
BceAI	ACGGC	1 cut(s)	135
BcgI	CGANNNNNNTGC	2 cut(s)	96, 130
BciT130I	CCWGG	2 cut(s)	48, 547
BclI	TGATCA	1 cut(s)	259
BcoDI	GTCTC	2 cut(s)	198, 531
BfaI	CTAG	4 cut(s)	198, 345, 582, 615
BfuAI	ACCTGC	1 cut(s)	576
BisI	GCNGC	1 cut(s)	13
BlnI	CCTAGG	1 cut(s)	344
BlsI	GCNGC	1 cut(s)	14
Bme1390I	CCNGG	2 cut(s)	48, 547
Bme18I	GGWCC	1 cut(s)	467
BmeT110I	CYCGRG	1 cut(s)	105
BmgT120I	GGNCC	1 cut(s)	467
BmiI	GGNNCC	2 cut(s)	468, 563
BmrFI	CCNGG	2 cut(s)	48, 547
BmsI	GCATC	1 cut(s)	126
BmtI	GCTAGC	1 cut(s)	618
BpiI	GAAGAC	2 cut(s)	39, 146
Bpu10I	CCTNAGC	1 cut(s)	141
BsaJI	CCNNGG	4 cut(s)	344, 462, 482, 546
Bse1I	ACTGG	1 cut(s)	563
Bse3DI	GCAATG	1 cut(s)	228
BseBI	CCWGG	2 cut(s)	48, 547
BseDI	CCNNGG	4 cut(s)	344, 462, 482, 546
BseGI	GGATG	3 cut(s)	34, 556, 565
BseMI	GCAATG	1 cut(s)	228
BseMII	CTCAG	3 cut(s)	155, 327, 411
BseNI	ACTGG	1 cut(s)	563
BseXI	GCAGC	1 cut(s)	24
BshFI	GGCC	1 cut(s)	545
BsiHKCI	CYCGRG	1 cut(s)	105
BslFI	GGGAC	1 cut(s)	480
BsmAI	GTCTC	2 cut(s)	198, 531
BsmFI	GGGAC	1 cut(s)	480
BsnI	GGCC	1 cut(s)	545
BsoBI	CYCGRG	1 cut(s)	105
Bsp143I	GATC	2 cut(s)	259, 561
BspACI	CCGC	1 cut(s)	201
BspANI	GGCC	1 cut(s)	545
BspCNI	CTCAG	3 cut(s)	154, 328, 410
BspHI	TCATGA	1 cut(s)	492
BspLI	GGNNCC	2 cut(s)	468, 563
BspMI	ACCTGC	1 cut(s)	576
BspOI	GCTAGC	1 cut(s)	618
BspPI	GGATC	2 cut(s)	556, 569
BsrDI	GCAATG	1 cut(s)	228
BsrI	ACTGG	1 cut(s)	563
BssECI	CCNNGG	4 cut(s)	344, 462, 482, 546
BssMI	GATC	2 cut(s)	259, 561
BssT1I	CCWWGG	3 cut(s)	344, 462, 482
Bst2UI	CCWGG	2 cut(s)	48, 547
Bst4CI	ACNGT	1 cut(s)	311
Bst6I	CTCTTC	2 cut(s)	16, 373
BstC8I	GCNNGC	1 cut(s)	616
BstDEI	CTNAG	3 cut(s)	141, 336, 397
BstF5I	GGATG	3 cut(s)	34, 556, 565
BstKTI	GATC	2 cut(s)	262, 564
BstMAI	GTCTC	2 cut(s)	198, 531
BstMBI	GATC	2 cut(s)	259, 561
BstNI	CCWGG	2 cut(s)	48, 547
BstNSI	RCATGY	1 cut(s)	182
BstSCI	CCNGG	2 cut(s)	46, 545
BstV1I	GCAGC	1 cut(s)	24
BstV2I	GAAGAC	2 cut(s)	39, 146
BstX2I	RGATCY	1 cut(s)	561
BstYI	RGATCY	1 cut(s)	561
BsuRI	GGCC	1 cut(s)	545
BtsCI	GGATG	3 cut(s)	34, 556, 565
BtsI	GCAGTG	3 cut(s)	152, 470, 690
BtsIMutI	CAGTG	6 cut(s)	152, 316, 439, 470, 598, 690
BveI	ACCTGC	1 cut(s)	576
Cac8I	GCNNGC	1 cut(s)	616
CciI	TCATGA	1 cut(s)	492
Cfr13I	GGNCC	1 cut(s)	467
CviAII	CATG	4 cut(s)	179, 455, 493, 541
DdeI	CTNAG	3 cut(s)	141, 336, 397
DpnI	GATC	2 cut(s)	261, 563
DpnII	GATC	2 cut(s)	259, 561
Eam1104I	CTCTTC	2 cut(s)	16, 373
EarI	CTCTTC	2 cut(s)	16, 373
Eco130I	CCWWGG	3 cut(s)	344, 462, 482
Eco47I	GGWCC	1 cut(s)	467
Eco57I	CTGAAG	2 cut(s)	140, 415
Eco88I	CYCGRG	1 cut(s)	105
EcoRII	CCWGG	2 cut(s)	46, 545
EcoT14I	CCWWGG	3 cut(s)	344, 462, 482
ErhI	CCWWGG	3 cut(s)	344, 462, 482
FaeI	CATG	4 cut(s)	182, 458, 496, 544
FaiI	YATR	9 cut(s)	180, 264, 360, 407, 456, 494, 503, 507, 542
FalI	AAGNNNNNCTT	2 cut(s)	510, 542
FaqI	GGGAC	1 cut(s)	480
FatI	CATG	4 cut(s)	178, 454, 492, 540
FbaI	TGATCA	1 cut(s)	259
Fnu4HI	GCNGC	1 cut(s)	13
FokI	GGATG	3 cut(s)	41, 552, 563
Fsp4HI	GCNGC	1 cut(s)	13
FspBI	CTAG	4 cut(s)	198, 345, 582, 615
GluI	GCNGC	1 cut(s)	13
HaeIII	GGCC	1 cut(s)	545
Hin1II	CATG	4 cut(s)	182, 458, 496, 544
HincII	GTYRAC	1 cut(s)	280
HindII	GTYRAC	1 cut(s)	280
HindIII	AAGCTT	1 cut(s)	92
HinfI	GANTC	7 cut(s)	35, 160, 251, 281, 287, 293, 326
Hpy166II	GTNNAC	2 cut(s)	280, 556
Hpy188I	TCNGA	7 cut(s)	40, 159, 256, 286, 292, 298, 331
Hpy188III	TCNNGA	4 cut(s)	168, 242, 375, 493
Hpy8I	GTNNAC	2 cut(s)	280, 556
HpyAV	CCTTC	2 cut(s)	122, 685
HpyCH4III	ACNGT	1 cut(s)	311
HpyCH4V	TGCA	3 cut(s)	12, 631, 683
HpyF3I	CTNAG	3 cut(s)	141, 336, 397
Hsp92II	CATG	4 cut(s)	182, 458, 496, 544
Ksp22I	TGATCA	1 cut(s)	259
Kzo9I	GATC	2 cut(s)	259, 561
LmnI	GCTCC	1 cut(s)	486
Lsp1109I	GCAGC	1 cut(s)	24
LweI	GCATC	1 cut(s)	126
MaeI	CTAG	4 cut(s)	198, 345, 582, 615
MaeIII	GTNAC	3 cut(s)	392, 457, 647
MalI	GATC	2 cut(s)	261, 563
MboI	GATC	2 cut(s)	259, 561
MboII	GAAGA	6 cut(s)	30, 33, 44, 71, 146, 390
MfeI	CAATTG	1 cut(s)	672
MflI	RGATCY	1 cut(s)	561
MluCI	AATT	3 cut(s)	41, 368, 672
MlyI	GAGTC	5 cut(s)	29, 154, 245, 275, 335
MmeI	TCCRAC	1 cut(s)	514
MnlI	CCTC	9 cut(s)	19, 150, 228, 312, 374, 489, 590, 628, 670
MseI	TTAA	2 cut(s)	96, 438
MslI	CAYNNNNRTG	1 cut(s)	183
MspR9I	CCNGG	2 cut(s)	48, 547
MunI	CAATTG	1 cut(s)	672
MvaI	CCWGG	2 cut(s)	48, 547
NdeII	GATC	2 cut(s)	259, 561
NheI	GCTAGC	1 cut(s)	614
NlaIII	CATG	4 cut(s)	182, 458, 496, 544
NlaIV	GGNNCC	2 cut(s)	468, 563
NmuCI	GTSAC	2 cut(s)	457, 647
NspI	RCATGY	1 cut(s)	182
PagI	TCATGA	1 cut(s)	492
PfeI	GAWTC	2 cut(s)	287, 293
PkrI	GCNGC	1 cut(s)	14
PleI	GAGTC	5 cut(s)	29, 154, 245, 275, 334
PpsI	GAGTC	5 cut(s)	29, 154, 245, 275, 334
Psp6I	CCWGG	2 cut(s)	46, 545
PspGI	CCWGG	2 cut(s)	46, 545
PspN4I	GGNNCC	2 cut(s)	468, 563
PspPI	GGNCC	1 cut(s)	467
PsuI	RGATCY	1 cut(s)	561
RseI	CAYNNNNRTG	1 cut(s)	183
SaqAI	TTAA	2 cut(s)	96, 438
SatI	GCNGC	1 cut(s)	13
Sau3AI	GATC	2 cut(s)	259, 561
Sau96I	GGNCC	1 cut(s)	467
SchI	GAGTC	5 cut(s)	29, 154, 245, 275, 335
ScrFI	CCNGG	2 cut(s)	48, 547
SfaNI	GCATC	1 cut(s)	126
SinI	GGWCC	1 cut(s)	467
SmiMI	CAYNNNNRTG	1 cut(s)	183
Sse9I	AATT	3 cut(s)	41, 368, 672
SsiI	CCGC	1 cut(s)	201
SspMI	CTAG	4 cut(s)	198, 345, 582, 615
StyD4I	CCNGG	2 cut(s)	46, 545
StyI	CCWWGG	3 cut(s)	344, 462, 482
TaaI	ACNGT	1 cut(s)	311
TaqI	TCGA	2 cut(s)	304, 522
TasI	AATT	3 cut(s)	41, 368, 672
TfiI	GAWTC	2 cut(s)	287, 293
Tru1I	TTAA	2 cut(s)	96, 438
Tru9I	TTAA	2 cut(s)	96, 438
TscAI	CASTG	6 cut(s)	152, 316, 439, 477, 598, 690
TseFI	GTSAC	2 cut(s)	457, 647
TseI	GCWGC	1 cut(s)	12
Tsp45I	GTSAC	2 cut(s)	457, 647
TspDTI	ATGAA	3 cut(s)	45, 481, 704
TspRI	CASTG	6 cut(s)	152, 316, 439, 477, 598, 690
VpaK11BI	GGWCC	1 cut(s)	467
XapI	RAATTY	1 cut(s)	41
XceI	RCATGY	1 cut(s)	182
XmaJI	CCTAGG	1 cut(s)	344
XspI	CTAG	4 cut(s)	198, 345, 582, 615

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