Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0007986

Physical Location & Seq

Genomic Coordinates Forward (+)

3840805 .. 3843539

Gene Structure 2735 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G004400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1779 bp

ATGAATAAGCAAGACTTCATGAAGATTCAGAGCTGTGTTCTCAGAGTGAACATTCACTGTGACGGTTGTAAGCAGAAAGTTAAGAAATTGGTGCAGAAAATTGATGGTGTGTTTACTACTAGTATAGATGCAGAGCAAGGCAAAGTGACTGTCACAGGAAACGTAGATCCAGCCACAATCATCAAGAAGCTTGAAAAGTCAGGCAAACATGCAGAGCTTTGGGGAGGAGGAGGAGGACAGAAGGGTAATTCCCAAGCCCAGCAGTTCAACCCCAACCAGTTCAAGAACATGTCAATGGAGAATCATGGCAAAGGGGGAAAAGACAATGGTAGTAACAAGGCTCAGAAGAGTGGTGGTGGTGGTGGTGGAAACCAACAGAAGGGCAATAATGTCCAGCAACAAATTCAGCAGCAACAGCAGATGATGAAAGGGGCTAAGGTGATGATGCCAACGAAGGAGCAGAACAAGTCTGTTAAGTTCACTTTGCCTGCTGAGGAGGAGTTCAGTGATGGTGAGTTTGATGATGAGTTTGATGATGATGATTATGATGATGAGGAGTTTGATGATGAGGATTATGAAGATGATGAGGAAGAAGGGCTTAACCATGGTCATGGCCATGGCCATGGACATCAGTTACCACCCAACAAGATGATGATGATGCCTGGTATGGGTGCAAATGGGCCACAAGGGCCTTATGGGAAGATGATGCCTGTGATGGGTAATAATGGACATGGGCCACACGGGCCGGGTGGGATGGTCAATATGAATGCTATGGGCGGCAAGAAGTTAGGTGGTGGAGGTGGTGGTGGTGGGGGAGGAGGGTCTGTCAAGAAAGGTGAGGTTATTGATTTCCCTATGCAAGGGATGAAGGGTATGGGTGGAAATAAGGAAAAGAAGGATGGCAAGGGAGGAAAGAAAGGGGGAGGTGATGATGAGAAGGGCAAGAGCAAGAAAAAGAGCAAGGGGGGTAAAGATGGTAAAGGAGGTAAAGACAAAAGTGAGGGTAAAAAGGGTGGGTTGCTTGGGTGGCTTAGCAGAAGCACCAGTAAAAAAGAGAGTGATGGAAACCACAAGGGGGGCAAGGGAGGTAAAAAAGGTGGTGACAAGTATGATGATTTCATGGAAATTGATGTCATGAATCATAAGAAAGGAGGCAAAGAAGGTAAAGAAAGCAACAAGGAAGGCAAAGGAAGCAAAGAAGGCAAAGGAGGCAAAGGAGGCAAAGGTGGTGGTGGCAATGGTGGAGATGTTCATCAAATGGGTCAAAAGGGCCAAATGGGCCAGGCAGGTCAGATGGGGCATATGGGCCAAATGGGCAATATGGGTCAGATGGGGCAGATGAGGCCAATGGGCCAAATGGGGCGTGGAGGTCAGAATATGGGCCAGATGGGTAACTACCCAATGGGCAGTATGGGTCAGATGGGCAATGTGCCTGCAGTACAAGGACTACCTGCACCGGGGATGATGAACGGTGGCGGTGGCGGTGGCTATTATCAAGGGATGGGAAATGCCGGAAATCCCTATACTCAACAGCAGCTCCAGCAACTCCAGCAACAGCAACAACAGCTCCAGCAGCAGCAATATATGGCTATGATGATGAACCAGCAACAGCAGCAGCAAAGGGCTAATGGGAATGACATGTACCAACCCATGATGTATGCGCGGCCACAGCCACCGATGAACTACATGCCCCATCAGCCAATGCCTTCAGCAGCGCCATCTGAGCCTTACACTAACTTCTTCAGTGATGAGAATGCCAACAGTTGCAGCGTCATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005911 GO:0006810 GO:0006811 GO:0006812 GO:0006873 GO:0006875 GO:0008150 GO:0009506 GO:0009987 GO:0019725 GO:0030001 GO:0030003 GO:0030054 GO:0042592 GO:0043167 GO:0043169 GO:0044424 GO:0044464 GO:0046872 GO:0046914 GO:0046916 GO:0048878 GO:0050801 GO:0051179 GO:0051234 GO:0055044 GO:0055065 GO:0055076 GO:0055080 GO:0055082 GO:0065007 GO:0065008 GO:0098771

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HMA

Protein Analysis

592

Amino Acids

62.87

Weight (kDa)

8.99

Isoelectric Point (pI)

44.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMA	PF00403	14 - 70	8.9e-15	Heavy-metal-associated domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007986)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05220 AT3G05220
fragaria_vesca	FvH4_6g05480 FvH4_6g05480 FvH4_6g05480 FvH4_6g05480
malus_domestica	MD04G1208200.v1.1 MD12G1222200.v1.1
prunus_persica	Prupe.6G329100_v2.0.a1 Prupe.6G329100_v2.0.a1
pyrus_communis	pycom04g18420 pycom12g20840
rosa_chinensis	RchiOBHm_Chr3g0454261
rosa_laevigata	RLG00000025471
rosa_multiflora	Rmu_sc0005231.1_g000005
rosa_roxburghii	Rroxscaffold_165G00437040 Rroxscaffold_6G00425300
rosa_rugosa	Rorug02G0653600
rosa_samantha	Rh3AG057200 Rh3BG058700 Rh3CG057900 Rh3DG059200
rosa_wichuraiana	Rw0G001730 Rw3G004400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	1277, 1459
AccII	CGCG	1 cut(s)	1663
AciI	CCGC	4 cut(s)	777, 1476, 1482, 1663
AclWI	GGATC	1 cut(s)	161
AcoI	YGGCCR	3 cut(s)	613, 619, 1664
AcsI	RAATTY	1 cut(s)	402
AcuI	CTGAAG	2 cut(s)	1692, 1726
AfaI	GTAC	2 cut(s)	1440, 1643
AfiI	CCNNNNNNNGG	6 cut(s)	379, 668, 716, 860, 1075, 1457
AflIII	ACRYGT	2 cut(s)	288, 1638
AgsI	TTSAA	3 cut(s)	194, 268, 283
AhlI	ACTAGT	1 cut(s)	119
AjnI	CCWGG	2 cut(s)	661, 1281
AluBI	AGCT	5 cut(s)	33, 190, 217, 1537, 1567
AluI	AGCT	5 cut(s)	33, 190, 217, 1537, 1567
AlwI	GGATC	1 cut(s)	161
ApeKI	GCWGC	8 cut(s)	409, 1534, 1573, 1576, 1612, 1615, 1712, 1767
ApoI	RAATTY	1 cut(s)	402
ArsI	GACNNNNNNTTYG	2 cut(s)	135, 167
AspLEI	GCGC	2 cut(s)	1663, 1717
AspS9I	GGNCC	9 cut(s)	680, 689, 734, 743, 1270, 1279, 1306, 1351, 1381
AsuC2I	CCSGG	2 cut(s)	747, 1458
AsuHPI	GGTGA	5 cut(s)	451, 524, 848, 938, 1112
BalI	TGGCCA	2 cut(s)	615, 621
BbvCI	CCTCAGC	1 cut(s)	492
BbvI	GCAGC	7 cut(s)	421, 1546, 1585, 1588, 1624, 1627, 1724
BciT130I	CCWGG	2 cut(s)	663, 1283
BcnI	CCSGG	2 cut(s)	747, 1458
BcuI	ACTAGT	1 cut(s)	119
BfaI	CTAG	1 cut(s)	120
BfmI	CTRYAG	1 cut(s)	1434
BfoI	RGCGCY	1 cut(s)	1718
BfuAI	ACCTGC	2 cut(s)	1277, 1459
BglI	GCCNNNNNGGC	4 cut(s)	688, 742, 1278, 1314
BlpI	GCTNAGC	1 cut(s)	1031
Bme1390I	CCNGG	4 cut(s)	663, 747, 1283, 1458
BmgT120I	GGNCC	9 cut(s)	680, 689, 734, 743, 1270, 1279, 1306, 1351, 1381
BmrFI	CCNGG	4 cut(s)	663, 747, 1283, 1458
BmsI	GCATC	4 cut(s)	118, 435, 648, 696
BpmI	CTGGAG	3 cut(s)	1523, 1532, 1553
Bpu10I	CCTNAGC	2 cut(s)	435, 492
Bpu1102I	GCTNAGC	1 cut(s)	1031
BpuMI	CCSGG	2 cut(s)	747, 1458
BsaBI	GATNNNNATC	1 cut(s)	1251
BsaJI	CCNNGG	4 cut(s)	604, 616, 622, 1457
BsaXI	ACNNNNNCTCC	6 cut(s)	810, 840, 1521, 1551, 1551, 1581
Bsc4I	CCNNNNNNNGG	6 cut(s)	379, 668, 716, 860, 1075, 1457
Bse1I	ACTGG	2 cut(s)	277, 1044
Bse3DI	GCAATG	2 cut(s)	1243, 1432
Bse8I	GATNNNNATC	1 cut(s)	1251
BseBI	CCWGG	2 cut(s)	663, 1283
BseDI	CCNNGG	4 cut(s)	604, 616, 622, 1457
BseGI	GGATG	5 cut(s)	759, 870, 904, 1467, 1506
BseJI	GATNNNNATC	1 cut(s)	1251
BseLI	CCNNNNNNNGG	6 cut(s)	379, 668, 716, 860, 1075, 1457
BseMI	GCAATG	2 cut(s)	1243, 1432
BseMII	CTCAG	4 cut(s)	55, 356, 483, 1713
BseNI	ACTGG	2 cut(s)	277, 1044
BseRI	GAGGAG	7 cut(s)	240, 243, 246, 509, 512, 569, 831
BseXI	GCAGC	7 cut(s)	421, 1546, 1585, 1588, 1624, 1627, 1724
BseYI	CCCAGC	1 cut(s)	258
BsgI	GTGCAG	2 cut(s)	113, 1437
Bsh1236I	CGCG	1 cut(s)	1663
BsiSI	CCGG	3 cut(s)	746, 1457, 1512
BslI	CCNNNNNNNGG	6 cut(s)	379, 668, 716, 860, 1075, 1457
BsmI	GAATGC	2 cut(s)	772, 1759
Bsp143I	GATC	1 cut(s)	166
Bsp1720I	GCTNAGC	1 cut(s)	1031
Bsp19I	CCATGG	3 cut(s)	604, 616, 622
BspACI	CCGC	4 cut(s)	777, 1476, 1482, 1663
BspCNI	CTCAG	4 cut(s)	54, 355, 484, 1714
BspFNI	CGCG	1 cut(s)	1663
BspHI	TCATGA	2 cut(s)	18, 1134
BspMAI	CTGCAG	1 cut(s)	1438
BspMI	ACCTGC	2 cut(s)	1277, 1459
BspPI	GGATC	1 cut(s)	161
BsrDI	GCAATG	2 cut(s)	1243, 1432
BsrI	ACTGG	2 cut(s)	277, 1044
BssECI	CCNNGG	4 cut(s)	604, 616, 622, 1457
BssMI	GATC	1 cut(s)	166
BssT1I	CCWWGG	3 cut(s)	604, 616, 622
Bst2UI	CCWGG	2 cut(s)	663, 1283
Bst4CI	ACNGT	5 cut(s)	59, 65, 151, 1472, 1763
Bst6I	CTCTTC	1 cut(s)	341
BstC8I	GCNNGC	2 cut(s)	489, 1434
BstDEI	CTNAG	6 cut(s)	41, 342, 435, 492, 1031, 1722
BstDSI	CCRYGG	3 cut(s)	604, 616, 622
BstENI	CCTNNNNNAGG	1 cut(s)	858
BstF5I	GGATG	5 cut(s)	759, 870, 904, 1467, 1506
BstFNI	CGCG	1 cut(s)	1663
BstH2I	RGCGCY	1 cut(s)	1718
BstHHI	GCGC	2 cut(s)	1663, 1717
BstKTI	GATC	1 cut(s)	169
BstMBI	GATC	1 cut(s)	166
BstNI	CCWGG	2 cut(s)	663, 1283
BstNSI	RCATGY	4 cut(s)	212, 292, 1642, 1690
BstSCI	CCNGG	4 cut(s)	661, 745, 1281, 1456
BstSFI	CTRYAG	1 cut(s)	1434
BstUI	CGCG	1 cut(s)	1663
BstV1I	GCAGC	7 cut(s)	421, 1546, 1585, 1588, 1624, 1627, 1724
BstX2I	RGATCY	1 cut(s)	166
BstXI	CCANNNNNNTGG	2 cut(s)	611, 623
BstYI	RGATCY	1 cut(s)	166
BtgI	CCRYGG	3 cut(s)	604, 616, 622
BtsCI	GGATG	5 cut(s)	759, 870, 904, 1467, 1506
BtsIMutI	CAGTG	3 cut(s)	55, 511, 1750
BveI	ACCTGC	2 cut(s)	1277, 1459
Cac8I	GCNNGC	2 cut(s)	489, 1434
CciI	TCATGA	2 cut(s)	18, 1134
CfoI	GCGC	2 cut(s)	1663, 1717
Cfr13I	GGNCC	9 cut(s)	680, 689, 734, 743, 1270, 1279, 1306, 1351, 1381
CseI	GACGC	1 cut(s)	1759
Csp6I	GTAC	2 cut(s)	1439, 1642
CspCI	CAANNNNNGTGG	2 cut(s)	1210, 1245
CviQI	GTAC	2 cut(s)	1439, 1642
DdeI	CTNAG	6 cut(s)	41, 342, 435, 492, 1031, 1722
DpnI	GATC	1 cut(s)	168
DpnII	GATC	1 cut(s)	166
EaeI	YGGCCR	3 cut(s)	613, 619, 1664
Eam1104I	CTCTTC	1 cut(s)	341
EarI	CTCTTC	1 cut(s)	341
Eco130I	CCWWGG	3 cut(s)	604, 616, 622
Eco57I	CTGAAG	2 cut(s)	1692, 1726
EcoNI	CCTNNNNNAGG	1 cut(s)	858
EcoO109I	RGGNCCY	1 cut(s)	689
EcoRII	CCWGG	2 cut(s)	661, 1281
EcoT14I	CCWWGG	3 cut(s)	604, 616, 622
ErhI	CCWWGG	3 cut(s)	604, 616, 622
FalI	AAGNNNNNCTT	3 cut(s)	31, 582, 614
FauNDI	CATATG	1 cut(s)	1302
FokI	GGATG	5 cut(s)	766, 877, 911, 1474, 1513
FspBI	CTAG	1 cut(s)	120
GlaI	GCGC	2 cut(s)	1662, 1716
GsaI	CCCAGC	1 cut(s)	262
GsuI	CTGGAG	3 cut(s)	1523, 1532, 1553
HaeII	RGCGCY	1 cut(s)	1718
HapII	CCGG	3 cut(s)	746, 1457, 1512
HgaI	GACGC	1 cut(s)	1759
HhaI	GCGC	2 cut(s)	1663, 1717
Hin6I	GCGC	2 cut(s)	1661, 1715
HinP1I	GCGC	2 cut(s)	1661, 1715
HindIII	AAGCTT	1 cut(s)	188
HinfI	GANTC	3 cut(s)	25, 301, 1138
HpaII	CCGG	3 cut(s)	746, 1457, 1512
HphI	GGTGA	5 cut(s)	451, 524, 848, 938, 1112
Hpy166II	GTNNAC	3 cut(s)	49, 114, 480
Hpy188I	TCNGA	8 cut(s)	30, 44, 345, 1293, 1329, 1374, 1419, 1723
Hpy188III	TCNNGA	5 cut(s)	19, 184, 283, 829, 1135
Hpy8I	GTNNAC	3 cut(s)	49, 114, 480
HpyCH4III	ACNGT	5 cut(s)	59, 65, 151, 1472, 1763
HpyCH4IV	ACGT	1 cut(s)	162
HpyCH4V	TGCA	8 cut(s)	94, 131, 212, 674, 859, 1436, 1454, 1767
HpyF3I	CTNAG	6 cut(s)	41, 342, 435, 492, 1031, 1722
HpySE526I	ACGT	1 cut(s)	162
HspAI	GCGC	2 cut(s)	1661, 1715
Kzo9I	GATC	1 cut(s)	166
LmnI	GCTCC	3 cut(s)	457, 1542, 1572
Lsp1109I	GCAGC	7 cut(s)	421, 1546, 1585, 1588, 1624, 1627, 1724
LweI	GCATC	4 cut(s)	118, 435, 648, 696
MaeI	CTAG	1 cut(s)	120
MaeII	ACGT	1 cut(s)	162
MaeIII	GTNAC	7 cut(s)	59, 145, 151, 332, 633, 1100, 1391
MalI	GATC	1 cut(s)	168
MboI	GATC	1 cut(s)	166
MboII	GAAGA	6 cut(s)	34, 358, 590, 602, 712, 1732
MflI	RGATCY	1 cut(s)	166
MlsI	TGGCCA	2 cut(s)	615, 621
MluCI	AATT	5 cut(s)	86, 99, 247, 402, 1125
MluNI	TGGCCA	2 cut(s)	615, 621
Mox20I	TGGCCA	2 cut(s)	615, 621
MscI	TGGCCA	2 cut(s)	615, 621
MseI	TTAA	3 cut(s)	81, 474, 600
MslI	CAYNNNNRTG	4 cut(s)	293, 609, 615, 621
Msp20I	TGGCCA	2 cut(s)	615, 621
MspI	CCGG	3 cut(s)	746, 1457, 1512
MspR9I	CCNGG	4 cut(s)	663, 747, 1283, 1458
Mva1269I	GAATGC	2 cut(s)	772, 1759
MvaI	CCWGG	2 cut(s)	663, 1283
MvnI	CGCG	1 cut(s)	1663
NciI	CCSGG	2 cut(s)	747, 1458
NcoI	CCATGG	3 cut(s)	604, 616, 622
NdeI	CATATG	1 cut(s)	1302
NdeII	GATC	1 cut(s)	166
NmuCI	GTSAC	4 cut(s)	59, 145, 151, 1100
NspI	RCATGY	4 cut(s)	212, 292, 1642, 1690
PagI	TCATGA	2 cut(s)	18, 1134
PciI	ACATGT	2 cut(s)	288, 1638
PctI	GAATGC	2 cut(s)	772, 1759
PfeI	GAWTC	3 cut(s)	25, 301, 1138
PscI	ACATGT	2 cut(s)	288, 1638
Psp6I	CCWGG	2 cut(s)	661, 1281
PspFI	CCCAGC	1 cut(s)	258
PspGI	CCWGG	2 cut(s)	661, 1281
PspPI	GGNCC	9 cut(s)	680, 689, 734, 743, 1270, 1279, 1306, 1351, 1381
PstI	CTGCAG	1 cut(s)	1438
PsuI	RGATCY	1 cut(s)	166
RsaI	GTAC	2 cut(s)	1440, 1643
RsaNI	GTAC	2 cut(s)	1439, 1642
RseI	CAYNNNNRTG	4 cut(s)	293, 609, 615, 621
SaqAI	TTAA	3 cut(s)	81, 474, 600
Sau3AI	GATC	1 cut(s)	166
Sau96I	GGNCC	9 cut(s)	680, 689, 734, 743, 1270, 1279, 1306, 1351, 1381
ScrFI	CCNGG	4 cut(s)	663, 747, 1283, 1458
SfaNI	GCATC	4 cut(s)	118, 435, 648, 696
SfcI	CTRYAG	1 cut(s)	1434
SfiI	GGCCNNNNNGGCC	3 cut(s)	688, 742, 1278
SmiMI	CAYNNNNRTG	4 cut(s)	293, 609, 615, 621
SpeI	ACTAGT	1 cut(s)	119
Sse9I	AATT	5 cut(s)	86, 99, 247, 402, 1125
SsiI	CCGC	4 cut(s)	777, 1476, 1482, 1663
SspMI	CTAG	1 cut(s)	120
StyD4I	CCNGG	4 cut(s)	661, 745, 1281, 1456
StyI	CCWWGG	3 cut(s)	604, 616, 622
TaaI	ACNGT	5 cut(s)	59, 65, 151, 1472, 1763
TaiI	ACGT	1 cut(s)	165
TasI	AATT	5 cut(s)	86, 99, 247, 402, 1125
TatI	WGTACW	1 cut(s)	1438
TauI	GCSGC	2 cut(s)	780, 1666
TfiI	GAWTC	3 cut(s)	25, 301, 1138
Tru1I	TTAA	3 cut(s)	81, 474, 600
Tru9I	TTAA	3 cut(s)	81, 474, 600
TscAI	CASTG	3 cut(s)	62, 511, 1750
TseFI	GTSAC	4 cut(s)	59, 145, 151, 1100
TseI	GCWGC	8 cut(s)	409, 1534, 1573, 1576, 1612, 1615, 1712, 1767
Tsp45I	GTSAC	4 cut(s)	59, 145, 151, 1100
TspRI	CASTG	3 cut(s)	62, 511, 1750
XagI	CCTNNNNNAGG	1 cut(s)	858
XapI	RAATTY	1 cut(s)	402
XceI	RCATGY	4 cut(s)	212, 292, 1642, 1690
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1361
XspI	CTAG	1 cut(s)	120

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