Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0015296

Physical Location & Seq

Genomic Coordinates Reverse (-)

4566351 .. 4567201

Gene Structure 851 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG067700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 465 bp

ATGGTTGATCATGAGGAAGAACAAGATCGGTTGCTGCCAATTGCAAACGTGGGGAGGATCATGAAGCAAATTCTTCCCCAAAGAGCAAAAGTCTCCAAGGAAGCTAAGCAAAGGATGCAAGAGTGTGCAACTGAGTTCCTAAGTTTTGTGACAGGCGAGGCTTCTGACAAGTGTCACAAAGAGAATCGAAAGACAGTGAATGGGGACGACATCTGTTGGGCTCTGAGTGCTCTAGGATTTGATAACTACGCTGAGGCCACAACAAGGTACTTGCATAAGTTTAGGGAAGCTGAGAGAGAGAGATTAGCTGCTAACCAAAGCAATGTTAATATTAATACTAGCTCATCCAGCCCATTAGAGATCAGAGAAGAAGATCAGCCAATCTATTTAAGTGGAACTCAGACTCCAAATCTGGAGTTTAGGATTCTTGAGAAGGGTGACAACTCCTTTGCCAAGCAATCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 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

154

Amino Acids

17.56

Weight (kDa)

5.48

Isoelectric Point (pI)

52.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	6 - 75	4.5e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	11 - 75	1.1e-24	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

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0015296)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09030
fragaria_vesca	FvH4_6g06220
malus_domestica	MD04G1203300.v1.1 MD12G1217100.v1.1
prunus_persica	Prupe.6G323400_v2.0.a1
pyrus_communis	pycom04g17970
rosa_chinensis	RchiOBHm_Chr3g0455241
rosa_laevigata	RLG00000025374
rosa_multiflora	Rmu_sc0002169.1_g000034
rosa_roxburghii	Rroxscaffold_6G00424430
rosa_rugosa	Rorug03G0005500
rosa_samantha	Rh3AG065500 Rh3BG067600 Rh3CG066100 Rh3DG067700
rosa_wichuraiana	Rw3G005160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	65
AcsI	RAATTY	1 cut(s)	69
AfaI	GTAC	1 cut(s)	269
AfiI	CCNNNNNNNGG	1 cut(s)	264
AloI	GAACNNNNNNTCC	2 cut(s)	388, 420
AluBI	AGCT	4 cut(s)	104, 290, 308, 342
AluI	AGCT	4 cut(s)	104, 290, 308, 342
Alw21I	GWGCWC	1 cut(s)	232
Alw26I	GTCTC	1 cut(s)	97
AlwI	GGATC	1 cut(s)	65
AoxI	GGCC	1 cut(s)	255
ApeKI	GCWGC	2 cut(s)	34, 308
ApoI	RAATTY	1 cut(s)	69
ArsI	GACNNNNNNTTYG	2 cut(s)	431, 463
AseI	ATTAAT	1 cut(s)	333
AsuHPI	GGTGA	1 cut(s)	449
BanII	GRGCYC	1 cut(s)	223
Bbv12I	GWGCWC	1 cut(s)	232
BbvCI	CCTCAGC	1 cut(s)	252
BbvI	GCAGC	2 cut(s)	21, 295
BclI	TGATCA	1 cut(s)	7
BcoDI	GTCTC	1 cut(s)	97
BfaI	CTAG	2 cut(s)	233, 339
BisI	GCNGC	2 cut(s)	35, 309
BlpI	GCTNAGC	1 cut(s)	105
BlsI	GCNGC	2 cut(s)	36, 310
BmsI	GCATC	1 cut(s)	105
BoxI	GACNNNNGTC	1 cut(s)	171
BpmI	CTGGAG	1 cut(s)	434
Bpu10I	CCTNAGC	1 cut(s)	252
Bpu1102I	GCTNAGC	1 cut(s)	105
BpuEI	CTTGAG	1 cut(s)	449
BsaJI	CCNNGG	1 cut(s)	96
BsaXI	ACNNNNNCTCC	2 cut(s)	388, 418
Bsc4I	CCNNNNNNNGG	1 cut(s)	264
Bse3DI	GCAATG	1 cut(s)	328
BseDI	CCNNGG	1 cut(s)	96
BseGI	GGATG	2 cut(s)	120, 344
BseLI	CCNNNNNNNGG	1 cut(s)	264
BseMI	GCAATG	1 cut(s)	328
BseMII	CTCAG	5 cut(s)	123, 215, 243, 282, 413
BseXI	GCAGC	2 cut(s)	21, 295
BshFI	GGCC	1 cut(s)	257
BsiHKAI	GWGCWC	1 cut(s)	232
BslFI	GGGAC	1 cut(s)	218
BslI	CCNNNNNNNGG	1 cut(s)	264
BsmAI	GTCTC	1 cut(s)	97
BsmFI	GGGAC	1 cut(s)	218
BsnI	GGCC	1 cut(s)	257
Bsp1286I	GDGCHC	2 cut(s)	223, 232
Bsp143I	GATC	5 cut(s)	7, 25, 57, 360, 373
Bsp1720I	GCTNAGC	1 cut(s)	105
BspANI	GGCC	1 cut(s)	257
BspCNI	CTCAG	5 cut(s)	124, 216, 244, 283, 412
BspHI	TCATGA	2 cut(s)	10, 60
BspPI	GGATC	1 cut(s)	65
BsrDI	GCAATG	1 cut(s)	328
BssECI	CCNNGG	1 cut(s)	96
BssMI	GATC	5 cut(s)	7, 25, 57, 360, 373
BssT1I	CCWWGG	1 cut(s)	96
Bst4CI	ACNGT	1 cut(s)	196
BstAPI	GCANNNNNTGC	1 cut(s)	115
BstDEI	CTNAG	7 cut(s)	105, 132, 140, 224, 252, 291, 399
BstF5I	GGATG	2 cut(s)	120, 344
BstKTI	GATC	5 cut(s)	10, 28, 60, 363, 376
BstMAI	GTCTC	1 cut(s)	97
BstMBI	GATC	5 cut(s)	7, 25, 57, 360, 373
BstMWI	GCNNNNNNNGC	3 cut(s)	115, 227, 348
BstPAI	GACNNNNGTC	1 cut(s)	171
BstV1I	GCAGC	2 cut(s)	21, 295
BsuRI	GGCC	1 cut(s)	257
BtsCI	GGATG	2 cut(s)	120, 344
BtsIMutI	CAGTG	1 cut(s)	201
CciI	TCATGA	2 cut(s)	10, 60
Csp6I	GTAC	1 cut(s)	268
CviAII	CATG	2 cut(s)	11, 61
CviJI	RGCY	9 cut(s)	104, 161, 221, 257, 290, 308, 342, 351, 379
CviKI_1	RGCY	9 cut(s)	104, 161, 221, 257, 290, 308, 342, 351, 379
CviQI	GTAC	1 cut(s)	268
DdeI	CTNAG	7 cut(s)	105, 132, 140, 224, 252, 291, 399
DpnI	GATC	5 cut(s)	9, 27, 59, 362, 375
DpnII	GATC	5 cut(s)	7, 25, 57, 360, 373
Eco130I	CCWWGG	1 cut(s)	96
Eco24I	GRGCYC	1 cut(s)	223
EcoT14I	CCWWGG	1 cut(s)	96
EcoT38I	GRGCYC	1 cut(s)	223
ErhI	CCWWGG	1 cut(s)	96
FaeI	CATG	2 cut(s)	14, 64
FaiI	YATR	3 cut(s)	12, 62, 276
FaqI	GGGAC	1 cut(s)	218
FatI	CATG	2 cut(s)	10, 60
FbaI	TGATCA	1 cut(s)	7
Fnu4HI	GCNGC	2 cut(s)	35, 309
FokI	GGATG	2 cut(s)	127, 331
FriOI	GRGCYC	1 cut(s)	223
Fsp4HI	GCNGC	2 cut(s)	35, 309
FspBI	CTAG	2 cut(s)	233, 339
GluI	GCNGC	2 cut(s)	35, 309
GsuI	CTGGAG	1 cut(s)	434
HaeIII	GGCC	1 cut(s)	257
Hin1II	CATG	2 cut(s)	14, 64
HinfI	GANTC	3 cut(s)	184, 403, 424
HphI	GGTGA	1 cut(s)	449
Hpy188I	TCNGA	4 cut(s)	166, 225, 365, 402
Hpy188III	TCNNGA	5 cut(s)	11, 61, 413, 428, 462
HpyAV	CCTTC	1 cut(s)	427
HpyCH4III	ACNGT	1 cut(s)	196
HpyCH4IV	ACGT	1 cut(s)	48
HpyCH4V	TGCA	4 cut(s)	44, 118, 128, 274
HpyF10VI	GCNNNNNNNGC	3 cut(s)	115, 227, 348
HpyF3I	CTNAG	7 cut(s)	105, 132, 140, 224, 252, 291, 399
HpySE526I	ACGT	1 cut(s)	48
Hsp92II	CATG	2 cut(s)	14, 64
Ksp22I	TGATCA	1 cut(s)	7
Kzo9I	GATC	5 cut(s)	7, 25, 57, 360, 373
LpnPI	CCDG	3 cut(s)	138, 361, 398
Lsp1109I	GCAGC	2 cut(s)	21, 295
LweI	GCATC	1 cut(s)	105
MaeI	CTAG	2 cut(s)	233, 339
MaeII	ACGT	1 cut(s)	48
MaeIII	GTNAC	3 cut(s)	148, 173, 437
MalI	GATC	5 cut(s)	9, 27, 59, 362, 375
MboI	GATC	5 cut(s)	7, 25, 57, 360, 373
MboII	GAAGA	4 cut(s)	29, 65, 380, 383
MfeI	CAATTG	1 cut(s)	39
MhlI	GDGCHC	2 cut(s)	223, 232
MluCI	AATT	2 cut(s)	39, 69
MlyI	GAGTC	1 cut(s)	397
MnlI	CCTC	4 cut(s)	7, 48, 151, 247
MseI	TTAA	3 cut(s)	327, 333, 389
MunI	CAATTG	1 cut(s)	39
MwoI	GCNNNNNNNGC	3 cut(s)	115, 227, 348
NdeII	GATC	5 cut(s)	7, 25, 57, 360, 373
NlaIII	CATG	2 cut(s)	14, 64
NmuCI	GTSAC	3 cut(s)	148, 173, 437
PagI	TCATGA	2 cut(s)	10, 60
PfeI	GAWTC	2 cut(s)	184, 424
PkrI	GCNGC	2 cut(s)	36, 310
PleI	GAGTC	1 cut(s)	397
PpsI	GAGTC	1 cut(s)	397
PshAI	GACNNNNGTC	1 cut(s)	171
PshBI	ATTAAT	1 cut(s)	333
RsaI	GTAC	1 cut(s)	269
RsaNI	GTAC	1 cut(s)	268
SaqAI	TTAA	3 cut(s)	327, 333, 389
SatI	GCNGC	2 cut(s)	35, 309
Sau3AI	GATC	5 cut(s)	7, 25, 57, 360, 373
SchI	GAGTC	1 cut(s)	397
SduI	GDGCHC	2 cut(s)	223, 232
SetI	ASST	6 cut(s)	51, 106, 269, 292, 310, 344
SfaNI	GCATC	1 cut(s)	105
SmlI	CTYRAG	1 cut(s)	428
SmoI	CTYRAG	1 cut(s)	428
Sse9I	AATT	2 cut(s)	39, 69
SspI	AATATT	1 cut(s)	331
SspMI	CTAG	2 cut(s)	233, 339
StyI	CCWWGG	1 cut(s)	96
TaaI	ACNGT	1 cut(s)	196
TaiI	ACGT	1 cut(s)	51
TaqI	TCGA	1 cut(s)	187
TasI	AATT	2 cut(s)	39, 69
TfiI	GAWTC	2 cut(s)	184, 424
Tru1I	TTAA	3 cut(s)	327, 333, 389
Tru9I	TTAA	3 cut(s)	327, 333, 389
TscAI	CASTG	1 cut(s)	201
TseFI	GTSAC	3 cut(s)	148, 173, 437
TseI	GCWGC	2 cut(s)	34, 308
Tsp45I	GTSAC	3 cut(s)	148, 173, 437
TspDTI	ATGAA	1 cut(s)	77
TspRI	CASTG	1 cut(s)	201
VspI	ATTAAT	1 cut(s)	333
XapI	RAATTY	1 cut(s)	69
XspI	CTAG	2 cut(s)	233, 339

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