Rw0G002130

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Contig00066
OG0014977
Physical Location & Seq
Reverse (-)
87928 .. 88838
911 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw0G002130.1

Sequence Viewer

Length: 744 bp
ATGGATTCTTCCTCTGCAAAAATGGGTTTTATTGAGAATCAAAGTGGTGCATCAATATTAGCTTCGCTCAGTGGTTCTAACCATGAACGCATCGAAAGACTGCAGTATGAACTTAGCTATCAAATGTGGAACCAGATTCATTCAGATGATTTTGTTCTTTTGCAGACATGTGTTATGAATGCAAATATGGATTGCGAAAAATGTAGGTTAAAAGTCTATGAAGTCGTGATCAATGTCTATGGTGCTTATTCAATAGACATAGATGCAGAACAATCGATGGTAAAAGTTTCAGGCAAAGTAAATCCAAAGATAATTCTACAGGTGCTTGGAGGGAAACATGCCAAGGTAAAAAGTGTCAAGTTTGATAGTGAGGAACCGTCCATGGGGGGCGGTTATCCCCCTCCCCCTCCCCCTCCTCTTCCCCCATACGGAATGGGGCTGGGGCACCATCCCTATTCCTATCCGAATGGAGGGCCATATGACTACCCCATGATGATGCCACCACTTCTGATGCTGCCACCATCACCACCACCACCACCACCACCACCATCAGTGGCAGCACAACCTCCACAAAAACCAACATTACTATTAGAGGCACCACCCCAGAATTCGGGGGCCACAGCACAACCACAAAATTCAGGAACGTCAGCACCACCAACCACTAATGTTGCAGAGGAGGCAGTGATATCCTCAGATAAGAAGTCCAAGCGTTGCGGCATCGTCAAGAATTGCAGCATTATGTGA
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

247

Amino Acids

26.62

Weight (kDa)

6.2

Isoelectric Point (pI)

55.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMA PF00403 61 - 104 6.2e-06 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: OG0014977)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G13140
fragaria_vesca FvH4_3g29421
malus_domestica MD03G1184600.v1.1 MD03G1184800.v1.1 MD11G1201200.v1.1
prunus_persica Prupe.4G241700_v2.0.a1 Prupe.5G052600_v2.0.a1
pyrus_communis pycom11g17370
rosa_chinensis RchiOBHm_Chr5g0053851
rosa_multiflora Rmu_sc0001759.1_g000008
rosa_roxburghii Rroxscaffold_1G00026750
rosa_samantha Rh5AG353500 Rh5BG365100 Rh5CG390200
rosa_wichuraiana Rw0G002130 Rw0G009540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 444, 595
AciI CCGC 2 cut(s) 390, 714
AcsI RAATTY 2 cut(s) 607, 634
AfiI CCNNNNNNNGG 4 cut(s) 383, 428, 470, 610
AflIII ACRYGT 1 cut(s) 167
AgsI TTSAA 1 cut(s) 252
AluBI AGCT 2 cut(s) 62, 117
AluI AGCT 2 cut(s) 62, 117
AoxI GGCC 2 cut(s) 473, 615
ApeKI GCWGC 3 cut(s) 514, 557, 732
ApoI RAATTY 2 cut(s) 607, 634
AspS9I GGNCC 2 cut(s) 473, 615
AsuHPI GGTGA 1 cut(s) 516
BaeGI GKGCMC 1 cut(s) 447
BanI GGYRCC 2 cut(s) 444, 595
BbvI GCAGC 2 cut(s) 501, 569
BccI CCATC 4 cut(s) 271, 456, 529, 556
BcgI CGANNNNNNTGC 2 cut(s) 255, 289
BclI TGATCA 1 cut(s) 228
BfmI CTRYAG 2 cut(s) 101, 317
BisI GCNGC 4 cut(s) 515, 558, 715, 733
BlsI GCNGC 4 cut(s) 516, 559, 716, 734
BmgT120I GGNCC 2 cut(s) 473, 615
BmiI GGNNCC 5 cut(s) 131, 375, 446, 597, 616
BmsI GCATC 6 cut(s) 59, 99, 253, 486, 501, 726
Bsa29I ATCGAT 1 cut(s) 275
BsaJI CCNNGG 2 cut(s) 342, 381
Bsc4I CCNNNNNNNGG 4 cut(s) 383, 428, 470, 610
BseCI ATCGAT 1 cut(s) 275
BseDI CCNNGG 2 cut(s) 342, 381
BseGI GGATG 1 cut(s) 448
BseLI CCNNNNNNNGG 4 cut(s) 383, 428, 470, 610
BseMII CTCAG 2 cut(s) 82, 705
BseRI GAGGAG 2 cut(s) 405, 689
BseSI GKGCMC 1 cut(s) 447
BseXI GCAGC 2 cut(s) 501, 569
BseYI CCCAGC 1 cut(s) 439
BshFI GGCC 2 cut(s) 475, 617
BshNI GGYRCC 2 cut(s) 444, 595
BshVI ATCGAT 1 cut(s) 275
BslI CCNNNNNNNGG 4 cut(s) 383, 428, 470, 610
BsmI GAATGC 1 cut(s) 184
BsnI GGCC 2 cut(s) 475, 617
Bsp1286I GDGCHC 1 cut(s) 447
Bsp143I GATC 1 cut(s) 228
Bsp19I CCATGG 1 cut(s) 381
BspACI CCGC 2 cut(s) 390, 714
BspANI GGCC 2 cut(s) 475, 617
BspCNI CTCAG 2 cut(s) 81, 704
BspDI ATCGAT 1 cut(s) 275
BspLI GGNNCC 5 cut(s) 131, 375, 446, 597, 616
BspMAI CTGCAG 1 cut(s) 105
BspT107I GGYRCC 2 cut(s) 444, 595
BssECI CCNNGG 2 cut(s) 342, 381
BssMI GATC 1 cut(s) 228
BssT1I CCWWGG 2 cut(s) 342, 381
Bst4CI ACNGT 1 cut(s) 378
Bst6I CTCTTC 1 cut(s) 423
BstDEI CTNAG 3 cut(s) 68, 113, 691
BstDSI CCRYGG 1 cut(s) 381
BstF5I GGATG 1 cut(s) 448
BstKTI GATC 1 cut(s) 231
BstMBI GATC 1 cut(s) 228
BstMWI GCNNNNNNNGC 1 cut(s) 677
BstNSI RCATGY 2 cut(s) 171, 341
BstSFI CTRYAG 2 cut(s) 101, 317
BstSLI GKGCMC 1 cut(s) 447
BstV1I GCAGC 2 cut(s) 501, 569
Bsu15I ATCGAT 1 cut(s) 275
BsuRI GGCC 2 cut(s) 475, 617
BsuTUI ATCGAT 1 cut(s) 275
BtgI CCRYGG 1 cut(s) 381
BtsCI GGATG 1 cut(s) 448
BtsI GCAGTG 1 cut(s) 687
BtsIMutI CAGTG 3 cut(s) 76, 558, 687
Cfr13I GGNCC 2 cut(s) 473, 615
ClaI ATCGAT 1 cut(s) 275
CspCI CAANNNNNGTGG 2 cut(s) 649, 684
CviAII CATG 5 cut(s) 83, 168, 338, 382, 490
CviJI RGCY 5 cut(s) 62, 117, 439, 475, 617
CviKI_1 RGCY 5 cut(s) 62, 117, 439, 475, 617
DdeI CTNAG 3 cut(s) 68, 113, 691
DpnI GATC 1 cut(s) 230
DpnII GATC 1 cut(s) 228
Eam1104I CTCTTC 1 cut(s) 423
EarI CTCTTC 1 cut(s) 423
Eco130I CCWWGG 2 cut(s) 342, 381
Eco32I GATATC 1 cut(s) 687
EcoRI GAATTC 1 cut(s) 607
EcoRV GATATC 1 cut(s) 687
EcoT14I CCWWGG 2 cut(s) 342, 381
ErhI CCWWGG 2 cut(s) 342, 381
FaeI CATG 5 cut(s) 86, 171, 341, 385, 493
FatI CATG 5 cut(s) 82, 167, 337, 381, 489
FauNDI CATATG 1 cut(s) 478
FbaI TGATCA 1 cut(s) 228
Fnu4HI GCNGC 4 cut(s) 515, 558, 715, 733
FokI GGATG 1 cut(s) 435
Fsp4HI GCNGC 4 cut(s) 515, 558, 715, 733
GluI GCNGC 4 cut(s) 515, 558, 715, 733
GsaI CCCAGC 1 cut(s) 443
HaeIII GGCC 2 cut(s) 475, 617
Hin1II CATG 5 cut(s) 86, 171, 341, 385, 493
HinfI GANTC 3 cut(s) 5, 37, 136
HphI GGTGA 1 cut(s) 516
Hpy188I TCNGA 4 cut(s) 145, 465, 510, 694
Hpy188III TCNNGA 3 cut(s) 226, 639, 724
HpyCH4III ACNGT 1 cut(s) 378
HpyCH4IV ACGT 1 cut(s) 644
HpyCH4V TGCA 8 cut(s) 17, 50, 103, 163, 182, 266, 671, 732
HpyF10VI GCNNNNNNNGC 1 cut(s) 677
HpyF3I CTNAG 3 cut(s) 68, 113, 691
HpySE526I ACGT 1 cut(s) 644
Hsp92II CATG 5 cut(s) 86, 171, 341, 385, 493
Ksp22I TGATCA 1 cut(s) 228
Kzo9I GATC 1 cut(s) 228
LpnPI CCDG 6 cut(s) 146, 276, 305, 425, 617, 624
Lsp1109I GCAGC 2 cut(s) 501, 569
LweI GCATC 6 cut(s) 59, 99, 253, 486, 501, 726
MaeII ACGT 1 cut(s) 644
MalI GATC 1 cut(s) 230
MboI GATC 1 cut(s) 228
MboII GAAGA 1 cut(s) 410
MhlI GDGCHC 1 cut(s) 447
MluCI AATT 4 cut(s) 312, 607, 634, 727
MseI TTAA 1 cut(s) 209
MslI CAYNNNNRTG 2 cut(s) 144, 494
Mva1269I GAATGC 1 cut(s) 184
MwoI GCNNNNNNNGC 1 cut(s) 677
NcoI CCATGG 1 cut(s) 381
NdeI CATATG 1 cut(s) 478
NdeII GATC 1 cut(s) 228
NlaIII CATG 5 cut(s) 86, 171, 341, 385, 493
NlaIV GGNNCC 5 cut(s) 131, 375, 446, 597, 616
NspI RCATGY 2 cut(s) 171, 341
PciI ACATGT 1 cut(s) 167
PctI GAATGC 1 cut(s) 184
PfeI GAWTC 3 cut(s) 5, 37, 136
PkrI GCNGC 4 cut(s) 516, 559, 716, 734
PscI ACATGT 1 cut(s) 167
PspFI CCCAGC 1 cut(s) 439
PspN4I GGNNCC 5 cut(s) 131, 375, 446, 597, 616
PspPI GGNCC 2 cut(s) 473, 615
PstI CTGCAG 1 cut(s) 105
RseI CAYNNNNRTG 2 cut(s) 144, 494
SaqAI TTAA 1 cut(s) 209
SatI GCNGC 4 cut(s) 515, 558, 715, 733
Sau3AI GATC 1 cut(s) 228
Sau96I GGNCC 2 cut(s) 473, 615
SduI GDGCHC 1 cut(s) 447
SetI ASST 7 cut(s) 64, 119, 209, 324, 348, 568, 647
SfaNI GCATC 6 cut(s) 59, 99, 253, 486, 501, 726
SfcI CTRYAG 2 cut(s) 101, 317
SmiMI CAYNNNNRTG 2 cut(s) 144, 494
Sse9I AATT 4 cut(s) 312, 607, 634, 727
SsiI CCGC 2 cut(s) 390, 714
SspI AATATT 1 cut(s) 57
StyI CCWWGG 2 cut(s) 342, 381
TaaI ACNGT 1 cut(s) 378
TaiI ACGT 1 cut(s) 647
TaqI TCGA 2 cut(s) 93, 275
TasI AATT 4 cut(s) 312, 607, 634, 727
TauI GCSGC 1 cut(s) 717
TfiI GAWTC 3 cut(s) 5, 37, 136
Tru1I TTAA 1 cut(s) 209
Tru9I TTAA 1 cut(s) 209
TscAI CASTG 3 cut(s) 76, 558, 687
TseI GCWGC 3 cut(s) 514, 557, 732
TspDTI ATGAA 5 cut(s) 99, 123, 128, 191, 234
TspGWI ACGGA 1 cut(s) 444
TspRI CASTG 3 cut(s) 76, 558, 687
XapI RAATTY 2 cut(s) 607, 634
XceI RCATGY 2 cut(s) 171, 341
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.