Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0013689

Physical Location & Seq

Genomic Coordinates Reverse (-)

1070558 .. 1071588

Gene Structure 1031 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00218810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 810 bp

ATGTATTGCCACGAATGCCGCTTTCAAACAGATGTGGTGTTCGACCACTCCACCGGCGACGTAGTGCTTGAGTCCCACTACGTAGACGAGACCAACGAGTGGCGAACCTTCGCCGACGACAATAGTCACGACGACCCTAACCGTGTTGGTGCTGCAGCCAACCCACTATTGCCCGGTGGCGGACTGTCCACCGTCATGGCCAAGCCCAACGGAGAGGTCCTCCGTGCTCCGAATAGGGATCCGGACCGGGGCTTGATAATGGCCTTCAAAACCATCGAGACCATGTGTGATAGGTTGGGCCTTGTTTCAACCATCAAGAACCGGGCAAATGAGATGTACAAGACTCTTGAAGACCATAAGTGTAGCAAGGGAAGAAACCAAGATGCATTATTGGCTGCTTGCCTATACATTGCTTGCAAACAAGAAGACAAGCCCAGAACTCTCAAGGAAATCTTCTCCGTCGCGAAGGGAGCCTCAAAGAAAGAGATTGGTAGAGCAAAGGAATACATAATCAAGCAACTGGGGTTAATGGAGAAGCCATTTCAAGTAGCAAATGCTGGGGACTATATGAGGCGATTCTGTTCCTCTCTTGGCTTGAACAACCAAGCAATCAAAGCAGCTCAACAAGCTGTGCACAAGTCGCAAGAATTTGATATAAGGAGGAGCCCTGTATCGATAGCCGCAGCAGTGATTTACATCATCACTCAGCTTTCAGATGATGGTAAAAAGAAGCCTCTCAAAGATATCGCAAACTTTACTGTGGTTTTGCTTGTGACTTGTGAGGCACCTCTTTGTGGTGCTTACTGCTAG

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

ko03022 ko05169 ko05203 map03022 map05169 map05203

Pfam Domains

Protein Families

TFIIB TF_Zn_Ribbon

Protein Analysis

269

Amino Acids

29.83

Weight (kDa)

7.98

Isoelectric Point (pI)

38.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIB	PF00382	83 - 165	1.2e-20	Transcription factor TFIIB repeat
TFIIB	PF00382	183 - 255	2.2e-07	Transcription factor TFIIB repeat

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013689)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g39300
rosa_chinensis	RchiOBHm_Chr7g0241511 RchiOBHm_Chr7g0241691
rosa_laevigata	RLG00000000553 RLG00000000574
rosa_multiflora	Rmu_co8351453.1_g000001 Rmu_sc0002268.1_g000006 Rmu_sc0026340.1_g000001
rosa_roxburghii	Rroxscaffold_3G00218810
rosa_rugosa	Rorug03G0267400 Rorug07G0344500 Rorug07G0346400
rosa_samantha	Rh7AG500900 Rh7BG469700 Rh7BG472100 Rh7CG517300 Rh7DG485800
rosa_wichuraiana	Rw7G042320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	784
AccB7I	CCANNNNNTGG	1 cut(s)	99
AccI	GTMKAC	1 cut(s)	84
AccII	CGCG	1 cut(s)	464
AccIII	TCCGGA	1 cut(s)	241
AciI	CCGC	3 cut(s)	19, 180, 681
AclWI	GGATC	2 cut(s)	233, 246
AcoI	YGGCCR	1 cut(s)	198
AcsI	RAATTY	1 cut(s)	647
AfaI	GTAC	1 cut(s)	338
AfiI	CCNNNNNNNGG	4 cut(s)	99, 179, 248, 794
AgsI	TTSAA	6 cut(s)	26, 268, 309, 350, 545, 598
AluBI	AGCT	3 cut(s)	620, 629, 709
AluI	AGCT	3 cut(s)	620, 629, 709
Alw21I	GWGCWC	2 cut(s)	229, 636
Alw26I	GTCTC	2 cut(s)	83, 272
Alw44I	GTGCAC	1 cut(s)	632
AlwI	GGATC	2 cut(s)	233, 246
Aor13HI	TCCGGA	1 cut(s)	241
AoxI	GGCC	3 cut(s)	198, 261, 298
ApaLI	GTGCAC	1 cut(s)	632
ApeKI	GCWGC	5 cut(s)	152, 155, 395, 617, 683
ApoI	RAATTY	1 cut(s)	647
AspS9I	GGNCC	3 cut(s)	217, 244, 298
AsuC2I	CCSGG	3 cut(s)	174, 248, 323
AvaII	GGWCC	2 cut(s)	217, 244
BaeGI	GKGCMC	1 cut(s)	636
BalI	TGGCCA	1 cut(s)	200
BamHI	GGATCC	1 cut(s)	238
BanI	GGYRCC	1 cut(s)	784
BanII	GRGCYC	1 cut(s)	668
BbsI	GAAGAC	2 cut(s)	357, 432
Bbv12I	GWGCWC	2 cut(s)	229, 636
BbvI	GCAGC	5 cut(s)	139, 167, 382, 629, 695
BccI	CCATC	3 cut(s)	281, 320, 713
BcnI	CCSGG	3 cut(s)	174, 248, 323
BcoDI	GTCTC	2 cut(s)	83, 272
BfaI	CTAG	1 cut(s)	808
BfmI	CTRYAG	1 cut(s)	153
BisI	GCNGC	7 cut(s)	19, 153, 156, 396, 618, 681, 684
BlsI	GCNGC	7 cut(s)	20, 154, 157, 397, 619, 682, 685
Bme1390I	CCNGG	3 cut(s)	174, 248, 323
Bme18I	GGWCC	2 cut(s)	217, 244
BmgT120I	GGNCC	3 cut(s)	217, 244, 298
BmiI	GGNNCC	4 cut(s)	240, 472, 665, 786
BmrFI	CCNGG	3 cut(s)	174, 248, 323
BmrI	ACTGGG	1 cut(s)	530
BmsI	GCATC	1 cut(s)	373
BmuI	ACTGGG	1 cut(s)	530
BoxI	GACNNNNGTC	1 cut(s)	123
BpiI	GAAGAC	2 cut(s)	357, 432
BplI	GAGNNNNNCTC	2 cut(s)	204, 236
BpuEI	CTTGAG	2 cut(s)	89, 428
BpuMI	CCSGG	3 cut(s)	174, 248, 323
Bsa29I	ATCGAT	1 cut(s)	674
BsaAI	YACGTR	1 cut(s)	82
BsaBI	GATNNNNATC	1 cut(s)	695
BsaI	GGTCTC	2 cut(s)	83, 272
BsaJI	CCNNGG	1 cut(s)	247
BsaWI	WCCGGW	1 cut(s)	241
Bsc4I	CCNNNNNNNGG	4 cut(s)	99, 179, 248, 794
Bse118I	RCCGGY	1 cut(s)	53
Bse1I	ACTGG	1 cut(s)	525
Bse3DI	GCAATG	1 cut(s)	408
Bse8I	GATNNNNATC	1 cut(s)	695
BseAI	TCCGGA	1 cut(s)	241
BseCI	ATCGAT	1 cut(s)	674
BseDI	CCNNGG	1 cut(s)	247
BseJI	GATNNNNATC	1 cut(s)	695
BseLI	CCNNNNNNNGG	4 cut(s)	99, 179, 248, 794
BseMI	GCAATG	1 cut(s)	408
BseMII	CTCAG	1 cut(s)	719
BseNI	ACTGG	1 cut(s)	525
BseRI	GAGGAG	1 cut(s)	676
BseSI	GKGCMC	1 cut(s)	636
BseXI	GCAGC	5 cut(s)	139, 167, 382, 629, 695
BseYI	CCCAGC	1 cut(s)	557
Bsh1236I	CGCG	1 cut(s)	464
BshFI	GGCC	3 cut(s)	200, 263, 300
BshNI	GGYRCC	1 cut(s)	784
BshVI	ATCGAT	1 cut(s)	674
BsiHKAI	GWGCWC	2 cut(s)	229, 636
BsiSI	CCGG	5 cut(s)	54, 174, 242, 247, 322
BslFI	GGGAC	2 cut(s)	58, 575
BslI	CCNNNNNNNGG	4 cut(s)	99, 179, 248, 794
BsmAI	GTCTC	2 cut(s)	83, 272
BsmFI	GGGAC	2 cut(s)	58, 575
BsmI	GAATGC	1 cut(s)	20
BsnI	GGCC	3 cut(s)	200, 263, 300
Bso31I	GGTCTC	2 cut(s)	83, 272
Bsp1286I	GDGCHC	3 cut(s)	229, 636, 668
Bsp13I	TCCGGA	1 cut(s)	241
Bsp1407I	TGTACA	1 cut(s)	336
Bsp143I	GATC	1 cut(s)	238
Bsp68I	TCGCGA	1 cut(s)	464
BspACI	CCGC	3 cut(s)	19, 180, 681
BspANI	GGCC	3 cut(s)	200, 263, 300
BspCNI	CTCAG	1 cut(s)	718
BspDI	ATCGAT	1 cut(s)	674
BspEI	TCCGGA	1 cut(s)	241
BspFNI	CGCG	1 cut(s)	464
BspLI	GGNNCC	4 cut(s)	240, 472, 665, 786
BspMAI	CTGCAG	1 cut(s)	157
BspPI	GGATC	2 cut(s)	233, 246
BspT107I	GGYRCC	1 cut(s)	784
BspTNI	GGTCTC	2 cut(s)	83, 272
BsrDI	GCAATG	1 cut(s)	408
BsrFI	RCCGGY	1 cut(s)	53
BsrGI	TGTACA	1 cut(s)	336
BsrI	ACTGG	1 cut(s)	525
BssAI	RCCGGY	1 cut(s)	53
BssECI	CCNNGG	1 cut(s)	247
BssMI	GATC	1 cut(s)	238
Bst4CI	ACNGT	4 cut(s)	143, 186, 193, 760
BstAUI	TGTACA	1 cut(s)	336
BstBAI	YACGTR	1 cut(s)	82
BstC8I	GCNNGC	2 cut(s)	400, 415
BstDEI	CTNAG	1 cut(s)	705
BstFNI	CGCG	1 cut(s)	464
BstKTI	GATC	1 cut(s)	241
BstMAI	GTCTC	2 cut(s)	83, 272
BstMBI	GATC	1 cut(s)	238
BstMWI	GCNNNNNNNGC	6 cut(s)	15, 392, 470, 614, 626, 640
BstPAI	GACNNNNGTC	1 cut(s)	123
BstSCI	CCNGG	3 cut(s)	172, 246, 321
BstSFI	CTRYAG	1 cut(s)	153
BstSLI	GKGCMC	1 cut(s)	636
BstSNI	TACGTA	1 cut(s)	82
BstUI	CGCG	1 cut(s)	464
BstV1I	GCAGC	5 cut(s)	139, 167, 382, 629, 695
BstV2I	GAAGAC	2 cut(s)	357, 432
BstX2I	RGATCY	1 cut(s)	238
BstXI	CCANNNNNNTGG	1 cut(s)	196
BstYI	RGATCY	1 cut(s)	238
Bsu15I	ATCGAT	1 cut(s)	674
BsuRI	GGCC	3 cut(s)	200, 263, 300
BsuTUI	ATCGAT	1 cut(s)	674
BtsI	GCAGTG	1 cut(s)	693
BtsIMutI	CAGTG	1 cut(s)	693
BtuMI	TCGCGA	1 cut(s)	464
Cac8I	GCNNGC	2 cut(s)	400, 415
Cfr10I	RCCGGY	1 cut(s)	53
Cfr13I	GGNCC	3 cut(s)	217, 244, 298
ClaI	ATCGAT	1 cut(s)	674
CpoI	CGGWCCG	1 cut(s)	244
Csp6I	GTAC	1 cut(s)	337
CspI	CGGWCCG	1 cut(s)	244
CviAII	CATG	2 cut(s)	196, 283
CviQI	GTAC	1 cut(s)	337
DdeI	CTNAG	1 cut(s)	705
DpnI	GATC	1 cut(s)	240
DpnII	GATC	1 cut(s)	238
EaeI	YGGCCR	1 cut(s)	198
EciI	GGCGGA	1 cut(s)	195
Eco105I	TACGTA	1 cut(s)	82
Eco24I	GRGCYC	1 cut(s)	668
Eco31I	GGTCTC	2 cut(s)	83, 272
Eco32I	GATATC	1 cut(s)	745
Eco47I	GGWCC	2 cut(s)	217, 244
EcoO109I	RGGNCCY	1 cut(s)	217
EcoRV	GATATC	1 cut(s)	745
EcoT22I	ATGCAT	1 cut(s)	388
EcoT38I	GRGCYC	1 cut(s)	668
FaeI	CATG	2 cut(s)	199, 286
FaiI	YATR	8 cut(s)	197, 284, 357, 406, 509, 567, 569, 656
FalI	AAGNNNNNCTT	2 cut(s)	437, 469
FaqI	GGGAC	2 cut(s)	58, 575
FatI	CATG	2 cut(s)	195, 282
FblI	GTMKAC	1 cut(s)	84
Fnu4HI	GCNGC	7 cut(s)	19, 153, 156, 396, 618, 681, 684
FriOI	GRGCYC	1 cut(s)	668
Fsp4HI	GCNGC	7 cut(s)	19, 153, 156, 396, 618, 681, 684
FspBI	CTAG	1 cut(s)	808
GluI	GCNGC	7 cut(s)	19, 153, 156, 396, 618, 681, 684
GsaI	CCCAGC	1 cut(s)	561
HaeIII	GGCC	3 cut(s)	200, 263, 300
HapII	CCGG	5 cut(s)	54, 174, 242, 247, 322
Hin1II	CATG	2 cut(s)	199, 286
HinfI	GANTC	3 cut(s)	71, 343, 576
HpaII	CCGG	5 cut(s)	54, 174, 242, 247, 322
Hpy166II	GTNNAC	3 cut(s)	85, 189, 634
Hpy188I	TCNGA	2 cut(s)	231, 715
Hpy188III	TCNNGA	6 cut(s)	128, 242, 277, 316, 347, 463
Hpy8I	GTNNAC	3 cut(s)	85, 189, 634
Hpy99I	CGWCG	4 cut(s)	62, 119, 134, 464
HpyAV	CCTTC	3 cut(s)	118, 274, 460
HpyCH4III	ACNGT	4 cut(s)	143, 186, 193, 760
HpyCH4IV	ACGT	2 cut(s)	60, 81
HpyCH4V	TGCA	4 cut(s)	155, 386, 417, 634
HpyF10VI	GCNNNNNNNGC	6 cut(s)	15, 392, 470, 614, 626, 640
HpyF3I	CTNAG	1 cut(s)	705
HpySE526I	ACGT	2 cut(s)	60, 81
Hsp92II	CATG	2 cut(s)	199, 286
Kpn2I	TCCGGA	1 cut(s)	241
Kzo9I	GATC	1 cut(s)	238
LmnI	GCTCC	3 cut(s)	232, 470, 663
LpnPI	CCDG	9 cut(s)	67, 187, 255, 260, 335, 448, 506, 543, 681
Lsp1109I	GCAGC	5 cut(s)	139, 167, 382, 629, 695
LweI	GCATC	1 cut(s)	373
MaeI	CTAG	1 cut(s)	808
MaeII	ACGT	2 cut(s)	60, 81
MaeIII	GTNAC	2 cut(s)	125, 772
MalI	GATC	1 cut(s)	240
MboI	GATC	1 cut(s)	238
MboII	GAAGA	4 cut(s)	362, 384, 437, 445
MflI	RGATCY	1 cut(s)	238
MhlI	GDGCHC	3 cut(s)	229, 636, 668
MlsI	TGGCCA	1 cut(s)	200
MluCI	AATT	1 cut(s)	647
MluNI	TGGCCA	1 cut(s)	200
MlyI	GAGTC	2 cut(s)	80, 337
MnlI	CCTC	9 cut(s)	208, 230, 484, 564, 595, 654, 744, 775, 798
Mox20I	TGGCCA	1 cut(s)	200
Mph1103I	ATGCAT	1 cut(s)	388
MroI	TCCGGA	1 cut(s)	241
MscI	TGGCCA	1 cut(s)	200
MseI	TTAA	1 cut(s)	527
MslI	CAYNNNNRTG	1 cut(s)	194
Msp20I	TGGCCA	1 cut(s)	200
MspI	CCGG	5 cut(s)	54, 174, 242, 247, 322
MspR9I	CCNGG	3 cut(s)	174, 248, 323
Mva1269I	GAATGC	1 cut(s)	20
MvnI	CGCG	1 cut(s)	464
MwoI	GCNNNNNNNGC	6 cut(s)	15, 392, 470, 614, 626, 640
NciI	CCSGG	3 cut(s)	174, 248, 323
NdeII	GATC	1 cut(s)	238
NlaIII	CATG	2 cut(s)	199, 286
NlaIV	GGNNCC	4 cut(s)	240, 472, 665, 786
NmuCI	GTSAC	2 cut(s)	125, 772
NruI	TCGCGA	1 cut(s)	464
NsiI	ATGCAT	1 cut(s)	388
PcsI	WCGNNNNNNNCGW	1 cut(s)	93
PctI	GAATGC	1 cut(s)	20
PfeI	GAWTC	1 cut(s)	576
PflMI	CCANNNNNTGG	1 cut(s)	99
PkrI	GCNGC	7 cut(s)	20, 154, 157, 397, 619, 682, 685
PleI	GAGTC	2 cut(s)	79, 337
PpsI	GAGTC	2 cut(s)	79, 337
Ppu21I	YACGTR	1 cut(s)	82
PpuMI	RGGWCCY	1 cut(s)	217
PshAI	GACNNNNGTC	1 cut(s)	123
Psp5II	RGGWCCY	1 cut(s)	217
PspFI	CCCAGC	1 cut(s)	557
PspN4I	GGNNCC	4 cut(s)	240, 472, 665, 786
PspPI	GGNCC	3 cut(s)	217, 244, 298
PspPPI	RGGWCCY	1 cut(s)	217
PstI	CTGCAG	1 cut(s)	157
PsuI	RGATCY	1 cut(s)	238
RruI	TCGCGA	1 cut(s)	464
RsaI	GTAC	1 cut(s)	338
RsaNI	GTAC	1 cut(s)	337
RseI	CAYNNNNRTG	1 cut(s)	194
Rsr2I	CGGWCCG	1 cut(s)	244
RsrII	CGGWCCG	1 cut(s)	244
SaqAI	TTAA	1 cut(s)	527
SatI	GCNGC	7 cut(s)	19, 153, 156, 396, 618, 681, 684
Sau3AI	GATC	1 cut(s)	238
Sau96I	GGNCC	3 cut(s)	217, 244, 298
SchI	GAGTC	2 cut(s)	80, 337
ScrFI	CCNGG	3 cut(s)	174, 248, 323
SduI	GDGCHC	3 cut(s)	229, 636, 668
SetI	ASST	9 cut(s)	63, 84, 110, 219, 296, 622, 631, 711, 790
SfaNI	GCATC	1 cut(s)	373
SfcI	CTRYAG	1 cut(s)	153
SgrAI	CRCCGGYG	1 cut(s)	53
SinI	GGWCC	2 cut(s)	217, 244
SmiMI	CAYNNNNRTG	1 cut(s)	194
SmlI	CTYRAG	2 cut(s)	68, 443
SmoI	CTYRAG	2 cut(s)	68, 443
SnaBI	TACGTA	1 cut(s)	82
Sse9I	AATT	1 cut(s)	647
SsiI	CCGC	3 cut(s)	19, 180, 681
SspMI	CTAG	1 cut(s)	808
StyD4I	CCNGG	3 cut(s)	172, 246, 321
TaaI	ACNGT	4 cut(s)	143, 186, 193, 760
TaiI	ACGT	2 cut(s)	63, 84
TaqI	TCGA	3 cut(s)	42, 276, 674
TasI	AATT	1 cut(s)	647
TatI	WGTACW	1 cut(s)	336
TauI	GCSGC	2 cut(s)	21, 683
TfiI	GAWTC	1 cut(s)	576
Tru1I	TTAA	1 cut(s)	527
Tru9I	TTAA	1 cut(s)	527
TscAI	CASTG	1 cut(s)	693
TseFI	GTSAC	2 cut(s)	125, 772
TseI	GCWGC	5 cut(s)	152, 155, 395, 617, 683
Tsp45I	GTSAC	2 cut(s)	125, 772
TspGWI	ACGGA	3 cut(s)	212, 225, 448
TspRI	CASTG	1 cut(s)	693
Van91I	CCANNNNNTGG	1 cut(s)	99
VneI	GTGCAC	1 cut(s)	632
VpaK11BI	GGWCC	2 cut(s)	217, 244
XapI	RAATTY	1 cut(s)	647
XmiI	GTMKAC	1 cut(s)	84
XspI	CTAG	1 cut(s)	808
Zsp2I	ATGCAT	1 cut(s)	388

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