Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001387

Physical Location & Seq

Genomic Coordinates Forward (+)

29535770 .. 29536219

Gene Structure 450 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG291100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGAATGCTGATGAGGATGTAAGGATGATATCTGCTGAAGCTCCGGTCATATTTTCCAGGGCCTGTGAGATGTTTATTCTGGAGTTGACACTACGGTCTTGGGACCACACAGAGGAGAACAAAAGGAGAACATTGCAAAAGAATGACATTGCGGCAGCAATTACAAGGACTGATATATTTGACTTTCTAGTTGATATTGTCCCCAGAGAGGATTTGAAAGATGAGGTTCTTGCATCAATCCCAAGAGGTGGGAATGTTCCAGTTGTTGGTCCAGCTGATGGTCTTCCTTACTATTACATGCCTGCTCAACATCCACCACAGGTTGGTGCTCCCGGGATGATGGTGGGAAAGCCTGTGATGGATCAAAATATGTATGGCCAACCGACACATCCATACATGGCTCAGCCAGCTTGGCCTCAGCAACAACAGCCGCACAAAGATTCTGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007154 GO:0007165 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009739 GO:0009740 GO:0009755 GO:0009889 GO:0009987 GO:0010029 GO:0010033 GO:0010099 GO:0010468 GO:0010476 GO:0010556 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048580 GO:0048582 GO:0048583 GO:0048584 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071370 GO:0071396 GO:0071495 GO:0080090 GO:0097159 GO:0097305 GO:0097306 GO:0140110 GO:1900140 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:2000026 GO:2000030 GO:2000112 GO:2000306 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

149

Amino Acids

16.79

Weight (kDa)

4.89

Isoelectric Point (pI)

68.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFD_NFYB_HMF	PF00808	1 - 54	4.8e-10	Histone-like transcription factor (CBF/NF-Y) and archaeal histone
Histone	PF00125	4 - 54	2.3e-10	Core histone H2A/H2B/H3/H4 domain

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: OG0001387)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08970 AT1G08970 AT1G08970 AT1G08970 AT1G54830 AT1G54830 AT1G54830
fragaria_vesca	FvH4_4g14750 FvH4_6g05540 FvH4_6g05540
malus_domestica	MD04G1207500.v1.1 MD12G1221800.v1.1 MD13G1185200.v1.1 MD16G1185900.v1.1
prunus_persica	Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1
pyrus_communis	pycom04g18370 pycom12g20790 pycom13g15980 pycom16g15560
rosa_chinensis	RchiOBHm_Chr3g0454311 RchiOBHm_Chr4g0417851
rosa_laevigata	RLG00000007894 RLG00000025463
rosa_multiflora	Rmu_sc0001340.1_g000002 Rmu_sc0004911.1_g000014 Rmu_sc0005844.1_g000004 Rmu_sc0007543.1_g000006
rosa_roxburghii	Rroxscaffold_165G00437130 Rroxscaffold_5G00361270 Rroxscaffold_6G00425220
rosa_rugosa	Rorug02G0654100 Rorug04G0149700.1 Rorug04G0149800
rosa_samantha	Rh3AG058100 Rh3BG059800 Rh3CG059000 Rh3CG291100 Rh3DG060300 Rh4AG212100 Rh4BG218900 Rh4CG223100 Rh4DG209900
rosa_wichuraiana	Rw3G004450 Rw3G023190 Rw4G017990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	94
AccB7I	CCANNNNNTGG	4 cut(s)	248, 266, 278, 323
AciI	CCGC	2 cut(s)	152, 431
AclWI	GGATC	1 cut(s)	369
AcoI	YGGCCR	1 cut(s)	376
AcuI	CTGAAG	1 cut(s)	57
AfiI	CCNNNNNNNGG	6 cut(s)	112, 208, 248, 266, 278, 323
AgsI	TTSAA	1 cut(s)	217
AjnI	CCWGG	1 cut(s)	56
AluBI	AGCT	3 cut(s)	41, 275, 410
AluI	AGCT	3 cut(s)	41, 275, 410
Alw21I	GWGCWC	1 cut(s)	331
AlwI	GGATC	1 cut(s)	369
AlwNI	CAGNNNCTG	1 cut(s)	63
Ama87I	CYCGRG	1 cut(s)	332
AoxI	GGCC	3 cut(s)	60, 376, 413
ApeKI	GCWGC	1 cut(s)	155
AspS9I	GGNCC	3 cut(s)	60, 103, 269
AsuC2I	CCSGG	2 cut(s)	333, 334
AvaI	CYCGRG	1 cut(s)	332
AvaII	GGWCC	2 cut(s)	103, 269
BalI	TGGCCA	1 cut(s)	378
BbsI	GAAGAC	1 cut(s)	275
Bbv12I	GWGCWC	1 cut(s)	331
BbvCI	CCTCAGC	1 cut(s)	417
BbvI	GCAGC	1 cut(s)	167
BccI	CCATC	3 cut(s)	272, 334, 352
BciT130I	CCWGG	1 cut(s)	58
BcnI	CCSGG	2 cut(s)	333, 334
BfaI	CTAG	1 cut(s)	188
BglI	GCCNNNNNGGC	1 cut(s)	412
BisI	GCNGC	3 cut(s)	153, 156, 431
BlpI	GCTNAGC	1 cut(s)	402
BlsI	GCNGC	3 cut(s)	154, 157, 432
Bme1390I	CCNGG	3 cut(s)	58, 333, 334
Bme18I	GGWCC	2 cut(s)	103, 269
BmeT110I	CYCGRG	1 cut(s)	332
BmgT120I	GGNCC	3 cut(s)	60, 103, 269
BmiI	GGNNCC	1 cut(s)	104
BmrFI	CCNGG	3 cut(s)	58, 333, 334
BmsI	GCATC	1 cut(s)	242
BpiI	GAAGAC	1 cut(s)	275
BpmI	CTGGAG	1 cut(s)	101
Bpu10I	CCTNAGC	1 cut(s)	417
Bpu1102I	GCTNAGC	1 cut(s)	402
BpuMI	CCSGG	2 cut(s)	333, 334
BsaJI	CCNNGG	2 cut(s)	57, 332
BsaWI	WCCGGW	1 cut(s)	43
Bsc4I	CCNNNNNNNGG	6 cut(s)	112, 208, 248, 266, 278, 323
Bse1I	ACTGG	1 cut(s)	260
Bse3DI	GCAATG	2 cut(s)	131, 147
BseBI	CCWGG	1 cut(s)	58
BseDI	CCNNGG	2 cut(s)	57, 332
BseGI	GGATG	5 cut(s)	22, 30, 310, 342, 388
BseLI	CCNNNNNNNGG	6 cut(s)	112, 208, 248, 266, 278, 323
BseMI	GCAATG	2 cut(s)	131, 147
BseMII	CTCAG	3 cut(s)	416, 431, 435
BseNI	ACTGG	1 cut(s)	260
BseRI	GAGGAG	1 cut(s)	128
BseXI	GCAGC	1 cut(s)	167
BshFI	GGCC	3 cut(s)	62, 378, 415
BsiHKAI	GWGCWC	1 cut(s)	331
BsiHKCI	CYCGRG	1 cut(s)	332
BsiSI	CCGG	2 cut(s)	44, 333
BslFI	GGGAC	2 cut(s)	116, 185
BslI	CCNNNNNNNGG	6 cut(s)	112, 208, 248, 266, 278, 323
BsmFI	GGGAC	2 cut(s)	116, 185
BsmI	GAATGC	1 cut(s)	10
BsnI	GGCC	3 cut(s)	62, 378, 415
BsoBI	CYCGRG	1 cut(s)	332
Bsp1286I	GDGCHC	1 cut(s)	331
Bsp143I	GATC	1 cut(s)	361
Bsp1720I	GCTNAGC	1 cut(s)	402
BspACI	CCGC	2 cut(s)	152, 431
BspANI	GGCC	3 cut(s)	62, 378, 415
BspCNI	CTCAG	3 cut(s)	415, 430, 436
BspLI	GGNNCC	1 cut(s)	104
BspPI	GGATC	1 cut(s)	369
BsrDI	GCAATG	2 cut(s)	131, 147
BsrI	ACTGG	1 cut(s)	260
BssECI	CCNNGG	2 cut(s)	57, 332
BssMI	GATC	1 cut(s)	361
Bst2UI	CCWGG	1 cut(s)	58
Bst4CI	ACNGT	1 cut(s)	96
BstC8I	GCNNGC	2 cut(s)	303, 408
BstDEI	CTNAG	3 cut(s)	402, 417, 444
BstF5I	GGATG	5 cut(s)	22, 30, 310, 342, 388
BstKTI	GATC	1 cut(s)	364
BstMBI	GATC	1 cut(s)	361
BstMWI	GCNNNNNNNGC	3 cut(s)	407, 412, 427
BstNI	CCWGG	1 cut(s)	58
BstNSI	RCATGY	1 cut(s)	301
BstSCI	CCNGG	3 cut(s)	56, 331, 332
BstV1I	GCAGC	1 cut(s)	167
BstV2I	GAAGAC	1 cut(s)	275
BsuRI	GGCC	3 cut(s)	62, 378, 415
BtsCI	GGATG	5 cut(s)	22, 30, 310, 342, 388
Cac8I	GCNNGC	2 cut(s)	303, 408
CaiI	CAGNNNCTG	1 cut(s)	63
Cfr13I	GGNCC	3 cut(s)	60, 103, 269
Cfr9I	CCCGGG	1 cut(s)	332
CviAII	CATG	2 cut(s)	298, 397
DdeI	CTNAG	3 cut(s)	402, 417, 444
DpnI	GATC	1 cut(s)	363
DpnII	GATC	1 cut(s)	361
DrdI	GACNNNNNNGTC	1 cut(s)	94
DseDI	GACNNNNNNGTC	1 cut(s)	94
EaeI	YGGCCR	1 cut(s)	376
Eco32I	GATATC	1 cut(s)	30
Eco47I	GGWCC	2 cut(s)	103, 269
Eco57I	CTGAAG	1 cut(s)	57
Eco88I	CYCGRG	1 cut(s)	332
EcoO109I	RGGNCCY	1 cut(s)	60
EcoRII	CCWGG	1 cut(s)	56
EcoRV	GATATC	1 cut(s)	30
FaeI	CATG	2 cut(s)	301, 400
FaiI	YATR	7 cut(s)	50, 176, 299, 371, 375, 394, 398
FaqI	GGGAC	2 cut(s)	116, 185
FatI	CATG	2 cut(s)	297, 396
Fnu4HI	GCNGC	3 cut(s)	153, 156, 431
FokI	GGATG	5 cut(s)	29, 37, 297, 349, 375
Fsp4HI	GCNGC	3 cut(s)	153, 156, 431
FspBI	CTAG	1 cut(s)	188
GluI	GCNGC	3 cut(s)	153, 156, 431
GsuI	CTGGAG	1 cut(s)	101
HaeIII	GGCC	3 cut(s)	62, 378, 415
HapII	CCGG	2 cut(s)	44, 333
Hin1II	CATG	2 cut(s)	301, 400
HincII	GTYRAC	1 cut(s)	87
HindII	GTYRAC	1 cut(s)	87
HinfI	GANTC	1 cut(s)	440
HpaII	CCGG	2 cut(s)	44, 333
Hpy166II	GTNNAC	1 cut(s)	87
Hpy188I	TCNGA	1 cut(s)	445
Hpy188III	TCNNGA	1 cut(s)	80
Hpy8I	GTNNAC	1 cut(s)	87
HpyCH4III	ACNGT	1 cut(s)	96
HpyCH4V	TGCA	2 cut(s)	136, 233
HpyF10VI	GCNNNNNNNGC	3 cut(s)	407, 412, 427
HpyF3I	CTNAG	3 cut(s)	402, 417, 444
Hsp92II	CATG	2 cut(s)	301, 400
Kzo9I	GATC	1 cut(s)	361
LmnI	GCTCC	2 cut(s)	46, 334
Lsp1109I	GCAGC	1 cut(s)	167
LweI	GCATC	1 cut(s)	242
MaeI	CTAG	1 cut(s)	188
MalI	GATC	1 cut(s)	363
MboI	GATC	1 cut(s)	361
MboII	GAAGA	1 cut(s)	275
MhlI	GDGCHC	1 cut(s)	331
MlsI	TGGCCA	1 cut(s)	378
MluCI	AATT	1 cut(s)	159
MluNI	TGGCCA	1 cut(s)	378
MnlI	CCTC	6 cut(s)	7, 106, 202, 217, 239, 426
Mox20I	TGGCCA	1 cut(s)	378
MscI	TGGCCA	1 cut(s)	378
Msp20I	TGGCCA	1 cut(s)	378
MspA1I	CMGCKG	1 cut(s)	275
MspI	CCGG	2 cut(s)	44, 333
MspR9I	CCNGG	3 cut(s)	58, 333, 334
Mva1269I	GAATGC	1 cut(s)	10
MvaI	CCWGG	1 cut(s)	58
MwoI	GCNNNNNNNGC	3 cut(s)	407, 412, 427
NciI	CCSGG	2 cut(s)	333, 334
NdeII	GATC	1 cut(s)	361
NlaIII	CATG	2 cut(s)	301, 400
NlaIV	GGNNCC	1 cut(s)	104
NspI	RCATGY	1 cut(s)	301
PctI	GAATGC	1 cut(s)	10
PfeI	GAWTC	1 cut(s)	440
PflMI	CCANNNNNTGG	4 cut(s)	248, 266, 278, 323
PkrI	GCNGC	3 cut(s)	154, 157, 432
Psp6I	CCWGG	1 cut(s)	56
PspGI	CCWGG	1 cut(s)	56
PspN4I	GGNNCC	1 cut(s)	104
PspPI	GGNCC	3 cut(s)	60, 103, 269
PstNI	CAGNNNCTG	1 cut(s)	63
PvuII	CAGCTG	1 cut(s)	275
SatI	GCNGC	3 cut(s)	153, 156, 431
Sau3AI	GATC	1 cut(s)	361
Sau96I	GGNCC	3 cut(s)	60, 103, 269
ScrFI	CCNGG	3 cut(s)	58, 333, 334
SduI	GDGCHC	1 cut(s)	331
SetI	ASST	6 cut(s)	43, 228, 250, 277, 324, 412
SfaNI	GCATC	1 cut(s)	242
SinI	GGWCC	2 cut(s)	103, 269
SmaI	CCCGGG	1 cut(s)	334
Sse9I	AATT	1 cut(s)	159
SsiI	CCGC	2 cut(s)	152, 431
SspMI	CTAG	1 cut(s)	188
StyD4I	CCNGG	3 cut(s)	56, 331, 332
TaaI	ACNGT	1 cut(s)	96
TasI	AATT	1 cut(s)	159
TauI	GCSGC	2 cut(s)	155, 433
TfiI	GAWTC	1 cut(s)	440
TseI	GCWGC	1 cut(s)	155
TspDTI	ATGAA	1 cut(s)	17
TspMI	CCCGGG	1 cut(s)	332
Van91I	CCANNNNNTGG	4 cut(s)	248, 266, 278, 323
VpaK11BI	GGWCC	2 cut(s)	103, 269
XceI	RCATGY	1 cut(s)	301
XmaI	CCCGGG	1 cut(s)	332
XspI	CTAG	1 cut(s)	188

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