Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001854

Physical Location & Seq

Genomic Coordinates Forward (+)

14428638 .. 14432448

Gene Structure 3811 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG167300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 480 bp

ATGGCTGAAGGTCCGGCGAGTCCAGGCGGCGGCGGGAGCCACGACAGCGGCGGCGAGCACAGTCCGCGGTCGAACGTTCGAGAACAGGATCGGTATCTTCCGATCGCGAATATTAGCAGGATCATGAAGAAGGCGCTTCCGGCGAACGGTAAGATCGCCAAGGATGCGAAGGAGACTGTGCAGGAATGCGTTTCCGAGTTCATCAGCTTCATCACCAGCGAGGCGAGTGATAAGTGCCAGAGGGAAAAGAGGAAGACGATTAATGGTGACGATTTGCTTTGGGCTATGGCGACTTTAGGGTTTGAAGACTACATCGATCCTCTCAAGGTTTACCTTGCAAAATACAGAGAGGTAATTCTAGTTCTATTTACTTATTTTTTCCATTTCCAGTTTGTATTTGATTGGTTGCTGAAAAATATTAATCTCTTTAATTTTGTATATGTATCTGTATATAAAACCAAATTGTCTATATCGAATTAG

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

159

Amino Acids

18.06

Weight (kDa)

7.74

Isoelectric Point (pI)

37.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	19 - 96	1.7e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	32 - 96	5.9e-28	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

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: 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)
AccII	CGCG	2 cut(s)	67, 107
AciI	CCGC	7 cut(s)	27, 30, 33, 48, 51, 65, 67
AclI	AACGTT	1 cut(s)	75
AclWI	GGATC	3 cut(s)	96, 128, 311
AcuI	CTGAAG	1 cut(s)	27
AfiI	CCNNNNNNNGG	2 cut(s)	29, 146
AgsI	TTSAA	1 cut(s)	305
AjnI	CCWGG	1 cut(s)	22
AluBI	AGCT	1 cut(s)	207
AluI	AGCT	1 cut(s)	207
Alw21I	GWGCWC	1 cut(s)	60
Alw26I	GTCTC	1 cut(s)	167
AlwI	GGATC	3 cut(s)	96, 128, 311
AseI	ATTAAT	2 cut(s)	261, 420
AspLEI	GCGC	1 cut(s)	136
AspS9I	GGNCC	1 cut(s)	11
AsuHPI	GGTGA	2 cut(s)	205, 278
AvaII	GGWCC	1 cut(s)	11
BbsI	GAAGAC	2 cut(s)	260, 312
Bbv12I	GWGCWC	1 cut(s)	60
BciT130I	CCWGG	1 cut(s)	24
BcoDI	GTCTC	1 cut(s)	167
BfaI	CTAG	1 cut(s)	359
BfoI	RGCGCY	1 cut(s)	137
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	1 cut(s)	11
BmgT120I	GGNCC	1 cut(s)	11
BmiI	GGNNCC	1 cut(s)	38
BmrFI	CCNGG	1 cut(s)	24
BmsI	GCATC	1 cut(s)	154
BpiI	GAAGAC	2 cut(s)	260, 312
BpuEI	CTTGAG	1 cut(s)	308
Bsa29I	ATCGAT	1 cut(s)	315
BsaBI	GATNNNNATC	1 cut(s)	93
BsaJI	CCNNGG	2 cut(s)	65, 159
Bsc4I	CCNNNNNNNGG	2 cut(s)	29, 146
Bse1I	ACTGG	1 cut(s)	388
Bse8I	GATNNNNATC	1 cut(s)	93
BseBI	CCWGG	1 cut(s)	24
BseCI	ATCGAT	1 cut(s)	315
BseDI	CCNNGG	2 cut(s)	65, 159
BseGI	GGATG	1 cut(s)	169
BseJI	GATNNNNATC	1 cut(s)	93
BseLI	CCNNNNNNNGG	2 cut(s)	29, 146
BseNI	ACTGG	1 cut(s)	388
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	1 cut(s)	60
BsiSI	CCGG	2 cut(s)	14, 140
BslI	CCNNNNNNNGG	2 cut(s)	29, 146
BsmAI	GTCTC	1 cut(s)	167
BsmI	GAATGC	1 cut(s)	191
Bsp1286I	GDGCHC	1 cut(s)	60
Bsp143I	GATC	5 cut(s)	88, 102, 120, 153, 316
Bsp68I	TCGCGA	1 cut(s)	107
BspACI	CCGC	7 cut(s)	27, 30, 33, 48, 51, 65, 67
BspDI	ATCGAT	1 cut(s)	315
BspFNI	CGCG	2 cut(s)	67, 107
BspHI	TCATGA	1 cut(s)	123
BspLI	GGNNCC	1 cut(s)	38
BspPI	GGATC	3 cut(s)	96, 128, 311
BsrI	ACTGG	1 cut(s)	388
BssECI	CCNNGG	2 cut(s)	65, 159
BssMI	GATC	5 cut(s)	88, 102, 120, 153, 316
BssT1I	CCWWGG	1 cut(s)	159
Bst2UI	CCWGG	1 cut(s)	24
Bst4CI	ACNGT	3 cut(s)	62, 149, 178
BstC8I	GCNNGC	1 cut(s)	56
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	5 cut(s)	91, 105, 123, 156, 319
BstMAI	GTCTC	1 cut(s)	167
BstMBI	GATC	5 cut(s)	88, 102, 120, 153, 316
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
BstUI	CGCG	2 cut(s)	67, 107
BstV2I	GAAGAC	2 cut(s)	260, 312
Bsu15I	ATCGAT	1 cut(s)	315
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	1 cut(s)	56
CciI	TCATGA	1 cut(s)	123
CfoI	GCGC	1 cut(s)	136
Cfr13I	GGNCC	1 cut(s)	11
Cfr42I	CCGCGG	1 cut(s)	68
ClaI	ATCGAT	1 cut(s)	315
CviAII	CATG	1 cut(s)	124
CviJI	RGCY	4 cut(s)	5, 39, 207, 284
CviKI_1	RGCY	4 cut(s)	5, 39, 207, 284
DpnI	GATC	5 cut(s)	90, 104, 122, 155, 318
DpnII	GATC	5 cut(s)	88, 102, 120, 153, 316
Eco130I	CCWWGG	1 cut(s)	159
Eco47I	GGWCC	1 cut(s)	11
Eco57I	CTGAAG	1 cut(s)	27
EcoRII	CCWGG	1 cut(s)	22
EcoT14I	CCWWGG	1 cut(s)	159
ErhI	CCWWGG	1 cut(s)	159
FaeI	CATG	1 cut(s)	127
FaiI	YATR	7 cut(s)	125, 287, 439, 441, 451, 453, 470
FatI	CATG	1 cut(s)	123
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)	359
GlaI	GCGC	1 cut(s)	135
GluI	GCNGC	4 cut(s)	28, 31, 49, 52
HaeII	RGCGCY	1 cut(s)	137
HapII	CCGG	2 cut(s)	14, 140
HhaI	GCGC	1 cut(s)	136
Hin1II	CATG	1 cut(s)	127
Hin6I	GCGC	1 cut(s)	134
HinP1I	GCGC	1 cut(s)	134
HinfI	GANTC	1 cut(s)	19
HpaII	CCGG	2 cut(s)	14, 140
HphI	GGTGA	2 cut(s)	205, 278
Hpy166II	GTNNAC	1 cut(s)	331
Hpy188I	TCNGA	2 cut(s)	102, 196
Hpy188III	TCNNGA	3 cut(s)	80, 106, 124
Hpy8I	GTNNAC	1 cut(s)	331
HpyAV	CCTTC	2 cut(s)	124, 163
HpyCH4III	ACNGT	3 cut(s)	62, 149, 178
HpyCH4IV	ACGT	1 cut(s)	75
HpyCH4V	TGCA	2 cut(s)	181, 338
HpyF10VI	GCNNNNNNNGC	5 cut(s)	36, 45, 64, 140, 164
HpySE526I	ACGT	1 cut(s)	75
Hsp92II	CATG	1 cut(s)	127
HspAI	GCGC	1 cut(s)	134
KspI	CCGCGG	1 cut(s)	68
Kzo9I	GATC	5 cut(s)	88, 102, 120, 153, 316
LmnI	GCTCC	1 cut(s)	36
LweI	GCATC	1 cut(s)	154
MaeI	CTAG	1 cut(s)	359
MaeII	ACGT	1 cut(s)	75
MaeIII	GTNAC	1 cut(s)	266
MalI	GATC	5 cut(s)	90, 104, 122, 155, 318
MboI	GATC	5 cut(s)	88, 102, 120, 153, 316
MboII	GAAGA	4 cut(s)	89, 139, 265, 317
MhlI	GDGCHC	1 cut(s)	60
MluCI	AATT	4 cut(s)	354, 430, 461, 475
MlyI	GAGTC	1 cut(s)	28
MnlI	CCTC	5 cut(s)	214, 234, 243, 330, 343
MseI	TTAA	3 cut(s)	261, 420, 429
MspA1I	CMGCKG	2 cut(s)	48, 67
MspI	CCGG	2 cut(s)	14, 140
MspR9I	CCNGG	1 cut(s)	24
Mva1269I	GAATGC	1 cut(s)	191
MvaI	CCWGG	1 cut(s)	24
MvnI	CGCG	2 cut(s)	67, 107
MwoI	GCNNNNNNNGC	5 cut(s)	36, 45, 64, 140, 164
NdeII	GATC	5 cut(s)	88, 102, 120, 153, 316
NlaIII	CATG	1 cut(s)	127
NlaIV	GGNNCC	1 cut(s)	38
NmuCI	GTSAC	1 cut(s)	266
NruI	TCGCGA	1 cut(s)	107
PagI	TCATGA	1 cut(s)	123
PctI	GAATGC	1 cut(s)	191
PkrI	GCNGC	4 cut(s)	29, 32, 50, 53
Ple19I	CGATCG	1 cut(s)	105
PleI	GAGTC	1 cut(s)	27
PpsI	GAGTC	1 cut(s)	27
PshBI	ATTAAT	2 cut(s)	261, 420
Psp1406I	AACGTT	1 cut(s)	75
Psp6I	CCWGG	1 cut(s)	22
PspGI	CCWGG	1 cut(s)	22
PspN4I	GGNNCC	1 cut(s)	38
PspPI	GGNCC	1 cut(s)	11
PsrI	GAACNNNNNNTAC	2 cut(s)	345, 377
PvuI	CGATCG	1 cut(s)	105
RruI	TCGCGA	1 cut(s)	107
SacII	CCGCGG	1 cut(s)	68
SaqAI	TTAA	3 cut(s)	261, 420, 429
SatI	GCNGC	4 cut(s)	28, 31, 49, 52
Sau3AI	GATC	5 cut(s)	88, 102, 120, 153, 316
Sau96I	GGNCC	1 cut(s)	11
SchI	GAGTC	1 cut(s)	28
ScrFI	CCNGG	1 cut(s)	24
SduI	GDGCHC	1 cut(s)	60
SetI	ASST	6 cut(s)	13, 78, 209, 330, 336, 354
SfaNI	GCATC	1 cut(s)	154
Sfr303I	CCGCGG	1 cut(s)	68
SgrBI	CCGCGG	1 cut(s)	68
SinI	GGWCC	1 cut(s)	11
SmlI	CTYRAG	1 cut(s)	323
SmoI	CTYRAG	1 cut(s)	323
Sse9I	AATT	4 cut(s)	354, 430, 461, 475
SsiI	CCGC	7 cut(s)	27, 30, 33, 48, 51, 65, 67
SspI	AATATT	2 cut(s)	112, 418
SspMI	CTAG	1 cut(s)	359
StyD4I	CCNGG	1 cut(s)	22
StyI	CCWWGG	1 cut(s)	159
TaaI	ACNGT	3 cut(s)	62, 149, 178
TaiI	ACGT	1 cut(s)	78
TaqI	TCGA	4 cut(s)	71, 79, 315, 473
TasI	AATT	4 cut(s)	354, 430, 461, 475
TauI	GCSGC	4 cut(s)	30, 33, 51, 54
Tru1I	TTAA	3 cut(s)	261, 420, 429
Tru9I	TTAA	3 cut(s)	261, 420, 429
TseFI	GTSAC	1 cut(s)	266
Tsp45I	GTSAC	1 cut(s)	266
TspDTI	ATGAA	3 cut(s)	140, 190, 199
VpaK11BI	GGWCC	1 cut(s)	11
VspI	ATTAAT	2 cut(s)	261, 420
XspI	CTAG	1 cut(s)	359

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