Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0004708

Physical Location & Seq

Genomic Coordinates Reverse (-)

20625876 .. 20629885

Gene Structure 4010 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG220400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1062 bp

ATGTCCTTGAACCATTTCTCTTCCTCCGAGCTTCAAGAAACGCAGTGGTGGAACAACTCGACGACTCAACAAAACCAGCAACAGCCCCCTGAATTCACCATGGACACTTTCCACCCTCAATTGTATCAAAATTACCAGCCCGGCTGGCTAGGCTCCCAAATCTCCCAACAGCCCCCGACCCTCAATTTCAACCTCAACCATCAACACAACGACGCCGCCGACAGAGAATTACAACAGCCAGAGCTTCAGATCGACATGGGGGATGACAAAGAGACCATGTTCGAGAAGCCGCTGACCCCAAGCGACGTCGGCAAGCTCAACCGCCTTGTCATTCCCAAGCAGCACGCCGAGAGGTACTTCCCTCTCGGTGGCGGCAACGGCGGAGAGTCAGGAGGCGAGAAGGGGCTGCTGCTGAGCTTCGAGGACGAGTCCGGAAAGTGCTGGAGGTTCCGGTACTCGTACTGGAACAGCAGCCAAAGCTATGTATTAACCAAAGGATGGAGCCGCTACGTGAAGGAAAAGCGCCTCGACGCCGGCGACGTCGTTTTGTTCGAGCGGCGCCGAAACGACAGCGAGCGCCTCTTCATTGGGTGGAGGCGCCGTGCGGCGCAAGAGAGCAGCGGCGCTGGTGGTGGGGCTAGTAACACGTCAGCGCAGGTTAGCGGAAGCGGCGGGGGTGGTGGTGCTGGTGCTGGTGTTGAAAGTGGAGGTAGTAGAGCTGGTTGGACCAGGATCTTCTATTCTGCACCGCAGTCTTATCCTGCGCCCCATCATCACAGTGTGCCATACCCACCTGACTATCTACAACATGCAGCCGCAGCAGCAGCAGGATCTCCTGTTCAGAACCAGACGCCGTCGTCGTCATCGGGCTGCAACTCAAGGATATTGAGGCTGTTTGGGGTGAACTTGGAGTGCCAGCAGCAGCAGGATGATGAATCCGAACCATCCACACCAGATGGGTCGTCTTTGTCAAGCCAGGGTCCAACCCACCACCAGTTCTATCCTAATCCTACTAATGCTTATTATGGAGACCACAGGGTAAGCCAACTATCATTTTCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009965 GO:0010016 GO:0010073 GO:0010358 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0045892 GO:0045934 GO:0048366 GO:0048367 GO:0048507 GO:0048519 GO:0048523 GO:0048532 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0099402 GO:0140110 GO:1902679 GO:1903506 GO:1903507 GO:1905392 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

353

Amino Acids

39.04

Weight (kDa)

5.83

Isoelectric Point (pI)

62.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	94 - 201	5.3e-27	B3 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: OG0004708)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36080 AT2G36080 AT2G36080 AT2G36080 AT3G11580 AT3G11580 AT3G11580 AT3G11580 AT3G11580 AT5G06250 AT5G06250 AT5G06250 AT5G06250 AT5G06250
fragaria_vesca	FvH4_6g19560 FvH4_6g19560
malus_domestica	MD12G1032000.v1.1 MD14G1032300.v1.1
prunus_persica	Prupe.7G100600_v2.0.a1
pyrus_communis	pycom12g02970 pycom14g02910
rosa_chinensis	RchiOBHm_Chr3g0474911
rosa_laevigata	RLG00000023881
rosa_multiflora	Rmu_sc0008866.1_g000008
rosa_roxburghii	Rroxscaffold_6G00406740
rosa_rugosa	Rorug03G0145500
rosa_samantha	Rh3AG195000 Rh3BG224900 Rh3CG219900 Rh3DG220400
rosa_wichuraiana	Rw3G017740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	856
AatII	GACGTC	2 cut(s)	309, 543
Acc36I	ACCTGC	1 cut(s)	646
AccB1I	GGYRCC	2 cut(s)	558, 597
AccB7I	CCANNNNNTGG	1 cut(s)	498
AccBSI	CCGCTC	1 cut(s)	556
AccIII	TCCGGA	1 cut(s)	431
AclWI	GGATC	2 cut(s)	740, 838
AcsI	RAATTY	1 cut(s)	92
AcuI	CTGAAG	1 cut(s)	230
AcyI	GRCGYC	7 cut(s)	213, 306, 531, 540, 559, 598, 851
AdeI	CACNNNGTG	1 cut(s)	781
AfaI	GTAC	3 cut(s)	356, 455, 461
AfiI	CCNNNNNNNGG	2 cut(s)	368, 498
AflIII	ACRYGT	1 cut(s)	645
AgsI	TTSAA	4 cut(s)	10, 35, 190, 701
AjiI	CACGTC	1 cut(s)	648
AjnI	CCWGG	2 cut(s)	728, 975
AloI	GAACNNNNNNTCC	2 cut(s)	822, 854
AluBI	AGCT	6 cut(s)	31, 244, 316, 417, 480, 719
AluI	AGCT	6 cut(s)	31, 244, 316, 417, 480, 719
Alw26I	GTCTC	2 cut(s)	266, 1023
AlwI	GGATC	2 cut(s)	740, 838
Aor13HI	TCCGGA	1 cut(s)	431
ApoI	RAATTY	1 cut(s)	92
Asp700I	GAANNNNTTC	1 cut(s)	14
AspLEI	GCGC	8 cut(s)	525, 561, 579, 600, 610, 626, 655, 766
AspS9I	GGNCC	2 cut(s)	726, 980
AsuC2I	CCSGG	1 cut(s)	141
AsuHPI	GGTGA	2 cut(s)	88, 913
AvaII	GGWCC	2 cut(s)	726, 980
BanI	GGYRCC	2 cut(s)	558, 597
BccI	CCATC	5 cut(s)	207, 492, 777, 950, 952
BceAI	ACGGC	3 cut(s)	394, 585, 838
BciT130I	CCWGG	2 cut(s)	730, 977
BcnI	CCSGG	1 cut(s)	141
BcoDI	GTCTC	2 cut(s)	266, 1023
BfaI	CTAG	2 cut(s)	149, 639
BfoI	RGCGCY	5 cut(s)	526, 562, 580, 601, 627
BfuAI	ACCTGC	1 cut(s)	646
BglI	GCCNNNNNGGC	1 cut(s)	145
BlpI	GCTNAGC	1 cut(s)	413
Bme1390I	CCNGG	3 cut(s)	141, 730, 977
Bme18I	GGWCC	2 cut(s)	726, 980
BmgBI	CACGTC	1 cut(s)	648
BmgT120I	GGNCC	2 cut(s)	726, 980
BmiI	GGNNCC	6 cut(s)	154, 449, 503, 560, 599, 981
BmrFI	CCNGG	3 cut(s)	141, 730, 977
BpmI	CTGGAG	1 cut(s)	463
Bpu1102I	GCTNAGC	1 cut(s)	413
BpuEI	CTTGAG	1 cut(s)	862
BpuMI	CCSGG	1 cut(s)	141
BsaAI	YACGTR	1 cut(s)	511
BsaHI	GRCGYC	7 cut(s)	213, 306, 531, 540, 559, 598, 851
BsaI	GGTCTC	2 cut(s)	266, 1023
BsaJI	CCNNGG	2 cut(s)	99, 976
BsaWI	WCCGGW	2 cut(s)	431, 450
BsaXI	ACNNNNNCTCC	2 cut(s)	586, 616
Bsc4I	CCNNNNNNNGG	2 cut(s)	368, 498
Bse118I	RCCGGY	1 cut(s)	533
Bse1I	ACTGG	2 cut(s)	467, 994
BseAI	TCCGGA	1 cut(s)	431
BseBI	CCWGG	2 cut(s)	730, 977
BseDI	CCNNGG	2 cut(s)	99, 976
BseGI	GGATG	4 cut(s)	268, 503, 934, 944
BseLI	CCNNNNNNNGG	2 cut(s)	368, 498
BseMII	CTCAG	1 cut(s)	404
BseNI	ACTGG	2 cut(s)	467, 994
BsgI	GTGCAG	1 cut(s)	729
BshNI	GGYRCC	2 cut(s)	558, 597
BsiSI	CCGG	4 cut(s)	141, 432, 451, 534
BslI	CCNNNNNNNGG	2 cut(s)	368, 498
BsmAI	GTCTC	2 cut(s)	266, 1023
Bso31I	GGTCTC	2 cut(s)	266, 1023
Bsp13I	TCCGGA	1 cut(s)	431
Bsp143I	GATC	3 cut(s)	249, 732, 830
Bsp1720I	GCTNAGC	1 cut(s)	413
Bsp19I	CCATGG	1 cut(s)	99
BspCNI	CTCAG	1 cut(s)	405
BspEI	TCCGGA	1 cut(s)	431
BspLI	GGNNCC	6 cut(s)	154, 449, 503, 560, 599, 981
BspMI	ACCTGC	1 cut(s)	646
BspPI	GGATC	2 cut(s)	740, 838
BspT107I	GGYRCC	2 cut(s)	558, 597
BspTNI	GGTCTC	2 cut(s)	266, 1023
BsrBI	CCGCTC	1 cut(s)	556
BsrFI	RCCGGY	1 cut(s)	533
BsrI	ACTGG	2 cut(s)	467, 994
BssAI	RCCGGY	1 cut(s)	533
BssECI	CCNNGG	2 cut(s)	99, 976
BssMI	GATC	3 cut(s)	249, 732, 830
BssNI	GRCGYC	7 cut(s)	213, 306, 531, 540, 559, 598, 851
BssT1I	CCWWGG	1 cut(s)	99
Bst2UI	CCWGG	2 cut(s)	730, 977
Bst4CI	ACNGT	1 cut(s)	779
Bst6I	CTCTTC	2 cut(s)	25, 587
BstACI	GRCGYC	7 cut(s)	213, 306, 531, 540, 559, 598, 851
BstBAI	YACGTR	1 cut(s)	511
BstC8I	GCNNGC	6 cut(s)	146, 314, 345, 535, 575, 917
BstDEI	CTNAG	1 cut(s)	413
BstDSI	CCRYGG	1 cut(s)	99
BstF5I	GGATG	4 cut(s)	268, 503, 934, 944
BstH2I	RGCGCY	5 cut(s)	526, 562, 580, 601, 627
BstHHI	GCGC	8 cut(s)	525, 561, 579, 600, 610, 626, 655, 766
BstKTI	GATC	3 cut(s)	252, 735, 833
BstMAI	GTCTC	2 cut(s)	266, 1023
BstMBI	GATC	3 cut(s)	249, 732, 830
BstMWI	GCNNNNNNNGC	9 cut(s)	145, 150, 309, 378, 477, 669, 818, 821, 824
BstNI	CCWGG	2 cut(s)	730, 977
BstNSI	RCATGY	1 cut(s)	812
BstSCI	CCNGG	3 cut(s)	139, 728, 975
BstX2I	RGATCY	2 cut(s)	732, 830
BstYI	RGATCY	2 cut(s)	732, 830
BtgI	CCRYGG	1 cut(s)	99
BtrI	CACGTC	1 cut(s)	648
BtsCI	GGATG	4 cut(s)	268, 503, 934, 944
BtsI	GCAGTG	1 cut(s)	50
BtsIMutI	CAGTG	2 cut(s)	50, 784
BveI	ACCTGC	1 cut(s)	646
Cac8I	GCNNGC	6 cut(s)	146, 314, 345, 535, 575, 917
CfoI	GCGC	8 cut(s)	525, 561, 579, 600, 610, 626, 655, 766
Cfr10I	RCCGGY	1 cut(s)	533
Cfr13I	GGNCC	2 cut(s)	726, 980
CseI	GACGC	3 cut(s)	221, 539, 859
Csp6I	GTAC	3 cut(s)	355, 454, 460
CviAII	CATG	4 cut(s)	100, 256, 277, 809
CviQI	GTAC	3 cut(s)	355, 454, 460
DdeI	CTNAG	1 cut(s)	413
DinI	GGCGCC	2 cut(s)	560, 599
DpnI	GATC	3 cut(s)	251, 734, 832
DpnII	GATC	3 cut(s)	249, 732, 830
DraIII	CACNNNGTG	1 cut(s)	781
DrdI	GACNNNNNNGTC	1 cut(s)	856
DseDI	GACNNNNNNGTC	1 cut(s)	856
Eam1104I	CTCTTC	2 cut(s)	25, 587
EarI	CTCTTC	2 cut(s)	25, 587
EciI	GGCGGA	1 cut(s)	396
Eco130I	CCWWGG	1 cut(s)	99
Eco31I	GGTCTC	2 cut(s)	266, 1023
Eco47I	GGWCC	2 cut(s)	726, 980
Eco57I	CTGAAG	1 cut(s)	230
EcoRI	GAATTC	1 cut(s)	92
EcoRII	CCWGG	2 cut(s)	728, 975
EcoT14I	CCWWGG	1 cut(s)	99
EgeI	GGCGCC	2 cut(s)	560, 599
EheI	GGCGCC	2 cut(s)	560, 599
ErhI	CCWWGG	1 cut(s)	99
FaeI	CATG	4 cut(s)	103, 259, 280, 812
FaiI	YATR	7 cut(s)	101, 257, 278, 483, 787, 810, 1026
FatI	CATG	4 cut(s)	99, 255, 276, 808
FauI	CCCGC	1 cut(s)	665
FokI	GGATG	4 cut(s)	275, 510, 931, 941
FspBI	CTAG	2 cut(s)	149, 639
GlaI	GCGC	8 cut(s)	524, 560, 578, 599, 609, 625, 654, 765
GsuI	CTGGAG	1 cut(s)	463
HaeII	RGCGCY	5 cut(s)	526, 562, 580, 601, 627
HapII	CCGG	4 cut(s)	141, 432, 451, 534
HgaI	GACGC	3 cut(s)	221, 539, 859
HhaI	GCGC	8 cut(s)	525, 561, 579, 600, 610, 626, 655, 766
Hin1I	GRCGYC	7 cut(s)	213, 306, 531, 540, 559, 598, 851
Hin1II	CATG	4 cut(s)	103, 259, 280, 812
Hin6I	GCGC	8 cut(s)	523, 559, 577, 598, 608, 624, 653, 764
HinP1I	GCGC	8 cut(s)	523, 559, 577, 598, 608, 624, 653, 764
HinfI	GANTC	4 cut(s)	64, 386, 428, 935
HpaII	CCGG	4 cut(s)	141, 432, 451, 534
HphI	GGTGA	2 cut(s)	88, 913
Hpy166II	GTNNAC	1 cut(s)	904
Hpy188I	TCNGA	4 cut(s)	28, 249, 843, 940
Hpy188III	TCNNGA	4 cut(s)	35, 283, 390, 432
Hpy8I	GTNNAC	1 cut(s)	904
Hpy99I	CGWCG	9 cut(s)	64, 215, 308, 311, 533, 542, 545, 859, 862
HpyAV	CCTTC	2 cut(s)	394, 508
HpyCH4III	ACNGT	1 cut(s)	779
HpyCH4IV	ACGT	4 cut(s)	306, 510, 540, 647
HpyCH4V	TGCA	3 cut(s)	746, 812, 873
HpyF10VI	GCNNNNNNNGC	9 cut(s)	145, 150, 309, 378, 477, 669, 818, 821, 824
HpyF3I	CTNAG	1 cut(s)	413
HpySE526I	ACGT	4 cut(s)	306, 510, 540, 647
Hsp92I	GRCGYC	7 cut(s)	213, 306, 531, 540, 559, 598, 851
Hsp92II	CATG	4 cut(s)	103, 259, 280, 812
HspAI	GCGC	8 cut(s)	523, 559, 577, 598, 608, 624, 653, 764
KasI	GGCGCC	2 cut(s)	558, 597
Kpn2I	TCCGGA	1 cut(s)	431
KroI	GCCGGC	1 cut(s)	533
KroNI	GCCGGC	1 cut(s)	535
Kzo9I	GATC	3 cut(s)	249, 732, 830
LmnI	GCTCC	2 cut(s)	158, 501
MaeI	CTAG	2 cut(s)	149, 639
MaeII	ACGT	4 cut(s)	306, 510, 540, 647
MaeIII	GTNAC	1 cut(s)	641
MalI	GATC	3 cut(s)	251, 734, 832
MbiI	CCGCTC	1 cut(s)	556
MboI	GATC	3 cut(s)	249, 732, 830
MboII	GAAGA	3 cut(s)	12, 574, 727
MfeI	CAATTG	1 cut(s)	119
MflI	RGATCY	2 cut(s)	732, 830
MluCI	AATT	5 cut(s)	92, 119, 130, 184, 227
Mly113I	GGCGCC	2 cut(s)	559, 598
MlyI	GAGTC	3 cut(s)	58, 395, 437
MmeI	TCCRAC	2 cut(s)	704, 1007
MreI	CGCCGGCG	1 cut(s)	533
MroI	TCCGGA	1 cut(s)	431
MroNI	GCCGGC	1 cut(s)	533
MroXI	GAANNNNTTC	1 cut(s)	14
MseI	TTAA	1 cut(s)	488
MslI	CAYNNNNRTG	1 cut(s)	777
MspA1I	CMGCKG	2 cut(s)	292, 621
MspI	CCGG	4 cut(s)	141, 432, 451, 534
MspR9I	CCNGG	3 cut(s)	141, 730, 977
MunI	CAATTG	1 cut(s)	119
MvaI	CCWGG	2 cut(s)	730, 977
MwoI	GCNNNNNNNGC	9 cut(s)	145, 150, 309, 378, 477, 669, 818, 821, 824
NaeI	GCCGGC	1 cut(s)	535
NarI	GGCGCC	2 cut(s)	559, 598
NciI	CCSGG	1 cut(s)	141
NcoI	CCATGG	1 cut(s)	99
NdeII	GATC	3 cut(s)	249, 732, 830
NgoMIV	GCCGGC	1 cut(s)	533
NlaIII	CATG	4 cut(s)	103, 259, 280, 812
NlaIV	GGNNCC	6 cut(s)	154, 449, 503, 560, 599, 981
NmeAIII	GCCGAG	1 cut(s)	373
NspI	RCATGY	1 cut(s)	812
PcsI	WCGNNNNNNNCGW	5 cut(s)	216, 534, 537, 549, 857
PdiI	GCCGGC	1 cut(s)	535
PdmI	GAANNNNTTC	1 cut(s)	14
PfeI	GAWTC	1 cut(s)	935
PflFI	GACNNNGTC	1 cut(s)	853
PflMI	CCANNNNNTGG	1 cut(s)	498
PleI	GAGTC	3 cut(s)	58, 394, 436
PluTI	GGCGCC	2 cut(s)	562, 601
PpsI	GAGTC	3 cut(s)	58, 394, 436
Ppu21I	YACGTR	1 cut(s)	511
Psp6I	CCWGG	2 cut(s)	728, 975
PspGI	CCWGG	2 cut(s)	728, 975
PspN4I	GGNNCC	6 cut(s)	154, 449, 503, 560, 599, 981
PspPI	GGNCC	2 cut(s)	726, 980
PsuI	RGATCY	2 cut(s)	732, 830
PsyI	GACNNNGTC	1 cut(s)	853
RsaI	GTAC	3 cut(s)	356, 455, 461
RsaNI	GTAC	3 cut(s)	355, 454, 460
RseI	CAYNNNNRTG	1 cut(s)	777
SaqAI	TTAA	1 cut(s)	488
Sau3AI	GATC	3 cut(s)	249, 732, 830
Sau96I	GGNCC	2 cut(s)	726, 980
SchI	GAGTC	3 cut(s)	58, 395, 437
ScrFI	CCNGG	3 cut(s)	141, 730, 977
SfoI	GGCGCC	2 cut(s)	560, 599
SgrAI	CRCCGGYG	1 cut(s)	533
SinI	GGWCC	2 cut(s)	726, 980
SmiMI	CAYNNNNRTG	1 cut(s)	777
SmlI	CTYRAG	1 cut(s)	877
SmoI	CTYRAG	1 cut(s)	877
Sse9I	AATT	5 cut(s)	92, 119, 130, 184, 227
SspDI	GGCGCC	2 cut(s)	558, 597
SspMI	CTAG	2 cut(s)	149, 639
StyD4I	CCNGG	3 cut(s)	139, 728, 975
StyI	CCWWGG	1 cut(s)	99
TaaI	ACNGT	1 cut(s)	779
TaiI	ACGT	4 cut(s)	309, 513, 543, 650
TaqI	TCGA	6 cut(s)	59, 252, 282, 420, 528, 552
TasI	AATT	5 cut(s)	92, 119, 130, 184, 227
TauI	GCSGC	9 cut(s)	218, 292, 375, 507, 559, 608, 624, 672, 818
TfiI	GAWTC	1 cut(s)	935
Tru1I	TTAA	1 cut(s)	488
Tru9I	TTAA	1 cut(s)	488
TscAI	CASTG	2 cut(s)	50, 784
TspDTI	ATGAA	2 cut(s)	574, 948
TspRI	CASTG	2 cut(s)	50, 784
Tth111I	GACNNNGTC	1 cut(s)	853
Van91I	CCANNNNNTGG	1 cut(s)	498
VpaK11BI	GGWCC	2 cut(s)	726, 980
XapI	RAATTY	1 cut(s)	92
XceI	RCATGY	1 cut(s)	812
XmnI	GAANNNNTTC	1 cut(s)	14
XspI	CTAG	2 cut(s)	149, 639
ZraI	GACGTC	2 cut(s)	307, 541

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