Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0006880

Physical Location & Seq

Genomic Coordinates Forward (+)

25482190 .. 25486354

Gene Structure 4165 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG256900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGAACGAGCAAAAGATAGATTGTATTCGTTCCTGGCATCAACACAGCCATGGACTAATTAGTGATCCTAACTTTGAACTTGGTAGTCATTCTTCTCACCAGCTCTTGGGTTTGCAACAACAGCCTTGGAACATGGAAGTTTGGCTTCAGCAACCCACCATGGATCAGGGAGTGTCACAGCTTCAAAATATTGGGCCTGCAAAATCACCAAGCAGCATTATGAGCCGATTTGAATCACCGGCTTCGGCTTTCTATGCAACCGAAAGATGCATGGGATTTCCTTCGCACTATGAGTCTCAAGTTGTTGGTAATCCTAATCCTCCACAGTTCCCTTCAGGCCAATCATATGAGGAAAGCTACTCAATGGAATCATCAGAGGACATCAGAAATACCTTGCAATCAATTGTGAAATCCCAAACCAACAGCTCTCAATCTTATAAATCCTCTGAGAAGTCTGATCAAATCCCAAGCAACCATTTGCCAGGCAGTAAGCTCTTTCTGCATCAAGATAGTACTAGTGGCTCAGTTAGGAGACCCTTTTCACTAGCTTTCAAAGAAAGTCAGGAACAAGTGAGCTTCTTTTCTCAGCAAGGAAAGCAGTCTCCAAGAACTTCCTCAGGAACGGTTTCTGCAGCCTCTGGTGATTCTTCTTCAACCAGCCCATCACTCTCGAGTAAAACACGAATACGATGGAATCAAGATCTTCACGAGAAGTTTGTTGAGTGTGTCAATCGTCTTGGGGGTGCTGACAAAGCAACACCTAAGGCGATACTGAAGATGATGGGATTGGAGGGACTAACCATCTTTCATGTCAAAAGTCATTTGCAGAAATATCGAATCGCAAAATATTTGCCAGACTCTGCAGAAGGTAAATCCTGGCTACTGTCATCCAATTTTGTACTTGTTTCAATCATGTTTCATAGTTTTGCCCTTGGCAGCTGCATTTGGTTTTATTACAAAAAGGGCGATGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0010087 GO:0010088 GO:0010089 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_CC_LHEQLE Myb_DNA-binding

Protein Analysis

324

Amino Acids

36.18

Weight (kDa)

8.26

Isoelectric Point (pI)

71.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	230 - 279	2.4e-08	Myb-like DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0006880)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06800 AT5G06800 AT5G06800
fragaria_vesca	FvH4_6g22540
malus_domestica	MD12G1058400.v1.1 MD14G1059400.v1.1
prunus_persica	Prupe.7G075200_v2.0.a1 Prupe.7G075300_v2.0.a1 Prupe.7G075300_v2.0.a1
pyrus_communis	pycom12g05230 pycom14g04830
rosa_chinensis	RchiOBHm_Chr3g0480031
rosa_laevigata	RLG00000023522
rosa_multiflora	Rmu_co7976220.1_g000001 Rmu_sc0003684.1_g000001
rosa_roxburghii	Rroxscaffold_6G00401820
rosa_rugosa	Rorug03G0179800 Rorug03G0179900 Rorug03G0180000 Rorug03G0180100 Rorug03G0180100
rosa_samantha	Rh3AG231100 Rh3BG263600 Rh3CG261000 Rh3DG256900
rosa_wichuraiana	Rw3G020790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	438
AccB7I	CCANNNNNTGG	1 cut(s)	106
AclWI	GGATC	2 cut(s)	59, 171
AcuI	CTGAAG	3 cut(s)	131, 318, 794
AfaI	GTAC	2 cut(s)	514, 900
AfiI	CCNNNNNNNGG	1 cut(s)	106
AgsI	TTSAA	6 cut(s)	77, 185, 233, 553, 654, 909
AhlI	ACTAGT	1 cut(s)	515
AjnI	CCWGG	3 cut(s)	32, 481, 875
AluBI	AGCT	8 cut(s)	103, 181, 357, 426, 493, 548, 576, 939
AluI	AGCT	8 cut(s)	103, 181, 357, 426, 493, 548, 576, 939
Alw26I	GTCTC	3 cut(s)	300, 526, 606
AlwI	GGATC	2 cut(s)	59, 171
AlwNI	CAGNNNCTG	2 cut(s)	638, 860
Ama87I	CYCGRG	1 cut(s)	670
AoxI	GGCC	2 cut(s)	194, 337
ApeKI	GCWGC	4 cut(s)	213, 632, 936, 939
Asp700I	GAANNNNTTC	1 cut(s)	625
AspS9I	GGNCC	1 cut(s)	194
AsuHPI	GGTGA	4 cut(s)	89, 198, 228, 653
AvaI	CYCGRG	1 cut(s)	670
AxyI	CCTNAGG	2 cut(s)	616, 762
BarI	GAAGNNNNNNTAC	2 cut(s)	76, 108
BauI	CACGAG	1 cut(s)	707
BbvI	GCAGC	4 cut(s)	225, 644, 926, 948
BccI	CCATC	4 cut(s)	670, 684, 775, 809
BcgI	CGANNNNNNTGC	2 cut(s)	815, 849
BciT130I	CCWGG	3 cut(s)	34, 483, 877
BclI	TGATCA	1 cut(s)	457
BcoDI	GTCTC	3 cut(s)	300, 526, 606
BcuI	ACTAGT	1 cut(s)	515
BfaI	CTAG	2 cut(s)	516, 545
BfmI	CTRYAG	2 cut(s)	630, 861
BglII	AGATCT	1 cut(s)	700
BisI	GCNGC	4 cut(s)	214, 633, 937, 940
BlsI	GCNGC	4 cut(s)	215, 634, 938, 941
BmcAI	AGTACT	1 cut(s)	514
Bme1390I	CCNGG	3 cut(s)	34, 483, 877
BmeT110I	CYCGRG	1 cut(s)	670
BmgT120I	GGNCC	1 cut(s)	194
BmrFI	CCNGG	3 cut(s)	34, 483, 877
BmsI	GCATC	3 cut(s)	46, 257, 511
BpuEI	CTTGAG	1 cut(s)	282
BsaBI	GATNNNNATC	1 cut(s)	232
BsaI	GGTCTC	1 cut(s)	526
BsaJI	CCNNGG	4 cut(s)	49, 125, 159, 931
Bsc4I	CCNNNNNNNGG	1 cut(s)	106
Bse118I	RCCGGY	1 cut(s)	238
Bse21I	CCTNAGG	2 cut(s)	616, 762
Bse8I	GATNNNNATC	1 cut(s)	232
BseBI	CCWGG	3 cut(s)	34, 483, 877
BseDI	CCNNGG	4 cut(s)	49, 125, 159, 931
BseGI	GGATG	1 cut(s)	887
BseJI	GATNNNNATC	1 cut(s)	232
BseLI	CCNNNNNNNGG	1 cut(s)	106
BseMII	CTCAG	4 cut(s)	438, 537, 599, 630
BseXI	GCAGC	4 cut(s)	225, 644, 926, 948
BshFI	GGCC	2 cut(s)	196, 339
BsiHKCI	CYCGRG	1 cut(s)	670
BsiSI	CCGG	1 cut(s)	239
BslFI	GGGAC	1 cut(s)	807
BslI	CCNNNNNNNGG	1 cut(s)	106
BsmAI	GTCTC	3 cut(s)	300, 526, 606
BsmFI	GGGAC	1 cut(s)	807
BsnI	GGCC	2 cut(s)	196, 339
Bso31I	GGTCTC	1 cut(s)	526
BsoBI	CYCGRG	1 cut(s)	670
Bsp143I	GATC	4 cut(s)	64, 163, 457, 700
Bsp19I	CCATGG	2 cut(s)	49, 159
BspANI	GGCC	2 cut(s)	196, 339
BspCNI	CTCAG	4 cut(s)	439, 536, 598, 629
BspMAI	CTGCAG	2 cut(s)	634, 865
BspPI	GGATC	2 cut(s)	59, 171
BspTNI	GGTCTC	1 cut(s)	526
BsrFI	RCCGGY	1 cut(s)	238
BssAI	RCCGGY	1 cut(s)	238
BssECI	CCNNGG	4 cut(s)	49, 125, 159, 931
BssMI	GATC	4 cut(s)	64, 163, 457, 700
BssSI	CACGAG	1 cut(s)	707
BssT1I	CCWWGG	4 cut(s)	49, 125, 159, 931
Bst2BI	CACGAG	1 cut(s)	707
Bst2UI	CCWGG	3 cut(s)	34, 483, 877
Bst4CI	ACNGT	3 cut(s)	327, 625, 885
BstC8I	GCNNGC	1 cut(s)	198
BstDEI	CTNAG	5 cut(s)	447, 523, 585, 616, 762
BstDSI	CCRYGG	2 cut(s)	49, 159
BstF5I	GGATG	1 cut(s)	887
BstKTI	GATC	4 cut(s)	67, 166, 460, 703
BstMAI	GTCTC	3 cut(s)	300, 526, 606
BstMBI	GATC	4 cut(s)	64, 163, 457, 700
BstMWI	GCNNNNNNNGC	6 cut(s)	121, 222, 254, 499, 595, 752
BstNI	CCWGG	3 cut(s)	34, 483, 877
BstSCI	CCNGG	3 cut(s)	32, 481, 875
BstSFI	CTRYAG	2 cut(s)	630, 861
BstV1I	GCAGC	4 cut(s)	225, 644, 926, 948
BstX2I	RGATCY	1 cut(s)	700
BstYI	RGATCY	1 cut(s)	700
Bsu36I	CCTNAGG	2 cut(s)	616, 762
BsuRI	GGCC	2 cut(s)	196, 339
BtgI	CCRYGG	2 cut(s)	49, 159
BtsCI	GGATG	1 cut(s)	887
Cac8I	GCNNGC	1 cut(s)	198
CaiI	CAGNNNCTG	2 cut(s)	638, 860
Cfr10I	RCCGGY	1 cut(s)	238
Cfr13I	GGNCC	1 cut(s)	194
Csp6I	GTAC	2 cut(s)	513, 899
CviAII	CATG	6 cut(s)	50, 133, 160, 271, 809, 913
CviQI	GTAC	2 cut(s)	513, 899
DdeI	CTNAG	5 cut(s)	447, 523, 585, 616, 762
DpnI	GATC	4 cut(s)	66, 165, 459, 702
DpnII	GATC	4 cut(s)	64, 163, 457, 700
Eco130I	CCWWGG	4 cut(s)	49, 125, 159, 931
Eco31I	GGTCTC	1 cut(s)	526
Eco57I	CTGAAG	3 cut(s)	131, 318, 794
Eco81I	CCTNAGG	2 cut(s)	616, 762
Eco88I	CYCGRG	1 cut(s)	670
EcoRII	CCWGG	3 cut(s)	32, 481, 875
EcoT14I	CCWWGG	4 cut(s)	49, 125, 159, 931
EcoT22I	ATGCAT	1 cut(s)	272
ErhI	CCWWGG	4 cut(s)	49, 125, 159, 931
FaeI	CATG	6 cut(s)	53, 136, 163, 274, 812, 916
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FaqI	GGGAC	1 cut(s)	807
FatI	CATG	6 cut(s)	49, 132, 159, 270, 808, 912
FauNDI	CATATG	1 cut(s)	346
FbaI	TGATCA	1 cut(s)	457
Fnu4HI	GCNGC	4 cut(s)	214, 633, 937, 940
FokI	GGATG	1 cut(s)	874
Fsp4HI	GCNGC	4 cut(s)	214, 633, 937, 940
FspBI	CTAG	2 cut(s)	516, 545
GluI	GCNGC	4 cut(s)	214, 633, 937, 940
HaeIII	GGCC	2 cut(s)	196, 339
HapII	CCGG	1 cut(s)	239
Hin1II	CATG	6 cut(s)	53, 136, 163, 274, 812, 916
HinfI	GANTC	7 cut(s)	233, 293, 368, 644, 694, 837, 857
HpaII	CCGG	1 cut(s)	239
HphI	GGTGA	4 cut(s)	89, 198, 228, 653
Hpy188I	TCNGA	4 cut(s)	376, 386, 448, 457
Hpy188III	TCNNGA	6 cut(s)	506, 563, 618, 670, 698, 707
HpyAV	CCTTC	3 cut(s)	291, 342, 860
HpyCH4III	ACNGT	3 cut(s)	327, 625, 885
HpyF10VI	GCNNNNNNNGC	6 cut(s)	121, 222, 254, 499, 595, 752
HpyF3I	CTNAG	5 cut(s)	447, 523, 585, 616, 762
Hsp92II	CATG	6 cut(s)	53, 136, 163, 274, 812, 916
Ksp22I	TGATCA	1 cut(s)	457
Kzo9I	GATC	4 cut(s)	64, 163, 457, 700
Lsp1109I	GCAGC	4 cut(s)	225, 644, 926, 948
LweI	GCATC	3 cut(s)	46, 257, 511
MaeI	CTAG	2 cut(s)	516, 545
MaeIII	GTNAC	1 cut(s)	174
MalI	GATC	4 cut(s)	66, 165, 459, 702
MboI	GATC	4 cut(s)	64, 163, 457, 700
MboII	GAAGA	5 cut(s)	84, 639, 642, 695, 787
MfeI	CAATTG	1 cut(s)	402
MflI	RGATCY	1 cut(s)	700
MluCI	AATT	3 cut(s)	57, 402, 892
MlyI	GAGTC	2 cut(s)	302, 851
MnlI	CCTC	7 cut(s)	330, 343, 370, 454, 625, 646, 784
Mph1103I	ATGCAT	1 cut(s)	272
MroXI	GAANNNNTTC	1 cut(s)	625
MslI	CAYNNNNRTG	1 cut(s)	48
MspA1I	CMGCKG	1 cut(s)	939
MspI	CCGG	1 cut(s)	239
MspR9I	CCNGG	3 cut(s)	34, 483, 877
MunI	CAATTG	1 cut(s)	402
MvaI	CCWGG	3 cut(s)	34, 483, 877
MwoI	GCNNNNNNNGC	6 cut(s)	121, 222, 254, 499, 595, 752
NcoI	CCATGG	2 cut(s)	49, 159
NdeI	CATATG	1 cut(s)	346
NdeII	GATC	4 cut(s)	64, 163, 457, 700
NlaIII	CATG	6 cut(s)	53, 136, 163, 274, 812, 916
NmuCI	GTSAC	1 cut(s)	174
NsiI	ATGCAT	1 cut(s)	272
PaeR7I	CTCGAG	1 cut(s)	670
PdmI	GAANNNNTTC	1 cut(s)	625
PfeI	GAWTC	5 cut(s)	233, 368, 644, 694, 837
PflMI	CCANNNNNTGG	1 cut(s)	106
PkrI	GCNGC	4 cut(s)	215, 634, 938, 941
PleI	GAGTC	2 cut(s)	301, 851
PpsI	GAGTC	2 cut(s)	301, 851
PsiI	TTATAA	1 cut(s)	438
Psp6I	CCWGG	3 cut(s)	32, 481, 875
PspGI	CCWGG	3 cut(s)	32, 481, 875
PspPI	GGNCC	1 cut(s)	194
PstI	CTGCAG	2 cut(s)	634, 865
PstNI	CAGNNNCTG	2 cut(s)	638, 860
PsuI	RGATCY	1 cut(s)	700
PvuII	CAGCTG	1 cut(s)	939
RsaI	GTAC	2 cut(s)	514, 900
RsaNI	GTAC	2 cut(s)	513, 899
RseI	CAYNNNNRTG	1 cut(s)	48
SatI	GCNGC	4 cut(s)	214, 633, 937, 940
Sau3AI	GATC	4 cut(s)	64, 163, 457, 700
Sau96I	GGNCC	1 cut(s)	194
ScaI	AGTACT	1 cut(s)	514
SchI	GAGTC	2 cut(s)	302, 851
ScrFI	CCNGG	3 cut(s)	34, 483, 877
SfaNI	GCATC	3 cut(s)	46, 257, 511
SfcI	CTRYAG	2 cut(s)	630, 861
Sfr274I	CTCGAG	1 cut(s)	670
SlaI	CTCGAG	1 cut(s)	670
SmiMI	CAYNNNNRTG	1 cut(s)	48
SmlI	CTYRAG	2 cut(s)	297, 670
SmoI	CTYRAG	2 cut(s)	297, 670
SpeI	ACTAGT	1 cut(s)	515
Sse9I	AATT	3 cut(s)	57, 402, 892
SspI	AATATT	2 cut(s)	190, 848
SspMI	CTAG	2 cut(s)	516, 545
StyD4I	CCNGG	3 cut(s)	32, 481, 875
StyI	CCWWGG	4 cut(s)	49, 125, 159, 931
TaaI	ACNGT	3 cut(s)	327, 625, 885
TaqI	TCGA	2 cut(s)	671, 835
TasI	AATT	3 cut(s)	57, 402, 892
TatI	WGTACW	2 cut(s)	512, 898
TfiI	GAWTC	5 cut(s)	233, 368, 644, 694, 837
TseFI	GTSAC	1 cut(s)	174
TseI	GCWGC	4 cut(s)	213, 632, 936, 939
Tsp45I	GTSAC	1 cut(s)	174
TspDTI	ATGAA	3 cut(s)	17, 797, 908
Van91I	CCANNNNNTGG	1 cut(s)	106
XhoI	CTCGAG	1 cut(s)	670
XmnI	GAANNNNTTC	1 cut(s)	625
XspI	CTAG	2 cut(s)	516, 545
ZrmI	AGTACT	1 cut(s)	514
Zsp2I	ATGCAT	1 cut(s)	272

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