Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0005231

Physical Location & Seq

Genomic Coordinates Forward (+)

20170228 .. 20171488

Gene Structure 1261 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG132900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 309 bp

ATGGCTTCTAGCTCAATGTCTTCGCGTAACTCGGGTTCATCTTGGACTGCCAAGCAGAACAAGGCGTTCGAGAAGGCTCTAGCCCTTTACGACAAGGACACCCCCGACCGCTGGTACAATGTTGCCAGGGCCGTGGGGAATAAGACTCCTGAGGAAGTTAAGAGGCACTATGACCTTCTTGTGGCAGATGTGAAGCATATCGAGTCAGGCCAAGTTCCTTTCCCGGATTACAGGACTTCTGGTGGGAGTGGCCATGGCAACATCGGTCATGATGAGGAAAAGAGGATGAGGAGCATGAAGCTGAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003682 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0042393 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061649 GO:0065007 GO:0080090 GO:0140030 GO:0140035 GO:0140036 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_DNA-binding

Protein Analysis

102

Amino Acids

11.43

Weight (kDa)

9.26

Isoelectric Point (pI)

75.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	14 - 57	1.7e-06	Myb-like DNA-binding domain
Myb_DNA-binding_2	PF23082	14 - 57	4.1e-06	Myb-like 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

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Orthologous Genes (Group: OG0005231)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21650
fragaria_vesca	FvH4_2g08910 FvH4_2g08910 FvH4_6g06380 FvH4_6g06380
malus_domestica	MD05G1065500.v1.1 MD10G1075200.v1.1
prunus_persica	Prupe.8G096300_v2.0.a1
pyrus_communis	pycom05g05690
rosa_chinensis	RchiOBHm_Chr3g0455471 RchiOBHm_Chr6g0264521
rosa_laevigata	RLG00000014247 RLG00000025357
rosa_multiflora	Rmu_sc0000578.1_g000011 Rmu_sc0005281.1_g000011
rosa_roxburghii	Rroxscaffold_176G00431860 Rroxscaffold_6G00424240
rosa_rugosa	Rorug03G0007800 Rorug06G0015800
rosa_samantha	Rh3AG067300 Rh3BG069600 Rh3CG068100 Rh3DG069700 Rh6AG132900 Rh6BG130500 Rh6CG128700 Rh6DG115900
rosa_wichuraiana	Rw0G009760 Rw3G005330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	25
AciI	CCGC	1 cut(s)	109
AcoI	YGGCCR	1 cut(s)	250
AfaI	GTAC	1 cut(s)	116
AfiI	CCNNNNNNNGG	2 cut(s)	111, 181
AjnI	CCWGG	1 cut(s)	125
AluBI	AGCT	2 cut(s)	12, 301
AluI	AGCT	2 cut(s)	12, 301
Ama87I	CYCGRG	1 cut(s)	31
AoxI	GGCC	3 cut(s)	129, 208, 250
AspS9I	GGNCC	1 cut(s)	129
AsuC2I	CCSGG	1 cut(s)	224
AvaI	CYCGRG	1 cut(s)	31
AxyI	CCTNAGG	1 cut(s)	150
BalI	TGGCCA	1 cut(s)	252
BbsI	GAAGAC	1 cut(s)	12
BceAI	ACGGC	1 cut(s)	116
BciT130I	CCWGG	1 cut(s)	127
BcnI	CCSGG	1 cut(s)	224
BfaI	CTAG	2 cut(s)	9, 80
Bme1390I	CCNGG	2 cut(s)	127, 224
BmeT110I	CYCGRG	1 cut(s)	31
BmgT120I	GGNCC	1 cut(s)	129
BmrFI	CCNGG	2 cut(s)	127, 224
BpiI	GAAGAC	1 cut(s)	12
BpuMI	CCSGG	1 cut(s)	224
BsaJI	CCNNGG	3 cut(s)	126, 132, 253
Bsc4I	CCNNNNNNNGG	2 cut(s)	111, 181
Bse21I	CCTNAGG	1 cut(s)	150
BseBI	CCWGG	1 cut(s)	127
BseDI	CCNNGG	3 cut(s)	126, 132, 253
BseGI	GGATG	1 cut(s)	291
BseLI	CCNNNNNNNGG	2 cut(s)	111, 181
BseMII	CTCAG	1 cut(s)	141
BseRI	GAGGAG	1 cut(s)	304
Bsh1236I	CGCG	1 cut(s)	25
Bsh1285I	CGRYCG	1 cut(s)	109
BshFI	GGCC	3 cut(s)	131, 210, 252
BsiEI	CGRYCG	1 cut(s)	109
BsiHKCI	CYCGRG	1 cut(s)	31
BsiSI	CCGG	1 cut(s)	224
BslI	CCNNNNNNNGG	2 cut(s)	111, 181
BsnI	GGCC	3 cut(s)	131, 210, 252
BsoBI	CYCGRG	1 cut(s)	31
Bsp19I	CCATGG	1 cut(s)	253
BspACI	CCGC	1 cut(s)	109
BspANI	GGCC	3 cut(s)	131, 210, 252
BspCNI	CTCAG	1 cut(s)	142
BspFNI	CGCG	1 cut(s)	25
BspHI	TCATGA	1 cut(s)	268
BssECI	CCNNGG	3 cut(s)	126, 132, 253
BssT1I	CCWWGG	1 cut(s)	253
Bst2UI	CCWGG	1 cut(s)	127
BstDEI	CTNAG	1 cut(s)	150
BstDSI	CCRYGG	2 cut(s)	132, 253
BstF5I	GGATG	1 cut(s)	291
BstFNI	CGCG	1 cut(s)	25
BstMCI	CGRYCG	1 cut(s)	109
BstNI	CCWGG	1 cut(s)	127
BstSCI	CCNGG	2 cut(s)	125, 222
BstUI	CGCG	1 cut(s)	25
BstV2I	GAAGAC	1 cut(s)	12
BstXI	CCANNNNNNTGG	1 cut(s)	133
Bsu36I	CCTNAGG	1 cut(s)	150
BsuRI	GGCC	3 cut(s)	131, 210, 252
BtgI	CCRYGG	2 cut(s)	132, 253
BtsCI	GGATG	1 cut(s)	291
CciI	TCATGA	1 cut(s)	268
Cfr13I	GGNCC	1 cut(s)	129
Csp6I	GTAC	1 cut(s)	115
CviAII	CATG	3 cut(s)	254, 269, 295
CviJI	RGCY	8 cut(s)	5, 12, 77, 83, 131, 210, 252, 301
CviKI_1	RGCY	8 cut(s)	5, 12, 77, 83, 131, 210, 252, 301
CviQI	GTAC	1 cut(s)	115
DdeI	CTNAG	1 cut(s)	150
EaeI	YGGCCR	1 cut(s)	250
Eco130I	CCWWGG	1 cut(s)	253
Eco81I	CCTNAGG	1 cut(s)	150
Eco88I	CYCGRG	1 cut(s)	31
EcoRII	CCWGG	1 cut(s)	125
EcoT14I	CCWWGG	1 cut(s)	253
ErhI	CCWWGG	1 cut(s)	253
FaeI	CATG	3 cut(s)	257, 272, 298
FaiI	YATR	5 cut(s)	171, 198, 255, 270, 296
FatI	CATG	3 cut(s)	253, 268, 294
FokI	GGATG	1 cut(s)	298
FspBI	CTAG	2 cut(s)	9, 80
HaeIII	GGCC	3 cut(s)	131, 210, 252
HapII	CCGG	1 cut(s)	224
Hin1II	CATG	3 cut(s)	257, 272, 298
HinfI	GANTC	2 cut(s)	145, 203
HpaII	CCGG	1 cut(s)	224
Hpy188III	TCNNGA	3 cut(s)	70, 149, 269
HpyAV	CCTTC	2 cut(s)	67, 185
HpyF3I	CTNAG	1 cut(s)	150
Hsp92II	CATG	3 cut(s)	257, 272, 298
LmnI	GCTCC	1 cut(s)	291
LpnPI	CCDG	8 cut(s)	97, 112, 139, 162, 192, 217, 225, 237
MaeI	CTAG	2 cut(s)	9, 80
MaeIII	GTNAC	1 cut(s)	26
MboII	GAAGA	1 cut(s)	12
MlsI	TGGCCA	1 cut(s)	252
MluNI	TGGCCA	1 cut(s)	252
MlyI	GAGTC	2 cut(s)	139, 212
MnlI	CCTC	5 cut(s)	145, 156, 268, 276, 282
Mox20I	TGGCCA	1 cut(s)	252
MscI	TGGCCA	1 cut(s)	252
MseI	TTAA	1 cut(s)	159
Msp20I	TGGCCA	1 cut(s)	252
MspA1I	CMGCKG	1 cut(s)	111
MspI	CCGG	1 cut(s)	224
MspR9I	CCNGG	2 cut(s)	127, 224
MvaI	CCWGG	1 cut(s)	127
MvnI	CGCG	1 cut(s)	25
NciI	CCSGG	1 cut(s)	224
NcoI	CCATGG	1 cut(s)	253
NlaIII	CATG	3 cut(s)	257, 272, 298
PagI	TCATGA	1 cut(s)	268
PfoI	TCCNGGA	1 cut(s)	222
PleI	GAGTC	2 cut(s)	139, 211
PpsI	GAGTC	2 cut(s)	139, 211
Psp6I	CCWGG	1 cut(s)	125
PspGI	CCWGG	1 cut(s)	125
PspPI	GGNCC	1 cut(s)	129
PsrI	GAACNNNNNNTAC	2 cut(s)	19, 51
RsaI	GTAC	1 cut(s)	116
RsaNI	GTAC	1 cut(s)	115
SaqAI	TTAA	1 cut(s)	159
Sau96I	GGNCC	1 cut(s)	129
SchI	GAGTC	2 cut(s)	139, 212
ScrFI	CCNGG	2 cut(s)	127, 224
SetI	ASST	3 cut(s)	14, 177, 303
SsiI	CCGC	1 cut(s)	109
SspMI	CTAG	2 cut(s)	9, 80
StyD4I	CCNGG	2 cut(s)	125, 222
StyI	CCWWGG	1 cut(s)	253
TaqI	TCGA	2 cut(s)	69, 201
TaqII	GACCGA	1 cut(s)	254
Tru1I	TTAA	1 cut(s)	159
Tru9I	TTAA	1 cut(s)	159
TspDTI	ATGAA	1 cut(s)	27
XspI	CTAG	2 cut(s)	9, 80

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