Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0001593

Physical Location & Seq

Genomic Coordinates Reverse (-)

7948052 .. 7948654

Gene Structure 603 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00166540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 603 bp

ATGGCATTCCGAAAGCGATCCAAGTCGAGGCAAGAGCAGAAAGCTGATGAAGGTAAAGGTTTTGATGAGGGCTCAAGTACATCAGGCTCGGATAGTAGTGATCATGTCTCGGAAAGCCTTTCTGATATTGACGATGCCGAGATTTCTCCATACCTATTAACCAAGAAGGAGGCACTGTATAAAACCGTCCTATGGGAAGCAATGCACAAGGATTATATCGAGAAAAGAAGTACTAGAAAAAGAGCCAGAAAAACCAAGGAAGCCGGTCCTCGGAGAAAGGCAGCCAAAACTTCTACCAAGTCGACGGATGACACTAAGAAATCGGACGAAGGGCATAGTAATCTTGCACCGGAAGTCAAAAAAGGACGGAGTTCGAAAATCAACTATAATGCCATAAATGAAGAGGATTGCGGGTTGGAAGAAGGTTTGGAGTCTAAAGAGAAAGTCATCAGTGCAGAGCATAGTGAAGAGGCTCAAGACGGACAAGGCTATTATGATGATAATTATGAGTCTGAGCATGAAAACCAGTACAATGAAGAGGACGAGTCTTATTATGCAGATGATGATGGTGATGATAATGGGCACAATGATGGATGGTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRF1

Protein Analysis

200

Amino Acids

22.66

Weight (kDa)

4.85

Isoelectric Point (pI)

59.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BRF1	PF07741	41 - 133	4.3e-13	Brf1-like TBP-binding domain

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: OG0001593)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G19550 AT4G19550
fragaria_vesca	FvH4_2g39330 FvH4_3g11660
malus_domestica	MD05G1260600.v1.1 MD10G1239900.v1.1
prunus_persica	Prupe.1G012300_v2.0.a1 Prupe.4G104100_v2.0.a1 Prupe.4G104100_v2.0.a1 Prupe.4G104100_v2.0.a1 Prupe.4G104100_v2.0.a1 Prupe.4G104100_v2.0.a1 Prupe.4G104400_v2.0.a1 Prupe.4G104400_v2.0.a1 Prupe.4G104400_v2.0.a1 Prupe.4G104400_v2.0.a1 Prupe.4G104400_v2.0.a1 Prupe.5G159600_v2.0.a1 Prupe.5G159600_v2.0.a1 Prupe.8G011600_v2.0.a1
pyrus_communis	pycom05g24430 pycom10g20030
rosa_chinensis	RchiOBHm_Chr5g0018721 RchiOBHm_Chr5g0018751
rosa_laevigata	RLG00000008065 RLG00000011233 RLG00000032390 RLG00000032402 RLG00000032406 RLG00000035249
rosa_multiflora	Rmu_sc0000563.1_g000004 Rmu_sc0001296.1_g000012 Rmu_sc0004438.1_g000003 Rmu_sc0009589.1_g000011 Rmu_sc0034934.1_g000007 Rmu_sc0043116.1_g000001
rosa_roxburghii	Rroxscaffold_1G00058970 Rroxscaffold_1G00059060 Rroxscaffold_1G00073820 Rroxscaffold_4G00297400 Rroxscaffold_7G00166540
rosa_rugosa	Rorug05G0046200 Rorug06G0308000
rosa_samantha	Rh3DG298000 Rh5CG148000 Rh5CG148300 Rh6DG420400
rosa_wichuraiana	Rw5G012160 Rw5G012190 Rw6G036380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	302
AciI	CCGC	1 cut(s)	411
AclWI	GGATC	1 cut(s)	12
AfaI	GTAC	3 cut(s)	79, 232, 530
AfiI	CCNNNNNNNGG	3 cut(s)	27, 192, 270
AluBI	AGCT	1 cut(s)	44
AluI	AGCT	1 cut(s)	44
Alw26I	GTCTC	1 cut(s)	112
AlwI	GGATC	1 cut(s)	12
ApeKI	GCWGC	1 cut(s)	281
AspS9I	GGNCC	1 cut(s)	266
AsuHPI	GGTGA	1 cut(s)	581
AsuII	TTCGAA	1 cut(s)	374
AvaII	GGWCC	1 cut(s)	266
BaeGI	GKGCMC	1 cut(s)	585
BanII	GRGCYC	1 cut(s)	74
BbvI	GCAGC	1 cut(s)	293
BccI	CCATC	3 cut(s)	560, 584, 588
BclI	TGATCA	1 cut(s)	100
BcoDI	GTCTC	1 cut(s)	112
BfaI	CTAG	1 cut(s)	234
BisI	GCNGC	1 cut(s)	282
BlsI	GCNGC	1 cut(s)	283
BmcAI	AGTACT	1 cut(s)	232
Bme18I	GGWCC	1 cut(s)	266
BmgT120I	GGNCC	1 cut(s)	266
BmsI	GCATC	1 cut(s)	124
Bpu14I	TTCGAA	1 cut(s)	374
BpuEI	CTTGAG	2 cut(s)	58, 459
BsaJI	CCNNGG	2 cut(s)	255, 269
BsaWI	WCCGGW	1 cut(s)	349
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bsc4I	CCNNNNNNNGG	3 cut(s)	27, 192, 270
Bse118I	RCCGGY	1 cut(s)	263
Bse1I	ACTGG	1 cut(s)	526
Bse3DI	GCAATG	1 cut(s)	207
BseDI	CCNNGG	2 cut(s)	255, 269
BseGI	GGATG	2 cut(s)	313, 599
BseLI	CCNNNNNNNGG	3 cut(s)	27, 192, 270
BseMI	GCAATG	1 cut(s)	207
BseMII	CTCAG	1 cut(s)	504
BseNI	ACTGG	1 cut(s)	526
BseSI	GKGCMC	1 cut(s)	585
BseXI	GCAGC	1 cut(s)	293
BsgI	GTGCAG	1 cut(s)	474
BsiSI	CCGG	2 cut(s)	264, 350
BslI	CCNNNNNNNGG	3 cut(s)	27, 192, 270
BsmAI	GTCTC	1 cut(s)	112
BsmI	GAATGC	1 cut(s)	5
Bsp119I	TTCGAA	1 cut(s)	374
Bsp1286I	GDGCHC	2 cut(s)	74, 585
Bsp143I	GATC	2 cut(s)	17, 100
BspACI	CCGC	1 cut(s)	411
BspCNI	CTCAG	1 cut(s)	505
BspPI	GGATC	1 cut(s)	12
BspT104I	TTCGAA	1 cut(s)	374
BsrDI	GCAATG	1 cut(s)	207
BsrFI	RCCGGY	1 cut(s)	263
BsrI	ACTGG	1 cut(s)	526
BssAI	RCCGGY	1 cut(s)	263
BssECI	CCNNGG	2 cut(s)	255, 269
BssMI	GATC	2 cut(s)	17, 100
BssT1I	CCWWGG	1 cut(s)	255
Bst4CI	ACNGT	2 cut(s)	177, 187
Bst6I	CTCTTC	3 cut(s)	396, 462, 531
BstBI	TTCGAA	1 cut(s)	374
BstDEI	CTNAG	2 cut(s)	315, 513
BstF5I	GGATG	2 cut(s)	313, 599
BstKTI	GATC	2 cut(s)	20, 103
BstMAI	GTCTC	1 cut(s)	112
BstMBI	GATC	2 cut(s)	17, 100
BstSLI	GKGCMC	1 cut(s)	585
BstV1I	GCAGC	1 cut(s)	293
BtsCI	GGATG	2 cut(s)	313, 599
BtsIMutI	CAGTG	2 cut(s)	173, 457
Cfr10I	RCCGGY	1 cut(s)	263
Cfr13I	GGNCC	1 cut(s)	266
Csp6I	GTAC	3 cut(s)	78, 231, 529
CviAII	CATG	2 cut(s)	104, 518
CviJI	RGCY	9 cut(s)	44, 72, 87, 117, 245, 263, 284, 473, 489
CviKI_1	RGCY	9 cut(s)	44, 72, 87, 117, 245, 263, 284, 473, 489
CviQI	GTAC	3 cut(s)	78, 231, 529
DdeI	CTNAG	2 cut(s)	315, 513
DpnI	GATC	2 cut(s)	19, 102
DpnII	GATC	2 cut(s)	17, 100
Eam1104I	CTCTTC	3 cut(s)	396, 462, 531
EarI	CTCTTC	3 cut(s)	396, 462, 531
Eco130I	CCWWGG	1 cut(s)	255
Eco24I	GRGCYC	1 cut(s)	74
Eco47I	GGWCC	1 cut(s)	266
EcoT14I	CCWWGG	1 cut(s)	255
EcoT38I	GRGCYC	1 cut(s)	74
ErhI	CCWWGG	1 cut(s)	255
FaeI	CATG	2 cut(s)	107, 521
FatI	CATG	2 cut(s)	103, 517
FauI	CCCGC	1 cut(s)	404
FbaI	TGATCA	1 cut(s)	100
FblI	GTMKAC	1 cut(s)	302
Fnu4HI	GCNGC	1 cut(s)	282
FokI	GGATG	1 cut(s)	320
FriOI	GRGCYC	1 cut(s)	74
Fsp4HI	GCNGC	1 cut(s)	282
FspBI	CTAG	1 cut(s)	234
GluI	GCNGC	1 cut(s)	282
HapII	CCGG	2 cut(s)	264, 350
Hin1II	CATG	2 cut(s)	107, 521
HincII	GTYRAC	1 cut(s)	303
HindII	GTYRAC	1 cut(s)	303
HinfI	GANTC	3 cut(s)	431, 509, 545
HpaII	CCGG	2 cut(s)	264, 350
HphI	GGTGA	1 cut(s)	581
Hpy166II	GTNNAC	1 cut(s)	303
Hpy188I	TCNGA	8 cut(s)	11, 91, 112, 124, 273, 325, 514, 602
Hpy188III	TCNNGA	2 cut(s)	220, 476
Hpy8I	GTNNAC	1 cut(s)	303
Hpy99I	CGWCG	1 cut(s)	307
HpyAV	CCTTC	4 cut(s)	44, 160, 323, 416
HpyCH4III	ACNGT	2 cut(s)	177, 187
HpyCH4V	TGCA	4 cut(s)	205, 347, 455, 557
HpyF3I	CTNAG	2 cut(s)	315, 513
Hsp92II	CATG	2 cut(s)	107, 521
Ksp22I	TGATCA	1 cut(s)	100
Kzo9I	GATC	2 cut(s)	17, 100
LpnPI	CCDG	5 cut(s)	69, 259, 277, 363, 539
Lsp1109I	GCAGC	1 cut(s)	293
LweI	GCATC	1 cut(s)	124
MaeI	CTAG	1 cut(s)	234
MalI	GATC	2 cut(s)	19, 102
MboI	GATC	2 cut(s)	17, 100
MboII	GAAGA	4 cut(s)	413, 431, 479, 548
MhlI	GDGCHC	2 cut(s)	74, 585
MluCI	AATT	1 cut(s)	502
MlyI	GAGTC	3 cut(s)	440, 518, 554
MmeI	TCCRAC	1 cut(s)	396
MnlI	CCTC	7 cut(s)	21, 61, 163, 279, 397, 463, 532
MseI	TTAA	1 cut(s)	158
MslI	CAYNNNNRTG	1 cut(s)	588
MspI	CCGG	2 cut(s)	264, 350
Mva1269I	GAATGC	1 cut(s)	5
NdeII	GATC	2 cut(s)	17, 100
NlaIII	CATG	2 cut(s)	107, 521
NmeAIII	GCCGAG	1 cut(s)	163
NspV	TTCGAA	1 cut(s)	374
PctI	GAATGC	1 cut(s)	5
PkrI	GCNGC	1 cut(s)	283
PleI	GAGTC	3 cut(s)	439, 517, 553
PpsI	GAGTC	3 cut(s)	439, 517, 553
PspPI	GGNCC	1 cut(s)	266
RsaI	GTAC	3 cut(s)	79, 232, 530
RsaNI	GTAC	3 cut(s)	78, 231, 529
RseI	CAYNNNNRTG	1 cut(s)	588
SalI	GTCGAC	1 cut(s)	301
SaqAI	TTAA	1 cut(s)	158
SatI	GCNGC	1 cut(s)	282
Sau3AI	GATC	2 cut(s)	17, 100
Sau96I	GGNCC	1 cut(s)	266
ScaI	AGTACT	1 cut(s)	232
SchI	GAGTC	3 cut(s)	440, 518, 554
SduI	GDGCHC	2 cut(s)	74, 585
SetI	ASST	5 cut(s)	46, 55, 61, 156, 427
SfaNI	GCATC	1 cut(s)	124
SfuI	TTCGAA	1 cut(s)	374
SinI	GGWCC	1 cut(s)	266
SmiMI	CAYNNNNRTG	1 cut(s)	588
SmlI	CTYRAG	2 cut(s)	73, 474
SmoI	CTYRAG	2 cut(s)	73, 474
Sse9I	AATT	1 cut(s)	502
SsiI	CCGC	1 cut(s)	411
SspMI	CTAG	1 cut(s)	234
StyI	CCWWGG	1 cut(s)	255
TaaI	ACNGT	2 cut(s)	177, 187
TaqI	TCGA	4 cut(s)	26, 219, 302, 374
TasI	AATT	1 cut(s)	502
TatI	WGTACW	3 cut(s)	77, 230, 528
Tru1I	TTAA	1 cut(s)	158
Tru9I	TTAA	1 cut(s)	158
TscAI	CASTG	2 cut(s)	180, 457
TseI	GCWGC	1 cut(s)	281
TspDTI	ATGAA	4 cut(s)	63, 414, 534, 549
TspGWI	ACGGA	3 cut(s)	320, 382, 495
TspRI	CASTG	2 cut(s)	180, 457
VpaK11BI	GGWCC	1 cut(s)	266
XmiI	GTMKAC	1 cut(s)	302
XspI	CTAG	1 cut(s)	234
ZrmI	AGTACT	1 cut(s)	232

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