Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003710

Physical Location & Seq

Genomic Coordinates Forward (+)

12827386 .. 12830802

Gene Structure 3417 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00292560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGGCGGAGGCACCGACGAGTCCGGCCGGCGGGAGCCACGAGAGCGGCGGCGAGCAGAGCCCGCAGAACGGGAGCAGCAGCAACGTGAGGGAGCAGGACAGGTACCTCCCAATCGCGAACATCAGTCGGATTATGAAGAAGGCGCTGCCTCAAAACGGCAAGATCGCCAAGGACGCTAAGGACACTGTTCAGGAATGCGTCTCCGAATTCATCAGCTTCGTCACCAGCGAGGCCAGCGACAAGTGCCAGAAGGAGAAGAGGAAGACGATTAACGGTGACGATTTGCTGTGGGCGATGGCTACGTTAGGGTTTGAGGACTATATTGAGCCGCTCAGGATTTACTTGGCTAGGTACAGGGAGGGTGATGCAAAGGGTTCTGCCAGGGGTGGAGAAGGGTCTGCTAAAGGGAATCCTGTTGGAGCTATGACTGGGCAAAATTCACAGTTTGTTCATCAGCCACCACTGAACTACGTCAATAGCCAAGCACAGCATCTGGTTGTTCCTTCCATGCAAAGCAATGAGTAG

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

174

Amino Acids

18.83

Weight (kDa)

5.96

Isoelectric Point (pI)

48.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	25 - 99	4.9e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	35 - 99	2.9e-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

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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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	6 cut(s)	5, 30, 45, 48, 62, 329
AcoI	YGGCCR	1 cut(s)	24
AcsI	RAATTY	2 cut(s)	206, 436
AfaI	GTAC	2 cut(s)	104, 353
AfiI	CCNNNNNNNGG	3 cut(s)	29, 68, 155
AjnI	CCWGG	1 cut(s)	380
AluBI	AGCT	2 cut(s)	216, 422
AluI	AGCT	2 cut(s)	216, 422
Alw26I	GTCTC	1 cut(s)	205
AlwNI	CAGNNNCTG	1 cut(s)	493
AoxI	GGCC	2 cut(s)	24, 231
ApeKI	GCWGC	3 cut(s)	75, 78, 145
ApoI	RAATTY	2 cut(s)	206, 436
Asp718I	GGTACC	1 cut(s)	102
AspLEI	GCGC	1 cut(s)	145
AsuHPI	GGTGA	3 cut(s)	214, 287, 374
BanI	GGYRCC	2 cut(s)	10, 102
BanII	GRGCYC	1 cut(s)	62
BauI	CACGAG	1 cut(s)	38
BbsI	GAAGAC	1 cut(s)	269
BbvI	GCAGC	3 cut(s)	87, 90, 132
BccI	CCATC	1 cut(s)	289
BceAI	ACGGC	1 cut(s)	172
BciT130I	CCWGG	1 cut(s)	382
BcoDI	GTCTC	1 cut(s)	205
BfaI	CTAG	1 cut(s)	348
BfoI	RGCGCY	1 cut(s)	146
BisI	GCNGC	6 cut(s)	46, 49, 76, 79, 146, 329
BlsI	GCNGC	6 cut(s)	47, 50, 77, 80, 147, 330
Bme1390I	CCNGG	1 cut(s)	382
BmiI	GGNNCC	3 cut(s)	12, 35, 104
BmrFI	CCNGG	1 cut(s)	382
BmrI	ACTGGG	1 cut(s)	438
BmsI	GCATC	2 cut(s)	355, 499
BmuI	ACTGGG	1 cut(s)	438
BpiI	GAAGAC	1 cut(s)	269
Bpu10I	CCTNAGC	2 cut(s)	177, 332
BsaJI	CCNNGG	2 cut(s)	168, 381
Bsc4I	CCNNNNNNNGG	3 cut(s)	29, 68, 155
Bse118I	RCCGGY	1 cut(s)	26
Bse1I	ACTGG	1 cut(s)	433
Bse3DI	GCAATG	1 cut(s)	523
BseBI	CCWGG	1 cut(s)	382
BseDI	CCNNGG	2 cut(s)	168, 381
BseLI	CCNNNNNNNGG	3 cut(s)	29, 68, 155
BseMI	GCAATG	1 cut(s)	523
BseMII	CTCAG	1 cut(s)	346
BseNI	ACTGG	1 cut(s)	433
BseX3I	CGGCCG	1 cut(s)	24
BseXI	GCAGC	3 cut(s)	87, 90, 132
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
BsmI	GAATGC	1 cut(s)	200
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	6 cut(s)	5, 30, 45, 48, 62, 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
BsrDI	GCAATG	1 cut(s)	523
BsrFI	RCCGGY	1 cut(s)	26
BsrI	ACTGG	1 cut(s)	433
BssAI	RCCGGY	1 cut(s)	26
BssECI	CCNNGG	2 cut(s)	168, 381
BssMI	GATC	1 cut(s)	162
BssSI	CACGAG	1 cut(s)	38
BssT1I	CCWWGG	1 cut(s)	168
Bst2BI	CACGAG	1 cut(s)	38
Bst2UI	CCWGG	1 cut(s)	382
Bst4CI	ACNGT	3 cut(s)	187, 275, 444
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
BstNI	CCWGG	1 cut(s)	382
BstSCI	CCNGG	1 cut(s)	380
BstUI	CGCG	1 cut(s)	116
BstV1I	GCAGC	3 cut(s)	87, 90, 132
BstV2I	GAAGAC	1 cut(s)	269
BstZI	CGGCCG	1 cut(s)	24
BsuRI	GGCC	2 cut(s)	26, 233
BtgZI	GCGATG	1 cut(s)	308
BtsIMutI	CAGTG	2 cut(s)	183, 461
BtuMI	TCGCGA	1 cut(s)	116
Cac8I	GCNNGC	4 cut(s)	28, 53, 62, 235
CaiI	CAGNNNCTG	1 cut(s)	493
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
CviAII	CATG	1 cut(s)	508
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
EcoRII	CCWGG	1 cut(s)	380
EcoT14I	CCWWGG	1 cut(s)	168
EcoT38I	GRGCYC	1 cut(s)	62
ErhI	CCWWGG	1 cut(s)	168
Esp3I	CGTCTC	1 cut(s)	205
FaeI	CATG	1 cut(s)	511
FaiI	YATR	4 cut(s)	134, 321, 425, 509
FatI	CATG	1 cut(s)	507
FauI	CCCGC	2 cut(s)	23, 69
Fnu4HI	GCNGC	6 cut(s)	46, 49, 76, 79, 146, 329
FriOI	GRGCYC	1 cut(s)	62
Fsp4HI	GCNGC	6 cut(s)	46, 49, 76, 79, 146, 329
FspBI	CTAG	1 cut(s)	348
GlaI	GCGC	1 cut(s)	144
GluI	GCNGC	6 cut(s)	46, 49, 76, 79, 146, 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
Hin1II	CATG	1 cut(s)	511
Hin6I	GCGC	1 cut(s)	143
HinP1I	GCGC	1 cut(s)	143
HinfI	GANTC	2 cut(s)	19, 409
HpaII	CCGG	2 cut(s)	23, 27
HphI	GGTGA	3 cut(s)	214, 287, 374
Hpy188I	TCNGA	2 cut(s)	129, 205
Hpy188III	TCNNGA	3 cut(s)	115, 191, 334
Hpy99I	CGWCG	1 cut(s)	19
HpyAV	CCTTC	4 cut(s)	133, 244, 386, 513
HpyCH4III	ACNGT	3 cut(s)	187, 275, 444
HpyCH4IV	ACGT	3 cut(s)	84, 302, 471
HpyCH4V	TGCA	2 cut(s)	368, 511
HpyF10VI	GCNNNNNNNGC	6 cut(s)	42, 57, 61, 173, 234, 243
HpyF3I	CTNAG	2 cut(s)	177, 332
HpySE526I	ACGT	3 cut(s)	84, 302, 471
Hsp92II	CATG	1 cut(s)	511
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	4 cut(s)	33, 72, 91, 419
Lsp1109I	GCAGC	3 cut(s)	87, 90, 132
LweI	GCATC	2 cut(s)	355, 499
MaeI	CTAG	1 cut(s)	348
MaeII	ACGT	3 cut(s)	84, 302, 471
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	3 cut(s)	148, 268, 274
MhlI	GDGCHC	1 cut(s)	62
MluCI	AATT	2 cut(s)	206, 436
MlyI	GAGTC	1 cut(s)	28
MmeI	TCCRAC	2 cut(s)	107, 397
MnlI	CCTC	7 cut(s)	81, 116, 159, 223, 252, 307, 352
MroNI	GCCGGC	1 cut(s)	26
MseI	TTAA	1 cut(s)	270
MspI	CCGG	2 cut(s)	23, 27
MspR9I	CCNGG	1 cut(s)	382
Mva1269I	GAATGC	1 cut(s)	200
MvaI	CCWGG	1 cut(s)	382
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
NlaIII	CATG	1 cut(s)	511
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
PctI	GAATGC	1 cut(s)	200
PdiI	GCCGGC	1 cut(s)	28
PfeI	GAWTC	1 cut(s)	409
PkrI	GCNGC	6 cut(s)	47, 50, 77, 80, 147, 330
PleI	GAGTC	1 cut(s)	27
PpsI	GAGTC	1 cut(s)	27
Psp6I	CCWGG	1 cut(s)	380
PspGI	CCWGG	1 cut(s)	380
PspN4I	GGNNCC	3 cut(s)	12, 35, 104
PstNI	CAGNNNCTG	1 cut(s)	493
RruI	TCGCGA	1 cut(s)	116
RsaI	GTAC	2 cut(s)	104, 353
RsaNI	GTAC	2 cut(s)	103, 352
SaqAI	TTAA	1 cut(s)	270
SatI	GCNGC	6 cut(s)	46, 49, 76, 79, 146, 329
Sau3AI	GATC	1 cut(s)	162
SchI	GAGTC	1 cut(s)	28
ScrFI	CCNGG	1 cut(s)	382
SduI	GDGCHC	1 cut(s)	62
SetI	ASST	8 cut(s)	87, 104, 108, 218, 305, 353, 424, 474
SfaNI	GCATC	2 cut(s)	355, 499
Sse9I	AATT	2 cut(s)	206, 436
SsiI	CCGC	6 cut(s)	5, 30, 45, 48, 62, 329
SspMI	CTAG	1 cut(s)	348
StyD4I	CCNGG	1 cut(s)	380
StyI	CCWWGG	1 cut(s)	168
TaaI	ACNGT	3 cut(s)	187, 275, 444
TaiI	ACGT	3 cut(s)	87, 305, 474
TasI	AATT	2 cut(s)	206, 436
TauI	GCSGC	3 cut(s)	48, 51, 331
TfiI	GAWTC	1 cut(s)	409
Tru1I	TTAA	1 cut(s)	270
Tru9I	TTAA	1 cut(s)	270
TscAI	CASTG	2 cut(s)	190, 468
TseFI	GTSAC	2 cut(s)	220, 275
TseI	GCWGC	3 cut(s)	75, 78, 145
Tsp45I	GTSAC	2 cut(s)	220, 275
TspDTI	ATGAA	3 cut(s)	149, 199, 440
TspRI	CASTG	2 cut(s)	190, 468
XapI	RAATTY	2 cut(s)	206, 436
XspI	CTAG	1 cut(s)	348

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