Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0009448

Physical Location & Seq

Genomic Coordinates Forward (+)

40083096 .. 40083839

Gene Structure 744 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG307300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 477 bp

ATGGAAACGGCGGAGCTGCCCAAGACTATCGTGCGCCGTGTGGTGAAGGATAAGCTTTCCGAGTGCTCCAAAGGCGACGGCGACCTGAACGTCCACAAAGAAGCCCTCACCGCCTTCTCCGAGAGCGCCCGCATCTTCATCCACTACCTCTCCGCCACAGCCAACGACATCTGCAAGGGATCGAAGAGGCAGACGATCAACGGCGACGATGTTTTGAAGGCGTTGGAGGACATCGAGTTCCCGGAGTTCGTCGAGCCTCTGAAGGCCTCTCTTGAAGGGCTGAGGGAGAAGAATGCTGGGAAGAAGGCAGGAACATCAAAGGCAAAGGAAGCGAAAACAAAAGAGGCGAAAACAAAGGAAGTGAAAAAGAAGAGGAAATTGGAAGAGCCGCCGCCCAAGGAAGAGGAGGAAGAAGAGGAAGAAAACCAAGATGAGGATGGCGGCGATGGCGCTAGCGAAAGCTCGAGCAAAGAATGA

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

158

Amino Acids

17.48

Weight (kDa)

5.17

Isoelectric Point (pI)

60.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFD_NFYB_HMF	PF00808	4 - 75	1.2e-09	Histone-like transcription factor (CBF/NF-Y) and archaeal histone
Histone	PF00125	4 - 75	1.1e-06	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

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Align Labels (Cladogram)

Image

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Publication-ready

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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	7 cut(s)	11, 111, 130, 153, 389, 392, 441
AclWI	GGATC	1 cut(s)	187
AcuI	CTGAAG	1 cut(s)	281
AfiI	CCNNNNNNNGG	1 cut(s)	433
AgsI	TTSAA	2 cut(s)	217, 275
AjuI	GAANNNNNNNTTGG	2 cut(s)	362, 394
AloI	GAACNNNNNNTCC	2 cut(s)	221, 253
AluBI	AGCT	3 cut(s)	16, 55, 462
AluI	AGCT	3 cut(s)	16, 55, 462
Alw21I	GWGCWC	1 cut(s)	68
AlwI	GGATC	1 cut(s)	187
Ama87I	CYCGRG	1 cut(s)	463
AoxI	GGCC	1 cut(s)	264
ApeKI	GCWGC	1 cut(s)	16
AspLEI	GCGC	3 cut(s)	36, 128, 452
AsuC2I	CCSGG	1 cut(s)	242
AsuHPI	GGTGA	2 cut(s)	55, 100
AsuNHI	GCTAGC	1 cut(s)	452
AvaI	CYCGRG	1 cut(s)	463
Bbv12I	GWGCWC	1 cut(s)	68
BbvCI	CCTCAGC	1 cut(s)	281
BbvI	GCAGC	1 cut(s)	3
BccI	CCATC	2 cut(s)	431, 440
BceAI	ACGGC	4 cut(s)	21, 24, 94, 217
BcnI	CCSGG	1 cut(s)	242
BfaI	CTAG	1 cut(s)	453
BfoI	RGCGCY	2 cut(s)	129, 453
BisI	GCNGC	4 cut(s)	17, 389, 392, 442
BlsI	GCNGC	4 cut(s)	18, 390, 393, 443
Bme1390I	CCNGG	1 cut(s)	242
BmeT110I	CYCGRG	1 cut(s)	463
BmrFI	CCNGG	1 cut(s)	242
BmsI	GCATC	1 cut(s)	141
BmtI	GCTAGC	1 cut(s)	456
Bpu10I	CCTNAGC	1 cut(s)	281
BpuMI	CCSGG	1 cut(s)	242
BsaJI	CCNNGG	1 cut(s)	396
BsaXI	ACNNNNNCTCC	2 cut(s)	134, 164
Bsc4I	CCNNNNNNNGG	1 cut(s)	433
BseDI	CCNNGG	1 cut(s)	396
BseGI	GGATG	2 cut(s)	138, 442
BseLI	CCNNNNNNNGG	1 cut(s)	433
BseMII	CTCAG	1 cut(s)	272
BseRI	GAGGAG	1 cut(s)	419
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	1 cut(s)	463
BsiSI	CCGG	1 cut(s)	242
BslI	CCNNNNNNNGG	1 cut(s)	433
BsmI	GAATGC	1 cut(s)	298
BsnI	GGCC	1 cut(s)	266
BsoBI	CYCGRG	1 cut(s)	463
Bsp1286I	GDGCHC	1 cut(s)	68
Bsp143I	GATC	2 cut(s)	179, 195
BspACI	CCGC	7 cut(s)	11, 111, 130, 153, 389, 392, 441
BspANI	GGCC	1 cut(s)	266
BspCNI	CTCAG	1 cut(s)	273
BspOI	GCTAGC	1 cut(s)	456
BspPI	GGATC	1 cut(s)	187
BspQI	GCTCTTC	1 cut(s)	378
BssECI	CCNNGG	1 cut(s)	396
BssMI	GATC	2 cut(s)	179, 195
BssT1I	CCWWGG	1 cut(s)	396
Bst6I	CTCTTC	5 cut(s)	179, 365, 378, 396, 408
BstC8I	GCNNGC	2 cut(s)	130, 454
BstDEI	CTNAG	1 cut(s)	281
BstF5I	GGATG	2 cut(s)	138, 442
BstH2I	RGCGCY	2 cut(s)	129, 453
BstHHI	GCGC	3 cut(s)	36, 128, 452
BstKTI	GATC	2 cut(s)	182, 198
BstMBI	GATC	2 cut(s)	179, 195
BstMWI	GCNNNNNNNGC	4 cut(s)	72, 110, 329, 447
BstSCI	CCNGG	1 cut(s)	240
BstV1I	GCAGC	1 cut(s)	3
BsuRI	GGCC	1 cut(s)	266
BtgZI	GCGATG	1 cut(s)	459
BtsCI	GGATG	2 cut(s)	138, 442
Cac8I	GCNNGC	2 cut(s)	130, 454
CfoI	GCGC	3 cut(s)	36, 128, 452
CviJI	RGCY	9 cut(s)	16, 55, 104, 161, 256, 266, 280, 388, 462
CviKI_1	RGCY	9 cut(s)	16, 55, 104, 161, 256, 266, 280, 388, 462
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, 365, 378, 396, 408
EarI	CTCTTC	5 cut(s)	179, 365, 378, 396, 408
EciI	GGCGGA	2 cut(s)	26, 142
Eco130I	CCWWGG	1 cut(s)	396
Eco147I	AGGCCT	1 cut(s)	266
Eco57I	CTGAAG	1 cut(s)	281
Eco88I	CYCGRG	1 cut(s)	463
EcoT14I	CCWWGG	1 cut(s)	396
ErhI	CCWWGG	1 cut(s)	396
FauI	CCCGC	1 cut(s)	137
Fnu4HI	GCNGC	4 cut(s)	17, 389, 392, 442
FokI	GGATG	2 cut(s)	125, 449
Fsp4HI	GCNGC	4 cut(s)	17, 389, 392, 442
FspBI	CTAG	1 cut(s)	453
GlaI	GCGC	3 cut(s)	35, 127, 451
GluI	GCNGC	4 cut(s)	17, 389, 392, 442
GsaI	CCCAGC	1 cut(s)	300
HaeII	RGCGCY	2 cut(s)	129, 453
HaeIII	GGCC	1 cut(s)	266
HapII	CCGG	1 cut(s)	242
HhaI	GCGC	3 cut(s)	36, 128, 452
Hin6I	GCGC	3 cut(s)	34, 126, 450
HinP1I	GCGC	3 cut(s)	34, 126, 450
HindIII	AAGCTT	1 cut(s)	53
HpaII	CCGG	1 cut(s)	242
HphI	GGTGA	2 cut(s)	55, 100
Hpy166II	GTNNAC	1 cut(s)	94
Hpy188I	TCNGA	3 cut(s)	61, 121, 261
Hpy188III	TCNNGA	1 cut(s)	272
Hpy8I	GTNNAC	1 cut(s)	94
Hpy99I	CGWCG	3 cut(s)	80, 209, 254
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	4 cut(s)	72, 110, 329, 447
HpyF3I	CTNAG	1 cut(s)	281
HpySE526I	ACGT	1 cut(s)	90
HspAI	GCGC	3 cut(s)	34, 126, 450
Kzo9I	GATC	2 cut(s)	179, 195
LguI	GCTCTTC	1 cut(s)	378
LmnI	GCTCC	2 cut(s)	13, 71
LpnPI	CCDG	4 cut(s)	98, 255, 282, 294
Lsp1109I	GCAGC	1 cut(s)	3
LweI	GCATC	1 cut(s)	141
MaeI	CTAG	1 cut(s)	453
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)	377
MmeI	TCCRAC	1 cut(s)	204
MspI	CCGG	1 cut(s)	242
MspR9I	CCNGG	1 cut(s)	242
Mva1269I	GAATGC	1 cut(s)	298
MwoI	GCNNNNNNNGC	4 cut(s)	72, 110, 329, 447
NciI	CCSGG	1 cut(s)	242
NdeII	GATC	2 cut(s)	179, 195
NheI	GCTAGC	1 cut(s)	452
PaeR7I	CTCGAG	1 cut(s)	463
PceI	AGGCCT	1 cut(s)	266
PciSI	GCTCTTC	1 cut(s)	378
PctI	GAATGC	1 cut(s)	298
PfoI	TCCNGGA	1 cut(s)	240
PkrI	GCNGC	4 cut(s)	18, 390, 393, 443
PspFI	CCCAGC	1 cut(s)	296
PspXI	VCTCGAGB	1 cut(s)	463
SapI	GCTCTTC	1 cut(s)	378
SatI	GCNGC	4 cut(s)	17, 389, 392, 442
Sau3AI	GATC	2 cut(s)	179, 195
ScrFI	CCNGG	1 cut(s)	242
SduI	GDGCHC	1 cut(s)	68
SetI	ASST	6 cut(s)	18, 57, 87, 93, 150, 464
SfaNI	GCATC	1 cut(s)	141
Sfr274I	CTCGAG	1 cut(s)	463
SlaI	CTCGAG	1 cut(s)	463
SmlI	CTYRAG	1 cut(s)	463
SmoI	CTYRAG	1 cut(s)	463
Sse9I	AATT	1 cut(s)	377
SseBI	AGGCCT	1 cut(s)	266
SsiI	CCGC	7 cut(s)	11, 111, 130, 153, 389, 392, 441
SspMI	CTAG	1 cut(s)	453
StuI	AGGCCT	1 cut(s)	266
StyD4I	CCNGG	1 cut(s)	240
StyI	CCWWGG	1 cut(s)	396
TaiI	ACGT	1 cut(s)	93
TaqI	TCGA	4 cut(s)	182, 234, 252, 464
TasI	AATT	1 cut(s)	377
TauI	GCSGC	3 cut(s)	391, 394, 444
TseI	GCWGC	1 cut(s)	16
TspDTI	ATGAA	1 cut(s)	127
XcmI	CCANNNNNNNNNTGG	1 cut(s)	434
XhoI	CTCGAG	1 cut(s)	463
XspI	CTAG	1 cut(s)	453

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