Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0009448

Physical Location & Seq

Genomic Coordinates Forward (+)

42159971 .. 42161145

Gene Structure 1175 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG300600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 462 bp

ATGGAAACGGCGGAGCTGCCCAAGACTATCGTGCGCCGTGTGGTGAAGGATAAGCTTTCCGAGTGCTCCAAAGGCGACGGCGACCTGAACGTCCACAAAGAAGCCCTCACCGCCTTCTCCGAGAGCGCCCGCATCTTCATCCACTACCTCTCCGCCACAGCCAACGACATCTGCAAGGGATCGAAGAGGCAGACGATCAACGGCGACGATGTTTTGAAGGCGTTGGAGGACATCGAGTTTCCCGAGTTCGTCGAGCCTCTGAAGGCCTCTCTTGAAGGGCTGAGGGAGAAGAATGCTGGGAAGAAGGCAGGAACATCAAAGGCAAAGGAGGCGAAAACAAAGGAAGTGAAAAAGAAGAGGAAATTGGAAGAGCCGCCGCCCAAGGAAGAGGAAGAAGAAGAGGAAGAAAACCAAGATGAGGATGGGGGCGACGGCGCTAGCGAAAGCTCGAGCAAAGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0008622 GO:0031974 GO:0031981 GO:0032991 GO:0042575 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0061695 GO:0070013 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

153

Amino Acids

16.92

Weight (kDa)

5.07

Isoelectric Point (pI)

62.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFD_NFYB_HMF	PF00808	4 - 75	1.1e-09	Histone-like transcription factor (CBF/NF-Y) and archaeal histone
Histone	PF00125	4 - 75	9.8e-07	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: OG0009448)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G27470
fragaria_vesca	FvH4_3g24950 FvH4_3g24950
malus_domestica	MD11G1164600.v1.1
prunus_persica	Prupe.6G130500_v2.0.a1
pyrus_communis	pycom11g13690
rosa_chinensis	RchiOBHm_Chr5g0044741
rosa_laevigata	RLG00000009305 RLG00000019693 RLG00000023195 RLG00000034295
rosa_multiflora	Rmu_sc0000228.1_g000014 Rmu_sc0002642.1_g000002
rosa_roxburghii	Rroxscaffold_1G00036290
rosa_rugosa	Rorug05G0217200
rosa_samantha	Rh2CG347200 Rh5AG300600 Rh5BG307300 Rh5CG334400 Rh5DG317400
rosa_wichuraiana	Rw5G027810 Rw5G027850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	89
AciI	CCGC	6 cut(s)	11, 111, 130, 153, 374, 377
AclWI	GGATC	1 cut(s)	187
AcuI	CTGAAG	1 cut(s)	281
AfiI	CCNNNNNNNGG	1 cut(s)	418
AgsI	TTSAA	2 cut(s)	217, 275
AjuI	GAANNNNNNNTTGG	2 cut(s)	347, 379
AluBI	AGCT	3 cut(s)	16, 55, 447
AluI	AGCT	3 cut(s)	16, 55, 447
Alw21I	GWGCWC	1 cut(s)	68
AlwI	GGATC	1 cut(s)	187
Ama87I	CYCGRG	2 cut(s)	242, 448
AoxI	GGCC	1 cut(s)	264
ApeKI	GCWGC	1 cut(s)	16
AspLEI	GCGC	3 cut(s)	36, 128, 437
AsuHPI	GGTGA	2 cut(s)	55, 100
AsuNHI	GCTAGC	1 cut(s)	437
AvaI	CYCGRG	2 cut(s)	242, 448
Bbv12I	GWGCWC	1 cut(s)	68
BbvCI	CCTCAGC	1 cut(s)	281
BbvI	GCAGC	1 cut(s)	3
BccI	CCATC	1 cut(s)	416
BceAI	ACGGC	5 cut(s)	21, 24, 94, 217, 448
BfaI	CTAG	1 cut(s)	438
BfoI	RGCGCY	2 cut(s)	129, 438
BisI	GCNGC	3 cut(s)	17, 374, 377
BlsI	GCNGC	3 cut(s)	18, 375, 378
BmeT110I	CYCGRG	2 cut(s)	242, 448
BmsI	GCATC	1 cut(s)	141
BmtI	GCTAGC	1 cut(s)	441
Bpu10I	CCTNAGC	1 cut(s)	281
BsaJI	CCNNGG	1 cut(s)	381
BsaXI	ACNNNNNCTCC	2 cut(s)	134, 164
Bsc4I	CCNNNNNNNGG	1 cut(s)	418
BseDI	CCNNGG	1 cut(s)	381
BseGI	GGATG	2 cut(s)	138, 427
BseLI	CCNNNNNNNGG	1 cut(s)	418
BseMII	CTCAG	1 cut(s)	272
BseXI	GCAGC	1 cut(s)	3
BseYI	CCCAGC	1 cut(s)	296
BshFI	GGCC	1 cut(s)	266
BsiHKAI	GWGCWC	1 cut(s)	68
BsiHKCI	CYCGRG	2 cut(s)	242, 448
BslI	CCNNNNNNNGG	1 cut(s)	418
BsmI	GAATGC	1 cut(s)	298
BsnI	GGCC	1 cut(s)	266
BsoBI	CYCGRG	2 cut(s)	242, 448
Bsp1286I	GDGCHC	1 cut(s)	68
Bsp143I	GATC	2 cut(s)	179, 195
BspACI	CCGC	6 cut(s)	11, 111, 130, 153, 374, 377
BspANI	GGCC	1 cut(s)	266
BspCNI	CTCAG	1 cut(s)	273
BspOI	GCTAGC	1 cut(s)	441
BspPI	GGATC	1 cut(s)	187
BspQI	GCTCTTC	1 cut(s)	363
BssECI	CCNNGG	1 cut(s)	381
BssMI	GATC	2 cut(s)	179, 195
BssT1I	CCWWGG	1 cut(s)	381
Bst6I	CTCTTC	5 cut(s)	179, 350, 363, 381, 393
BstC8I	GCNNGC	2 cut(s)	130, 439
BstDEI	CTNAG	1 cut(s)	281
BstF5I	GGATG	2 cut(s)	138, 427
BstH2I	RGCGCY	2 cut(s)	129, 438
BstHHI	GCGC	3 cut(s)	36, 128, 437
BstKTI	GATC	2 cut(s)	182, 198
BstMBI	GATC	2 cut(s)	179, 195
BstMWI	GCNNNNNNNGC	3 cut(s)	72, 110, 329
BstV1I	GCAGC	1 cut(s)	3
BsuRI	GGCC	1 cut(s)	266
BtsCI	GGATG	2 cut(s)	138, 427
Cac8I	GCNNGC	2 cut(s)	130, 439
CfoI	GCGC	3 cut(s)	36, 128, 437
CviJI	RGCY	9 cut(s)	16, 55, 104, 161, 256, 266, 280, 373, 447
CviKI_1	RGCY	9 cut(s)	16, 55, 104, 161, 256, 266, 280, 373, 447
DdeI	CTNAG	1 cut(s)	281
DpnI	GATC	2 cut(s)	181, 197
DpnII	GATC	2 cut(s)	179, 195
DrdI	GACNNNNNNGTC	1 cut(s)	89
DseDI	GACNNNNNNGTC	1 cut(s)	89
Eam1104I	CTCTTC	5 cut(s)	179, 350, 363, 381, 393
EarI	CTCTTC	5 cut(s)	179, 350, 363, 381, 393
EciI	GGCGGA	2 cut(s)	26, 142
Eco130I	CCWWGG	1 cut(s)	381
Eco147I	AGGCCT	1 cut(s)	266
Eco57I	CTGAAG	1 cut(s)	281
Eco88I	CYCGRG	2 cut(s)	242, 448
EcoT14I	CCWWGG	1 cut(s)	381
ErhI	CCWWGG	1 cut(s)	381
FauI	CCCGC	1 cut(s)	137
Fnu4HI	GCNGC	3 cut(s)	17, 374, 377
FokI	GGATG	2 cut(s)	125, 434
Fsp4HI	GCNGC	3 cut(s)	17, 374, 377
FspBI	CTAG	1 cut(s)	438
GlaI	GCGC	3 cut(s)	35, 127, 436
GluI	GCNGC	3 cut(s)	17, 374, 377
GsaI	CCCAGC	1 cut(s)	300
HaeII	RGCGCY	2 cut(s)	129, 438
HaeIII	GGCC	1 cut(s)	266
HhaI	GCGC	3 cut(s)	36, 128, 437
Hin6I	GCGC	3 cut(s)	34, 126, 435
HinP1I	GCGC	3 cut(s)	34, 126, 435
HindIII	AAGCTT	1 cut(s)	53
HphI	GGTGA	2 cut(s)	55, 100
Hpy166II	GTNNAC	1 cut(s)	94
Hpy188I	TCNGA	3 cut(s)	61, 121, 261
Hpy188III	TCNNGA	2 cut(s)	242, 272
Hpy8I	GTNNAC	1 cut(s)	94
Hpy99I	CGWCG	4 cut(s)	80, 209, 254, 434
HpyAV	CCTTC	6 cut(s)	40, 124, 211, 256, 269, 298
HpyCH4IV	ACGT	1 cut(s)	90
HpyCH4V	TGCA	1 cut(s)	174
HpyF10VI	GCNNNNNNNGC	3 cut(s)	72, 110, 329
HpyF3I	CTNAG	1 cut(s)	281
HpySE526I	ACGT	1 cut(s)	90
HspAI	GCGC	3 cut(s)	34, 126, 435
Kzo9I	GATC	2 cut(s)	179, 195
LguI	GCTCTTC	1 cut(s)	363
LmnI	GCTCC	2 cut(s)	13, 71
LpnPI	CCDG	3 cut(s)	98, 282, 294
Lsp1109I	GCAGC	1 cut(s)	3
LweI	GCATC	1 cut(s)	141
MaeI	CTAG	1 cut(s)	438
MaeII	ACGT	1 cut(s)	90
MalI	GATC	2 cut(s)	181, 197
MboI	GATC	2 cut(s)	179, 195
MhlI	GDGCHC	1 cut(s)	68
MluCI	AATT	1 cut(s)	362
MmeI	TCCRAC	1 cut(s)	204
Mva1269I	GAATGC	1 cut(s)	298
MwoI	GCNNNNNNNGC	3 cut(s)	72, 110, 329
NdeII	GATC	2 cut(s)	179, 195
NheI	GCTAGC	1 cut(s)	437
PaeR7I	CTCGAG	1 cut(s)	448
PceI	AGGCCT	1 cut(s)	266
PciSI	GCTCTTC	1 cut(s)	363
PcsI	WCGNNNNNNNCGW	2 cut(s)	240, 438
PctI	GAATGC	1 cut(s)	298
PkrI	GCNGC	3 cut(s)	18, 375, 378
PspFI	CCCAGC	1 cut(s)	296
PspXI	VCTCGAGB	1 cut(s)	448
SapI	GCTCTTC	1 cut(s)	363
SatI	GCNGC	3 cut(s)	17, 374, 377
Sau3AI	GATC	2 cut(s)	179, 195
SduI	GDGCHC	1 cut(s)	68
SetI	ASST	6 cut(s)	18, 57, 87, 93, 150, 449
SfaNI	GCATC	1 cut(s)	141
Sfr274I	CTCGAG	1 cut(s)	448
SlaI	CTCGAG	1 cut(s)	448
SmlI	CTYRAG	1 cut(s)	448
SmoI	CTYRAG	1 cut(s)	448
Sse9I	AATT	1 cut(s)	362
SseBI	AGGCCT	1 cut(s)	266
SsiI	CCGC	6 cut(s)	11, 111, 130, 153, 374, 377
SspMI	CTAG	1 cut(s)	438
StuI	AGGCCT	1 cut(s)	266
StyI	CCWWGG	1 cut(s)	381
TaiI	ACGT	1 cut(s)	93
TaqI	TCGA	4 cut(s)	182, 234, 252, 449
TasI	AATT	1 cut(s)	362
TauI	GCSGC	2 cut(s)	376, 379
TseI	GCWGC	1 cut(s)	16
TspDTI	ATGAA	1 cut(s)	127
XcmI	CCANNNNNNNNNTGG	1 cut(s)	419
XhoI	CTCGAG	1 cut(s)	448
XspI	CTAG	1 cut(s)	438

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