Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0005015

Physical Location & Seq

Genomic Coordinates Forward (+)

54951711 .. 54954579

Gene Structure 2869 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0454800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1584 bp

ATGAACTGCAATCCACATGGATTGAAGATTTCTGGTATTTACCGTTTCGGGTCAAAGTCCATGTCTTATGACCGTGAGAATTTAACCACACCTGATATTAAGTTATTGGGCATACAGTACTCGGATATTGTTAAGTATAAAATACCTAAAGCAAGTATAGAGGAGATGACTAAAGTAGATAGAAATATTGTAGATGAATTGTTGGCACTAAAACATATGAAGGATTATCATGGTGACCTGCGATCCATGAAAGATGACAATAAGAAGATACAAATTGAAGCTTTCCATTCACACAACATTAAATATTTCGCGGAACTTGCCACCCTAGTAAATTCAGAAAGGATTCTAGTCGAGCAAGGGGAGCTGGTAGAGCGCATTGCAGGGAGTCAGAACAATTTCTTATTGAACACATATAAGCCTTGGTTTCTTAGTCATCGGAAAGATGATGATACTTGGATTATATGTTACGAGCGATTTGACAATCTACTTAGCGAGTGTTCTGATCATTTGGCTTTGCCTGATAATGATACTTGGAAGGATTCAGTCAGAAACTCTTTGAAGACTGTGAATTATATACATAAGCGTAAACTGTTGCGTGAGGGTTTGAGTAAGACATGTAATTACGCTTTGATTGAAGACCTGAAGACTAAAACCATAAAGATCAAAATTATTTTTGATAAGGCATGGAGTGTTGATAACTCGTTTAAGGGGACTGATGGATATCTAAACAATTCTGATTTTTATGGATTGAAGAGATTGAAAGATTGGACCGACTGTAGAGGTGTTTTTAAGGATTTTGTTTTGAAGTCTTTGGGAGAATCAGATGAGACAAATTCATTCTTGGCGTTTTTTTATTATACTGAAGGCGATTTCAGGAAGTATGATATATTTGTTAGACAACTCTTAAGTCATCCGTATTTAATGAAATCGGCCAAACGAATGAAGTATCTCATTATGTTTGATCATACATTGCTAGTAGCAAAAACGATATGTAGATATCGTGTTTTTGAAATTGCAGCAAAAGCACGATATCTACGTTTAAGGGGATGGATACCTAAACAATTCTGGTTTTTATGGATTGAAGAGATAATCTTTCAGACTATAGAGATATTGAAAGATTGGACGGACTATAGAGGTGTTCTCAAGGATTTTGTTTTGAAGTCTTTGGGAGAATCATATGAGACAAATTCATTCTTGGCGTTTGTTGATTATACTGAAGGCGTTTTCAGGACGTATGATATATTTGTTAAACAACTCTTAAGTCATCCGTATTTAATGAAAATCGGCCAAACGGATGAAAGTGTTCTCAAGGATTTTGTTTTGAAGTCTTTGGGAGAATCAGATGAGACAAATTCATTCTTGGCGTTTTTTGATTATACTGAAGGCGATTTCAGGACGTATGATATATTTGTTAGACAACTCTTAAGTCATCCGTATTTAATGAAATCGGCCAAACGAATGAAGTATCTCATTATGTTTGATCATACATTGTTAGTAGCAAAAACGCTATGTAGATATCGTACTTTTGAAATTGCAGCAGAAGGAGGTGAGTTCAAAATGTATCGAGATTGGATTGAAAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0006082 GO:0006790 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008168 GO:0008172 GO:0008757 GO:0009056 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0009987 GO:0016020 GO:0016143 GO:0016145 GO:0016740 GO:0016741 GO:0018708 GO:0019748 GO:0019757 GO:0019759 GO:0019760 GO:0019762 GO:0031967 GO:0031975 GO:0032259 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044248 GO:0044273 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0071704 GO:0071944 GO:1901135 GO:1901136 GO:1901564 GO:1901565 GO:1901575 GO:1901657 GO:1901658

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TPMT

Protein Analysis

527

Amino Acids

62.43

Weight (kDa)

8.49

Isoelectric Point (pI)

25.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	2 - 105	2.1e-19	Topoisomerase 6 subunit A/Spo11, Toprim 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)

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: OG0005015)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G43910 AT2G43910 AT2G43910 AT2G43920 AT2G43920 AT2G43920 AT2G43920 AT2G43920 AT2G43920 AT2G43940
fragaria_vesca	FvH4_1g00240 FvH4_1g00240 FvH4_1g00240
malus_domestica	MD15G1143500.v1.1
prunus_persica	Prupe.7G269600_v2.0.a1 Prupe.7G269600_v2.0.a1 Prupe.7G269600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0084541
rosa_laevigata	RLG00000015625
rosa_multiflora	Rmu_sc0009647.1_g000002
rosa_roxburghii	Rroxscaffold_2G00155980
rosa_rugosa	Rorug01G0454800 Rorug01G0454900 Rorug01G0455000 Rorug01G0455100
rosa_samantha	Rh2AG002900 Rh2BG002500 Rh2CG003000 Rh2DG003000
rosa_wichuraiana	Rw2G000260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	246
AccII	CGCG	1 cut(s)	311
AciI	CCGC	1 cut(s)	311
AclWI	GGATC	1 cut(s)	237
AcoI	YGGCCR	3 cut(s)	930, 1285, 1449
AcsI	RAATTY	5 cut(s)	79, 331, 832, 1186, 1351
AcuI	CTGAAG	4 cut(s)	662, 882, 1236, 1401
AfaI	GTAC	2 cut(s)	119, 1522
AflII	CTTAAG	3 cut(s)	904, 1258, 1423
AflIII	ACRYGT	1 cut(s)	614
AluBI	AGCT	2 cut(s)	281, 364
AluI	AGCT	2 cut(s)	281, 364
Alw26I	GTCTC	3 cut(s)	821, 1175, 1340
AlwI	GGATC	1 cut(s)	237
AoxI	GGCC	3 cut(s)	930, 1285, 1449
ApeKI	GCWGC	2 cut(s)	1016, 1535
ApoI	RAATTY	5 cut(s)	79, 331, 832, 1186, 1351
ArsI	GACNNNNNNTTYG	2 cut(s)	47, 79
Asp700I	GAANNNNTTC	3 cut(s)	342, 395, 1302
AspLEI	GCGC	1 cut(s)	375
AspS9I	GGNCC	1 cut(s)	768
AsuHPI	GGTGA	2 cut(s)	245, 1559
AvaII	GGWCC	1 cut(s)	768
BbsI	GAAGAC	3 cut(s)	566, 642, 650
BbvI	GCAGC	2 cut(s)	1028, 1547
BccI	CCATC	2 cut(s)	710, 1041
BciVI	GTATCC	1 cut(s)	1044
BclI	TGATCA	3 cut(s)	502, 961, 1480
BcoDI	GTCTC	3 cut(s)	821, 1175, 1340
BfaI	CTAG	3 cut(s)	326, 347, 974
BfmI	CTRYAG	3 cut(s)	775, 1101, 1129
BfrI	CTTAAG	3 cut(s)	904, 1258, 1423
BfuAI	ACCTGC	1 cut(s)	246
BfuI	GTATCC	1 cut(s)	1044
BisI	GCNGC	2 cut(s)	1017, 1536
BlsI	GCNGC	2 cut(s)	1018, 1537
BmcAI	AGTACT	1 cut(s)	119
Bme18I	GGWCC	1 cut(s)	768
BmgT120I	GGNCC	1 cut(s)	768
BpiI	GAAGAC	3 cut(s)	566, 642, 650
BplI	GAGNNNNNCTC	2 cut(s)	1125, 1157
BpuEI	CTTGAG	2 cut(s)	1127, 1292
BsaBI	GATNNNNATC	1 cut(s)	720
BsaJI	CCNNGG	1 cut(s)	419
Bse3DI	GCAATG	2 cut(s)	375, 968
Bse8I	GATNNNNATC	1 cut(s)	720
BseDI	CCNNGG	1 cut(s)	419
BseGI	GGATG	5 cut(s)	910, 1052, 1264, 1300, 1429
BseJI	GATNNNNATC	1 cut(s)	720
BseMI	GCAATG	2 cut(s)	375, 968
BseRI	GAGGAG	1 cut(s)	176
BseXI	GCAGC	2 cut(s)	1028, 1547
Bsh1236I	CGCG	1 cut(s)	311
BshFI	GGCC	3 cut(s)	932, 1287, 1451
BslFI	GGGAC	1 cut(s)	724
BsmAI	GTCTC	3 cut(s)	821, 1175, 1340
BsmFI	GGGAC	1 cut(s)	724
BsnI	GGCC	3 cut(s)	932, 1287, 1451
Bsp143I	GATC	5 cut(s)	242, 502, 660, 961, 1480
BspACI	CCGC	1 cut(s)	311
BspANI	GGCC	3 cut(s)	932, 1287, 1451
BspFNI	CGCG	1 cut(s)	311
BspMI	ACCTGC	1 cut(s)	246
BspPI	GGATC	1 cut(s)	237
BspTI	CTTAAG	3 cut(s)	904, 1258, 1423
BsrDI	GCAATG	2 cut(s)	375, 968
BssECI	CCNNGG	1 cut(s)	419
BssMI	GATC	5 cut(s)	242, 502, 660, 961, 1480
BssT1I	CCWWGG	1 cut(s)	419
Bst4CI	ACNGT	6 cut(s)	44, 74, 117, 565, 591, 776
Bst6I	CTCTTC	2 cut(s)	746, 1077
BstAFI	CTTAAG	3 cut(s)	904, 1258, 1423
BstDEI	CTNAG	2 cut(s)	428, 488
BstEII	GGTNACC	1 cut(s)	233
BstF5I	GGATG	5 cut(s)	910, 1052, 1264, 1300, 1429
BstFNI	CGCG	1 cut(s)	311
BstHHI	GCGC	1 cut(s)	375
BstKTI	GATC	5 cut(s)	245, 505, 663, 964, 1483
BstMAI	GTCTC	3 cut(s)	821, 1175, 1340
BstMBI	GATC	5 cut(s)	242, 502, 660, 961, 1480
BstMWI	GCNNNNNNNGC	4 cut(s)	317, 361, 370, 1022
BstNSI	RCATGY	1 cut(s)	618
BstPI	GGTNACC	1 cut(s)	233
BstSFI	CTRYAG	3 cut(s)	775, 1101, 1129
BstUI	CGCG	1 cut(s)	311
BstV1I	GCAGC	2 cut(s)	1028, 1547
BstV2I	GAAGAC	3 cut(s)	566, 642, 650
BsuI	GTATCC	1 cut(s)	1044
BsuRI	GGCC	3 cut(s)	932, 1287, 1451
BtsCI	GGATG	5 cut(s)	910, 1052, 1264, 1300, 1429
BveI	ACCTGC	1 cut(s)	246
CfoI	GCGC	1 cut(s)	375
Cfr13I	GGNCC	1 cut(s)	768
Csp6I	GTAC	2 cut(s)	118, 1521
CspCI	CAANNNNNGTGG	1 cut(s)	38
CviAII	CATG	6 cut(s)	17, 61, 230, 247, 615, 684
CviJI	RGCY	7 cut(s)	281, 364, 418, 512, 932, 1287, 1451
CviKI_1	RGCY	7 cut(s)	281, 364, 418, 512, 932, 1287, 1451
CviQI	GTAC	2 cut(s)	118, 1521
DdeI	CTNAG	2 cut(s)	428, 488
DpnI	GATC	5 cut(s)	244, 504, 662, 963, 1482
DpnII	GATC	5 cut(s)	242, 502, 660, 961, 1480
EaeI	YGGCCR	3 cut(s)	930, 1285, 1449
Eam1104I	CTCTTC	2 cut(s)	746, 1077
EarI	CTCTTC	2 cut(s)	746, 1077
Eco130I	CCWWGG	1 cut(s)	419
Eco32I	GATATC	4 cut(s)	722, 998, 1031, 1517
Eco47I	GGWCC	1 cut(s)	768
Eco57I	CTGAAG	4 cut(s)	662, 882, 1236, 1401
Eco91I	GGTNACC	1 cut(s)	233
EcoO65I	GGTNACC	1 cut(s)	233
EcoRV	GATATC	4 cut(s)	722, 998, 1031, 1517
EcoT14I	CCWWGG	1 cut(s)	419
ErhI	CCWWGG	1 cut(s)	419
FaeI	CATG	6 cut(s)	20, 64, 233, 250, 618, 687
FaqI	GGGAC	1 cut(s)	724
FatI	CATG	6 cut(s)	16, 60, 229, 246, 614, 683
FauNDI	CATATG	2 cut(s)	216, 1177
FbaI	TGATCA	3 cut(s)	502, 961, 1480
Fnu4HI	GCNGC	2 cut(s)	1017, 1536
FokI	GGATG	5 cut(s)	897, 1059, 1251, 1307, 1416
Fsp4HI	GCNGC	2 cut(s)	1017, 1536
FspBI	CTAG	3 cut(s)	326, 347, 974
GlaI	GCGC	1 cut(s)	374
GluI	GCNGC	2 cut(s)	1017, 1536
HaeIII	GGCC	3 cut(s)	932, 1287, 1451
HhaI	GCGC	1 cut(s)	375
Hin1II	CATG	6 cut(s)	20, 64, 233, 250, 618, 687
Hin6I	GCGC	1 cut(s)	373
HinP1I	GCGC	1 cut(s)	373
HindIII	AAGCTT	1 cut(s)	279
HinfI	GANTC	6 cut(s)	343, 385, 539, 818, 1172, 1337
HphI	GGTGA	2 cut(s)	245, 1559
Hpy166II	GTNNAC	1 cut(s)	587
Hpy188III	TCNNGA	4 cut(s)	874, 1228, 1393, 1565
Hpy8I	GTNNAC	1 cut(s)	587
HpyAV	CCTTC	6 cut(s)	214, 529, 857, 1211, 1376, 1535
HpyCH4III	ACNGT	6 cut(s)	44, 74, 117, 565, 591, 776
HpyCH4IV	ACGT	3 cut(s)	1036, 1232, 1397
HpyCH4V	TGCA	4 cut(s)	9, 380, 1016, 1535
HpyF10VI	GCNNNNNNNGC	4 cut(s)	317, 361, 370, 1022
HpyF3I	CTNAG	2 cut(s)	428, 488
HpySE526I	ACGT	3 cut(s)	1036, 1232, 1397
Hsp92II	CATG	6 cut(s)	20, 64, 233, 250, 618, 687
HspAI	GCGC	1 cut(s)	373
Ksp22I	TGATCA	3 cut(s)	502, 961, 1480
Kzo9I	GATC	5 cut(s)	242, 502, 660, 961, 1480
LmnI	GCTCC	1 cut(s)	361
Lsp1109I	GCAGC	2 cut(s)	1028, 1547
MaeI	CTAG	3 cut(s)	326, 347, 974
MaeII	ACGT	3 cut(s)	1036, 1232, 1397
MaeIII	GTNAC	2 cut(s)	233, 464
MalI	GATC	5 cut(s)	244, 504, 662, 963, 1482
MboI	GATC	5 cut(s)	242, 502, 660, 961, 1480
MboII	GAAGA	7 cut(s)	37, 277, 571, 647, 655, 763, 1094
MlyI	GAGTC	1 cut(s)	394
MnlI	CCTC	5 cut(s)	154, 592, 773, 1127, 1538
MroXI	GAANNNNTTC	3 cut(s)	342, 395, 1302
MspCI	CTTAAG	3 cut(s)	904, 1258, 1423
MvnI	CGCG	1 cut(s)	311
MwoI	GCNNNNNNNGC	4 cut(s)	317, 361, 370, 1022
NdeI	CATATG	2 cut(s)	216, 1177
NdeII	GATC	5 cut(s)	242, 502, 660, 961, 1480
NlaIII	CATG	6 cut(s)	20, 64, 233, 250, 618, 687
NmuCI	GTSAC	1 cut(s)	233
NspI	RCATGY	1 cut(s)	618
PciI	ACATGT	1 cut(s)	614
PcsI	WCGNNNNNNNCGW	1 cut(s)	1033
PdmI	GAANNNNTTC	3 cut(s)	342, 395, 1302
PfeI	GAWTC	5 cut(s)	343, 539, 818, 1172, 1337
PkrI	GCNGC	2 cut(s)	1018, 1537
PleI	GAGTC	1 cut(s)	393
PpsI	GAGTC	1 cut(s)	393
PscI	ACATGT	1 cut(s)	614
PspEI	GGTNACC	1 cut(s)	233
PspPI	GGNCC	1 cut(s)	768
RsaI	GTAC	2 cut(s)	119, 1522
RsaNI	GTAC	2 cut(s)	118, 1521
SatI	GCNGC	2 cut(s)	1017, 1536
Sau3AI	GATC	5 cut(s)	242, 502, 660, 961, 1480
Sau96I	GGNCC	1 cut(s)	768
ScaI	AGTACT	1 cut(s)	119
SchI	GAGTC	1 cut(s)	394
SfcI	CTRYAG	3 cut(s)	775, 1101, 1129
SinI	GGWCC	1 cut(s)	768
SmlI	CTYRAG	5 cut(s)	904, 1142, 1258, 1307, 1423
SmoI	CTYRAG	5 cut(s)	904, 1142, 1258, 1307, 1423
SsiI	CCGC	1 cut(s)	311
SspI	AATATT	2 cut(s)	187, 305
SspMI	CTAG	3 cut(s)	326, 347, 974
StyI	CCWWGG	1 cut(s)	419
TaaI	ACNGT	6 cut(s)	44, 74, 117, 565, 591, 776
TaiI	ACGT	3 cut(s)	1039, 1235, 1400
TaqI	TCGA	2 cut(s)	351, 1564
TaqII	GACCGA	1 cut(s)	785
TatI	WGTACW	1 cut(s)	117
TfiI	GAWTC	5 cut(s)	343, 539, 818, 1172, 1337
TseFI	GTSAC	1 cut(s)	233
TseI	GCWGC	2 cut(s)	1016, 1535
Tsp45I	GTSAC	1 cut(s)	233
TspGWI	ACGGA	5 cut(s)	903, 1139, 1257, 1307, 1422
Vha464I	CTTAAG	3 cut(s)	904, 1258, 1423
VpaK11BI	GGWCC	1 cut(s)	768
XapI	RAATTY	5 cut(s)	79, 331, 832, 1186, 1351
XceI	RCATGY	1 cut(s)	618
XmnI	GAANNNNTTC	3 cut(s)	342, 395, 1302
XspI	CTAG	3 cut(s)	326, 347, 974
ZrmI	AGTACT	1 cut(s)	119

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