Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0009658

Physical Location & Seq

Genomic Coordinates Forward (+)

66118545 .. 66119933

Gene Structure 1389 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG437000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1389 bp

ATGGTGGGAGCCAACGTTGGTTTCAACACACCCGTTAAACCACCAAATACACGTTCCAGGAGACAAAGAACACCAGACGCACCAAAAAAAGAAATCTTGGAGCATCAGTACAAAATAGATCCTGAAGATGAAGCTGAGTACAATTTACTCTTACAAGAAATATCTCGCGGATTGTGGCTCTATGCATATTCTGTGAAACCACCAGAAACCATGCGGGCAAAACTCCGGGAATTTCGAAAGAGGTACAGTACCACCTCCTTCAAGAACGACGATCCCATCAAAGACCACAATATTATTCAGGTTGTAGACATGAGTCCATGGCAAGTAAAGTCAAAAATTGGTACATTAAGAAGAAAAGCTCGTGAAGATGACAATCGCTTCCCACTGCCATCAAGAGCCAAAAACAGTCAACATTTCAGCGACTATCTCGATTCATGGGTTCTGCTACGTGGAAAAGAATTCAAGCGCAGTTTTGGAGACACAGAGAATAGCACTGACCAAGACAAGATTACATCCAACCTTCTCGCTTTGATTTTTAAGCTCTGTACAACTGTTAAAGGCATGAAGATTCGTGAAATCTATTACACGAATACTAAGCTCTACAAAAGCCCGGCAGTAGTGCGTGAAGCTGTTAACGACATATGTTGTATGATCGGCTGCACCCGATCAAGCCTTGGTATATCTGCAGATGAAAAAGGTGTCGTTTACGGTGACATCTCTTTTGATGTGGGTGACCAGCATTATAATGGTTTTTCTGATCCAACCGGAATAACTATTCCATCAGGGATTAGATTTATTCGTAATATAAACAGTGTCGATGCACTCTTTATATTAGTTGTAGAGAAAGATACGATTTTTGAACGATTGGTGCAGGATGGGTTTTGCGACACATACCATTGCATCATAGTAACAGCAAAAGGTATGCCGGATGTGATAACTAGAGCCTTTTTGAGTCTAATAAGAAGAGAGCTAAAGCTTCCTGTGTTTGCACTTATGGACTGCAATCCACATGGATTGAAGATTTATGGTATTTACCGTTACGGGTCAAAGACCATGTCTTATGACCGTGAGAATTTAACCACACCTGATATTAAGTTGCTGGGCAAACGGTACATGTACTCGGATATTGTTAAGTATAAAATACCTGAAGCAAGTATAGAGGAGATGACTGAAGCAGATAGAAAGACTGCAGATGAATTGTTGGCACTAAAACATATGAAGGATTATCATGGTGACCTGCGATCCATGAAAGATGACAATAAAAAGATACAAATTGAAGCTTTCTATTCTCACGACATTGAATATTTCGCGGAACTTACTTTGCCCCTAATGCTTGATGAGAAACTGTCTCAGCTAAATGAAGAGTACATATTGGAATGTGAAATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 GO:0001708 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0008544 GO:0009888 GO:0009913 GO:0009957 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0030154 GO:0030855 GO:0031974 GO:0031981 GO:0032502 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045165 GO:0046483 GO:0048285 GO:0048856 GO:0048869 GO:0050896 GO:0051321 GO:0051716 GO:0060429 GO:0061505 GO:0061982 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

462

Amino Acids

53.37

Weight (kDa)

7.1

Isoelectric Point (pI)

42.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TP6A_N	PF04406	172 - 227	2.9e-13	Type IIB DNA topoisomerase
TOP6A-Spo11_Toprim	PF21180	276 - 442	1.1e-47	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

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0009658)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g33020 FvH4_3g06060
rosa_chinensis	RchiOBHm_Chr1g0379621 RchiOBHm_Chr5g0010071 RchiOBHm_Chr6g0278391
rosa_laevigata	RLG00000013233
rosa_multiflora	Rmu_sc0002080.1_g000036 Rmu_sc0022226.1_g000003
rosa_roxburghii	Rroxscaffold_4G00280000
rosa_rugosa	Rorug01G0413600 Rorug04G0449100
rosa_samantha	Rh1AG437000 Rh1AG437300 Rh1AG437400 Rh1BG393500 Rh1CG406500 Rh1DG424400 Rh5CG087500 Rh6AG229400 Rh6CG233200 Rh7CG094900 Rh7CG095000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	744
Acc36I	ACCTGC	1 cut(s)	1245
AccI	GTMKAC	1 cut(s)	306
AccII	CGCG	2 cut(s)	168, 1310
AciI	CCGC	3 cut(s)	168, 214, 1310
AclI	AACGTT	1 cut(s)	15
AclWI	GGATC	4 cut(s)	113, 266, 752, 1236
AcsI	RAATTY	3 cut(s)	230, 458, 1072
AcuI	CTGAAG	3 cut(s)	144, 1167, 1191
AfaI	GTAC	9 cut(s)	110, 140, 245, 250, 343, 547, 1112, 1118, 1367
AflIII	ACRYGT	2 cut(s)	50, 1113
AgsI	TTSAA	7 cut(s)	25, 262, 463, 860, 1018, 1277, 1301
AjnI	CCWGG	1 cut(s)	56
AjuI	GAANNNNNNNTTGG	3 cut(s)	37, 37, 69
AluBI	AGCT	9 cut(s)	134, 359, 541, 598, 629, 970, 976, 1280, 1354
AluI	AGCT	9 cut(s)	134, 359, 541, 598, 629, 970, 976, 1280, 1354
Alw26I	GTCTC	3 cut(s)	55, 471, 1353
AlwI	GGATC	4 cut(s)	113, 266, 752, 1236
ApeKI	GCWGC	1 cut(s)	657
ApoI	RAATTY	3 cut(s)	230, 458, 1072
ArsI	GACNNNNNNTTYG	4 cut(s)	704, 736, 1040, 1072
AspLEI	GCGC	1 cut(s)	468
AsuC2I	CCSGG	2 cut(s)	227, 611
AsuHPI	GGTGA	3 cut(s)	722, 743, 1244
AsuII	TTCGAA	1 cut(s)	235
BauI	CACGAG	1 cut(s)	360
BbvI	GCAGC	1 cut(s)	644
BccI	CCATC	4 cut(s)	284, 397, 787, 869
BciT130I	CCWGG	1 cut(s)	58
BcnI	CCSGG	2 cut(s)	227, 611
BcoDI	GTCTC	3 cut(s)	55, 471, 1353
BfaI	CTAG	1 cut(s)	939
BfmI	CTRYAG	2 cut(s)	684, 1188
BfuAI	ACCTGC	1 cut(s)	1245
BisI	GCNGC	1 cut(s)	658
BlsI	GCNGC	1 cut(s)	659
Bme1390I	CCNGG	3 cut(s)	58, 227, 611
BmiI	GGNNCC	1 cut(s)	10
BmrFI	CCNGG	3 cut(s)	58, 227, 611
BmsI	GCATC	3 cut(s)	112, 808, 909
BoxI	GACNNNNGTC	1 cut(s)	312
Bpu14I	TTCGAA	1 cut(s)	235
BpuMI	CCSGG	2 cut(s)	227, 611
BsaAI	YACGTR	1 cut(s)	449
BsaBI	GATNNNNATC	1 cut(s)	372
BsaJI	CCNNGG	2 cut(s)	317, 673
BsaWI	WCCGGW	1 cut(s)	764
BsaXI	ACNNNNNCTCC	3 cut(s)	30, 92, 122
Bse3DI	GCAATG	1 cut(s)	895
Bse8I	GATNNNNATC	1 cut(s)	372
BseBI	CCWGG	1 cut(s)	58
BseDI	CCNNGG	2 cut(s)	317, 673
BseGI	GGATG	3 cut(s)	512, 880, 934
BseJI	GATNNNNATC	1 cut(s)	372
BseMI	GCAATG	1 cut(s)	895
BseMII	CTCAG	2 cut(s)	126, 1364
BseRI	GAGGAG	1 cut(s)	1175
BseXI	GCAGC	1 cut(s)	644
BseYI	CCCAGC	1 cut(s)	1099
BsgI	GTGCAG	2 cut(s)	643, 890
Bsh1236I	CGCG	2 cut(s)	168, 1310
BsiSI	CCGG	4 cut(s)	226, 611, 765, 926
BsmAI	GTCTC	3 cut(s)	55, 471, 1353
Bsp119I	TTCGAA	1 cut(s)	235
Bsp1407I	TGTACA	1 cut(s)	545
Bsp143I	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
Bsp19I	CCATGG	1 cut(s)	317
BspACI	CCGC	3 cut(s)	168, 214, 1310
BspCNI	CTCAG	2 cut(s)	127, 1363
BspFNI	CGCG	2 cut(s)	168, 1310
BspLI	GGNNCC	1 cut(s)	10
BspMAI	CTGCAG	2 cut(s)	688, 1192
BspMI	ACCTGC	1 cut(s)	1245
BspPI	GGATC	4 cut(s)	113, 266, 752, 1236
BspT104I	TTCGAA	1 cut(s)	235
BsrDI	GCAATG	1 cut(s)	895
BsrGI	TGTACA	1 cut(s)	545
BssECI	CCNNGG	2 cut(s)	317, 673
BssMI	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
BssSI	CACGAG	1 cut(s)	360
BssT1I	CCWWGG	2 cut(s)	317, 673
Bst2BI	CACGAG	1 cut(s)	360
Bst2UI	CCWGG	1 cut(s)	58
Bst4CI	ACNGT	9 cut(s)	248, 407, 553, 710, 812, 1037, 1067, 1110, 1347
Bst6I	CTCTTC	2 cut(s)	958, 1356
BstAUI	TGTACA	1 cut(s)	545
BstBAI	YACGTR	1 cut(s)	449
BstBI	TTCGAA	1 cut(s)	235
BstC8I	GCNNGC	1 cut(s)	216
BstDEI	CTNAG	3 cut(s)	135, 594, 1350
BstDSI	CCRYGG	1 cut(s)	317
BstEII	GGTNACC	2 cut(s)	731, 1232
BstF5I	GGATG	3 cut(s)	512, 880, 934
BstFNI	CGCG	2 cut(s)	168, 1310
BstHHI	GCGC	1 cut(s)	468
BstKTI	GATC	6 cut(s)	121, 274, 654, 668, 760, 1244
BstMAI	GTCTC	3 cut(s)	55, 471, 1353
BstMBI	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
BstMWI	GCNNNNNNNGC	1 cut(s)	1330
BstNI	CCWGG	1 cut(s)	58
BstNSI	RCATGY	1 cut(s)	1117
BstPAI	GACNNNNGTC	1 cut(s)	312
BstPI	GGTNACC	2 cut(s)	731, 1232
BstSCI	CCNGG	3 cut(s)	56, 225, 609
BstSFI	CTRYAG	2 cut(s)	684, 1188
BstUI	CGCG	2 cut(s)	168, 1310
BstV1I	GCAGC	1 cut(s)	644
BstX2I	RGATCY	1 cut(s)	118
BstYI	RGATCY	1 cut(s)	118
BtgI	CCRYGG	1 cut(s)	317
BtsCI	GGATG	3 cut(s)	512, 880, 934
BtsI	GCAGTG	1 cut(s)	383
BtsIMutI	CAGTG	3 cut(s)	383, 492, 817
BveI	ACCTGC	1 cut(s)	1245
Cac8I	GCNNGC	1 cut(s)	216
CfoI	GCGC	1 cut(s)	468
CseI	GACGC	1 cut(s)	86
Csp6I	GTAC	9 cut(s)	109, 139, 244, 249, 342, 546, 1111, 1117, 1366
CspCI	CAANNNNNGTGG	2 cut(s)	996, 1031
CviQI	GTAC	9 cut(s)	109, 139, 244, 249, 342, 546, 1111, 1117, 1366
DdeI	CTNAG	3 cut(s)	135, 594, 1350
DpnI	GATC	6 cut(s)	120, 273, 653, 667, 759, 1243
DpnII	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
Eam1104I	CTCTTC	2 cut(s)	958, 1356
EarI	CTCTTC	2 cut(s)	958, 1356
Eco130I	CCWWGG	2 cut(s)	317, 673
Eco57I	CTGAAG	3 cut(s)	144, 1167, 1191
Eco91I	GGTNACC	2 cut(s)	731, 1232
EcoO65I	GGTNACC	2 cut(s)	731, 1232
EcoRI	GAATTC	1 cut(s)	458
EcoRII	CCWGG	1 cut(s)	56
EcoT14I	CCWWGG	2 cut(s)	317, 673
EcoT22I	ATGCAT	1 cut(s)	187
ErhI	CCWWGG	2 cut(s)	317, 673
FauI	CCCGC	1 cut(s)	207
FauNDI	CATATG	2 cut(s)	641, 1215
FblI	GTMKAC	1 cut(s)	306
Fnu4HI	GCNGC	1 cut(s)	658
FokI	GGATG	3 cut(s)	499, 887, 941
Fsp4HI	GCNGC	1 cut(s)	658
FspBI	CTAG	1 cut(s)	939
GlaI	GCGC	1 cut(s)	467
GluI	GCNGC	1 cut(s)	658
GsaI	CCCAGC	1 cut(s)	1103
HapII	CCGG	4 cut(s)	226, 611, 765, 926
HgaI	GACGC	1 cut(s)	86
HhaI	GCGC	1 cut(s)	468
Hin6I	GCGC	1 cut(s)	466
HinP1I	GCGC	1 cut(s)	466
HincII	GTYRAC	2 cut(s)	410, 634
HindII	GTYRAC	2 cut(s)	410, 634
HindIII	AAGCTT	2 cut(s)	974, 1278
HinfI	GANTC	4 cut(s)	313, 431, 568, 952
HpaI	GTTAAC	1 cut(s)	634
HpaII	CCGG	4 cut(s)	226, 611, 765, 926
HphI	GGTGA	3 cut(s)	722, 743, 1244
Hpy166II	GTNNAC	4 cut(s)	307, 410, 634, 706
Hpy188I	TCNGA	2 cut(s)	757, 1123
Hpy188III	TCNNGA	7 cut(s)	122, 262, 362, 393, 428, 572, 1292
Hpy8I	GTNNAC	4 cut(s)	307, 410, 634, 706
Hpy99I	CGWCG	1 cut(s)	272
HpyAV	CCTTC	3 cut(s)	268, 530, 1213
HpyCH4III	ACNGT	9 cut(s)	248, 407, 553, 710, 812, 1037, 1067, 1110, 1347
HpyCH4IV	ACGT	3 cut(s)	15, 52, 448
HpyCH4V	TGCA	9 cut(s)	185, 660, 686, 821, 871, 900, 989, 1002, 1190
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1330
HpyF3I	CTNAG	3 cut(s)	135, 594, 1350
HpySE526I	ACGT	3 cut(s)	15, 52, 448
HspAI	GCGC	1 cut(s)	466
KspAI	GTTAAC	1 cut(s)	634
Kzo9I	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
LmnI	GCTCC	2 cut(s)	8, 100
Lsp1109I	GCAGC	1 cut(s)	644
LweI	GCATC	3 cut(s)	112, 808, 909
MaeI	CTAG	1 cut(s)	939
MaeII	ACGT	3 cut(s)	15, 52, 448
MaeIII	GTNAC	5 cut(s)	710, 731, 907, 1037, 1232
MalI	GATC	6 cut(s)	120, 273, 653, 667, 759, 1243
MboI	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
MboII	GAAGA	7 cut(s)	137, 363, 377, 577, 975, 1030, 1373
MflI	RGATCY	1 cut(s)	118
MluCI	AATT	7 cut(s)	142, 230, 336, 458, 1072, 1196, 1272
MlyI	GAGTC	2 cut(s)	322, 961
MmeI	TCCRAC	2 cut(s)	540, 785
MnlI	CCTC	3 cut(s)	234, 265, 1153
Mph1103I	ATGCAT	1 cut(s)	187
MseI	TTAA	8 cut(s)	36, 347, 537, 555, 633, 1076, 1092, 1131
MslI	CAYNNNNRTG	1 cut(s)	744
MspI	CCGG	4 cut(s)	226, 611, 765, 926
MspR9I	CCNGG	3 cut(s)	58, 227, 611
MvaI	CCWGG	1 cut(s)	58
MvnI	CGCG	2 cut(s)	168, 1310
MwoI	GCNNNNNNNGC	1 cut(s)	1330
NciI	CCSGG	2 cut(s)	227, 611
NcoI	CCATGG	1 cut(s)	317
NdeI	CATATG	2 cut(s)	641, 1215
NdeII	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
NlaIV	GGNNCC	1 cut(s)	10
NmuCI	GTSAC	3 cut(s)	710, 731, 1232
NsiI	ATGCAT	1 cut(s)	187
NspI	RCATGY	1 cut(s)	1117
NspV	TTCGAA	1 cut(s)	235
PciI	ACATGT	1 cut(s)	1113
PfeI	GAWTC	2 cut(s)	431, 568
PflFI	GACNNNGTC	1 cut(s)	1054
PfoI	TCCNGGA	2 cut(s)	56, 225
PkrI	GCNGC	1 cut(s)	659
PleI	GAGTC	2 cut(s)	321, 960
PpsI	GAGTC	2 cut(s)	321, 960
Ppu21I	YACGTR	1 cut(s)	449
PscI	ACATGT	1 cut(s)	1113
PshAI	GACNNNNGTC	1 cut(s)	312
PsiI	TTATAA	1 cut(s)	744
Psp1406I	AACGTT	1 cut(s)	15
Psp6I	CCWGG	1 cut(s)	56
PspEI	GGTNACC	2 cut(s)	731, 1232
PspFI	CCCAGC	1 cut(s)	1099
PspGI	CCWGG	1 cut(s)	56
PspN4I	GGNNCC	1 cut(s)	10
PstI	CTGCAG	2 cut(s)	688, 1192
PsuI	RGATCY	1 cut(s)	118
PsyI	GACNNNGTC	1 cut(s)	1054
RsaI	GTAC	9 cut(s)	110, 140, 245, 250, 343, 547, 1112, 1118, 1367
RsaNI	GTAC	9 cut(s)	109, 139, 244, 249, 342, 546, 1111, 1117, 1366
RseI	CAYNNNNRTG	1 cut(s)	744
SaqAI	TTAA	8 cut(s)	36, 347, 537, 555, 633, 1076, 1092, 1131
SatI	GCNGC	1 cut(s)	658
Sau3AI	GATC	6 cut(s)	118, 271, 651, 665, 757, 1241
SchI	GAGTC	2 cut(s)	322, 961
ScrFI	CCNGG	3 cut(s)	58, 227, 611
SfaNI	GCATC	3 cut(s)	112, 808, 909
SfcI	CTRYAG	2 cut(s)	684, 1188
SfuI	TTCGAA	1 cut(s)	235
SmiMI	CAYNNNNRTG	1 cut(s)	744
Sse9I	AATT	7 cut(s)	142, 230, 336, 458, 1072, 1196, 1272
SsiI	CCGC	3 cut(s)	168, 214, 1310
SspI	AATATT	2 cut(s)	292, 1304
SspMI	CTAG	1 cut(s)	939
StyD4I	CCNGG	3 cut(s)	56, 225, 609
StyI	CCWWGG	2 cut(s)	317, 673
TaaI	ACNGT	9 cut(s)	248, 407, 553, 710, 812, 1037, 1067, 1110, 1347
TaiI	ACGT	3 cut(s)	18, 55, 451
TaqI	TCGA	3 cut(s)	235, 429, 816
TasI	AATT	7 cut(s)	142, 230, 336, 458, 1072, 1196, 1272
TatI	WGTACW	5 cut(s)	108, 138, 545, 1116, 1365
TfiI	GAWTC	2 cut(s)	431, 568
Tru1I	TTAA	8 cut(s)	36, 347, 537, 555, 633, 1076, 1092, 1131
Tru9I	TTAA	8 cut(s)	36, 347, 537, 555, 633, 1076, 1092, 1131
TscAI	CASTG	3 cut(s)	390, 499, 817
TseFI	GTSAC	3 cut(s)	710, 731, 1232
TseI	GCWGC	1 cut(s)	657
Tsp45I	GTSAC	3 cut(s)	710, 731, 1232
TspDTI	ATGAA	8 cut(s)	144, 423, 578, 705, 1209, 1232, 1262, 1374
TspRI	CASTG	3 cut(s)	390, 499, 817
Tth111I	GACNNNGTC	1 cut(s)	1054
XapI	RAATTY	3 cut(s)	230, 458, 1072
XceI	RCATGY	1 cut(s)	1117
XcmI	CCANNNNNNNNNTGG	1 cut(s)	743
XmiI	GTMKAC	1 cut(s)	306
XspI	CTAG	1 cut(s)	939
Zsp2I	ATGCAT	1 cut(s)	187

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