Rh4BG255900

Heavy-metal-associated domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0015599
Physical Location & Seq
Reverse (-)
42637134 .. 42639308
2175 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG255900.1

Sequence Viewer

Length: 912 bp
ATGCAGAAACCTCGGATTACCGAGATACATGTTCGGATGGATTGTAATGGATGTGTACAGAAGATTAAGAAAGCACTACATGGCATCAACGGTATATATGATCTCTACATTGACTTCCCTCAGCAAAAGTTAACAATAATAGGGTGGGCGGATCCAGAAAAGATAGTAAAAGCCATTAAAAAGACGAGGAAGATTGCCACCATATGTTCCCATATAGAACAACCAACAGAGCCTGCTTCTCCTCCAGCAGAACAACCCCCCGAAGGTGCCGCAGCACCACCTCCCGATGCAGCAAACCCTCCTCCAACAGAATCACCTCCACCAGCCGAACCAGCTCCACCTCCTGAAGCTGCCCCACCAGCCGAGCCACCAAAGGATCCGCCACCACCGGAACATCCACAACCAGAGGCACTACCAACACCTGTGGCTGCTGAGACCAATCTAGGCCAACAACATCCGGTGTACCACCACAGGCCAAGAGAAGTTGGGGAAGTTCATACCATATACCACCACCCACCTGATTATGGCTACAGATACGGCTACCCTAATGGCTACCCCGGCTACTATAACAGATACCATAATAGTCAAGGACCTCCACCGGAACCAACTCCTCCCCCTGCCCCGGCTCCAGCTCCGGCTCCGGCTCCAGCTCCAGCTCAAGTTCCAGTCCATACACCACCGGTCTATGTGACACATAGCTACAACACATACAGGCCATCACCTTATGTCACTGAATATGAGTATGTTCAGCCACCCCCACCACAACAGACGCATTACAGTAGGGTCAGCCAATACCACCACTACAATCAGGATCAACCGTATCACAATATCAGCAATGGAAATGGAAATGGAAATGGCAACATCACGTCGATTTTTAGCGACGAAAATCCGAATGCGTGTGCTGTAATGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HMA

Protein Analysis

303

Amino Acids

33.32

Weight (kDa)

6.07

Isoelectric Point (pI)

67.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMA PF00403 11 - 62 1.9e-12 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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Publication-ready
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Orthologous Genes (Group: OG0015599)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g18950
malus_domestica MD13G1161800.v1.1 MD16G1161600.v1.1
prunus_persica Prupe.1G129100_v2.0.a1
pyrus_communis pycom16g13700
rosa_chinensis RchiOBHm_Chr4g0423841
rosa_laevigata RLG00000007527
rosa_multiflora Rmu_sc0003369.1_g000009 Rmu_sc0008198.1_g000001
rosa_roxburghii Rroxscaffold_5G00365960
rosa_rugosa Rorug04G0191200 Rorug04G0191200
rosa_samantha Rh4AG250600 Rh4BG255900 Rh4DG250400
rosa_wichuraiana Rw4G021470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 266
AciI CCGC 3 cut(s) 149, 270, 380
AclWI GGATC 5 cut(s) 146, 159, 371, 384, 819
AcuI CTGAAG 1 cut(s) 366
AfaI GTAC 2 cut(s) 57, 464
AfiI CCNNNNNNNGG 3 cut(s) 263, 524, 622
AflIII ACRYGT 1 cut(s) 28
AgeI ACCGGT 1 cut(s) 679
AjiI CACGTC 1 cut(s) 867
AluBI AGCT 6 cut(s) 335, 350, 632, 650, 656, 699
AluI AGCT 6 cut(s) 335, 350, 632, 650, 656, 699
Alw26I GTCTC 1 cut(s) 428
AlwI GGATC 5 cut(s) 146, 159, 371, 384, 819
AlwNI CAGNNNCTG 1 cut(s) 233
AoxI GGCC 3 cut(s) 445, 473, 713
ApeKI GCWGC 4 cut(s) 272, 290, 350, 428
AsiGI ACCGGT 1 cut(s) 679
AspS9I GGNCC 1 cut(s) 590
AsuC2I CCSGG 2 cut(s) 558, 623
AsuHPI GGTGA 2 cut(s) 306, 711
AvaII GGWCC 1 cut(s) 590
BamHI GGATCC 2 cut(s) 151, 376
BanI GGYRCC 1 cut(s) 266
BbvCI CCTCAGC 1 cut(s) 120
BbvI GCAGC 4 cut(s) 284, 302, 337, 415
BccI CCATC 2 cut(s) 31, 724
BceAI ACGGC 1 cut(s) 553
BcgI CGANNNNNNTGC 1 cut(s) 27
BcnI CCSGG 2 cut(s) 558, 623
BcoDI GTCTC 1 cut(s) 428
BfaI CTAG 1 cut(s) 443
BfmI CTRYAG 1 cut(s) 529
BisI GCNGC 5 cut(s) 270, 273, 291, 351, 429
BlsI GCNGC 5 cut(s) 271, 274, 292, 352, 430
Bme1390I CCNGG 2 cut(s) 558, 623
Bme18I GGWCC 1 cut(s) 590
BmgBI CACGTC 1 cut(s) 867
BmgT120I GGNCC 1 cut(s) 590
BmiI GGNNCC 7 cut(s) 153, 268, 378, 603, 627, 639, 645
BmrFI CCNGG 2 cut(s) 558, 623
BmsI GCATC 2 cut(s) 93, 277
BpmI CTGGAG 4 cut(s) 228, 612, 630, 636
Bpu10I CCTNAGC 1 cut(s) 120
BpuEI CTTGAG 1 cut(s) 642
BpuMI CCSGG 2 cut(s) 558, 623
BsaI GGTCTC 1 cut(s) 428
BsaJI CCNNGG 3 cut(s) 11, 556, 621
BsaWI WCCGGW 4 cut(s) 388, 457, 598, 679
Bsc4I CCNNNNNNNGG 3 cut(s) 263, 524, 622
Bse118I RCCGGY 1 cut(s) 679
Bse1I ACTGG 1 cut(s) 665
Bse3DI GCAATG 1 cut(s) 841
BseDI CCNNGG 3 cut(s) 11, 556, 621
BseGI GGATG 4 cut(s) 42, 56, 394, 454
BseLI CCNNNNNNNGG 3 cut(s) 263, 524, 622
BseMI GCAATG 1 cut(s) 841
BseMII CTCAG 2 cut(s) 134, 423
BseNI ACTGG 1 cut(s) 665
BseRI GAGGAG 3 cut(s) 231, 291, 600
BseXI GCAGC 4 cut(s) 284, 302, 337, 415
BshFI GGCC 3 cut(s) 447, 475, 715
BshNI GGYRCC 1 cut(s) 266
BshTI ACCGGT 1 cut(s) 679
BsiSI CCGG 8 cut(s) 389, 458, 558, 599, 623, 635, 641, 680
BslI CCNNNNNNNGG 3 cut(s) 263, 524, 622
BsmAI GTCTC 1 cut(s) 428
BsmI GAATGC 1 cut(s) 898
BsnI GGCC 3 cut(s) 447, 475, 715
Bso31I GGTCTC 1 cut(s) 428
Bsp1407I TGTACA 1 cut(s) 55
Bsp143I GATC 4 cut(s) 100, 151, 376, 811
BspACI CCGC 3 cut(s) 149, 270, 380
BspANI GGCC 3 cut(s) 447, 475, 715
BspCNI CTCAG 2 cut(s) 133, 424
BspLI GGNNCC 7 cut(s) 153, 268, 378, 603, 627, 639, 645
BspPI GGATC 5 cut(s) 146, 159, 371, 384, 819
BspT107I GGYRCC 1 cut(s) 266
BspTNI GGTCTC 1 cut(s) 428
BsrDI GCAATG 1 cut(s) 841
BsrFI RCCGGY 1 cut(s) 679
BsrGI TGTACA 1 cut(s) 55
BsrI ACTGG 1 cut(s) 665
BssAI RCCGGY 1 cut(s) 679
BssECI CCNNGG 3 cut(s) 11, 556, 621
BssMI GATC 4 cut(s) 100, 151, 376, 811
Bst4CI ACNGT 3 cut(s) 92, 779, 819
BstAUI TGTACA 1 cut(s) 55
BstC8I GCNNGC 1 cut(s) 234
BstDEI CTNAG 2 cut(s) 120, 432
BstF5I GGATG 4 cut(s) 42, 56, 394, 454
BstKTI GATC 4 cut(s) 103, 154, 379, 814
BstMAI GTCTC 1 cut(s) 428
BstMBI GATC 4 cut(s) 100, 151, 376, 811
BstMWI GCNNNNNNNGC 3 cut(s) 332, 359, 558
BstNSI RCATGY 1 cut(s) 32
BstSCI CCNGG 2 cut(s) 556, 621
BstSFI CTRYAG 1 cut(s) 529
BstV1I GCAGC 4 cut(s) 284, 302, 337, 415
BstX2I RGATCY 2 cut(s) 151, 376
BstYI RGATCY 2 cut(s) 151, 376
BsuRI GGCC 3 cut(s) 447, 475, 715
BtrI CACGTC 1 cut(s) 867
BtsCI GGATG 4 cut(s) 42, 56, 394, 454
BtsIMutI CAGTG 1 cut(s) 729
Cac8I GCNNGC 1 cut(s) 234
CaiI CAGNNNCTG 1 cut(s) 233
Cfr10I RCCGGY 1 cut(s) 679
Cfr13I GGNCC 1 cut(s) 590
CseI GACGC 1 cut(s) 778
Csp6I GTAC 2 cut(s) 56, 463
CspAI ACCGGT 1 cut(s) 679
CspCI CAANNNNNGTGG 2 cut(s) 405, 440
CviAII CATG 2 cut(s) 29, 80
CviQI GTAC 2 cut(s) 56, 463
DdeI CTNAG 2 cut(s) 120, 432
DpnI GATC 4 cut(s) 102, 153, 378, 813
DpnII GATC 4 cut(s) 100, 151, 376, 811
EciI GGCGGA 2 cut(s) 164, 369
Eco31I GGTCTC 1 cut(s) 428
Eco47I GGWCC 1 cut(s) 590
Eco57I CTGAAG 1 cut(s) 366
EcoO109I RGGNCCY 1 cut(s) 590
FaeI CATG 2 cut(s) 32, 83
FatI CATG 2 cut(s) 28, 79
FauNDI CATATG 1 cut(s) 203
Fnu4HI GCNGC 5 cut(s) 270, 273, 291, 351, 429
FokI GGATG 4 cut(s) 49, 63, 381, 441
Fsp4HI GCNGC 5 cut(s) 270, 273, 291, 351, 429
FspBI CTAG 1 cut(s) 443
GluI GCNGC 5 cut(s) 270, 273, 291, 351, 429
GsuI CTGGAG 4 cut(s) 228, 612, 630, 636
HaeIII GGCC 3 cut(s) 447, 475, 715
HapII CCGG 8 cut(s) 389, 458, 558, 599, 623, 635, 641, 680
HgaI GACGC 1 cut(s) 778
Hin1II CATG 2 cut(s) 32, 83
HincII GTYRAC 1 cut(s) 132
HindII GTYRAC 1 cut(s) 132
HinfI GANTC 1 cut(s) 311
HpaI GTTAAC 1 cut(s) 132
HpaII CCGG 8 cut(s) 389, 458, 558, 599, 623, 635, 641, 680
HphI GGTGA 2 cut(s) 306, 711
Hpy166II GTNNAC 3 cut(s) 56, 132, 463
Hpy188I TCNGA 3 cut(s) 15, 36, 891
Hpy188III TCNNGA 4 cut(s) 155, 284, 344, 809
Hpy8I GTNNAC 3 cut(s) 56, 132, 463
Hpy99I CGWCG 2 cut(s) 871, 884
HpyAV CCTTC 1 cut(s) 257
HpyCH4III ACNGT 3 cut(s) 92, 779, 819
HpyCH4IV ACGT 1 cut(s) 866
HpyCH4V TGCA 2 cut(s) 4, 290
HpyF10VI GCNNNNNNNGC 3 cut(s) 332, 359, 558
HpyF3I CTNAG 2 cut(s) 120, 432
HpySE526I ACGT 1 cut(s) 866
Hsp92II CATG 2 cut(s) 32, 83
KspAI GTTAAC 1 cut(s) 132
Kzo9I GATC 4 cut(s) 100, 151, 376, 811
LmnI GCTCC 6 cut(s) 340, 631, 637, 643, 649, 655
Lsp1109I GCAGC 4 cut(s) 284, 302, 337, 415
LweI GCATC 2 cut(s) 93, 277
MaeI CTAG 1 cut(s) 443
MaeII ACGT 1 cut(s) 866
MaeIII GTNAC 2 cut(s) 688, 727
MalI GATC 4 cut(s) 102, 153, 378, 813
MboI GATC 4 cut(s) 100, 151, 376, 811
MboII GAAGA 2 cut(s) 73, 202
MflI RGATCY 2 cut(s) 151, 376
MmeI TCCRAC 1 cut(s) 329
MseI TTAA 3 cut(s) 66, 131, 177
MspI CCGG 8 cut(s) 389, 458, 558, 599, 623, 635, 641, 680
MspR9I CCNGG 2 cut(s) 558, 623
Mva1269I GAATGC 1 cut(s) 898
MwoI GCNNNNNNNGC 3 cut(s) 332, 359, 558
NciI CCSGG 2 cut(s) 558, 623
NdeI CATATG 1 cut(s) 203
NdeII GATC 4 cut(s) 100, 151, 376, 811
NlaIII CATG 2 cut(s) 32, 83
NlaIV GGNNCC 7 cut(s) 153, 268, 378, 603, 627, 639, 645
NmeAIII GCCGAG 1 cut(s) 388
NmuCI GTSAC 2 cut(s) 688, 727
NspI RCATGY 1 cut(s) 32
PciI ACATGT 1 cut(s) 28
PctI GAATGC 1 cut(s) 898
PfeI GAWTC 1 cut(s) 311
PinAI ACCGGT 1 cut(s) 679
PkrI GCNGC 5 cut(s) 271, 274, 292, 352, 430
PpuMI RGGWCCY 1 cut(s) 590
PscI ACATGT 1 cut(s) 28
Psp5II RGGWCCY 1 cut(s) 590
PspN4I GGNNCC 7 cut(s) 153, 268, 378, 603, 627, 639, 645
PspPI GGNCC 1 cut(s) 590
PspPPI RGGWCCY 1 cut(s) 590
PstNI CAGNNNCTG 1 cut(s) 233
PsuI RGATCY 2 cut(s) 151, 376
RsaI GTAC 2 cut(s) 57, 464
RsaNI GTAC 2 cut(s) 56, 463
SaqAI TTAA 3 cut(s) 66, 131, 177
SatI GCNGC 5 cut(s) 270, 273, 291, 351, 429
Sau3AI GATC 4 cut(s) 100, 151, 376, 811
Sau96I GGNCC 1 cut(s) 590
ScrFI CCNGG 2 cut(s) 558, 623
SfaNI GCATC 2 cut(s) 93, 277
SfcI CTRYAG 1 cut(s) 529
SinI GGWCC 1 cut(s) 590
SmlI CTYRAG 1 cut(s) 657
SmoI CTYRAG 1 cut(s) 657
SsiI CCGC 3 cut(s) 149, 270, 380
SspMI CTAG 1 cut(s) 443
StyD4I CCNGG 2 cut(s) 556, 621
TaaI ACNGT 3 cut(s) 92, 779, 819
TaiI ACGT 1 cut(s) 869
TaqI TCGA 1 cut(s) 869
TatI WGTACW 1 cut(s) 55
TauI GCSGC 1 cut(s) 272
TfiI GAWTC 1 cut(s) 311
Tru1I TTAA 3 cut(s) 66, 131, 177
Tru9I TTAA 3 cut(s) 66, 131, 177
TscAI CASTG 1 cut(s) 736
TseFI GTSAC 2 cut(s) 688, 727
TseI GCWGC 4 cut(s) 272, 290, 350, 428
Tsp45I GTSAC 2 cut(s) 688, 727
TspDTI ATGAA 1 cut(s) 485
TspRI CASTG 1 cut(s) 736
VpaK11BI GGWCC 1 cut(s) 590
XceI RCATGY 1 cut(s) 32
XspI CTAG 1 cut(s) 443
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.