Rorug03G0295200

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0000385
Physical Location & Seq
Reverse (-)
30435726 .. 30436283
558 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0295200.1

Sequence Viewer

Length: 558 bp
ATGGCAGAAGCAAGTGTTCAGAGGCAGGCAATTGCAGATGCGAGGTATACGTTCAAGATTGGAGAATTATTGGAGATTCCAATCTCGATTGAAGTGCAACACGAGAAGAAAGAGATGATGGACAAACTCCAGTCTTTATTGTACCAGGAGGAGTTATTCTGGAAGCAAAGGTCAAAGGTGACCTGGCTTAAGGAGGGAGACCGAAATACGAGATTCTTTCATCTGAAAACTGAGAATCGAAAGAGGAAGAACACATTAAAGGGTTTGTTTGATGAAGAAGGGCAATGTCATGATGATGACTCTGGGATGGCGGAGGTGATTAATTCTTACTTCTCCAAGATGTTCAAAGCTTCAGAGATTGATTATGAGGCAGTGGACAAGACATTAGAAGCTATCACCCCTGTCGTGACTCCAGAGATGAATTCTCTTCTTAATGCACCTTATTCCCTGGAAGAGGTCTGGTCTGCTCTTTTCCAGATGTATCCGACTAAATCACCTGGGCCTGATGGCATGCCTCCTCTATTTTTTTCAACATTATTGGGAACATATTGGTGGTGA
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
Asp_protease_2 Chromo RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

185

Amino Acids

21.55

Weight (kDa)

5.1

Isoelectric Point (pI)

38.82

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000385)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23713 FvH4_1g25744 FvH4_2g00261 FvH4_2g00262 FvH4_2g15681 FvH4_2g17851 FvH4_2g35550 FvH4_3g05280 FvH4_3g10531 FvH4_3g25910 FvH4_3g28953 FvH4_3g33371 FvH4_3g33536 FvH4_3g36090 FvH4_4g03471 FvH4_4g03480 FvH4_4g06701 FvH4_4g19351 FvH4_4g34281 FvH4_5g00040 FvH4_5g03811 FvH4_5g03812 FvH4_5g11822 FvH4_5g30921 FvH4_5g31701 FvH4_6g12161 FvH4_6g15222 FvH4_6g15223 FvH4_6g17701 FvH4_6g17710 FvH4_6g19301 FvH4_6g33011 FvH4_6g34501 FvH4_6g50161 FvH4_7g04111 FvH4_7g04120 FvH4_7g04121 FvH4_7g04122 FvH4_7g04123 FvH4_7g28231 FvH4_c7g00010
malus_domestica MD12G1084200.v1.1
prunus_persica Prupe.1G206200_v2.0.a1 Prupe.8G085600_v2.0.a1
pyrus_communis pycom01g11080 pycom02g20500 pycom09g18370 pycom12555g00210 pycom13g23120 pycom14g10590 pycom16g17620 pycom16g22750
rosa_chinensis RchiOBHm_Chr2g0137481 RchiOBHm_Chr6g0251961 RchiOBHm_Chr7g0185821
rosa_laevigata RLG00000005585 RLG00000010281 RLG00000010912 RLG00000030342 RLG00000034281
rosa_multiflora Rmu_sc0000096.1_g000010 Rmu_sc0002481.1_g000045 Rmu_sc0003598.1_g000009 Rmu_sc0003863.1_g000019 Rmu_sc0003973.1_g000002 Rmu_sc0004823.1_g000050 Rmu_sc0005621.1_g000007 Rmu_sc0006537.1_g000030 Rmu_sc0006608.1_g000014 Rmu_sc0008506.1_g000007 Rmu_sc0014428.1_g000001 Rmu_sc0035437.1_g000001 Rmu_ssc0000396.1_g000022
rosa_roxburghii Rroxscaffold_175G00432300 Rroxscaffold_17G00435390 Rroxscaffold_27G00446590 Rroxscaffold_29G00441820 Rroxscaffold_31G00438110 Rroxscaffold_32G00442750 Rroxscaffold_33G00439810 Rroxscaffold_37G00445160 Rroxscaffold_4G00306500 Rroxscaffold_4G00327700 Rroxscaffold_4G00332630 Rroxscaffold_52G00439360 Rroxscaffold_63G00444420 Rroxscaffold_76G00448580 Rroxscaffold_7G00156270
rosa_rugosa Rorug03G0295200
rosa_samantha Rh1BG433700 Rh1CG115400 Rh2AG676300 Rh2CG341800 Rh2DG381400 Rh3BG370100 Rh3BG370200 Rh4AG441600 Rh4BG076500 Rh4BG107400 Rh5BG005600 Rh6BG010100 Rh7BG000200
rosa_wichuraiana Rw0G003820

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 47
AciI CCGC 1 cut(s) 311
AcsI RAATTY 1 cut(s) 421
AcuI CTGAAG 1 cut(s) 336
AfaI GTAC 1 cut(s) 143
AfiI CCNNNNNNNGG 1 cut(s) 454
AflII CTTAAG 1 cut(s) 188
AgsI TTSAA 4 cut(s) 55, 92, 346, 531
AjnI CCWGG 4 cut(s) 144, 182, 447, 496
AluBI AGCT 2 cut(s) 350, 392
AluI AGCT 2 cut(s) 350, 392
Alw26I GTCTC 1 cut(s) 192
AoxI GGCC 1 cut(s) 500
ApoI RAATTY 1 cut(s) 421
AseI ATTAAT 1 cut(s) 321
AspS9I GGNCC 1 cut(s) 500
AsuHPI GGTGA 4 cut(s) 190, 328, 388, 486
BauI CACGAG 1 cut(s) 101
BccI CCATC 3 cut(s) 112, 301, 500
BcgI CGANNNNNNTGC 2 cut(s) 76, 110
BciT130I CCWGG 4 cut(s) 146, 184, 449, 498
BciVI GTATCC 1 cut(s) 492
BcoDI GTCTC 1 cut(s) 192
BfrI CTTAAG 1 cut(s) 188
BfuI GTATCC 1 cut(s) 492
Bme1390I CCNGG 4 cut(s) 146, 184, 449, 498
BmgT120I GGNCC 1 cut(s) 500
BmrFI CCNGG 4 cut(s) 146, 184, 449, 498
BmsI GCATC 1 cut(s) 28
BpmI CTGGAG 2 cut(s) 113, 396
BsaBI GATNNNNATC 1 cut(s) 80
BsaI GGTCTC 1 cut(s) 192
BsaJI CCNNGG 2 cut(s) 447, 497
Bsc4I CCNNNNNNNGG 1 cut(s) 454
Bse1I ACTGG 1 cut(s) 130
Bse3DI GCAATG 1 cut(s) 290
Bse8I GATNNNNATC 1 cut(s) 80
BseBI CCWGG 4 cut(s) 146, 184, 449, 498
BseDI CCNNGG 2 cut(s) 447, 497
BseGI GGATG 1 cut(s) 312
BseJI GATNNNNATC 1 cut(s) 80
BseLI CCNNNNNNNGG 1 cut(s) 454
BseMI GCAATG 1 cut(s) 290
BseMII CTCAG 1 cut(s) 222
BseNI ACTGG 1 cut(s) 130
BseRI GAGGAG 2 cut(s) 164, 507
BshFI GGCC 1 cut(s) 502
BslI CCNNNNNNNGG 1 cut(s) 454
BsmAI GTCTC 1 cut(s) 192
BsnI GGCC 1 cut(s) 502
Bso31I GGTCTC 1 cut(s) 192
BspACI CCGC 1 cut(s) 311
BspANI GGCC 1 cut(s) 502
BspCNI CTCAG 1 cut(s) 223
BspHI TCATGA 1 cut(s) 289
BspTI CTTAAG 1 cut(s) 188
BspTNI GGTCTC 1 cut(s) 192
BsrDI GCAATG 1 cut(s) 290
BsrI ACTGG 1 cut(s) 130
BssECI CCNNGG 2 cut(s) 447, 497
BssNAI GTATAC 1 cut(s) 48
BssSI CACGAG 1 cut(s) 101
Bst1107I GTATAC 1 cut(s) 48
Bst2BI CACGAG 1 cut(s) 101
Bst2UI CCWGG 4 cut(s) 146, 184, 449, 498
Bst6I CTCTTC 2 cut(s) 432, 447
BstAFI CTTAAG 1 cut(s) 188
BstC8I GCNNGC 2 cut(s) 27, 512
BstDEI CTNAG 1 cut(s) 231
BstEII GGTNACC 1 cut(s) 178
BstENI CCTNNNNNAGG 1 cut(s) 452
BstF5I GGATG 1 cut(s) 312
BstMAI GTCTC 1 cut(s) 192
BstNI CCWGG 4 cut(s) 146, 184, 449, 498
BstNSI RCATGY 1 cut(s) 514
BstPI GGTNACC 1 cut(s) 178
BstSCI CCNGG 4 cut(s) 144, 182, 447, 496
BstZ17I GTATAC 1 cut(s) 48
BsuI GTATCC 1 cut(s) 492
BsuRI GGCC 1 cut(s) 502
BtsCI GGATG 1 cut(s) 312
BtsI GCAGTG 1 cut(s) 378
BtsIMutI CAGTG 1 cut(s) 378
Cac8I GCNNGC 2 cut(s) 27, 512
CciI TCATGA 1 cut(s) 289
Cfr13I GGNCC 1 cut(s) 500
Csp6I GTAC 1 cut(s) 142
CviAII CATG 2 cut(s) 290, 511
CviJI RGCY 4 cut(s) 187, 350, 392, 502
CviKI_1 RGCY 4 cut(s) 187, 350, 392, 502
CviQI GTAC 1 cut(s) 142
DdeI CTNAG 1 cut(s) 231
Eam1104I CTCTTC 2 cut(s) 432, 447
EarI CTCTTC 2 cut(s) 432, 447
EciI GGCGGA 1 cut(s) 326
Eco31I GGTCTC 1 cut(s) 192
Eco57I CTGAAG 1 cut(s) 336
Eco91I GGTNACC 1 cut(s) 178
EcoNI CCTNNNNNAGG 1 cut(s) 452
EcoO65I GGTNACC 1 cut(s) 178
EcoRI GAATTC 1 cut(s) 421
EcoRII CCWGG 4 cut(s) 144, 182, 447, 496
FaeI CATG 2 cut(s) 293, 514
FaiI YATR 5 cut(s) 48, 291, 366, 512, 547
FatI CATG 2 cut(s) 289, 510
FblI GTMKAC 1 cut(s) 47
FokI GGATG 1 cut(s) 319
GsuI CTGGAG 2 cut(s) 113, 396
HaeIII GGCC 1 cut(s) 502
Hin1II CATG 2 cut(s) 293, 514
HindIII AAGCTT 1 cut(s) 348
HinfI GANTC 5 cut(s) 76, 213, 235, 299, 409
HphI GGTGA 4 cut(s) 190, 328, 388, 486
Hpy166II GTNNAC 2 cut(s) 48, 376
Hpy188I TCNGA 4 cut(s) 21, 225, 355, 486
Hpy188III TCNNGA 7 cut(s) 55, 85, 160, 290, 406, 413, 475
Hpy8I GTNNAC 2 cut(s) 48, 376
HpyAV CCTTC 1 cut(s) 272
HpyCH4IV ACGT 1 cut(s) 50
HpyCH4V TGCA 3 cut(s) 35, 97, 437
HpyF3I CTNAG 1 cut(s) 231
HpySE526I ACGT 1 cut(s) 50
Hsp92II CATG 2 cut(s) 293, 514
LweI GCATC 1 cut(s) 28
MaeII ACGT 1 cut(s) 50
MaeIII GTNAC 2 cut(s) 178, 406
MboII GAAGA 5 cut(s) 118, 259, 287, 419, 464
MfeI CAATTG 1 cut(s) 30
MluCI AATT 4 cut(s) 30, 65, 322, 421
MlyI GAGTC 2 cut(s) 293, 403
MmeI TCCRAC 1 cut(s) 509
MseI TTAA 4 cut(s) 189, 257, 321, 432
MslI CAYNNNNRTG 2 cut(s) 294, 550
MspCI CTTAAG 1 cut(s) 188
MspR9I CCNGG 4 cut(s) 146, 184, 449, 498
MunI CAATTG 1 cut(s) 30
MvaI CCWGG 4 cut(s) 146, 184, 449, 498
NlaIII CATG 2 cut(s) 293, 514
NmuCI GTSAC 2 cut(s) 178, 406
NspI RCATGY 1 cut(s) 514
PaeI GCATGC 1 cut(s) 514
PagI TCATGA 1 cut(s) 289
PfeI GAWTC 3 cut(s) 76, 213, 235
PleI GAGTC 2 cut(s) 293, 403
PpsI GAGTC 2 cut(s) 293, 403
PshBI ATTAAT 1 cut(s) 321
Psp6I CCWGG 4 cut(s) 144, 182, 447, 496
PspEI GGTNACC 1 cut(s) 178
PspGI CCWGG 4 cut(s) 144, 182, 447, 496
PspPI GGNCC 1 cut(s) 500
RsaI GTAC 1 cut(s) 143
RsaNI GTAC 1 cut(s) 142
RseI CAYNNNNRTG 2 cut(s) 294, 550
SaqAI TTAA 4 cut(s) 189, 257, 321, 432
Sau96I GGNCC 1 cut(s) 500
SchI GAGTC 2 cut(s) 293, 403
ScrFI CCNGG 4 cut(s) 146, 184, 449, 498
SfaNI GCATC 1 cut(s) 28
SmiMI CAYNNNNRTG 2 cut(s) 294, 550
SmlI CTYRAG 1 cut(s) 188
SmoI CTYRAG 1 cut(s) 188
SphI GCATGC 1 cut(s) 514
Sse9I AATT 4 cut(s) 30, 65, 322, 421
SsiI CCGC 1 cut(s) 311
StyD4I CCNGG 4 cut(s) 144, 182, 447, 496
TaiI ACGT 1 cut(s) 53
TaqI TCGA 2 cut(s) 86, 238
TaqII GACCGA 1 cut(s) 216
TasI AATT 4 cut(s) 30, 65, 322, 421
TfiI GAWTC 3 cut(s) 76, 213, 235
Tru1I TTAA 4 cut(s) 189, 257, 321, 432
Tru9I TTAA 4 cut(s) 189, 257, 321, 432
TscAI CASTG 1 cut(s) 378
TseFI GTSAC 2 cut(s) 178, 406
Tsp45I GTSAC 2 cut(s) 178, 406
TspDTI ATGAA 3 cut(s) 209, 288, 434
TspRI CASTG 1 cut(s) 378
Vha464I CTTAAG 1 cut(s) 188
VspI ATTAAT 1 cut(s) 321
XagI CCTNNNNNAGG 1 cut(s) 452
XapI RAATTY 1 cut(s) 421
XceI RCATGY 1 cut(s) 514
XmiI GTMKAC 1 cut(s) 47
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.