Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0005317

Physical Location & Seq

Genomic Coordinates Reverse (-)

22153096 .. 22158288

Gene Structure 5193 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG236800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 852 bp

ATGGCTATGCAAACTGTTTATTTCAAAGAACATGAAGGACTTGGGCAGTTGTCATCAGTGTTACCTTGGTGGGGTACTGCCTTTGGATCTCAACAAGTTCATGGCGAATCCTGTGGCCAGTCAAAACCTTTTACCATGGAGCTTCCCAATAGTGGAGACCAACTCACTGCCCCTAAGCAACCCGGGCGGGGCACTGAACAAGGACTGGATAAAGGGAACACAAATCAGTTCACTATCTTCCCTGGGGATGGGAAAAAATCTCAGCCAGCGATCTCTCTGCAATCATCCCCACCAAAATATCGTGGTCATTTTGAGCTGGGATTCAGCCAACCTATGGGACGTATTATGCTGCCACTGAATTTGACTACAGATGAAGGACCAATTTATGTCAATGCTAAGCAATACCACGGAATCATCCGGCGCCGACAATCCCGTGCAAAGGCAGTCATGGAGAATAGAGCAGCTAGACACCGTAAGCCCTATATGCATGAATCACGCCATCTTCATGCCATGCGCCGACCAAGGGGATGTGGTGGTCGTTTTCTGAATACCAAGACTGCGAATAATGGGATAGGTAGAAATGAAATTAAGCTAGTTGGTGATGTGCAGCTGTTTAGGCACTCCGGTTCTCAGAGCTCTGAAGTCCTGCAATCTGAGAGTGGAACTTTGAACTCATCAAAATCAAATGGCAGCAGTTCCAACATATCAGGCTCAGAGGTGACCAGTATGTACTCGAGGGGAGATCCTTTTTCAATGAATCATCATCATCTCGGGCCCTCTGTGCATTATGGCATGGTTATGCCCACAAAATGGATTGCAGCAGTGGATAACTGCTGCAACCTCAAAGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006355 GO:0008150 GO:0009566 GO:0009567 GO:0009889 GO:0010468 GO:0010556 GO:0016602 GO:0019219 GO:0019222 GO:0019953 GO:0022414 GO:0031323 GO:0031326 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044703 GO:0044798 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051704 GO:0060255 GO:0065007 GO:0080090 GO:0090575 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFB_NFYA

Protein Analysis

283

Amino Acids

31.21

Weight (kDa)

9.79

Isoelectric Point (pI)

54.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	127 - 181	7.5e-26	CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B

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: OG0005317)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05690 AT3G05690 AT5G06510 AT5G06510 AT5G06510 AT5G06510 AT5G06510 AT5G06510 AT5G06510
fragaria_vesca	FvH4_6g20510
malus_domestica	MD12G1042100.v1.1 MD14G1041300.v1.1
prunus_persica	Prupe.7G093100_v2.0.a1 Prupe.7G093100_v2.0.a1
pyrus_communis	pycom12g03680 pycom14g03510
rosa_chinensis	RchiOBHm_Chr3g0476401
rosa_laevigata	RLG00000023772
rosa_multiflora	Rmu_sc0000114.1_g000002
rosa_roxburghii	Rroxscaffold_6G00405310
rosa_rugosa	Rorug03G0154100 Rorug03G0154100 Rorug03G0154100 Rorug03G0154200
rosa_samantha	Rh3AG205300 Rh3BG236800 Rh3CG231300 Rh3DG231200
rosa_wichuraiana	Rw3G018650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	420
AccB7I	CCANNNNNTGG	2 cut(s)	334, 810
AciI	CCGC	1 cut(s)	187
AclWI	GGATC	2 cut(s)	94, 737
AcoI	YGGCCR	1 cut(s)	115
AcsI	RAATTY	1 cut(s)	358
AcuI	CTGAAG	1 cut(s)	660
AcyI	GRCGYC	1 cut(s)	421
AfaI	GTAC	2 cut(s)	76, 731
AfiI	CCNNNNNNNGG	8 cut(s)	71, 152, 188, 248, 334, 439, 523, 810
AgsI	TTSAA	3 cut(s)	25, 670, 753
AjnI	CCWGG	1 cut(s)	241
AluBI	AGCT	6 cut(s)	142, 316, 464, 592, 610, 636
AluI	AGCT	6 cut(s)	142, 316, 464, 592, 610, 636
Alw21I	GWGCWC	1 cut(s)	638
Alw26I	GTCTC	1 cut(s)	150
AlwI	GGATC	2 cut(s)	94, 737
Ama87I	CYCGRG	3 cut(s)	182, 733, 770
AoxI	GGCC	2 cut(s)	115, 773
ApaI	GGGCCC	1 cut(s)	777
ApeKI	GCWGC	6 cut(s)	349, 461, 607, 690, 818, 834
ApoI	RAATTY	1 cut(s)	358
AspLEI	GCGC	2 cut(s)	423, 516
AspS9I	GGNCC	3 cut(s)	377, 773, 774
AsuC2I	CCSGG	2 cut(s)	183, 184
AsuHPI	GGTGA	2 cut(s)	611, 730
AvaI	CYCGRG	3 cut(s)	182, 733, 770
AvaII	GGWCC	1 cut(s)	377
BaeGI	GKGCMC	2 cut(s)	194, 777
BalI	TGGCCA	1 cut(s)	117
BanI	GGYRCC	1 cut(s)	420
BanII	GRGCYC	2 cut(s)	638, 777
Bbv12I	GWGCWC	1 cut(s)	638
BbvI	GCAGC	6 cut(s)	336, 473, 619, 702, 821, 830
BccI	CCATC	2 cut(s)	242, 507
BcgI	CGANNNNNNTGC	2 cut(s)	259, 293
BciT130I	CCWGG	1 cut(s)	243
BcnI	CCSGG	2 cut(s)	183, 184
BcoDI	GTCTC	1 cut(s)	150
BfaI	CTAG	2 cut(s)	465, 593
BfmI	CTRYAG	1 cut(s)	366
BfoI	RGCGCY	1 cut(s)	424
BisI	GCNGC	6 cut(s)	350, 462, 608, 691, 819, 835
BlpI	GCTNAGC	1 cut(s)	396
BlsI	GCNGC	6 cut(s)	351, 463, 609, 692, 820, 836
Bme1390I	CCNGG	3 cut(s)	183, 184, 243
Bme18I	GGWCC	1 cut(s)	377
BmeT110I	CYCGRG	3 cut(s)	182, 733, 770
BmgT120I	GGNCC	3 cut(s)	377, 773, 774
BmiI	GGNNCC	2 cut(s)	422, 775
BmrFI	CCNGG	3 cut(s)	183, 184, 243
BplI	GAGNNNNNCTC	2 cut(s)	147, 179
Bpu10I	CCTNAGC	1 cut(s)	174
Bpu1102I	GCTNAGC	1 cut(s)	396
BpuMI	CCSGG	2 cut(s)	183, 184
BsaHI	GRCGYC	1 cut(s)	421
BsaI	GGTCTC	1 cut(s)	150
BsaJI	CCNNGG	7 cut(s)	65, 135, 182, 241, 242, 406, 521
BsaWI	WCCGGW	1 cut(s)	623
Bsc4I	CCNNNNNNNGG	8 cut(s)	71, 152, 188, 248, 334, 439, 523, 810
Bse1I	ACTGG	3 cut(s)	118, 210, 723
BseBI	CCWGG	1 cut(s)	243
BseDI	CCNNGG	7 cut(s)	65, 135, 182, 241, 242, 406, 521
BseGI	GGATG	4 cut(s)	253, 284, 414, 533
BseLI	CCNNNNNNNGG	8 cut(s)	71, 152, 188, 248, 334, 439, 523, 810
BseMII	CTCAG	4 cut(s)	275, 644, 645, 726
BseNI	ACTGG	3 cut(s)	118, 210, 723
BseSI	GKGCMC	2 cut(s)	194, 777
BseXI	GCAGC	6 cut(s)	336, 473, 619, 702, 821, 830
BseYI	CCCAGC	1 cut(s)	316
BsgI	GTGCAG	1 cut(s)	626
BshFI	GGCC	2 cut(s)	117, 775
BshNI	GGYRCC	1 cut(s)	420
BsiHKAI	GWGCWC	1 cut(s)	638
BsiHKCI	CYCGRG	3 cut(s)	182, 733, 770
BsiSI	CCGG	3 cut(s)	183, 418, 624
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	8 cut(s)	71, 152, 188, 248, 334, 439, 523, 810
BsmAI	GTCTC	1 cut(s)	150
BsmFI	GGGAC	1 cut(s)	351
BsnI	GGCC	2 cut(s)	117, 775
Bso31I	GGTCTC	1 cut(s)	150
BsoBI	CYCGRG	3 cut(s)	182, 733, 770
Bsp120I	GGGCCC	1 cut(s)	773
Bsp1286I	GDGCHC	3 cut(s)	194, 638, 777
Bsp143I	GATC	3 cut(s)	86, 270, 742
Bsp1720I	GCTNAGC	1 cut(s)	396
Bsp19I	CCATGG	1 cut(s)	135
BspACI	CCGC	1 cut(s)	187
BspANI	GGCC	2 cut(s)	117, 775
BspCNI	CTCAG	4 cut(s)	274, 643, 646, 725
BspLI	GGNNCC	2 cut(s)	422, 775
BspPI	GGATC	2 cut(s)	94, 737
BspT107I	GGYRCC	1 cut(s)	420
BspTNI	GGTCTC	1 cut(s)	150
BsrI	ACTGG	3 cut(s)	118, 210, 723
BssECI	CCNNGG	7 cut(s)	65, 135, 182, 241, 242, 406, 521
BssMI	GATC	3 cut(s)	86, 270, 742
BssNI	GRCGYC	1 cut(s)	421
BssT1I	CCWWGG	3 cut(s)	65, 135, 521
Bst2UI	CCWGG	1 cut(s)	243
Bst4CI	ACNGT	2 cut(s)	16, 473
BstACI	GRCGYC	1 cut(s)	421
BstC8I	GCNNGC	1 cut(s)	267
BstDEI	CTNAG	6 cut(s)	174, 261, 396, 630, 654, 712
BstDSI	CCRYGG	2 cut(s)	135, 406
BstEII	GGTNACC	1 cut(s)	718
BstF5I	GGATG	4 cut(s)	253, 284, 414, 533
BstH2I	RGCGCY	1 cut(s)	424
BstHHI	GCGC	2 cut(s)	423, 516
BstKTI	GATC	3 cut(s)	89, 273, 745
BstMAI	GTCTC	1 cut(s)	150
BstMBI	GATC	3 cut(s)	86, 270, 742
BstMWI	GCNNNNNNNGC	4 cut(s)	184, 484, 616, 781
BstNI	CCWGG	1 cut(s)	243
BstPI	GGTNACC	1 cut(s)	718
BstSCI	CCNGG	3 cut(s)	181, 182, 241
BstSFI	CTRYAG	1 cut(s)	366
BstSLI	GKGCMC	2 cut(s)	194, 777
BstV1I	GCAGC	6 cut(s)	336, 473, 619, 702, 821, 830
BstX2I	RGATCY	2 cut(s)	86, 742
BstYI	RGATCY	2 cut(s)	86, 742
BsuRI	GGCC	2 cut(s)	117, 775
BtgI	CCRYGG	2 cut(s)	135, 406
BtsCI	GGATG	4 cut(s)	253, 284, 414, 533
BtsI	GCAGTG	2 cut(s)	165, 828
BtsIMutI	CAGTG	5 cut(s)	63, 165, 192, 353, 828
Cac8I	GCNNGC	1 cut(s)	267
CfoI	GCGC	2 cut(s)	423, 516
Cfr13I	GGNCC	3 cut(s)	377, 773, 774
Cfr9I	CCCGGG	1 cut(s)	182
Csp6I	GTAC	2 cut(s)	75, 730
CspCI	CAANNNNNGTGG	2 cut(s)	342, 377
CviAII	CATG	8 cut(s)	32, 101, 136, 448, 488, 506, 511, 793
CviQI	GTAC	2 cut(s)	75, 730
DdeI	CTNAG	6 cut(s)	174, 261, 396, 630, 654, 712
DinI	GGCGCC	1 cut(s)	422
DpnI	GATC	3 cut(s)	88, 272, 744
DpnII	GATC	3 cut(s)	86, 270, 742
EaeI	YGGCCR	1 cut(s)	115
Ecl136II	GAGCTC	1 cut(s)	636
Eco130I	CCWWGG	3 cut(s)	65, 135, 521
Eco24I	GRGCYC	2 cut(s)	638, 777
Eco31I	GGTCTC	1 cut(s)	150
Eco47I	GGWCC	1 cut(s)	377
Eco53kI	GAGCTC	1 cut(s)	636
Eco57I	CTGAAG	1 cut(s)	660
Eco88I	CYCGRG	3 cut(s)	182, 733, 770
Eco91I	GGTNACC	1 cut(s)	718
EcoICRI	GAGCTC	1 cut(s)	636
EcoO109I	RGGNCCY	1 cut(s)	774
EcoO65I	GGTNACC	1 cut(s)	718
EcoRII	CCWGG	1 cut(s)	241
EcoT14I	CCWWGG	3 cut(s)	65, 135, 521
EcoT22I	ATGCAT	1 cut(s)	489
EcoT38I	GRGCYC	2 cut(s)	638, 777
EgeI	GGCGCC	1 cut(s)	422
EheI	GGCGCC	1 cut(s)	422
ErhI	CCWWGG	3 cut(s)	65, 135, 521
FaeI	CATG	8 cut(s)	35, 104, 139, 451, 491, 509, 514, 796
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	8 cut(s)	31, 100, 135, 447, 487, 505, 510, 792
FauI	CCCGC	1 cut(s)	180
Fnu4HI	GCNGC	6 cut(s)	350, 462, 608, 691, 819, 835
FokI	GGATG	4 cut(s)	260, 271, 401, 540
FriOI	GRGCYC	2 cut(s)	638, 777
Fsp4HI	GCNGC	6 cut(s)	350, 462, 608, 691, 819, 835
FspBI	CTAG	2 cut(s)	465, 593
GlaI	GCGC	2 cut(s)	422, 515
GluI	GCNGC	6 cut(s)	350, 462, 608, 691, 819, 835
GsaI	CCCAGC	1 cut(s)	320
HaeII	RGCGCY	1 cut(s)	424
HaeIII	GGCC	2 cut(s)	117, 775
HapII	CCGG	3 cut(s)	183, 418, 624
HhaI	GCGC	2 cut(s)	423, 516
Hin1I	GRCGYC	1 cut(s)	421
Hin1II	CATG	8 cut(s)	35, 104, 139, 451, 491, 509, 514, 796
Hin6I	GCGC	2 cut(s)	421, 514
HinP1I	GCGC	2 cut(s)	421, 514
HinfI	GANTC	5 cut(s)	107, 321, 411, 491, 757
HpaII	CCGG	3 cut(s)	183, 418, 624
HphI	GGTGA	2 cut(s)	611, 730
Hpy166II	GTNNAC	1 cut(s)	231
Hpy188I	TCNGA	6 cut(s)	546, 633, 640, 655, 715, 851
Hpy8I	GTNNAC	1 cut(s)	231
HpyAV	CCTTC	2 cut(s)	29, 368
HpyCH4III	ACNGT	2 cut(s)	16, 473
HpyCH4IV	ACGT	1 cut(s)	340
HpyCH4V	TGCA	9 cut(s)	10, 280, 437, 487, 607, 649, 784, 818, 837
HpyF10VI	GCNNNNNNNGC	4 cut(s)	184, 484, 616, 781
HpyF3I	CTNAG	6 cut(s)	174, 261, 396, 630, 654, 712
HpySE526I	ACGT	1 cut(s)	340
Hsp92I	GRCGYC	1 cut(s)	421
Hsp92II	CATG	8 cut(s)	35, 104, 139, 451, 491, 509, 514, 796
HspAI	GCGC	2 cut(s)	421, 514
KasI	GGCGCC	1 cut(s)	420
Kzo9I	GATC	3 cut(s)	86, 270, 742
LmnI	GCTCC	1 cut(s)	139
Lsp1109I	GCAGC	6 cut(s)	336, 473, 619, 702, 821, 830
MaeI	CTAG	2 cut(s)	465, 593
MaeII	ACGT	1 cut(s)	340
MaeIII	GTNAC	2 cut(s)	60, 718
MalI	GATC	3 cut(s)	88, 272, 744
MboI	GATC	3 cut(s)	86, 270, 742
MboII	GAAGA	2 cut(s)	229, 494
MflI	RGATCY	2 cut(s)	86, 742
MhlI	GDGCHC	3 cut(s)	194, 638, 777
MlsI	TGGCCA	1 cut(s)	117
MluCI	AATT	3 cut(s)	358, 381, 585
MluNI	TGGCCA	1 cut(s)	117
Mly113I	GGCGCC	1 cut(s)	421
MmeI	TCCRAC	1 cut(s)	723
MnlI	CCTC	4 cut(s)	709, 729, 787, 851
Mox20I	TGGCCA	1 cut(s)	117
Mph1103I	ATGCAT	1 cut(s)	489
MscI	TGGCCA	1 cut(s)	117
MseI	TTAA	1 cut(s)	588
MslI	CAYNNNNRTG	2 cut(s)	504, 797
Msp20I	TGGCCA	1 cut(s)	117
MspA1I	CMGCKG	1 cut(s)	610
MspI	CCGG	3 cut(s)	183, 418, 624
MspR9I	CCNGG	3 cut(s)	183, 184, 243
MvaI	CCWGG	1 cut(s)	243
MwoI	GCNNNNNNNGC	4 cut(s)	184, 484, 616, 781
NarI	GGCGCC	1 cut(s)	421
NciI	CCSGG	2 cut(s)	183, 184
NcoI	CCATGG	1 cut(s)	135
NdeII	GATC	3 cut(s)	86, 270, 742
NlaIII	CATG	8 cut(s)	35, 104, 139, 451, 491, 509, 514, 796
NlaIV	GGNNCC	2 cut(s)	422, 775
NmuCI	GTSAC	1 cut(s)	718
NsiI	ATGCAT	1 cut(s)	489
PaeR7I	CTCGAG	1 cut(s)	733
PasI	CCCWGGG	1 cut(s)	242
PfeI	GAWTC	5 cut(s)	107, 321, 411, 491, 757
PflMI	CCANNNNNTGG	2 cut(s)	334, 810
PkrI	GCNGC	6 cut(s)	351, 463, 609, 692, 820, 836
PluTI	GGCGCC	1 cut(s)	424
Psp124BI	GAGCTC	1 cut(s)	638
Psp6I	CCWGG	1 cut(s)	241
PspEI	GGTNACC	1 cut(s)	718
PspFI	CCCAGC	1 cut(s)	316
PspGI	CCWGG	1 cut(s)	241
PspN4I	GGNNCC	2 cut(s)	422, 775
PspOMI	GGGCCC	1 cut(s)	773
PspPI	GGNCC	3 cut(s)	377, 773, 774
PspXI	VCTCGAGB	1 cut(s)	733
PsuI	RGATCY	2 cut(s)	86, 742
PvuII	CAGCTG	1 cut(s)	610
RsaI	GTAC	2 cut(s)	76, 731
RsaNI	GTAC	2 cut(s)	75, 730
RseI	CAYNNNNRTG	2 cut(s)	504, 797
SacI	GAGCTC	1 cut(s)	638
SaqAI	TTAA	1 cut(s)	588
SatI	GCNGC	6 cut(s)	350, 462, 608, 691, 819, 835
Sau3AI	GATC	3 cut(s)	86, 270, 742
Sau96I	GGNCC	3 cut(s)	377, 773, 774
ScrFI	CCNGG	3 cut(s)	183, 184, 243
SduI	GDGCHC	3 cut(s)	194, 638, 777
SfcI	CTRYAG	1 cut(s)	366
SfoI	GGCGCC	1 cut(s)	422
Sfr274I	CTCGAG	1 cut(s)	733
SinI	GGWCC	1 cut(s)	377
SlaI	CTCGAG	1 cut(s)	733
SmaI	CCCGGG	1 cut(s)	184
SmiMI	CAYNNNNRTG	2 cut(s)	504, 797
SmlI	CTYRAG	1 cut(s)	733
SmoI	CTYRAG	1 cut(s)	733
Sse9I	AATT	3 cut(s)	358, 381, 585
SsiI	CCGC	1 cut(s)	187
SspDI	GGCGCC	1 cut(s)	420
SspMI	CTAG	2 cut(s)	465, 593
SstI	GAGCTC	1 cut(s)	638
StyD4I	CCNGG	3 cut(s)	181, 182, 241
StyI	CCWWGG	3 cut(s)	65, 135, 521
TaaI	ACNGT	2 cut(s)	16, 473
TaiI	ACGT	1 cut(s)	343
TaqI	TCGA	1 cut(s)	734
TasI	AATT	3 cut(s)	358, 381, 585
TatI	WGTACW	1 cut(s)	729
TfiI	GAWTC	5 cut(s)	107, 321, 411, 491, 757
Tru1I	TTAA	1 cut(s)	588
Tru9I	TTAA	1 cut(s)	588
TscAI	CASTG	5 cut(s)	63, 172, 199, 360, 828
TseFI	GTSAC	1 cut(s)	718
TseI	GCWGC	6 cut(s)	349, 461, 607, 690, 818, 834
Tsp45I	GTSAC	1 cut(s)	718
TspDTI	ATGAA	7 cut(s)	48, 89, 387, 494, 504, 597, 770
TspGWI	ACGGA	1 cut(s)	423
TspMI	CCCGGG	1 cut(s)	182
TspRI	CASTG	5 cut(s)	63, 172, 199, 360, 828
Van91I	CCANNNNNTGG	2 cut(s)	334, 810
VpaK11BI	GGWCC	1 cut(s)	377
XapI	RAATTY	1 cut(s)	358
XhoI	CTCGAG	1 cut(s)	733
XmaI	CCCGGG	1 cut(s)	182
XspI	CTAG	2 cut(s)	465, 593
Zsp2I	ATGCAT	1 cut(s)	489

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