Rroxscaffold_6G00413880

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000437
Physical Location & Seq
Forward (+)
36190573 .. 36191193
621 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00413880.1

Sequence Viewer

Length: 621 bp
ATGTCCGAAGTGCATGATATTTTGAAGAAGGTCAATGTCAACATACCTTTGATTGAGCTCATTCGACAAATGCCGCTTTATGCAAAATTTCTAAAGGACTTGTGCACCCATAAGAGGAAGATAAAGAATAATGAGAGGTTCAAAATTTGTGAGGAGGTTAGTGCTATCTTGCAAAGATGGATTCCCCTAAAACTCCAGGATCCGGGGAGCTTCAATATCTCTTGCACTATTGGTGAGAAAGTTTTTGATAGAGCTTTGATGGACCTTGGTTCAAGTGTTAACATTATTTCTTTTGAGACTTTCCGAAAACTTGATTTAAGGCCTATTAAAGCTACTCTTACATTTTTGCAACTTGCGGATCGGAGCATTATTAGAGCCATAGGTGTTGTTGAAGATGTATTAATCAAAGTTGATAAGTTCTACTTATCGGCGGATTTGGTGGTAGTAGATATGGATGATGAGCCTCATTGTGACAAGGACATACCTATCATTCTTGGTAAATCTTCTATGACAACCGTGGGGATAAAAATTAATGTTCAAAAGGGCACTATCAAAATAAAAGTATTGGGAGAAAAAGTATTACTTAAGAGGTTTGAACCCATTTACCCTCCGAGGTGGTAA
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
No domains found.

Protein Analysis

206

Amino Acids

23.62

Weight (kDa)

9.21

Isoelectric Point (pI)

48.05

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
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Publication-ready
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Orthologous Genes (Group: OG0000437)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G06105
fragaria_vesca FvH4_1g09709 FvH4_4g02101 FvH4_4g08975 FvH4_6g23372 FvH4_6g39851 FvH4_c1g00300
malus_domestica MD01G1176100.v1.1 MD09G1284900.v1.1 MD15G1306600.v1.1
prunus_persica Prupe.1G227700_v2.0.a1
pyrus_communis pycom01g00630 pycom01g01020 pycom01g01690 pycom01g01760 pycom01g04190 pycom01g04400 pycom02g18130 pycom03g10160 pycom05g06370 pycom05g08930 pycom06g05590 pycom10g06320 pycom11g14330 pycom11g15320 pycom11g16240 pycom12416g00050 pycom12420g00010 pycom12420g00120 pycom12426g00180 pycom12426g00710 pycom12531g00010 pycom1256g00020 pycom1256g00050 pycom1341g00030 pycom1353g00030 pycom13g23070 pycom13g23210 pycom13g26260 pycom13g26370 pycom13g26470 pycom13g26980 pycom14g08550 pycom14g08850 pycom1534g00040 pycom15g28760 pycom15g31230 pycom1604g00040 pycom16g21900 pycom16g26030 pycom1739g00020 pycom1739g00050 pycom17g12970 pycom17g17960 pycom17g18300 pycom17g18650 pycom2172g00020 pycom2438g00020 pycom436g00370 pycom436g00390 pycom576g00050 pycom76g00020
rosa_chinensis RchiOBHm_Chr1g0320811 RchiOBHm_Chr2g0135321 RchiOBHm_Chr3g0485721 RchiOBHm_Chr7g0236571
rosa_multiflora Rmu_sc0000185.1_g000007 Rmu_sc0002094.1_g000030 Rmu_sc0002764.1_g000007 Rmu_sc0002809.1_g000014 Rmu_sc0003005.1_g000007 Rmu_sc0003798.1_g000005 Rmu_sc0004646.1_g000027 Rmu_sc0004665.1_g000009 Rmu_sc0004818.1_g000001 Rmu_sc0004988.1_g000031 Rmu_sc0006373.1_g000007 Rmu_sc0007142.1_g000015 Rmu_sc0009930.1_g000001 Rmu_sc0011451.1_g000001 Rmu_sc0020424.1_g000001 Rmu_sc0036944.1_g000001 Rmu_ssc0000062.1_g000010
rosa_roxburghii Rroxscaffold_2G00123930 Rroxscaffold_3G00231480 Rroxscaffold_6G00413880
rosa_rugosa Rorug04G0084800
rosa_samantha Rh3BG150500 Rh6DG232400
rosa_wichuraiana Rw2G018400 Rw3G027860 Rw4G021220 Rw6G020670 Rw6G037970

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 74, 356, 431
AclWI GGATC 3 cut(s) 194, 207, 366
AcsI RAATTY 2 cut(s) 86, 144
AfiI CCNNNNNNNGG 2 cut(s) 114, 202
AflII CTTAAG 1 cut(s) 584
AgsI TTSAA 7 cut(s) 25, 142, 214, 273, 392, 539, 596
AjnI CCWGG 1 cut(s) 195
AluBI AGCT 4 cut(s) 58, 210, 254, 332
AluI AGCT 4 cut(s) 58, 210, 254, 332
Alw21I GWGCWC 2 cut(s) 60, 107
Alw26I GTCTC 1 cut(s) 290
Alw44I GTGCAC 1 cut(s) 103
AlwI GGATC 3 cut(s) 194, 207, 366
AoxI GGCC 1 cut(s) 320
ApaLI GTGCAC 1 cut(s) 103
ApoI RAATTY 2 cut(s) 86, 144
AseI ATTAAT 2 cut(s) 401, 531
AspS9I GGNCC 1 cut(s) 262
AsuC2I CCSGG 1 cut(s) 204
AsuHPI GGTGA 1 cut(s) 245
AvaII GGWCC 1 cut(s) 262
BaeGI GKGCMC 2 cut(s) 107, 548
BamHI GGATCC 1 cut(s) 199
BanII GRGCYC 1 cut(s) 60
Bbv12I GWGCWC 2 cut(s) 60, 107
BccI CCATC 2 cut(s) 171, 253
BciT130I CCWGG 1 cut(s) 197
BcnI CCSGG 1 cut(s) 204
BcoDI GTCTC 1 cut(s) 290
BfrI CTTAAG 1 cut(s) 584
BisI GCNGC 1 cut(s) 74
BlsI GCNGC 1 cut(s) 75
Bme1390I CCNGG 2 cut(s) 197, 204
Bme18I GGWCC 1 cut(s) 262
BmgT120I GGNCC 1 cut(s) 262
BmiI GGNNCC 1 cut(s) 201
BmrFI CCNGG 2 cut(s) 197, 204
BpmI CTGGAG 1 cut(s) 179
BpuMI CCSGG 1 cut(s) 204
BsaJI CCNNGG 4 cut(s) 203, 265, 516, 611
BsaXI ACNNNNNCTCC 2 cut(s) 561, 591
Bsc4I CCNNNNNNNGG 2 cut(s) 114, 202
BseBI CCWGG 1 cut(s) 197
BseDI CCNNGG 4 cut(s) 203, 265, 516, 611
BseGI GGATG 1 cut(s) 460
BseLI CCNNNNNNNGG 2 cut(s) 114, 202
BseRI GAGGAG 1 cut(s) 167
BseSI GKGCMC 2 cut(s) 107, 548
BshFI GGCC 1 cut(s) 322
BsiHKAI GWGCWC 2 cut(s) 60, 107
BsiSI CCGG 1 cut(s) 203
BslI CCNNNNNNNGG 2 cut(s) 114, 202
BsmAI GTCTC 1 cut(s) 290
BsnI GGCC 1 cut(s) 322
Bsp1286I GDGCHC 3 cut(s) 60, 107, 548
Bsp143I GATC 2 cut(s) 199, 358
BspACI CCGC 3 cut(s) 74, 356, 431
BspANI GGCC 1 cut(s) 322
BspLI GGNNCC 1 cut(s) 201
BspPI GGATC 3 cut(s) 194, 207, 366
BspTI CTTAAG 1 cut(s) 584
BssECI CCNNGG 4 cut(s) 203, 265, 516, 611
BssMI GATC 2 cut(s) 199, 358
BssT1I CCWWGG 1 cut(s) 265
Bst2UI CCWGG 1 cut(s) 197
Bst4CI ACNGT 1 cut(s) 517
BstAFI CTTAAG 1 cut(s) 584
BstDSI CCRYGG 1 cut(s) 516
BstF5I GGATG 1 cut(s) 460
BstKTI GATC 2 cut(s) 202, 361
BstMAI GTCTC 1 cut(s) 290
BstMBI GATC 2 cut(s) 199, 358
BstNI CCWGG 1 cut(s) 197
BstSCI CCNGG 2 cut(s) 195, 202
BstSLI GKGCMC 2 cut(s) 107, 548
BstX2I RGATCY 1 cut(s) 199
BstYI RGATCY 1 cut(s) 199
BsuRI GGCC 1 cut(s) 322
BtgI CCRYGG 1 cut(s) 516
BtsCI GGATG 1 cut(s) 460
Cfr13I GGNCC 1 cut(s) 262
CviAII CATG 1 cut(s) 14
CviJI RGCY 7 cut(s) 58, 210, 254, 322, 332, 377, 463
CviKI_1 RGCY 7 cut(s) 58, 210, 254, 322, 332, 377, 463
DpnI GATC 2 cut(s) 201, 360
DpnII GATC 2 cut(s) 199, 358
EciI GGCGGA 1 cut(s) 446
Ecl136II GAGCTC 1 cut(s) 58
Eco130I CCWWGG 1 cut(s) 265
Eco147I AGGCCT 1 cut(s) 322
Eco24I GRGCYC 1 cut(s) 60
Eco47I GGWCC 1 cut(s) 262
Eco53kI GAGCTC 1 cut(s) 58
EcoICRI GAGCTC 1 cut(s) 58
EcoRII CCWGG 1 cut(s) 195
EcoT14I CCWWGG 1 cut(s) 265
EcoT38I GRGCYC 1 cut(s) 60
ErhI CCWWGG 1 cut(s) 265
FaeI CATG 1 cut(s) 17
FaiI YATR 8 cut(s) 15, 44, 81, 111, 380, 452, 482, 509
FalI AAGNNNNNCTT 6 cut(s) 321, 353, 407, 439, 567, 599
FatI CATG 1 cut(s) 13
Fnu4HI GCNGC 1 cut(s) 74
FokI GGATG 1 cut(s) 467
FriOI GRGCYC 1 cut(s) 60
Fsp4HI GCNGC 1 cut(s) 74
GluI GCNGC 1 cut(s) 74
GsuI CTGGAG 1 cut(s) 179
HaeIII GGCC 1 cut(s) 322
HapII CCGG 1 cut(s) 203
Hin1II CATG 1 cut(s) 17
HincII GTYRAC 2 cut(s) 40, 280
HindII GTYRAC 2 cut(s) 40, 280
HinfI GANTC 1 cut(s) 181
HpaI GTTAAC 1 cut(s) 280
HpaII CCGG 1 cut(s) 203
HphI GGTGA 1 cut(s) 245
Hpy166II GTNNAC 3 cut(s) 40, 105, 280
Hpy188I TCNGA 4 cut(s) 7, 305, 363, 612
Hpy8I GTNNAC 3 cut(s) 40, 105, 280
HpyAV CCTTC 1 cut(s) 22
HpyCH4III ACNGT 1 cut(s) 517
HpyCH4V TGCA 6 cut(s) 13, 83, 105, 172, 225, 349
Hsp92II CATG 1 cut(s) 17
KspAI GTTAAC 1 cut(s) 280
Kzo9I GATC 2 cut(s) 199, 358
LmnI GCTCC 2 cut(s) 207, 363
LpnPI CCDG 3 cut(s) 182, 209, 216
MaeIII GTNAC 1 cut(s) 470
MalI GATC 2 cut(s) 201, 360
MboI GATC 2 cut(s) 199, 358
MboII GAAGA 4 cut(s) 37, 130, 404, 495
MflI RGATCY 1 cut(s) 199
MhlI GDGCHC 3 cut(s) 60, 107, 548
MluCI AATT 3 cut(s) 86, 144, 528
MnlI CCTC 8 cut(s) 108, 129, 145, 148, 474, 582, 606, 618
MseI TTAA 6 cut(s) 279, 317, 327, 401, 531, 585
MspCI CTTAAG 1 cut(s) 584
MspI CCGG 1 cut(s) 203
MspR9I CCNGG 2 cut(s) 197, 204
MvaI CCWGG 1 cut(s) 197
NciI CCSGG 1 cut(s) 204
NdeII GATC 2 cut(s) 199, 358
NlaIII CATG 1 cut(s) 17
NlaIV GGNNCC 1 cut(s) 201
NmuCI GTSAC 1 cut(s) 470
PceI AGGCCT 1 cut(s) 322
PfeI GAWTC 1 cut(s) 181
PfoI TCCNGGA 1 cut(s) 195
PkrI GCNGC 1 cut(s) 75
PshBI ATTAAT 2 cut(s) 401, 531
Psp124BI GAGCTC 1 cut(s) 60
Psp6I CCWGG 1 cut(s) 195
PspGI CCWGG 1 cut(s) 195
PspN4I GGNNCC 1 cut(s) 201
PspPI GGNCC 1 cut(s) 262
PsuI RGATCY 1 cut(s) 199
SacI GAGCTC 1 cut(s) 60
SaqAI TTAA 6 cut(s) 279, 317, 327, 401, 531, 585
SatI GCNGC 1 cut(s) 74
Sau3AI GATC 2 cut(s) 199, 358
Sau96I GGNCC 1 cut(s) 262
ScrFI CCNGG 2 cut(s) 197, 204
SduI GDGCHC 3 cut(s) 60, 107, 548
SinI GGWCC 1 cut(s) 262
SmlI CTYRAG 1 cut(s) 584
SmoI CTYRAG 1 cut(s) 584
Sse9I AATT 3 cut(s) 86, 144, 528
SseBI AGGCCT 1 cut(s) 322
SsiI CCGC 3 cut(s) 74, 356, 431
SstI GAGCTC 1 cut(s) 60
StuI AGGCCT 1 cut(s) 322
StyD4I CCNGG 2 cut(s) 195, 202
StyI CCWWGG 1 cut(s) 265
TaaI ACNGT 1 cut(s) 517
TaqI TCGA 1 cut(s) 64
TasI AATT 3 cut(s) 86, 144, 528
TauI GCSGC 1 cut(s) 76
TfiI GAWTC 1 cut(s) 181
Tru1I TTAA 6 cut(s) 279, 317, 327, 401, 531, 585
Tru9I TTAA 6 cut(s) 279, 317, 327, 401, 531, 585
TseFI GTSAC 1 cut(s) 470
Tsp45I GTSAC 1 cut(s) 470
Vha464I CTTAAG 1 cut(s) 584
VneI GTGCAC 1 cut(s) 103
VpaK11BI GGWCC 1 cut(s) 262
VspI ATTAAT 2 cut(s) 401, 531
XapI RAATTY 2 cut(s) 86, 144
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.