Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0003710

Physical Location & Seq

Genomic Coordinates Reverse (-)

54287631 .. 54293347

Gene Structure 5717 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG316400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 375 bp

ATGGCGGAGGCACCGACGAGTCCGGCCGGCGGGAGCCACGAGAGCGGCGGCGAGCAGAGCCCGCAGAACGGGAGCAGCAGCAACGTGAGGGAGCAGGACAGGTACCTCCCAATCGCGAACATCAGTCGGATTATGAAGAAGGCGCTGCCGCAAAACGGCAAGATCGCCAAGGACGCTAAGGACACTGTGCAGGAGTGCGTCTCCGAATTCATCAGCTTCGTCACCAGCGAGGCCAGCGACAAGTGCCAGAAGGAGAAGAGAAAGACAATTAACGGTGACGATTTGCTGTGGGCGATGGCTACTTTAGGGTTTGAGGACTATATTGAGCCGCTCAGGATTTACTTGGCTAGGTACAGGGAGGTAATTACTATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 ko05166 map04612 map05152 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

124

Amino Acids

13.74

Weight (kDa)

5.46

Isoelectric Point (pI)

55.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	25 - 99	2e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	35 - 99	1.3e-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

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Align Labels (Cladogram)

Image

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003710)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880
fragaria_vesca	FvH4_7g20270 FvH4_7g20270 FvH4_7g20270 FvH4_7g20270
malus_domestica	MD01G1112400.v1.1 MD07G1180200.v1.1
prunus_persica	Prupe.2G219500_v2.0.a1 Prupe.2G219500_v2.0.a1 Prupe.2G219500_v2.0.a1 Prupe.2G219500_v2.0.a1
pyrus_communis	pycom01g14090 pycom07g17350
rosa_chinensis	RchiOBHm_Chr1g0364211
rosa_multiflora	Rmu_sc0000071.1_g000003
rosa_roxburghii	Rroxscaffold_4G00292560
rosa_rugosa	Rorug01G0314800 Rorug01G0314900 Rorug01G0315000
rosa_samantha	Rh1AG322200 Rh1BG285000 Rh1CG301500 Rh1DG316400
rosa_wichuraiana	Rw1G028540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	102
AccB1I	GGYRCC	2 cut(s)	10, 102
AccBSI	CCGCTC	2 cut(s)	45, 331
AccII	CGCG	1 cut(s)	116
AciI	CCGC	7 cut(s)	5, 30, 45, 48, 62, 149, 329
AcoI	YGGCCR	1 cut(s)	24
AcsI	RAATTY	1 cut(s)	206
AfaI	GTAC	2 cut(s)	104, 353
AfiI	CCNNNNNNNGG	3 cut(s)	29, 68, 155
AluBI	AGCT	1 cut(s)	216
AluI	AGCT	1 cut(s)	216
Alw26I	GTCTC	1 cut(s)	205
AoxI	GGCC	2 cut(s)	24, 231
ApeKI	GCWGC	3 cut(s)	75, 78, 145
ApoI	RAATTY	1 cut(s)	206
Asp718I	GGTACC	1 cut(s)	102
AspLEI	GCGC	1 cut(s)	145
AsuHPI	GGTGA	2 cut(s)	214, 287
BanI	GGYRCC	2 cut(s)	10, 102
BanII	GRGCYC	1 cut(s)	62
BauI	CACGAG	1 cut(s)	38
BbvI	GCAGC	3 cut(s)	87, 90, 132
BccI	CCATC	1 cut(s)	289
BceAI	ACGGC	1 cut(s)	172
BcoDI	GTCTC	1 cut(s)	205
BfaI	CTAG	1 cut(s)	348
BfoI	RGCGCY	1 cut(s)	146
BisI	GCNGC	7 cut(s)	46, 49, 76, 79, 146, 149, 329
BlsI	GCNGC	7 cut(s)	47, 50, 77, 80, 147, 150, 330
BmiI	GGNNCC	3 cut(s)	12, 35, 104
BplI	GAGNNNNNCTC	2 cut(s)	185, 217
Bpu10I	CCTNAGC	2 cut(s)	177, 332
BsaJI	CCNNGG	1 cut(s)	168
Bsc4I	CCNNNNNNNGG	3 cut(s)	29, 68, 155
Bse118I	RCCGGY	1 cut(s)	26
BseDI	CCNNGG	1 cut(s)	168
BseLI	CCNNNNNNNGG	3 cut(s)	29, 68, 155
BseMII	CTCAG	1 cut(s)	346
BseX3I	CGGCCG	1 cut(s)	24
BseXI	GCAGC	3 cut(s)	87, 90, 132
BsgI	GTGCAG	1 cut(s)	209
Bsh1236I	CGCG	1 cut(s)	116
Bsh1285I	CGRYCG	1 cut(s)	27
BshFI	GGCC	2 cut(s)	26, 233
BshNI	GGYRCC	2 cut(s)	10, 102
BsiEI	CGRYCG	1 cut(s)	27
BsiSI	CCGG	2 cut(s)	23, 27
BslI	CCNNNNNNNGG	3 cut(s)	29, 68, 155
BsmAI	GTCTC	1 cut(s)	205
BsmBI	CGTCTC	1 cut(s)	205
BsnI	GGCC	2 cut(s)	26, 233
Bsp1286I	GDGCHC	1 cut(s)	62
Bsp143I	GATC	1 cut(s)	162
Bsp68I	TCGCGA	1 cut(s)	116
BspACI	CCGC	7 cut(s)	5, 30, 45, 48, 62, 149, 329
BspANI	GGCC	2 cut(s)	26, 233
BspCNI	CTCAG	1 cut(s)	345
BspFNI	CGCG	1 cut(s)	116
BspLI	GGNNCC	3 cut(s)	12, 35, 104
BspT107I	GGYRCC	2 cut(s)	10, 102
BsrBI	CCGCTC	2 cut(s)	45, 331
BsrFI	RCCGGY	1 cut(s)	26
BssAI	RCCGGY	1 cut(s)	26
BssECI	CCNNGG	1 cut(s)	168
BssMI	GATC	1 cut(s)	162
BssSI	CACGAG	1 cut(s)	38
BssT1I	CCWWGG	1 cut(s)	168
Bst2BI	CACGAG	1 cut(s)	38
Bst4CI	ACNGT	2 cut(s)	187, 275
Bst6I	CTCTTC	1 cut(s)	251
BstC8I	GCNNGC	4 cut(s)	28, 53, 62, 235
BstDEI	CTNAG	2 cut(s)	177, 332
BstFNI	CGCG	1 cut(s)	116
BstH2I	RGCGCY	1 cut(s)	146
BstHHI	GCGC	1 cut(s)	145
BstKTI	GATC	1 cut(s)	165
BstMAI	GTCTC	1 cut(s)	205
BstMBI	GATC	1 cut(s)	162
BstMCI	CGRYCG	1 cut(s)	27
BstMWI	GCNNNNNNNGC	6 cut(s)	42, 57, 61, 173, 234, 243
BstUI	CGCG	1 cut(s)	116
BstV1I	GCAGC	3 cut(s)	87, 90, 132
BstZI	CGGCCG	1 cut(s)	24
BsuRI	GGCC	2 cut(s)	26, 233
BtgZI	GCGATG	1 cut(s)	308
BtsIMutI	CAGTG	1 cut(s)	183
BtuMI	TCGCGA	1 cut(s)	116
Cac8I	GCNNGC	4 cut(s)	28, 53, 62, 235
CfoI	GCGC	1 cut(s)	145
Cfr10I	RCCGGY	1 cut(s)	26
CseI	GACGC	2 cut(s)	182, 187
Csp6I	GTAC	2 cut(s)	103, 352
CviJI	RGCY	8 cut(s)	26, 36, 60, 216, 233, 299, 328, 347
CviKI_1	RGCY	8 cut(s)	26, 36, 60, 216, 233, 299, 328, 347
CviQI	GTAC	2 cut(s)	103, 352
DdeI	CTNAG	2 cut(s)	177, 332
DpnI	GATC	1 cut(s)	164
DpnII	GATC	1 cut(s)	162
EaeI	YGGCCR	1 cut(s)	24
EagI	CGGCCG	1 cut(s)	24
Eam1104I	CTCTTC	1 cut(s)	251
EarI	CTCTTC	1 cut(s)	251
EciI	GGCGGA	1 cut(s)	20
EclXI	CGGCCG	1 cut(s)	24
Eco130I	CCWWGG	1 cut(s)	168
Eco24I	GRGCYC	1 cut(s)	62
Eco52I	CGGCCG	1 cut(s)	24
EcoRI	GAATTC	1 cut(s)	206
EcoT14I	CCWWGG	1 cut(s)	168
EcoT38I	GRGCYC	1 cut(s)	62
ErhI	CCWWGG	1 cut(s)	168
Esp3I	CGTCTC	1 cut(s)	205
FaiI	YATR	2 cut(s)	134, 321
FauI	CCCGC	2 cut(s)	23, 69
Fnu4HI	GCNGC	7 cut(s)	46, 49, 76, 79, 146, 149, 329
FriOI	GRGCYC	1 cut(s)	62
Fsp4HI	GCNGC	7 cut(s)	46, 49, 76, 79, 146, 149, 329
FspBI	CTAG	1 cut(s)	348
GlaI	GCGC	1 cut(s)	144
GluI	GCNGC	7 cut(s)	46, 49, 76, 79, 146, 149, 329
HaeII	RGCGCY	1 cut(s)	146
HaeIII	GGCC	2 cut(s)	26, 233
HapII	CCGG	2 cut(s)	23, 27
HgaI	GACGC	2 cut(s)	182, 187
HhaI	GCGC	1 cut(s)	145
Hin6I	GCGC	1 cut(s)	143
HinP1I	GCGC	1 cut(s)	143
HinfI	GANTC	1 cut(s)	19
HpaII	CCGG	2 cut(s)	23, 27
HphI	GGTGA	2 cut(s)	214, 287
Hpy188I	TCNGA	2 cut(s)	129, 205
Hpy188III	TCNNGA	2 cut(s)	115, 334
Hpy99I	CGWCG	1 cut(s)	19
HpyAV	CCTTC	2 cut(s)	133, 244
HpyCH4III	ACNGT	2 cut(s)	187, 275
HpyCH4IV	ACGT	1 cut(s)	84
HpyCH4V	TGCA	1 cut(s)	190
HpyF10VI	GCNNNNNNNGC	6 cut(s)	42, 57, 61, 173, 234, 243
HpyF3I	CTNAG	2 cut(s)	177, 332
HpySE526I	ACGT	1 cut(s)	84
HspAI	GCGC	1 cut(s)	143
KpnI	GGTACC	1 cut(s)	106
KroI	GCCGGC	1 cut(s)	26
KroNI	GCCGGC	1 cut(s)	28
Kzo9I	GATC	1 cut(s)	162
LmnI	GCTCC	3 cut(s)	33, 72, 91
Lsp1109I	GCAGC	3 cut(s)	87, 90, 132
MaeI	CTAG	1 cut(s)	348
MaeII	ACGT	1 cut(s)	84
MaeIII	GTNAC	2 cut(s)	220, 275
MalI	GATC	1 cut(s)	164
MbiI	CCGCTC	2 cut(s)	45, 331
MboI	GATC	1 cut(s)	162
MboII	GAAGA	2 cut(s)	148, 268
MhlI	GDGCHC	1 cut(s)	62
MluCI	AATT	3 cut(s)	206, 267, 363
MlyI	GAGTC	1 cut(s)	28
MmeI	TCCRAC	1 cut(s)	107
MnlI	CCTC	5 cut(s)	81, 116, 223, 307, 352
MroNI	GCCGGC	1 cut(s)	26
MseI	TTAA	2 cut(s)	270, 373
MspI	CCGG	2 cut(s)	23, 27
MvnI	CGCG	1 cut(s)	116
MwoI	GCNNNNNNNGC	6 cut(s)	42, 57, 61, 173, 234, 243
NaeI	GCCGGC	1 cut(s)	28
NdeII	GATC	1 cut(s)	162
NgoMIV	GCCGGC	1 cut(s)	26
NlaIV	GGNNCC	3 cut(s)	12, 35, 104
NmuCI	GTSAC	2 cut(s)	220, 275
NruI	TCGCGA	1 cut(s)	116
PcsI	WCGNNNNNNNCGW	1 cut(s)	225
PdiI	GCCGGC	1 cut(s)	28
PkrI	GCNGC	7 cut(s)	47, 50, 77, 80, 147, 150, 330
PleI	GAGTC	1 cut(s)	27
PpsI	GAGTC	1 cut(s)	27
PspN4I	GGNNCC	3 cut(s)	12, 35, 104
RruI	TCGCGA	1 cut(s)	116
RsaI	GTAC	2 cut(s)	104, 353
RsaNI	GTAC	2 cut(s)	103, 352
SaqAI	TTAA	2 cut(s)	270, 373
SatI	GCNGC	7 cut(s)	46, 49, 76, 79, 146, 149, 329
Sau3AI	GATC	1 cut(s)	162
SchI	GAGTC	1 cut(s)	28
SduI	GDGCHC	1 cut(s)	62
SetI	ASST	6 cut(s)	87, 104, 108, 218, 353, 363
Sse9I	AATT	3 cut(s)	206, 267, 363
SsiI	CCGC	7 cut(s)	5, 30, 45, 48, 62, 149, 329
SspMI	CTAG	1 cut(s)	348
StyI	CCWWGG	1 cut(s)	168
TaaI	ACNGT	2 cut(s)	187, 275
TaiI	ACGT	1 cut(s)	87
TasI	AATT	3 cut(s)	206, 267, 363
TauI	GCSGC	4 cut(s)	48, 51, 151, 331
Tru1I	TTAA	2 cut(s)	270, 373
Tru9I	TTAA	2 cut(s)	270, 373
TscAI	CASTG	1 cut(s)	190
TseFI	GTSAC	2 cut(s)	220, 275
TseI	GCWGC	3 cut(s)	75, 78, 145
Tsp45I	GTSAC	2 cut(s)	220, 275
TspDTI	ATGAA	2 cut(s)	149, 199
TspRI	CASTG	1 cut(s)	190
XapI	RAATTY	1 cut(s)	206
XspI	CTAG	1 cut(s)	348

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