Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0000261

Physical Location & Seq

Genomic Coordinates Reverse (-)

58033547 .. 58034965

Gene Structure 1419 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00040370.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGGAAAGTGGTGATGAAAATACAGAGCAAGGGAAGTCAAGACGTGTATGGACCAGCTTTGAAGAAGAGTCTTTGTTGAATGTTCTTGACGGAATTATGCTGGAGGACAACGCTGTGACACTGCAGTTTCAAATCTGGTACTTTAATCAAAATAGAGAATGCTTTAAATCTTTTATGTCCCAATTCCAATCGAAGGCAAGTCCACATATTGAGTCAAAGTTGAAGAAACTTAAGAAAGATTATAGCATAATCTATGACATGATGAACAAGAGTGGATTTGCATGGAATGATATCAAAAAGTGCATTGAAGTTGATAGTAATGAAGTATGGGATACGTATTTGCAGCACAACAAAAAGGCAAAGGGATGGAGAAACAAGAAGTATCCATTATTTGATAGACTAGCTACCATCTTTGGGAGTGACCGTGCTACCGGAAATGGGGCTGAGGTCCCTGCTGATATGTTGGAGGAGCGAGCAACAATGAAGATGACATCGGCATTGAGAATGACACAAGCCCCATGTCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000012 GO:0003674 GO:0003824 GO:0003909 GO:0003910 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006266 GO:0006271 GO:0006273 GO:0006281 GO:0006302 GO:0006304 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016874 GO:0016886 GO:0022616 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0034645 GO:0035510 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0044728 GO:0046483 GO:0050896 GO:0051103 GO:0051716 GO:0070013 GO:0070988 GO:0071704 GO:0080111 GO:0090304 GO:0140097 GO:1901360 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03030 ko03410 ko03420 ko03430 map03030 map03410 map03420 map03430

Pfam Domains

Protein Families

DNA_ligase_A_C DNA_ligase_A_M DNA_ligase_A_N

Protein Analysis

175

Amino Acids

20.38

Weight (kDa)

6.75

Isoelectric Point (pI)

51.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-bind_3	PF12776	17 - 113	3.5e-08	Myb/SANT-like DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: OG0000261)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g18411 FvH4_1g22560 FvH4_1g24290 FvH4_1g24290 FvH4_1g24290 FvH4_1g29434 FvH4_2g04031 FvH4_2g04811 FvH4_2g07610 FvH4_2g09412 FvH4_3g15552 FvH4_3g30720 FvH4_4g05810 FvH4_4g09541 FvH4_4g15171 FvH4_6g09145 FvH4_6g49541 FvH4_7g00320 FvH4_7g11552
malus_domestica	MD00G1072400.v1.1 MD01G1188100.v1.1 MD07G1132000.v1.1 MD08G1190700.v1.1 MD10G1011200.v1.1 MD14G1164100.v1.1 MD15G1289200.v1.1 MD15G1289300.v1.1 MD17G1245100.v1.1
prunus_persica	Prupe.6G228600_v2.0.a1
pyrus_communis	pycom01g07070 pycom02g06890 pycom02g06900 pycom02g13930 pycom04g07470 pycom04g11770 pycom04g21930 pycom05g08520 pycom06g04490 pycom06g09560 pycom07g03750 pycom08g08760 pycom08g13660 pycom09g11520 pycom09g14250 pycom09g14770 pycom10g00720 pycom10g01290 pycom10g10480 pycom10g15700 pycom12420g00130 pycom12g05380 pycom12g08750 pycom13g19010 pycom13g29080 pycom14g06210 pycom14g13680 pycom14g19850 pycom15g22070 pycom15g23440 pycom15g24950 pycom15g25280 pycom16g11100 pycom16g17080 pycom16g26310 pycom17g15650 pycom17g15670 pycom17g20370
rosa_chinensis	RchiOBHm_Chr1g0373591 RchiOBHm_Chr2g0105551 RchiOBHm_Chr2g0106711 RchiOBHm_Chr2g0106721 RchiOBHm_Chr7g0219611
rosa_laevigata	RLG00000013773 RLG00000017436 RLG00000017533
rosa_multiflora	Rmu_co8001842.1_g000001 Rmu_co8158450.1_g000001 Rmu_sc0000516.1_g000067 Rmu_sc0000566.1_g000009 Rmu_sc0000965.1_g000025 Rmu_sc0001718.1_g000001 Rmu_sc0001719.1_g000020 Rmu_sc0001822.1_g000025 Rmu_sc0002219.1_g000003 Rmu_sc0002460.1_g000059 Rmu_sc0002757.1_g000001 Rmu_sc0002860.1_g000001 Rmu_sc0004531.1_g000001 Rmu_sc0005558.1_g000003 Rmu_sc0011218.1_g000001 Rmu_sc0011998.1_g000003 Rmu_sc0015560.1_g000002 Rmu_sc0015560.1_g000003
rosa_roxburghii	Rroxscaffold_1G00004200 Rroxscaffold_1G00026570 Rroxscaffold_1G00040370 Rroxscaffold_1G00044120 Rroxscaffold_1G00049590 Rroxscaffold_1G00059030 Rroxscaffold_2G00108440 Rroxscaffold_2G00108850 Rroxscaffold_2G00130680 Rroxscaffold_2G00132980 Rroxscaffold_2G00136860 Rroxscaffold_3G00218610 Rroxscaffold_4G00309940 Rroxscaffold_6G00405560
rosa_rugosa	Rorug02G0138000 Rorug02G0138100 Rorug02G0138100 Rorug06G0154000
rosa_samantha	Rh1AG121500 Rh1CG116300 Rh2AG189000 Rh2AG509600 Rh2BG200200 Rh2CG194100 Rh2DG195300 Rh5AG114400 Rh5DG488800
rosa_wichuraiana	Rw0G022020 Rw1G023650 Rw1G026380 Rw1G034750 Rw1G040770 Rw2G014870 Rw2G016560 Rw4G031190 Rw5G026570 Rw6G003020 Rw6G012060 Rw7G014300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AfaI	GTAC	1 cut(s)	140
AfiI	CCNNNNNNNGG	3 cut(s)	193, 414, 438
AflII	CTTAAG	1 cut(s)	230
AflIII	ACRYGT	1 cut(s)	43
AgsI	TTSAA	5 cut(s)	62, 79, 131, 223, 308
AjiI	CACGTC	1 cut(s)	44
AluBI	AGCT	2 cut(s)	57, 404
AluI	AGCT	2 cut(s)	57, 404
ApeKI	GCWGC	1 cut(s)	343
AspS9I	GGNCC	2 cut(s)	51, 448
AsuHPI	GGTGA	1 cut(s)	23
AvaII	GGWCC	2 cut(s)	51, 448
BbvCI	CCTCAGC	1 cut(s)	444
BbvI	GCAGC	1 cut(s)	355
BccI	CCATC	2 cut(s)	360, 416
BciVI	GTATCC	2 cut(s)	325, 393
BfaI	CTAG	1 cut(s)	401
BfmI	CTRYAG	1 cut(s)	122
BfrI	CTTAAG	1 cut(s)	230
BfuI	GTATCC	2 cut(s)	325, 393
BisI	GCNGC	1 cut(s)	344
BlsI	GCNGC	1 cut(s)	345
Bme18I	GGWCC	2 cut(s)	51, 448
BmgBI	CACGTC	1 cut(s)	44
BmgT120I	GGNCC	2 cut(s)	51, 448
BmiI	GGNNCC	1 cut(s)	450
BpmI	CTGGAG	1 cut(s)	122
Bpu10I	CCTNAGC	1 cut(s)	444
BsaAI	YACGTR	1 cut(s)	336
BsaWI	WCCGGW	1 cut(s)	431
BsaXI	ACNNNNNCTCC	2 cut(s)	409, 439
Bsc4I	CCNNNNNNNGG	3 cut(s)	193, 414, 438
BseGI	GGATG	1 cut(s)	371
BseLI	CCNNNNNNNGG	3 cut(s)	193, 414, 438
BseMII	CTCAG	1 cut(s)	435
BseRI	GAGGAG	1 cut(s)	482
BseXI	GCAGC	1 cut(s)	355
BsiSI	CCGG	1 cut(s)	432
BslFI	GGGAC	2 cut(s)	163, 434
BslI	CCNNNNNNNGG	3 cut(s)	193, 414, 438
BsmFI	GGGAC	2 cut(s)	163, 434
BsmI	GAATGC	1 cut(s)	164
BspCNI	CTCAG	1 cut(s)	436
BspLI	GGNNCC	1 cut(s)	450
BspMAI	CTGCAG	1 cut(s)	126
BspTI	CTTAAG	1 cut(s)	230
Bst4CI	ACNGT	1 cut(s)	425
Bst6I	CTCTTC	1 cut(s)	60
BstAFI	CTTAAG	1 cut(s)	230
BstBAI	YACGTR	1 cut(s)	336
BstC8I	GCNNGC	1 cut(s)	474
BstDEI	CTNAG	1 cut(s)	444
BstF5I	GGATG	1 cut(s)	371
BstSFI	CTRYAG	1 cut(s)	122
BstSNI	TACGTA	1 cut(s)	336
BstV1I	GCAGC	1 cut(s)	355
BsuI	GTATCC	2 cut(s)	325, 393
BtrI	CACGTC	1 cut(s)	44
BtsCI	GGATG	1 cut(s)	371
BtsI	GCAGTG	1 cut(s)	119
BtsIMutI	CAGTG	1 cut(s)	119
Cac8I	GCNNGC	1 cut(s)	474
Cfr13I	GGNCC	2 cut(s)	51, 448
Csp6I	GTAC	1 cut(s)	139
CviAII	CATG	3 cut(s)	259, 282, 519
CviJI	RGCY	4 cut(s)	57, 404, 443, 515
CviKI_1	RGCY	4 cut(s)	57, 404, 443, 515
CviQI	GTAC	1 cut(s)	139
DdeI	CTNAG	1 cut(s)	444
DraI	TTTAAA	1 cut(s)	166
Eam1104I	CTCTTC	1 cut(s)	60
EarI	CTCTTC	1 cut(s)	60
Eco105I	TACGTA	1 cut(s)	336
Eco32I	GATATC	1 cut(s)	292
Eco47I	GGWCC	2 cut(s)	51, 448
EcoO109I	RGGNCCY	1 cut(s)	448
EcoRV	GATATC	1 cut(s)	292
FaeI	CATG	3 cut(s)	262, 285, 522
FaqI	GGGAC	2 cut(s)	163, 434
FatI	CATG	3 cut(s)	258, 281, 518
Fnu4HI	GCNGC	1 cut(s)	344
FokI	GGATG	1 cut(s)	378
Fsp4HI	GCNGC	1 cut(s)	344
FspBI	CTAG	1 cut(s)	401
GluI	GCNGC	1 cut(s)	344
GsuI	CTGGAG	1 cut(s)	122
HapII	CCGG	1 cut(s)	432
Hin1II	CATG	3 cut(s)	262, 285, 522
HinfI	GANTC	2 cut(s)	68, 212
HpaII	CCGG	1 cut(s)	432
HphI	GGTGA	1 cut(s)	23
Hpy166II	GTNNAC	1 cut(s)	203
Hpy188III	TCNNGA	2 cut(s)	39, 86
Hpy8I	GTNNAC	1 cut(s)	203
HpyAV	CCTTC	1 cut(s)	187
HpyCH4III	ACNGT	1 cut(s)	425
HpyCH4IV	ACGT	2 cut(s)	43, 335
HpyCH4V	TGCA	4 cut(s)	124, 281, 303, 343
HpyF3I	CTNAG	1 cut(s)	444
HpySE526I	ACGT	2 cut(s)	43, 335
Hsp92II	CATG	3 cut(s)	262, 285, 522
LmnI	GCTCC	1 cut(s)	469
LpnPI	CCDG	5 cut(s)	67, 86, 121, 445, 465
Lsp1109I	GCAGC	1 cut(s)	355
MaeI	CTAG	1 cut(s)	401
MaeII	ACGT	2 cut(s)	43, 335
MaeIII	GTNAC	2 cut(s)	115, 419
MboII	GAAGA	4 cut(s)	74, 77, 235, 496
MluCI	AATT	2 cut(s)	93, 182
MlyI	GAGTC	2 cut(s)	77, 221
MmeI	TCCRAC	1 cut(s)	444
MnlI	CCTC	3 cut(s)	97, 439, 460
MseI	TTAA	3 cut(s)	144, 165, 231
MslI	CAYNNNNRTG	1 cut(s)	523
MspCI	CTTAAG	1 cut(s)	230
MspI	CCGG	1 cut(s)	432
Mva1269I	GAATGC	1 cut(s)	164
NlaIII	CATG	3 cut(s)	262, 285, 522
NlaIV	GGNNCC	1 cut(s)	450
NmuCI	GTSAC	2 cut(s)	115, 419
PctI	GAATGC	1 cut(s)	164
PkrI	GCNGC	1 cut(s)	345
PleI	GAGTC	2 cut(s)	76, 220
PpsI	GAGTC	2 cut(s)	76, 220
Ppu21I	YACGTR	1 cut(s)	336
PpuMI	RGGWCCY	1 cut(s)	448
Psp5II	RGGWCCY	1 cut(s)	448
PspN4I	GGNNCC	1 cut(s)	450
PspPI	GGNCC	2 cut(s)	51, 448
PspPPI	RGGWCCY	1 cut(s)	448
PstI	CTGCAG	1 cut(s)	126
RsaI	GTAC	1 cut(s)	140
RsaNI	GTAC	1 cut(s)	139
RseI	CAYNNNNRTG	1 cut(s)	523
SaqAI	TTAA	3 cut(s)	144, 165, 231
SatI	GCNGC	1 cut(s)	344
Sau96I	GGNCC	2 cut(s)	51, 448
SchI	GAGTC	2 cut(s)	77, 221
SetI	ASST	5 cut(s)	46, 59, 338, 406, 450
SfcI	CTRYAG	1 cut(s)	122
SinI	GGWCC	2 cut(s)	51, 448
SmiMI	CAYNNNNRTG	1 cut(s)	523
SmlI	CTYRAG	1 cut(s)	230
SmoI	CTYRAG	1 cut(s)	230
SnaBI	TACGTA	1 cut(s)	336
Sse9I	AATT	2 cut(s)	93, 182
SspMI	CTAG	1 cut(s)	401
TaaI	ACNGT	1 cut(s)	425
TaiI	ACGT	2 cut(s)	46, 338
TaqI	TCGA	1 cut(s)	191
TasI	AATT	2 cut(s)	93, 182
Tru1I	TTAA	3 cut(s)	144, 165, 231
Tru9I	TTAA	3 cut(s)	144, 165, 231
TscAI	CASTG	1 cut(s)	126
TseFI	GTSAC	2 cut(s)	115, 419
TseI	GCWGC	1 cut(s)	343
Tsp45I	GTSAC	2 cut(s)	115, 419
TspDTI	ATGAA	4 cut(s)	30, 278, 336, 497
TspGWI	ACGGA	1 cut(s)	105
TspRI	CASTG	1 cut(s)	126
Vha464I	CTTAAG	1 cut(s)	230
VpaK11BI	GGWCC	2 cut(s)	51, 448
XspI	CTAG	1 cut(s)	401

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