Rroxscaffold_4G00311900

Heavy-metal-associated domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0013188
Physical Location & Seq
Reverse (-)
34524710 .. 34526162
1453 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00311900.1

Sequence Viewer

Length: 756 bp
ATGGCAGCAAAAGAAGAAGCTAAGGGGAAAGATCGGAAAGACGACAAAGCAAAAGATGAAAAGAAAGCCAAGGAGAAAGATGGAGTAATCACTGCTGTTTATAAGGTTAACCTGCACTGCCCAGAGTGTGCGCGTGAGATCAAGAAGCCTCTTATTGCTACCCAAGGGGTTCACAATGTGGAGGTTGAAAGGGACAAAGGTGAAATCAAGGTAAAAGGCAATTTCGACCCGACAAAGATACAGAAACGGCTTGAGAAACTTTGTAAGAAAAAGATTGAGTTAGTGTCACCCAAGGTCCAGATCAAGGAAAGCATCACAACTGAGAAAAAAGTAGTGAAGGAAACCAAAGAAGAAATTTCACGGACAACATTAGTGAAGGTTCACATGCATTGCCACAAATGTGAGCAAGATCTGAAGAAGAAGTTGTTAACGAACAAAGGTGCACAAACATGCAGAGATTATACCCCAAAACAAGAGAAGAAGGATGAGACGAAACAAAAGGAGAAGAGTTCCTCAAAACCCCCAGAGAAAAAGGAGGAAAAGAAAGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAGTGGTAAATCTACTGAAATAGATGCCAAGGTTGTAGACGTTAAGGAAGAGATAAAGGTGGTGGAGGTTAAGACAAAAGAAGTGAGTGCTCCTTATTTCATTCACTATGTCTATGCTCCACAAATATTTAGTGATGAAAATCCAAATGCTTGCTCTATAATGTAA

Protein Analysis

251

Amino Acids

28.92

Weight (kDa)

9.2

Isoelectric Point (pI)

38.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMA PF00403 34 - 90 7.8e-11 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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Orthologous Genes (Group: OG0013188)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G29000 AT1G29000
fragaria_vesca FvH4_7g08060
malus_domestica MD02G1236600.v1.1
prunus_persica Prupe.2G108300_v2.0.a1 Prupe.2G108300_v2.0.a1
pyrus_communis pycom02g19870
rosa_chinensis RchiOBHm_Chr1g0341261
rosa_laevigata RLG00000029076
rosa_multiflora Rmu_sc0004092.1_g000045
rosa_roxburghii Rroxscaffold_4G00311900
rosa_rugosa Rorug01G0158300.1 Rorug01G0158400.1
rosa_samantha Rh1AG172700 Rh1BG140800 Rh1CG160800 Rh1DG173000
rosa_wichuraiana Rw1G014410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 102
Acc36I ACCTGC 1 cut(s) 120
AccI GTMKAC 1 cut(s) 627
AccII CGCG 1 cut(s) 133
AcsI RAATTY 1 cut(s) 354
AcuI CTGAAG 1 cut(s) 434
AdeI CACNNNGTG 1 cut(s) 178
AfiI CCNNNNNNNGG 1 cut(s) 304
AgsI TTSAA 1 cut(s) 188
AleI CACNNNNGTG 1 cut(s) 399
AluBI AGCT 1 cut(s) 20
AluI AGCT 1 cut(s) 20
Alw21I GWGCWC 2 cut(s) 445, 682
Alw26I GTCTC 1 cut(s) 482
Alw44I GTGCAC 1 cut(s) 441
ApaLI GTGCAC 1 cut(s) 441
ApeKI GCWGC 1 cut(s) 5
ApoI RAATTY 1 cut(s) 354
AspLEI GCGC 1 cut(s) 133
AspS9I GGNCC 1 cut(s) 295
AsuHPI GGTGA 2 cut(s) 212, 279
AvaII GGWCC 1 cut(s) 295
BaeGI GKGCMC 1 cut(s) 445
Bbv12I GWGCWC 2 cut(s) 445, 682
BbvI GCAGC 1 cut(s) 17
BccI CCATC 1 cut(s) 74
BceAI ACGGC 1 cut(s) 263
BcoDI GTCTC 1 cut(s) 482
BfuAI ACCTGC 1 cut(s) 120
BglII AGATCT 1 cut(s) 409
BisI GCNGC 1 cut(s) 6
BlsI GCNGC 1 cut(s) 7
Bme18I GGWCC 1 cut(s) 295
BmgT120I GGNCC 1 cut(s) 295
BmsI GCATC 2 cut(s) 321, 604
Bpu10I CCTNAGC 1 cut(s) 21
BpuEI CTTGAG 1 cut(s) 272
BsaBI GATNNNNATC 1 cut(s) 729
BsaJI CCNNGG 4 cut(s) 69, 163, 291, 618
Bsc4I CCNNNNNNNGG 1 cut(s) 304
Bse3DI GCAATG 1 cut(s) 388
Bse8I GATNNNNATC 1 cut(s) 729
BseDI CCNNGG 4 cut(s) 69, 163, 291, 618
BseGI GGATG 1 cut(s) 490
BseJI GATNNNNATC 1 cut(s) 729
BseLI CCNNNNNNNGG 1 cut(s) 304
BseMI GCAATG 1 cut(s) 388
BseMII CTCAG 1 cut(s) 312
BseSI GKGCMC 1 cut(s) 445
BseXI GCAGC 1 cut(s) 17
BsgI GTGCAG 1 cut(s) 98
Bsh1236I CGCG 1 cut(s) 133
BsiHKAI GWGCWC 2 cut(s) 445, 682
BslFI GGGAC 1 cut(s) 206
BslI CCNNNNNNNGG 1 cut(s) 304
BsmAI GTCTC 1 cut(s) 482
BsmBI CGTCTC 1 cut(s) 482
BsmFI GGGAC 1 cut(s) 206
Bsp1286I GDGCHC 2 cut(s) 445, 682
Bsp143I GATC 4 cut(s) 31, 138, 300, 409
BspCNI CTCAG 1 cut(s) 313
BspFNI CGCG 1 cut(s) 133
BspMI ACCTGC 1 cut(s) 120
BsrDI GCAATG 1 cut(s) 388
BssECI CCNNGG 4 cut(s) 69, 163, 291, 618
BssMI GATC 4 cut(s) 31, 138, 300, 409
BssT1I CCWWGG 4 cut(s) 69, 163, 291, 618
Bst6I CTCTTC 2 cut(s) 500, 633
BstC8I GCNNGC 1 cut(s) 742
BstDEI CTNAG 2 cut(s) 21, 321
BstF5I GGATG 1 cut(s) 490
BstFNI CGCG 1 cut(s) 133
BstHHI GCGC 1 cut(s) 133
BstKTI GATC 4 cut(s) 34, 141, 303, 412
BstMAI GTCTC 1 cut(s) 482
BstMBI GATC 4 cut(s) 31, 138, 300, 409
BstNSI RCATGY 2 cut(s) 388, 453
BstSLI GKGCMC 1 cut(s) 445
BstUI CGCG 1 cut(s) 133
BstV1I GCAGC 1 cut(s) 17
BstX2I RGATCY 1 cut(s) 409
BstYI RGATCY 1 cut(s) 409
BtsCI GGATG 1 cut(s) 490
BtsI GCAGTG 2 cut(s) 90, 115
BtsIMutI CAGTG 2 cut(s) 90, 115
BveI ACCTGC 1 cut(s) 120
Cac8I GCNNGC 1 cut(s) 742
CfoI GCGC 1 cut(s) 133
Cfr13I GGNCC 1 cut(s) 295
CviAII CATG 2 cut(s) 385, 450
CviJI RGCY 4 cut(s) 20, 68, 148, 250
CviKI_1 RGCY 4 cut(s) 20, 68, 148, 250
DdeI CTNAG 2 cut(s) 21, 321
DpnI GATC 4 cut(s) 33, 140, 302, 411
DpnII GATC 4 cut(s) 31, 138, 300, 409
DraIII CACNNNGTG 1 cut(s) 178
Eam1104I CTCTTC 2 cut(s) 500, 633
EarI CTCTTC 2 cut(s) 500, 633
Eco130I CCWWGG 4 cut(s) 69, 163, 291, 618
Eco47I GGWCC 1 cut(s) 295
Eco57I CTGAAG 1 cut(s) 434
EcoT14I CCWWGG 4 cut(s) 69, 163, 291, 618
EcoT22I ATGCAT 1 cut(s) 390
ErhI CCWWGG 4 cut(s) 69, 163, 291, 618
Esp3I CGTCTC 1 cut(s) 482
FaeI CATG 2 cut(s) 388, 453
FaiI YATR 7 cut(s) 102, 386, 451, 462, 699, 705, 749
FaqI GGGAC 1 cut(s) 206
FatI CATG 2 cut(s) 384, 449
FblI GTMKAC 1 cut(s) 627
Fnu4HI GCNGC 1 cut(s) 6
FokI GGATG 1 cut(s) 497
Fsp4HI GCNGC 1 cut(s) 6
GlaI GCGC 1 cut(s) 132
GluI GCNGC 1 cut(s) 6
HhaI GCGC 1 cut(s) 133
Hin1II CATG 2 cut(s) 388, 453
Hin6I GCGC 1 cut(s) 131
HinP1I GCGC 1 cut(s) 131
HincII GTYRAC 2 cut(s) 109, 429
HindII GTYRAC 2 cut(s) 109, 429
HpaI GTTAAC 2 cut(s) 109, 429
HphI GGTGA 2 cut(s) 212, 279
Hpy166II GTNNAC 6 cut(s) 109, 172, 382, 429, 443, 628
Hpy188I TCNGA 2 cut(s) 36, 414
Hpy188III TCNNGA 2 cut(s) 142, 298
Hpy8I GTNNAC 6 cut(s) 109, 172, 382, 429, 443, 628
HpyCH4IV ACGT 1 cut(s) 630
HpyCH4V TGCA 4 cut(s) 115, 388, 443, 453
HpyF3I CTNAG 2 cut(s) 21, 321
HpySE526I ACGT 1 cut(s) 630
Hsp92II CATG 2 cut(s) 388, 453
HspAI GCGC 1 cut(s) 131
KspAI GTTAAC 2 cut(s) 109, 429
Kzo9I GATC 4 cut(s) 31, 138, 300, 409
LmnI GCTCC 2 cut(s) 685, 712
LpnPI CCDG 4 cut(s) 125, 135, 311, 537
Lsp1109I GCAGC 1 cut(s) 17
LweI GCATC 2 cut(s) 321, 604
MaeII ACGT 1 cut(s) 630
MaeIII GTNAC 1 cut(s) 285
MalI GATC 4 cut(s) 33, 140, 302, 411
MboI GATC 4 cut(s) 31, 138, 300, 409
MboII GAAGA 7 cut(s) 26, 362, 427, 430, 490, 517, 650
MflI RGATCY 1 cut(s) 409
MhlI GDGCHC 2 cut(s) 445, 682
MluCI AATT 2 cut(s) 220, 354
MnlI CCTC 5 cut(s) 159, 175, 523, 529, 649
Mph1103I ATGCAT 1 cut(s) 390
MseI TTAA 4 cut(s) 108, 428, 633, 660
MslI CAYNNNNRTG 2 cut(s) 399, 448
MvnI CGCG 1 cut(s) 133
NdeII GATC 4 cut(s) 31, 138, 300, 409
NlaIII CATG 2 cut(s) 388, 453
NmuCI GTSAC 1 cut(s) 285
NsiI ATGCAT 1 cut(s) 390
NspI RCATGY 2 cut(s) 388, 453
OliI CACNNNNGTG 1 cut(s) 399
PkrI GCNGC 1 cut(s) 7
PsiI TTATAA 1 cut(s) 102
PspPI GGNCC 1 cut(s) 295
PsuI RGATCY 1 cut(s) 409
RseI CAYNNNNRTG 2 cut(s) 399, 448
SaqAI TTAA 4 cut(s) 108, 428, 633, 660
SatI GCNGC 1 cut(s) 6
Sau3AI GATC 4 cut(s) 31, 138, 300, 409
Sau96I GGNCC 1 cut(s) 295
SduI GDGCHC 2 cut(s) 445, 682
SfaNI GCATC 2 cut(s) 321, 604
SinI GGWCC 1 cut(s) 295
SmiMI CAYNNNNRTG 2 cut(s) 399, 448
SmlI CTYRAG 1 cut(s) 251
SmoI CTYRAG 1 cut(s) 251
Sse9I AATT 2 cut(s) 220, 354
SspI AATATT 1 cut(s) 717
StyI CCWWGG 4 cut(s) 69, 163, 291, 618
TaiI ACGT 1 cut(s) 633
TaqI TCGA 1 cut(s) 225
TasI AATT 2 cut(s) 220, 354
Tru1I TTAA 4 cut(s) 108, 428, 633, 660
Tru9I TTAA 4 cut(s) 108, 428, 633, 660
TscAI CASTG 2 cut(s) 97, 122
TseFI GTSAC 1 cut(s) 285
TseI GCWGC 1 cut(s) 5
Tsp45I GTSAC 1 cut(s) 285
TspDTI ATGAA 3 cut(s) 72, 679, 741
TspGWI ACGGA 1 cut(s) 376
TspRI CASTG 2 cut(s) 97, 122
VneI GTGCAC 1 cut(s) 441
VpaK11BI GGWCC 1 cut(s) 295
XapI RAATTY 1 cut(s) 354
XceI RCATGY 2 cut(s) 388, 453
XmiI GTMKAC 1 cut(s) 627
Zsp2I ATGCAT 1 cut(s) 390
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.