Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0005906

Physical Location & Seq

Genomic Coordinates Forward (+)

4548239 .. 4550297

Gene Structure 2059 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G005490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1305 bp

ATGGCTTCAACAACTGAACCCAAAGGAGAAATCCAAGAAGTATCTGAAGATGTTTCTACTGAAACTCTCAAATACAAGACTTGGGTATTGAAGGTCTCCATTCACTGTGGTGCTTGCAGCAAGAAGGTCACCAAAATCTTGAAGAAAATTGATGGGGTTTACATTACAAGGGTCGACTATTTGCAGCAAAAAGTGACGGTCATTGGGAATGTGGAGGCTGAAACTTTGATCAAGACACTGACCAAGAAAACAACGAAACACGTTGAGTTGTTGTGGCCTGACCCGAAAGACAATTCCAAAGACAAGAAACAGAGTAAACCCAAAGGCAATGAGAAACAGAGTGAAGTCTCCGAGGAAGCAAAAGCAAACCACGGCGGCGGCGGCGGAGATAAGAAAAAGGGTAAAGAGCCGGTGAAGGATGAAGTTGTTGACGTGCAAGAGTCTGGTGGGGGTAAGAAGAACTTTGAAGTTGGTAGTTCTAGCAATAGTAAAGGTGTTGAGGAAGGTAATGTTGTTAAACCACATGAGGGTGGCGGCGGTGGTGGGGAAGGAAAATTAAAGGAGGCACAGACTGGCAGCTTGCCCAGCCAGTCACAGCCGGCGGCGGCTGAAAAGCAAAGTGGGGGTGTTGAGAGTGAAGCTGTGGGGGAGAAAAGTGGAGGTGGTGCTGGCAATGGCAATGGTGGTGGGGGTGGGGGTAAAAAGAAAAAGGGCAAGGGGCAGAACGGGAATCACAATGTCAATGCTGCTGAAGGTGAACTGGTTGTCAATGCACCAAGCACCGGTTCACCACCGGTTCAGCCCGGGCCTCAGCCTCAGCCTCAGCCTCATGGGCCGCCTAATGTTCAGAGCCAAGTGCCCAATGTGCAGAGGCCTGTTCCAGTTCCAGCCTCTCATGGCCCGCCACCTCAGCAGCAGGTGTATGAGCACCCGTACTACCCAAGGCAGCAGCAGCAGTATGAGCATCCTTACCCAAGGCAGCAGCACTATGAGCACCCTTACCCAATGCAGCAGCAACAGCACTTTACTCCCGTGCATGCGATGAACTACAATGCAGCACACCCCAGCATTAGCTACGGTGCGGCTCGCTATGCTCCACAACCTGTTTATTCTCAGTCGCACACTTATGCAAATTGGAGTTTGGGGAATGAGGTTGATCCACCAGCCTATGATTTGGACAACCTTCCGCCTGCGCCGCCGTTCCATCCTCCACAGGCCTATCCACCACATCCTTACAACTCATCTGATTCCGATACCTATGCATTCTTCAGTGATGAAAATCCAAATGGGTGCGGTATCATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006810 GO:0006811 GO:0006812 GO:0006873 GO:0006875 GO:0008150 GO:0009987 GO:0019725 GO:0030001 GO:0030003 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: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

434

Amino Acids

46.53

Weight (kDa)

6.79

Isoelectric Point (pI)

50.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMA	PF00403	30 - 82	4.3e-11	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: OG0005906)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g09921 FvH4_6g06500
malus_domestica	MD04G1201300.v1.1 MD12G1213700.v1.1
prunus_persica	Prupe.6G321400_v2.0.a1 Prupe.6G321400_v2.0.a1
pyrus_communis	pycom04g17730 pycom12g19960
rosa_chinensis	RchiOBHm_Chr3g0455651
rosa_laevigata	RLG00000000137 RLG00000000144 RLG00000000152 RLG00000000192 RLG00000000428 RLG00000000490 RLG00000025343
rosa_multiflora	Rmu_sc0002883.1_g000006
rosa_roxburghii	Rroxscaffold_6G00423630 Rroxscaffold_6G00424130
rosa_rugosa	Rorug03G0009000
rosa_samantha	Rh3AG068500 Rh3BG071000 Rh3CG069300 Rh3DG070900 Rh5BG485600 Rh6CG178600 Rh6DG170400
rosa_wichuraiana	Rw3G005490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	907
Acc36I	ACCTGC	1 cut(s)	907
AccI	GTMKAC	1 cut(s)	174
AclWI	GGATC	1 cut(s)	1151
AcuI	CTGAAG	3 cut(s)	66, 771, 1252
AfaI	GTAC	1 cut(s)	935
AfiI	CCNNNNNNNGG	2 cut(s)	527, 782
AflIII	ACRYGT	1 cut(s)	259
AgeI	ACCGGT	2 cut(s)	782, 793
AgsI	TTSAA	4 cut(s)	9, 91, 142, 467
AjiI	CACGTC	1 cut(s)	433
AjuI	GAANNNNNNNTTGG	2 cut(s)	769, 801
AleI	CACNNNNGTG	1 cut(s)	108
AluBI	AGCT	3 cut(s)	579, 641, 1074
AluI	AGCT	3 cut(s)	579, 641, 1074
Alw21I	GWGCWC	2 cut(s)	930, 996
Alw26I	GTCTC	2 cut(s)	100, 352
AlwI	GGATC	1 cut(s)	1151
Ama87I	CYCGRG	1 cut(s)	803
AoxI	GGCC	6 cut(s)	275, 806, 833, 872, 898, 1215
AsiGI	ACCGGT	2 cut(s)	782, 793
AspLEI	GCGC	1 cut(s)	1195
AspS9I	GGNCC	3 cut(s)	806, 833, 899
AsuC2I	CCSGG	2 cut(s)	804, 805
AsuHPI	GGTGA	4 cut(s)	121, 424, 767, 780
AvaI	CYCGRG	1 cut(s)	803
BaeGI	GKGCMC	1 cut(s)	861
Bbv12I	GWGCWC	2 cut(s)	930, 996
BbvCI	CCTCAGC	4 cut(s)	810, 816, 822, 909
BccI	CCATC	2 cut(s)	146, 1212
BceAI	ACGGC	2 cut(s)	388, 1183
BcgI	CGANNNNNNTGC	2 cut(s)	1241, 1275
BclI	TGATCA	1 cut(s)	228
BcnI	CCSGG	2 cut(s)	804, 805
BcoDI	GTCTC	2 cut(s)	100, 352
BfaI	CTAG	1 cut(s)	480
BfuAI	ACCTGC	1 cut(s)	907
BglI	GCCNNNNNGGC	1 cut(s)	832
Bme1390I	CCNGG	2 cut(s)	804, 805
BmeT110I	CYCGRG	1 cut(s)	803
BmgBI	CACGTC	1 cut(s)	433
BmgT120I	GGNCC	3 cut(s)	806, 833, 899
BmrFI	CCNGG	2 cut(s)	804, 805
BmsI	GCATC	1 cut(s)	973
Bpu10I	CCTNAGC	4 cut(s)	810, 816, 822, 909
BpuMI	CCSGG	2 cut(s)	804, 805
BsaBI	GATNNNNATC	1 cut(s)	1278
BsaI	GGTCTC	1 cut(s)	100
BsaJI	CCNNGG	5 cut(s)	351, 370, 803, 941, 974
BsaWI	WCCGGW	2 cut(s)	782, 793
Bsc4I	CCNNNNNNNGG	2 cut(s)	527, 782
Bse118I	RCCGGY	4 cut(s)	409, 598, 782, 793
Bse1I	ACTGG	4 cut(s)	577, 589, 765, 881
Bse3DI	GCAATG	3 cut(s)	334, 679, 685
Bse8I	GATNNNNATC	1 cut(s)	1278
BseDI	CCNNGG	5 cut(s)	351, 370, 803, 941, 974
BseGI	GGATG	4 cut(s)	424, 964, 1204, 1228
BseJI	GATNNNNATC	1 cut(s)	1278
BseLI	CCNNNNNNNGG	2 cut(s)	527, 782
BseMI	GCAATG	3 cut(s)	334, 679, 685
BseMII	CTCAG	5 cut(s)	824, 830, 836, 923, 1127
BseNI	ACTGG	4 cut(s)	577, 589, 765, 881
BseSI	GKGCMC	1 cut(s)	861
BseYI	CCCAGC	2 cut(s)	584, 1064
BsgI	GTGCAG	1 cut(s)	887
BshFI	GGCC	6 cut(s)	277, 808, 835, 874, 900, 1217
BshTI	ACCGGT	2 cut(s)	782, 793
BsiHKAI	GWGCWC	2 cut(s)	930, 996
BsiHKCI	CYCGRG	1 cut(s)	803
BsiSI	CCGG	5 cut(s)	410, 599, 783, 794, 804
BslI	CCNNNNNNNGG	2 cut(s)	527, 782
BsmAI	GTCTC	2 cut(s)	100, 352
BsmI	GAATGC	1 cut(s)	1262
BsnI	GGCC	6 cut(s)	277, 808, 835, 874, 900, 1217
Bso31I	GGTCTC	1 cut(s)	100
BsoBI	CYCGRG	1 cut(s)	803
Bsp1286I	GDGCHC	3 cut(s)	861, 930, 996
Bsp143I	GATC	2 cut(s)	228, 1156
BspANI	GGCC	6 cut(s)	277, 808, 835, 874, 900, 1217
BspCNI	CTCAG	5 cut(s)	823, 829, 835, 922, 1126
BspMI	ACCTGC	1 cut(s)	907
BspPI	GGATC	1 cut(s)	1151
BspTNI	GGTCTC	1 cut(s)	100
BsrDI	GCAATG	3 cut(s)	334, 679, 685
BsrFI	RCCGGY	4 cut(s)	409, 598, 782, 793
BsrI	ACTGG	4 cut(s)	577, 589, 765, 881
BssAI	RCCGGY	4 cut(s)	409, 598, 782, 793
BssECI	CCNNGG	5 cut(s)	351, 370, 803, 941, 974
BssMI	GATC	2 cut(s)	228, 1156
BssT1I	CCWWGG	2 cut(s)	941, 974
Bst4CI	ACNGT	3 cut(s)	107, 199, 1079
BstC8I	GCNNGC	8 cut(s)	115, 581, 600, 670, 902, 1038, 1087, 1191
BstDEI	CTNAG	5 cut(s)	810, 816, 822, 909, 1113
BstDSI	CCRYGG	1 cut(s)	370
BstEII	GGTNACC	1 cut(s)	127
BstF5I	GGATG	4 cut(s)	424, 964, 1204, 1228
BstHHI	GCGC	1 cut(s)	1195
BstKTI	GATC	2 cut(s)	231, 1159
BstMAI	GTCTC	2 cut(s)	100, 352
BstMBI	GATC	2 cut(s)	228, 1156
BstNSI	RCATGY	1 cut(s)	1040
BstPI	GGTNACC	1 cut(s)	127
BstSCI	CCNGG	2 cut(s)	802, 803
BstSLI	GKGCMC	1 cut(s)	861
BsuRI	GGCC	6 cut(s)	277, 808, 835, 874, 900, 1217
BtgI	CCRYGG	1 cut(s)	370
BtgZI	GCGATG	1 cut(s)	1055
BtrI	CACGTC	1 cut(s)	433
BtsCI	GGATG	4 cut(s)	424, 964, 1204, 1228
BtsIMutI	CAGTG	3 cut(s)	103, 236, 1276
BveI	ACCTGC	1 cut(s)	907
Cac8I	GCNNGC	8 cut(s)	115, 581, 600, 670, 902, 1038, 1087, 1191
CfoI	GCGC	1 cut(s)	1195
Cfr10I	RCCGGY	4 cut(s)	409, 598, 782, 793
Cfr13I	GGNCC	3 cut(s)	806, 833, 899
Cfr9I	CCCGGG	1 cut(s)	803
Csp6I	GTAC	1 cut(s)	934
CspAI	ACCGGT	2 cut(s)	782, 793
CspCI	CAANNNNNGTGG	2 cut(s)	667, 702
CviAII	CATG	5 cut(s)	524, 830, 896, 1037, 1300
CviQI	GTAC	1 cut(s)	934
DdeI	CTNAG	5 cut(s)	810, 816, 822, 909, 1113
DpnI	GATC	2 cut(s)	230, 1158
DpnII	GATC	2 cut(s)	228, 1156
EciI	GGCGGA	2 cut(s)	399, 1176
Eco130I	CCWWGG	2 cut(s)	941, 974
Eco147I	AGGCCT	2 cut(s)	874, 1217
Eco31I	GGTCTC	1 cut(s)	100
Eco57I	CTGAAG	3 cut(s)	66, 771, 1252
Eco88I	CYCGRG	1 cut(s)	803
Eco91I	GGTNACC	1 cut(s)	127
EcoO65I	GGTNACC	1 cut(s)	127
EcoT14I	CCWWGG	2 cut(s)	941, 974
EcoT22I	ATGCAT	1 cut(s)	1264
ErhI	CCWWGG	2 cut(s)	941, 974
FaeI	CATG	5 cut(s)	527, 833, 899, 1040, 1303
FalI	AAGNNNNNCTT	2 cut(s)	446, 478
FatI	CATG	5 cut(s)	523, 829, 895, 1036, 1299
FauI	CCCGC	1 cut(s)	909
FbaI	TGATCA	1 cut(s)	228
FblI	GTMKAC	1 cut(s)	174
FokI	GGATG	4 cut(s)	431, 951, 1191, 1215
FspBI	CTAG	1 cut(s)	480
GlaI	GCGC	1 cut(s)	1194
GsaI	CCCAGC	2 cut(s)	588, 1068
HaeIII	GGCC	6 cut(s)	277, 808, 835, 874, 900, 1217
HapII	CCGG	5 cut(s)	410, 599, 783, 794, 804
HhaI	GCGC	1 cut(s)	1195
Hin1II	CATG	5 cut(s)	527, 833, 899, 1040, 1303
Hin6I	GCGC	1 cut(s)	1193
HinP1I	GCGC	1 cut(s)	1193
HincII	GTYRAC	2 cut(s)	175, 430
HindII	GTYRAC	2 cut(s)	175, 430
HinfI	GANTC	3 cut(s)	440, 730, 1247
HpaII	CCGG	5 cut(s)	410, 599, 783, 794, 804
HphI	GGTGA	4 cut(s)	121, 424, 767, 780
Hpy166II	GTNNAC	6 cut(s)	160, 175, 317, 430, 758, 788
Hpy188I	TCNGA	5 cut(s)	46, 352, 849, 1246, 1252
Hpy188III	TCNNGA	2 cut(s)	139, 232
Hpy8I	GTNNAC	6 cut(s)	160, 175, 317, 430, 758, 788
HpyAV	CCTTC	7 cut(s)	85, 118, 409, 497, 542, 746, 1193
HpyCH4III	ACNGT	3 cut(s)	107, 199, 1079
HpyCH4IV	ACGT	2 cut(s)	261, 432
HpyF3I	CTNAG	5 cut(s)	810, 816, 822, 909, 1113
HpySE526I	ACGT	2 cut(s)	261, 432
Hsp92II	CATG	5 cut(s)	527, 833, 899, 1040, 1303
HspAI	GCGC	1 cut(s)	1193
KroI	GCCGGC	1 cut(s)	598
KroNI	GCCGGC	1 cut(s)	600
Ksp22I	TGATCA	1 cut(s)	228
Kzo9I	GATC	2 cut(s)	228, 1156
LmnI	GCTCC	1 cut(s)	1099
LweI	GCATC	1 cut(s)	973
MaeI	CTAG	1 cut(s)	480
MaeII	ACGT	2 cut(s)	261, 432
MaeIII	GTNAC	3 cut(s)	127, 193, 591
MalI	GATC	2 cut(s)	230, 1158
MboI	GATC	2 cut(s)	228, 1156
MboII	GAAGA	4 cut(s)	59, 154, 469, 1258
MhlI	GDGCHC	3 cut(s)	861, 930, 996
MluCI	AATT	4 cut(s)	147, 292, 554, 1132
MlyI	GAGTC	1 cut(s)	449
Mph1103I	ATGCAT	1 cut(s)	1264
MroNI	GCCGGC	1 cut(s)	598
MseI	TTAA	2 cut(s)	516, 557
MslI	CAYNNNNRTG	3 cut(s)	108, 528, 1125
MspI	CCGG	5 cut(s)	410, 599, 783, 794, 804
MspR9I	CCNGG	2 cut(s)	804, 805
Mva1269I	GAATGC	1 cut(s)	1262
NaeI	GCCGGC	1 cut(s)	600
NciI	CCSGG	2 cut(s)	804, 805
NdeII	GATC	2 cut(s)	228, 1156
NgoMIV	GCCGGC	1 cut(s)	598
NlaIII	CATG	5 cut(s)	527, 833, 899, 1040, 1303
NmuCI	GTSAC	3 cut(s)	127, 193, 591
NsiI	ATGCAT	1 cut(s)	1264
NspI	RCATGY	1 cut(s)	1040
OliI	CACNNNNGTG	1 cut(s)	108
PaeI	GCATGC	1 cut(s)	1040
PaqCI	CACCTGC	1 cut(s)	907
PceI	AGGCCT	2 cut(s)	874, 1217
PctI	GAATGC	1 cut(s)	1262
PdiI	GCCGGC	1 cut(s)	600
PfeI	GAWTC	2 cut(s)	730, 1247
PinAI	ACCGGT	2 cut(s)	782, 793
PleI	GAGTC	1 cut(s)	448
PpsI	GAGTC	1 cut(s)	448
PspEI	GGTNACC	1 cut(s)	127
PspFI	CCCAGC	2 cut(s)	584, 1064
PspPI	GGNCC	3 cut(s)	806, 833, 899
RsaI	GTAC	1 cut(s)	935
RsaNI	GTAC	1 cut(s)	934
RseI	CAYNNNNRTG	3 cut(s)	108, 528, 1125
SalI	GTCGAC	1 cut(s)	173
SaqAI	TTAA	2 cut(s)	516, 557
Sau3AI	GATC	2 cut(s)	228, 1156
Sau96I	GGNCC	3 cut(s)	806, 833, 899
SchI	GAGTC	1 cut(s)	449
ScrFI	CCNGG	2 cut(s)	804, 805
SduI	GDGCHC	3 cut(s)	861, 930, 996
SfaNI	GCATC	1 cut(s)	973
SmaI	CCCGGG	1 cut(s)	805
SmiMI	CAYNNNNRTG	3 cut(s)	108, 528, 1125
SphI	GCATGC	1 cut(s)	1040
SrfI	GCCCGGGC	1 cut(s)	805
Sse9I	AATT	4 cut(s)	147, 292, 554, 1132
SseBI	AGGCCT	2 cut(s)	874, 1217
SspMI	CTAG	1 cut(s)	480
StuI	AGGCCT	2 cut(s)	874, 1217
StyD4I	CCNGG	2 cut(s)	802, 803
StyI	CCWWGG	2 cut(s)	941, 974
TaaI	ACNGT	3 cut(s)	107, 199, 1079
TaiI	ACGT	2 cut(s)	264, 435
TaqI	TCGA	1 cut(s)	174
TasI	AATT	4 cut(s)	147, 292, 554, 1132
TauI	GCSGC	9 cut(s)	378, 381, 384, 537, 605, 608, 838, 1085, 1198
TfiI	GAWTC	2 cut(s)	730, 1247
Tru1I	TTAA	2 cut(s)	516, 557
Tru9I	TTAA	2 cut(s)	516, 557
TscAI	CASTG	3 cut(s)	110, 243, 1276
TseFI	GTSAC	3 cut(s)	127, 193, 591
Tsp45I	GTSAC	3 cut(s)	127, 193, 591
TspDTI	ATGAA	3 cut(s)	435, 1058, 1290
TspMI	CCCGGG	1 cut(s)	803
TspRI	CASTG	3 cut(s)	110, 243, 1276
XceI	RCATGY	1 cut(s)	1040
XmaI	CCCGGG	1 cut(s)	803
XmiI	GTMKAC	1 cut(s)	174
XspI	CTAG	1 cut(s)	480
Zsp2I	ATGCAT	1 cut(s)	1264

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