Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004497

Physical Location & Seq

Genomic Coordinates Forward (+)

63814079 .. 63817149

Gene Structure 3071 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG402700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGCAGAAGAAGAGCGACGGCGGAGACAACAAGAAGGGCGGCGACGGCGCCGAGAAGAAGAAGGAGGACAACCCCATCACTGTGGTCTTGAAGATTGACATGCACTGTGACGGCTGCACTTCCAAAATCGTCAAAACCATCAAAGGCTTTCAAGGGGTCGACACAGTGAAGCCAGAGCTCGGAGCCCACAAGCTGACGGTGGTCGGAAAAGTGGACCCTTCAAAGCTCCGGGACCAGCTCGCCGGAAAGCTGAAGAAGAAGGTGGACCTCATCTCGCCGCAGCCCAAGAAAGAGAAAGACGACAACAGCAACAAGAAGCAGCCTGAGAAAGCAGCAAGCGACGACAAAAAACCCAAAGAGCCTCCGGTGACGACGGCGGTTCTCAAGCTCAATCTGCACTGCGAGGGTTGCATTCAGAAGATTCGCAAGACCGTCACCAAGACCAGAGGGTTCCATGACATGAGCATTGACAGAGAGAAGGAGCTGGTGACTCTGAAAGGTACGATGGACATGAAGGCGGTGGCTGACAGTCTCAAAGCGAGGCTGAAGAGGAATGTGGAGATTGTGCCACCCAAGAAGGACAACAAGAAAGAAAAGGAGAAAGGTGAAGGCGGCGGCGGCGACAATGGCGGAGGTGGCAAGAAGAAGAACAAGGAGGAAGGAGGAGAGGGTGGTAATGCTGGCGGCGGCGGAGGTGAAAAATTGGACAAGATGGATTTTCCGGTTGGTCAACCCGGGTTTGGCCAGGTTCCTCCATATGGGGTTGTTTATGGGTATGATTACCCACCACCACCAATGATCTACATGGGGAATCCTCATGCTCCTCAGATTTTCAGTGATGAGAACCCAAATGCCTGTTCAATTATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006810 GO:0006811 GO:0006812 GO:0006873 GO:0006875 GO:0008150 GO:0008270 GO:0009909 GO:0009910 GO:0009987 GO:0019725 GO:0030001 GO:0030003 GO:0031974 GO:0031981 GO:0042592 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046872 GO:0046914 GO:0046916 GO:0048519 GO:0048580 GO:0048581 GO:0048831 GO:0048878 GO:0050789 GO:0050793 GO:0050801 GO:0051093 GO:0051179 GO:0051234 GO:0051239 GO:0051241 GO:0055065 GO:0055076 GO:0055080 GO:0055082 GO:0065007 GO:0065008 GO:0070013 GO:0098771 GO:2000026 GO:2000241 GO:2000242

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HMA

Protein Analysis

289

Amino Acids

31.17

Weight (kDa)

9.28

Isoelectric Point (pI)

33.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMA	PF00403	30 - 82	3.2e-12	Heavy-metal-associated domain
HMA	PF00403	131 - 178	1.5e-07	Heavy-metal-associated 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

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Orthologous Genes (Group: OG0004497)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60800 AT5G60800
fragaria_vesca	FvH4_3g31060 FvH4_3g31060
malus_domestica	MD00G1033400.v1.1 MD00G1102700.v1.1
prunus_persica	Prupe.6G108800_v2.0.a1
pyrus_communis	pycom11g11880
rosa_chinensis	RchiOBHm_Chr5g0057721
rosa_laevigata	RLG00000035171
rosa_multiflora	Rmu_co8079862.1_g000001 Rmu_sc0001849.1_g000008 Rmu_sc0002589.1_g000039
rosa_roxburghii	Rroxscaffold_1G00022790
rosa_rugosa	Rorug05G0309100
rosa_samantha	Rh1AG058000 Rh1BG049100 Rh1BG308100 Rh1CG323700 Rh1CG323800 Rh1DG340200 Rh3BG104100 Rh4CG207800 Rh5AG192400 Rh5AG376900 Rh5BG281200 Rh5BG388400 Rh5CG412800 Rh5DG402700 Rh7AG428400
rosa_wichuraiana	Rw2G051380 Rw5G035580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	47
AccI	GTMKAC	1 cut(s)	159
AcoI	YGGCCR	1 cut(s)	742
AcuI	CTGAAG	2 cut(s)	272, 566
AcyI	GRCGYC	1 cut(s)	48
AfaI	GTAC	1 cut(s)	502
AfiI	CCNNNNNNNGG	3 cut(s)	179, 740, 758
AgsI	TTSAA	4 cut(s)	91, 152, 222, 861
AjnI	CCWGG	1 cut(s)	744
AjuI	GAANNNNNNNTTGG	1 cut(s)	841
AluBI	AGCT	7 cut(s)	178, 193, 226, 238, 250, 388, 484
AluI	AGCT	7 cut(s)	178, 193, 226, 238, 250, 388, 484
Alw21I	GWGCWC	1 cut(s)	180
Alw26I	GTCTC	2 cut(s)	18, 536
Ama87I	CYCGRG	1 cut(s)	734
AoxI	GGCC	1 cut(s)	742
ApeKI	GCWGC	4 cut(s)	114, 280, 319, 332
AspLEI	GCGC	1 cut(s)	50
AspS9I	GGNCC	3 cut(s)	214, 232, 265
AsuC2I	CCSGG	3 cut(s)	230, 735, 736
AsuHPI	GGTGA	5 cut(s)	379, 427, 499, 617, 707
AvaI	CYCGRG	1 cut(s)	734
AvaII	GGWCC	3 cut(s)	214, 232, 265
BalI	TGGCCA	1 cut(s)	744
BanI	GGYRCC	1 cut(s)	47
BanII	GRGCYC	2 cut(s)	180, 187
Bbv12I	GWGCWC	1 cut(s)	180
BbvI	GCAGC	4 cut(s)	101, 292, 331, 344
BccI	CCATC	4 cut(s)	83, 146, 499, 706
BceAI	ACGGC	4 cut(s)	34, 61, 127, 390
BciT130I	CCWGG	1 cut(s)	746
BcnI	CCSGG	3 cut(s)	230, 735, 736
BcoDI	GTCTC	2 cut(s)	18, 536
BfoI	RGCGCY	1 cut(s)	51
Bme1390I	CCNGG	4 cut(s)	230, 735, 736, 746
Bme18I	GGWCC	3 cut(s)	214, 232, 265
BmeT110I	CYCGRG	1 cut(s)	734
BmgT120I	GGNCC	3 cut(s)	214, 232, 265
BmiI	GGNNCC	6 cut(s)	49, 184, 216, 233, 452, 750
BmrFI	CCNGG	4 cut(s)	230, 735, 736, 746
BoxI	GACNNNNGTC	1 cut(s)	200
BpuEI	CTTGAG	1 cut(s)	368
BpuMI	CCSGG	3 cut(s)	230, 735, 736
BsaHI	GRCGYC	1 cut(s)	48
BsaJI	CCNNGG	1 cut(s)	734
BsaWI	WCCGGW	2 cut(s)	364, 721
Bsc4I	CCNNNNNNNGG	3 cut(s)	179, 740, 758
BseBI	CCWGG	1 cut(s)	746
BseDI	CCNNGG	1 cut(s)	734
BseLI	CCNNNNNNNGG	3 cut(s)	179, 740, 758
BseMII	CTCAG	2 cut(s)	315, 839
BseRI	GAGGAG	2 cut(s)	678, 813
BseXI	GCAGC	4 cut(s)	101, 292, 331, 344
BsgI	GTGCAG	2 cut(s)	100, 380
BshFI	GGCC	1 cut(s)	744
BshNI	GGYRCC	1 cut(s)	47
BsiHKAI	GWGCWC	1 cut(s)	180
BsiHKCI	CYCGRG	1 cut(s)	734
BsiSI	CCGG	5 cut(s)	229, 243, 365, 722, 735
BslFI	GGGAC	1 cut(s)	245
BslI	CCNNNNNNNGG	3 cut(s)	179, 740, 758
BsmAI	GTCTC	2 cut(s)	18, 536
BsmFI	GGGAC	1 cut(s)	245
BsmI	GAATGC	1 cut(s)	411
BsnI	GGCC	1 cut(s)	744
BsoBI	CYCGRG	1 cut(s)	734
Bsp1286I	GDGCHC	2 cut(s)	180, 187
Bsp143I	GATC	1 cut(s)	798
BspANI	GGCC	1 cut(s)	744
BspCNI	CTCAG	2 cut(s)	316, 838
BspLI	GGNNCC	6 cut(s)	49, 184, 216, 233, 452, 750
BspQI	GCTCTTC	1 cut(s)	5
BspT107I	GGYRCC	1 cut(s)	47
BssECI	CCNNGG	1 cut(s)	734
BssMI	GATC	1 cut(s)	798
BssNI	GRCGYC	1 cut(s)	48
Bst2UI	CCWGG	1 cut(s)	746
Bst4CI	ACNGT	6 cut(s)	82, 107, 166, 199, 433, 530
Bst6I	CTCTTC	2 cut(s)	5, 542
BstACI	GRCGYC	1 cut(s)	48
BstC8I	GCNNGC	3 cut(s)	240, 337, 682
BstDEI	CTNAG	2 cut(s)	324, 825
BstH2I	RGCGCY	1 cut(s)	51
BstHHI	GCGC	1 cut(s)	50
BstKTI	GATC	1 cut(s)	801
BstMAI	GTCTC	2 cut(s)	18, 536
BstMBI	GATC	1 cut(s)	798
BstMWI	GCNNNNNNNGC	6 cut(s)	45, 394, 408, 618, 627, 636
BstNI	CCWGG	1 cut(s)	746
BstNSI	RCATGY	1 cut(s)	103
BstPAI	GACNNNNGTC	1 cut(s)	200
BstSCI	CCNGG	4 cut(s)	228, 733, 734, 744
BstV1I	GCAGC	4 cut(s)	101, 292, 331, 344
BstXI	CCANNNNNNTGG	1 cut(s)	82
BsuRI	GGCC	1 cut(s)	744
BtsI	GCAGTG	1 cut(s)	397
BtsIMutI	CAGTG	5 cut(s)	78, 103, 171, 397, 841
Cac8I	GCNNGC	3 cut(s)	240, 337, 682
CfoI	GCGC	1 cut(s)	50
Cfr13I	GGNCC	3 cut(s)	214, 232, 265
Cfr9I	CCCGGG	1 cut(s)	734
Csp6I	GTAC	1 cut(s)	501
CviAII	CATG	6 cut(s)	100, 455, 460, 511, 805, 818
CviQI	GTAC	1 cut(s)	501
DdeI	CTNAG	2 cut(s)	324, 825
DinI	GGCGCC	1 cut(s)	49
DpnI	GATC	1 cut(s)	800
DpnII	GATC	1 cut(s)	798
EaeI	YGGCCR	1 cut(s)	742
Eam1104I	CTCTTC	2 cut(s)	5, 542
EarI	CTCTTC	2 cut(s)	5, 542
EciI	GGCGGA	3 cut(s)	36, 645, 705
Ecl136II	GAGCTC	1 cut(s)	178
Eco24I	GRGCYC	2 cut(s)	180, 187
Eco47I	GGWCC	3 cut(s)	214, 232, 265
Eco53kI	GAGCTC	1 cut(s)	178
Eco57I	CTGAAG	2 cut(s)	272, 566
Eco88I	CYCGRG	1 cut(s)	734
EcoICRI	GAGCTC	1 cut(s)	178
EcoRII	CCWGG	1 cut(s)	744
EcoT38I	GRGCYC	2 cut(s)	180, 187
EgeI	GGCGCC	1 cut(s)	49
EheI	GGCGCC	1 cut(s)	49
FaeI	CATG	6 cut(s)	103, 458, 463, 514, 808, 821
FaqI	GGGAC	1 cut(s)	245
FatI	CATG	6 cut(s)	99, 454, 459, 510, 804, 817
FauNDI	CATATG	1 cut(s)	757
FblI	GTMKAC	1 cut(s)	159
FriOI	GRGCYC	2 cut(s)	180, 187
GlaI	GCGC	1 cut(s)	49
HaeII	RGCGCY	1 cut(s)	51
HaeIII	GGCC	1 cut(s)	744
HapII	CCGG	5 cut(s)	229, 243, 365, 722, 735
HhaI	GCGC	1 cut(s)	50
Hin1I	GRCGYC	1 cut(s)	48
Hin1II	CATG	6 cut(s)	103, 458, 463, 514, 808, 821
Hin6I	GCGC	1 cut(s)	48
HinP1I	GCGC	1 cut(s)	48
HincII	GTYRAC	2 cut(s)	160, 731
HindII	GTYRAC	2 cut(s)	160, 731
HinfI	GANTC	3 cut(s)	421, 490, 811
HpaII	CCGG	5 cut(s)	229, 243, 365, 722, 735
HphI	GGTGA	5 cut(s)	379, 427, 499, 617, 707
Hpy166II	GTNNAC	4 cut(s)	160, 214, 265, 731
Hpy188I	TCNGA	5 cut(s)	182, 206, 417, 495, 828
Hpy188III	TCNNGA	1 cut(s)	88
Hpy8I	GTNNAC	4 cut(s)	160, 214, 265, 731
Hpy99I	CGWCG	4 cut(s)	20, 47, 344, 376
HpyAV	CCTTC	9 cut(s)	28, 55, 228, 253, 472, 508, 571, 602, 653
HpyCH4III	ACNGT	6 cut(s)	82, 107, 166, 199, 433, 530
HpyCH4V	TGCA	5 cut(s)	4, 103, 117, 397, 411
HpyF10VI	GCNNNNNNNGC	6 cut(s)	45, 394, 408, 618, 627, 636
HpyF3I	CTNAG	2 cut(s)	324, 825
Hsp92I	GRCGYC	1 cut(s)	48
Hsp92II	CATG	6 cut(s)	103, 458, 463, 514, 808, 821
HspAI	GCGC	1 cut(s)	48
KasI	GGCGCC	1 cut(s)	47
Kzo9I	GATC	1 cut(s)	798
LguI	GCTCTTC	1 cut(s)	5
LmnI	GCTCC	4 cut(s)	182, 231, 481, 826
Lsp1109I	GCAGC	4 cut(s)	101, 292, 331, 344
MaeIII	GTNAC	4 cut(s)	107, 367, 433, 487
MalI	GATC	1 cut(s)	800
MboI	GATC	1 cut(s)	798
MhlI	GDGCHC	2 cut(s)	180, 187
MlsI	TGGCCA	1 cut(s)	744
MluCI	AATT	2 cut(s)	701, 861
MluNI	TGGCCA	1 cut(s)	744
Mly113I	GGCGCC	1 cut(s)	48
MlyI	GAGTC	1 cut(s)	484
MmeI	TCCRAC	1 cut(s)	184
Mox20I	TGGCCA	1 cut(s)	744
MscI	TGGCCA	1 cut(s)	744
MslI	CAYNNNNRTG	1 cut(s)	80
Msp20I	TGGCCA	1 cut(s)	744
MspI	CCGG	5 cut(s)	229, 243, 365, 722, 735
MspR9I	CCNGG	4 cut(s)	230, 735, 736, 746
Mva1269I	GAATGC	1 cut(s)	411
MvaI	CCWGG	1 cut(s)	746
MwoI	GCNNNNNNNGC	6 cut(s)	45, 394, 408, 618, 627, 636
NarI	GGCGCC	1 cut(s)	48
NciI	CCSGG	3 cut(s)	230, 735, 736
NdeI	CATATG	1 cut(s)	757
NdeII	GATC	1 cut(s)	798
NlaIII	CATG	6 cut(s)	103, 458, 463, 514, 808, 821
NlaIV	GGNNCC	6 cut(s)	49, 184, 216, 233, 452, 750
NmeAIII	GCCGAG	1 cut(s)	76
NmuCI	GTSAC	4 cut(s)	107, 367, 433, 487
NspI	RCATGY	1 cut(s)	103
PciSI	GCTCTTC	1 cut(s)	5
PctI	GAATGC	1 cut(s)	411
PfeI	GAWTC	2 cut(s)	421, 811
PfoI	TCCNGGA	1 cut(s)	228
PleI	GAGTC	1 cut(s)	484
PluTI	GGCGCC	1 cut(s)	51
PpsI	GAGTC	1 cut(s)	484
PshAI	GACNNNNGTC	1 cut(s)	200
Psp124BI	GAGCTC	1 cut(s)	180
Psp6I	CCWGG	1 cut(s)	744
PspGI	CCWGG	1 cut(s)	744
PspN4I	GGNNCC	6 cut(s)	49, 184, 216, 233, 452, 750
PspPI	GGNCC	3 cut(s)	214, 232, 265
RsaI	GTAC	1 cut(s)	502
RsaNI	GTAC	1 cut(s)	501
RseI	CAYNNNNRTG	1 cut(s)	80
SacI	GAGCTC	1 cut(s)	180
SalI	GTCGAC	1 cut(s)	158
SapI	GCTCTTC	1 cut(s)	5
Sau3AI	GATC	1 cut(s)	798
Sau96I	GGNCC	3 cut(s)	214, 232, 265
SchI	GAGTC	1 cut(s)	484
ScrFI	CCNGG	4 cut(s)	230, 735, 736, 746
SduI	GDGCHC	2 cut(s)	180, 187
SfoI	GGCGCC	1 cut(s)	49
SinI	GGWCC	3 cut(s)	214, 232, 265
SmaI	CCCGGG	1 cut(s)	736
SmiMI	CAYNNNNRTG	1 cut(s)	80
SmlI	CTYRAG	1 cut(s)	383
SmoI	CTYRAG	1 cut(s)	383
Sse9I	AATT	2 cut(s)	701, 861
SspDI	GGCGCC	1 cut(s)	47
SstI	GAGCTC	1 cut(s)	180
StyD4I	CCNGG	4 cut(s)	228, 733, 734, 744
TaaI	ACNGT	6 cut(s)	82, 107, 166, 199, 433, 530
TaqI	TCGA	1 cut(s)	159
TasI	AATT	2 cut(s)	701, 861
TauI	GCSGC	7 cut(s)	42, 280, 615, 618, 621, 687, 690
TfiI	GAWTC	2 cut(s)	421, 811
TscAI	CASTG	5 cut(s)	85, 110, 171, 404, 841
TseFI	GTSAC	4 cut(s)	107, 367, 433, 487
TseI	GCWGC	4 cut(s)	114, 280, 319, 332
Tsp45I	GTSAC	4 cut(s)	107, 367, 433, 487
TspDTI	ATGAA	1 cut(s)	527
TspMI	CCCGGG	1 cut(s)	734
TspRI	CASTG	5 cut(s)	85, 110, 171, 404, 841
VpaK11BI	GGWCC	3 cut(s)	214, 232, 265
XceI	RCATGY	1 cut(s)	103
XmaI	CCCGGG	1 cut(s)	734
XmiI	GTMKAC	1 cut(s)	159

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