Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001854

Physical Location & Seq

Genomic Coordinates Forward (+)

14476426 .. 14479697

Gene Structure 3272 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG166200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 672 bp

ATGGCGGAAGGTCCGGCGAGTCCTGGCGGCGGCGGGAGCCACGACAGCGGCGGCGAGCACAGTCCGCGGTCGAACGTTCGAGAACAGGATCGGTATCTTCCGATCGCGAATATTAGCAGGATCATGAAGAAGGCGCTTCCGGCGAACGGTAAGATCGCCAAGGATGCGAAGGAGACTGTGCAGGAATGCGTTTCCGAGTTCATCAGCTTCATCACCAGCGAGGCGAGTGATAAGTGCCAGAGGGAAAAGAGGAAGACGATTAATGGTGACGATTTGCTTTGGGCTATGGCGACTTTAGGGTTTGAAGACTACATCGATCCTCTCAAGGTTTACCTTGCAAAATACAGAGAGGGTGATACCAAGGGTTCAGGCAAGGGTGGAGAGTCATCTTCTAAGAAAGAAGTTCAGCCAAGCTCAATTGCTCAGATTTCTCATCAAGGTTCTTTCTCTCAAGGAGCTAGTTACTCAAATTCTCAAACAGTTTTCATGCAAAATGAATGCCTATTGCCGGCTTTCGACAGCTTCCCAAGATTCCCATTGCTTGGACCACCTGAGAATCCTGTAGATCTTGGTGCACCGCTGGGAGCCGGATACCAGAGAACTCAGAATTGGGATCCGGTAGCTGGTAGCCGGTCAAACACGCTTTCACCTTTACTTCCGGCTGGAATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006082 GO:0006355 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016143 GO:0019219 GO:0019222 GO:0019748 GO:0019757 GO:0019760 GO:0031323 GO:0031326 GO:0043436 GO:0043565 GO:0044237 GO:0044281 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0097159 GO:0140110 GO:1901135 GO:1901363 GO:1901564 GO:1901657 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 ko05166 map04612 map05152 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

223

Amino Acids

23.94

Weight (kDa)

5.96

Isoelectric Point (pI)

47.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	19 - 96	3.6e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	32 - 96	1.2e-27	Histone-like transcription factor (CBF/NF-Y) and archaeal histone

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

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Orthologous Genes (Group: OG0001854)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37060 AT2G37060 AT2G37060 AT3G53340 AT3G53340 AT3G53340 AT3G53340 AT3G53340
fragaria_vesca	FvH4_6g15260 FvH4_6g15260 FvH4_6g15260 FvH4_6g15260 FvH4_6g15260
malus_domestica	MD04G1104700.v1.1 MD12G1124800.v1.1
prunus_persica	Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1 Prupe.6G241800_v2.0.a1
pyrus_communis	pycom04g09970 pycom12g12320
rosa_chinensis	RchiOBHm_Chr2g0145071 RchiOBHm_Chr3g0468661 RchiOBHm_Chr5g0066261
rosa_laevigata	RLG00000024032 RLG00000024417
rosa_multiflora	Rmu_co8446349.1_g000001 Rmu_sc0009516.1_g000001 Rmu_sc0011538.1_g000009
rosa_roxburghii	Rroxscaffold_1G00010930 Rroxscaffold_6G00412670
rosa_rugosa	Rorug03G0096100 Rorug03G0096200 Rorug03G0096200 Rorug03G0096200
rosa_samantha	Rh1AG429500 Rh1BG152900 Rh2AG054200 Rh2DG539500 Rh3AG144900 Rh3BG167300 Rh3BG326700 Rh3DG166200
rosa_wichuraiana	Rw3G013660 Rw6G026160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	542
AccII	CGCG	2 cut(s)	67, 107
AciI	CCGC	9 cut(s)	5, 27, 30, 33, 48, 51, 65, 67, 578
AclI	AACGTT	1 cut(s)	75
AclWI	GGATC	5 cut(s)	96, 128, 311, 608, 621
AcsI	RAATTY	2 cut(s)	469, 666
AfiI	CCNNNNNNNGG	5 cut(s)	29, 146, 508, 542, 623
AgsI	TTSAA	1 cut(s)	305
AjnI	CCWGG	1 cut(s)	22
AjuI	GAANNNNNNNTTGG	2 cut(s)	592, 624
AluBI	AGCT	5 cut(s)	207, 414, 458, 522, 623
AluI	AGCT	5 cut(s)	207, 414, 458, 522, 623
Alw21I	GWGCWC	2 cut(s)	60, 577
Alw26I	GTCTC	1 cut(s)	167
Alw44I	GTGCAC	1 cut(s)	573
AlwI	GGATC	5 cut(s)	96, 128, 311, 608, 621
ApaLI	GTGCAC	1 cut(s)	573
ApoI	RAATTY	2 cut(s)	469, 666
AseI	ATTAAT	1 cut(s)	261
AspLEI	GCGC	1 cut(s)	136
AspS9I	GGNCC	2 cut(s)	11, 545
AsuHPI	GGTGA	4 cut(s)	205, 278, 365, 639
AvaII	GGWCC	2 cut(s)	11, 545
BaeGI	GKGCMC	1 cut(s)	577
BamHI	GGATCC	1 cut(s)	613
BbsI	GAAGAC	2 cut(s)	260, 312
Bbv12I	GWGCWC	2 cut(s)	60, 577
BciT130I	CCWGG	1 cut(s)	24
BciVI	GTATCC	1 cut(s)	584
BcoDI	GTCTC	1 cut(s)	167
BfaI	CTAG	1 cut(s)	459
BfmI	CTRYAG	1 cut(s)	561
BfoI	RGCGCY	1 cut(s)	137
BfuI	GTATCC	1 cut(s)	584
BglII	AGATCT	1 cut(s)	565
BisI	GCNGC	4 cut(s)	28, 31, 49, 52
BlsI	GCNGC	4 cut(s)	29, 32, 50, 53
Bme1390I	CCNGG	1 cut(s)	24
Bme18I	GGWCC	2 cut(s)	11, 545
BmgT120I	GGNCC	2 cut(s)	11, 545
BmiI	GGNNCC	3 cut(s)	38, 586, 615
BmrFI	CCNGG	1 cut(s)	24
BmsI	GCATC	1 cut(s)	154
BpiI	GAAGAC	2 cut(s)	260, 312
BpuEI	CTTGAG	2 cut(s)	308, 435
Bsa29I	ATCGAT	1 cut(s)	315
BsaBI	GATNNNNATC	1 cut(s)	93
BsaJI	CCNNGG	3 cut(s)	65, 159, 360
BsaWI	WCCGGW	1 cut(s)	616
Bsc4I	CCNNNNNNNGG	5 cut(s)	29, 146, 508, 542, 623
Bse118I	RCCGGY	2 cut(s)	508, 630
Bse3DI	GCAATG	1 cut(s)	536
Bse8I	GATNNNNATC	1 cut(s)	93
BseBI	CCWGG	1 cut(s)	24
BseCI	ATCGAT	1 cut(s)	315
BseDI	CCNNGG	3 cut(s)	65, 159, 360
BseGI	GGATG	1 cut(s)	169
BseJI	GATNNNNATC	1 cut(s)	93
BseLI	CCNNNNNNNGG	5 cut(s)	29, 146, 508, 542, 623
BseMI	GCAATG	1 cut(s)	536
BseMII	CTCAG	3 cut(s)	437, 543, 617
BseSI	GKGCMC	1 cut(s)	577
BseYI	CCCAGC	1 cut(s)	580
BsgI	GTGCAG	1 cut(s)	200
Bsh1236I	CGCG	2 cut(s)	67, 107
Bsh1285I	CGRYCG	2 cut(s)	71, 105
BshVI	ATCGAT	1 cut(s)	315
BsiEI	CGRYCG	2 cut(s)	71, 105
BsiHKAI	GWGCWC	2 cut(s)	60, 577
BsiSI	CCGG	7 cut(s)	14, 140, 509, 588, 617, 631, 659
BslI	CCNNNNNNNGG	5 cut(s)	29, 146, 508, 542, 623
BsmAI	GTCTC	1 cut(s)	167
BsmI	GAATGC	2 cut(s)	191, 503
Bsp1286I	GDGCHC	2 cut(s)	60, 577
Bsp143I	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
Bsp68I	TCGCGA	1 cut(s)	107
BspACI	CCGC	9 cut(s)	5, 27, 30, 33, 48, 51, 65, 67, 578
BspCNI	CTCAG	3 cut(s)	436, 544, 616
BspDI	ATCGAT	1 cut(s)	315
BspFNI	CGCG	2 cut(s)	67, 107
BspHI	TCATGA	1 cut(s)	123
BspLI	GGNNCC	3 cut(s)	38, 586, 615
BspPI	GGATC	5 cut(s)	96, 128, 311, 608, 621
BsrDI	GCAATG	1 cut(s)	536
BsrFI	RCCGGY	2 cut(s)	508, 630
BssAI	RCCGGY	2 cut(s)	508, 630
BssECI	CCNNGG	3 cut(s)	65, 159, 360
BssMI	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
BssT1I	CCWWGG	2 cut(s)	159, 360
Bst2UI	CCWGG	1 cut(s)	24
Bst4CI	ACNGT	4 cut(s)	62, 149, 178, 481
BstC8I	GCNNGC	2 cut(s)	56, 510
BstDEI	CTNAG	4 cut(s)	393, 423, 552, 603
BstDSI	CCRYGG	1 cut(s)	65
BstF5I	GGATG	1 cut(s)	169
BstFNI	CGCG	2 cut(s)	67, 107
BstH2I	RGCGCY	1 cut(s)	137
BstHHI	GCGC	1 cut(s)	136
BstKTI	GATC	7 cut(s)	91, 105, 123, 156, 319, 568, 616
BstMAI	GTCTC	1 cut(s)	167
BstMBI	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
BstMCI	CGRYCG	2 cut(s)	71, 105
BstMWI	GCNNNNNNNGC	5 cut(s)	36, 45, 64, 140, 164
BstNI	CCWGG	1 cut(s)	24
BstSCI	CCNGG	1 cut(s)	22
BstSFI	CTRYAG	1 cut(s)	561
BstSLI	GKGCMC	1 cut(s)	577
BstUI	CGCG	2 cut(s)	67, 107
BstV2I	GAAGAC	2 cut(s)	260, 312
BstX2I	RGATCY	2 cut(s)	565, 613
BstYI	RGATCY	2 cut(s)	565, 613
Bsu15I	ATCGAT	1 cut(s)	315
BsuI	GTATCC	1 cut(s)	584
BsuTUI	ATCGAT	1 cut(s)	315
BtgI	CCRYGG	1 cut(s)	65
BtsCI	GGATG	1 cut(s)	169
BtuMI	TCGCGA	1 cut(s)	107
Cac8I	GCNNGC	2 cut(s)	56, 510
CciI	TCATGA	1 cut(s)	123
CfoI	GCGC	1 cut(s)	136
Cfr10I	RCCGGY	2 cut(s)	508, 630
Cfr13I	GGNCC	2 cut(s)	11, 545
Cfr42I	CCGCGG	1 cut(s)	68
ClaI	ATCGAT	1 cut(s)	315
CviAII	CATG	2 cut(s)	124, 487
DdeI	CTNAG	4 cut(s)	393, 423, 552, 603
DpnI	GATC	7 cut(s)	90, 104, 122, 155, 318, 567, 615
DpnII	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
EciI	GGCGGA	1 cut(s)	20
Eco130I	CCWWGG	2 cut(s)	159, 360
Eco47I	GGWCC	2 cut(s)	11, 545
EcoRII	CCWGG	1 cut(s)	22
EcoT14I	CCWWGG	2 cut(s)	159, 360
ErhI	CCWWGG	2 cut(s)	159, 360
FaeI	CATG	2 cut(s)	127, 490
FaiI	YATR	3 cut(s)	125, 287, 488
FatI	CATG	2 cut(s)	123, 486
FauI	CCCGC	1 cut(s)	26
Fnu4HI	GCNGC	4 cut(s)	28, 31, 49, 52
FokI	GGATG	1 cut(s)	176
Fsp4HI	GCNGC	4 cut(s)	28, 31, 49, 52
FspBI	CTAG	1 cut(s)	459
GlaI	GCGC	1 cut(s)	135
GluI	GCNGC	4 cut(s)	28, 31, 49, 52
GsaI	CCCAGC	1 cut(s)	584
HaeII	RGCGCY	1 cut(s)	137
HapII	CCGG	7 cut(s)	14, 140, 509, 588, 617, 631, 659
HhaI	GCGC	1 cut(s)	136
Hin1II	CATG	2 cut(s)	127, 490
Hin6I	GCGC	1 cut(s)	134
HinP1I	GCGC	1 cut(s)	134
HinfI	GANTC	4 cut(s)	19, 383, 531, 556
HpaII	CCGG	7 cut(s)	14, 140, 509, 588, 617, 631, 659
HphI	GGTGA	4 cut(s)	205, 278, 365, 639
Hpy166II	GTNNAC	2 cut(s)	331, 575
Hpy188I	TCNGA	4 cut(s)	102, 196, 426, 606
Hpy188III	TCNNGA	3 cut(s)	80, 106, 124
Hpy8I	GTNNAC	2 cut(s)	331, 575
HpyAV	CCTTC	2 cut(s)	124, 163
HpyCH4III	ACNGT	4 cut(s)	62, 149, 178, 481
HpyCH4IV	ACGT	1 cut(s)	75
HpyCH4V	TGCA	4 cut(s)	181, 338, 490, 575
HpyF10VI	GCNNNNNNNGC	5 cut(s)	36, 45, 64, 140, 164
HpyF3I	CTNAG	4 cut(s)	393, 423, 552, 603
HpySE526I	ACGT	1 cut(s)	75
Hsp92II	CATG	2 cut(s)	127, 490
HspAI	GCGC	1 cut(s)	134
KroI	GCCGGC	1 cut(s)	508
KroNI	GCCGGC	1 cut(s)	510
KspI	CCGCGG	1 cut(s)	68
Kzo9I	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
LmnI	GCTCC	3 cut(s)	36, 455, 584
LweI	GCATC	1 cut(s)	154
MaeI	CTAG	1 cut(s)	459
MaeII	ACGT	1 cut(s)	75
MaeIII	GTNAC	2 cut(s)	266, 461
MalI	GATC	7 cut(s)	90, 104, 122, 155, 318, 567, 615
MboI	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
MboII	GAAGA	5 cut(s)	89, 139, 265, 317, 381
MfeI	CAATTG	1 cut(s)	417
MflI	RGATCY	2 cut(s)	565, 613
MhlI	GDGCHC	2 cut(s)	60, 577
MluCI	AATT	4 cut(s)	417, 469, 607, 666
MlyI	GAGTC	2 cut(s)	28, 392
MnlI	CCTC	5 cut(s)	214, 234, 243, 330, 343
MroNI	GCCGGC	1 cut(s)	508
MseI	TTAA	1 cut(s)	261
MspA1I	CMGCKG	3 cut(s)	48, 67, 580
MspI	CCGG	7 cut(s)	14, 140, 509, 588, 617, 631, 659
MspR9I	CCNGG	1 cut(s)	24
MunI	CAATTG	1 cut(s)	417
Mva1269I	GAATGC	2 cut(s)	191, 503
MvaI	CCWGG	1 cut(s)	24
MvnI	CGCG	2 cut(s)	67, 107
MwoI	GCNNNNNNNGC	5 cut(s)	36, 45, 64, 140, 164
NaeI	GCCGGC	1 cut(s)	510
NdeII	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
NgoMIV	GCCGGC	1 cut(s)	508
NlaIII	CATG	2 cut(s)	127, 490
NlaIV	GGNNCC	3 cut(s)	38, 586, 615
NmuCI	GTSAC	1 cut(s)	266
NruI	TCGCGA	1 cut(s)	107
PagI	TCATGA	1 cut(s)	123
PctI	GAATGC	2 cut(s)	191, 503
PdiI	GCCGGC	1 cut(s)	510
PfeI	GAWTC	2 cut(s)	531, 556
PflMI	CCANNNNNTGG	1 cut(s)	542
PkrI	GCNGC	4 cut(s)	29, 32, 50, 53
Ple19I	CGATCG	1 cut(s)	105
PleI	GAGTC	2 cut(s)	27, 391
PpsI	GAGTC	2 cut(s)	27, 391
PshBI	ATTAAT	1 cut(s)	261
Psp1406I	AACGTT	1 cut(s)	75
Psp6I	CCWGG	1 cut(s)	22
PspFI	CCCAGC	1 cut(s)	580
PspGI	CCWGG	1 cut(s)	22
PspN4I	GGNNCC	3 cut(s)	38, 586, 615
PspPI	GGNCC	2 cut(s)	11, 545
PsuI	RGATCY	2 cut(s)	565, 613
PvuI	CGATCG	1 cut(s)	105
RruI	TCGCGA	1 cut(s)	107
SacII	CCGCGG	1 cut(s)	68
SaqAI	TTAA	1 cut(s)	261
SatI	GCNGC	4 cut(s)	28, 31, 49, 52
Sau3AI	GATC	7 cut(s)	88, 102, 120, 153, 316, 565, 613
Sau96I	GGNCC	2 cut(s)	11, 545
SchI	GAGTC	2 cut(s)	28, 392
ScrFI	CCNGG	1 cut(s)	24
SduI	GDGCHC	2 cut(s)	60, 577
SfaNI	GCATC	1 cut(s)	154
SfcI	CTRYAG	1 cut(s)	561
Sfr303I	CCGCGG	1 cut(s)	68
SgrBI	CCGCGG	1 cut(s)	68
SinI	GGWCC	2 cut(s)	11, 545
SmlI	CTYRAG	2 cut(s)	323, 450
SmoI	CTYRAG	2 cut(s)	323, 450
Sse9I	AATT	4 cut(s)	417, 469, 607, 666
SsiI	CCGC	9 cut(s)	5, 27, 30, 33, 48, 51, 65, 67, 578
SspI	AATATT	1 cut(s)	112
SspMI	CTAG	1 cut(s)	459
StyD4I	CCNGG	1 cut(s)	22
StyI	CCWWGG	2 cut(s)	159, 360
TaaI	ACNGT	4 cut(s)	62, 149, 178, 481
TaiI	ACGT	1 cut(s)	78
TaqI	TCGA	4 cut(s)	71, 79, 315, 516
TasI	AATT	4 cut(s)	417, 469, 607, 666
TauI	GCSGC	4 cut(s)	30, 33, 51, 54
TfiI	GAWTC	2 cut(s)	531, 556
Tru1I	TTAA	1 cut(s)	261
Tru9I	TTAA	1 cut(s)	261
TseFI	GTSAC	1 cut(s)	266
Tsp45I	GTSAC	1 cut(s)	266
TspDTI	ATGAA	5 cut(s)	140, 190, 199, 475, 510
Van91I	CCANNNNNTGG	1 cut(s)	542
VneI	GTGCAC	1 cut(s)	573
VpaK11BI	GGWCC	2 cut(s)	11, 545
VspI	ATTAAT	1 cut(s)	261
XapI	RAATTY	2 cut(s)	469, 666
XspI	CTAG	1 cut(s)	459

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