Rmu_ssc0000100.1_g000027

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000100.1
OG0000146
Physical Location & Seq
Forward (+)
110340 .. 110980
641 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000100.1_g000027.1.cds

Sequence Viewer

Length: 528 bp
atggcctctcaaaataatacagtggctgcagttgttcaagagactactaccatggcacggatgcgagttcacatgtttcttaatgatcaagttcgtggtaagattcttcacgaagactcgaaattcgatctaaagcaaagctatgcctatgttcgaaaggtgcattttgatagacaggcaatggaacaggcctttgaggcctcggtcatggttgtccaacacaaacagggtcctcccctaggcttctcaactccttcaccacgccgccctccgggtaaaacaaatccatatgcaaatcgaaagtgtccggtctgtggagatttgggtcatagcaagcagtggtgctatgaattagtaattagctaccttgattggtgggatttcaccaagaaaccacgaaagaaccttgggaaagttgccgacattctgactagaaagattcttggttatggtgttagaaggaggaaactctactacttggatctgacagaaagtggagagcaacagctgttaggacaagtgaattag
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
Retrotran_gag_2

Protein Analysis

175

Amino Acids

20.19

Weight (kDa)

9.71

Isoelectric Point (pI)

44.62

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

Orthologous Genes (Group: OG0000146)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g19561 FvH4_1g25371 FvH4_1g25961 FvH4_2g00352 FvH4_2g00861 FvH4_2g04952 FvH4_2g05413 FvH4_2g07531 FvH4_2g08961 FvH4_2g25141 FvH4_2g27292 FvH4_3g18164 FvH4_3g19921 FvH4_3g43870 FvH4_4g14441 FvH4_4g15581 FvH4_4g15582 FvH4_4g16890 FvH4_4g19782 FvH4_4g33444 FvH4_4g33921 FvH4_5g22281 FvH4_5g22282 FvH4_5g32571 FvH4_5g37451 FvH4_5g39631 FvH4_6g04721 FvH4_6g11661 FvH4_6g20571 FvH4_6g32791 FvH4_7g23184
prunus_persica Prupe.1G090900_v2.0.a1 Prupe.1G241200_v2.0.a1 Prupe.1G534100_v2.0.a1 Prupe.3G076700_v2.0.a1 Prupe.4G150800_v2.0.a1 Prupe.4G181800_v2.0.a1 Prupe.4G240900_v2.0.a1 Prupe.4G247600_v2.0.a1 Prupe.6G115900_v2.0.a1 Prupe.6G327500_v2.0.a1 Prupe.8G071700_v2.0.a1
pyrus_communis pycom06g11480 pycom10g08330 pycom15g04320 pycom15g04350 pycom15g12620 pycom2874g00060
rosa_chinensis RchiOBHm_Chr1g0317241 RchiOBHm_Chr1g0341801 RchiOBHm_Chr1g0341931 RchiOBHm_Chr1g0359621 RchiOBHm_Chr2g0113741 RchiOBHm_Chr2g0117261 RchiOBHm_Chr2g0138831 RchiOBHm_Chr2g0141421 RchiOBHm_Chr2g0145281 RchiOBHm_Chr2g0152991 RchiOBHm_Chr3g0448001 RchiOBHm_Chr3g0450981 RchiOBHm_Chr3g0455161 RchiOBHm_Chr3g0457401 RchiOBHm_Chr3g0460001 RchiOBHm_Chr4g0387431 RchiOBHm_Chr4g0388741 RchiOBHm_Chr4g0444201 RchiOBHm_Chr4g0444261 RchiOBHm_Chr5g0010221 RchiOBHm_Chr6g0271721 RchiOBHm_Chr6g0274641 RchiOBHm_Chr6g0294691 RchiOBHm_Chr7g0237031 RchiOBHm_Chr7g0238461 RchiOBHm_Chr7g0239981
rosa_laevigata RLG00000009017
rosa_multiflora Rmu_co7986768.1_g000001 Rmu_co8302239.1_g000001 Rmu_co8485799.1_g000001 Rmu_sc0000061.1_g000013 Rmu_sc0000303.1_g000034 Rmu_sc0000303.1_g000035 Rmu_sc0000315.1_g000017 Rmu_sc0000349.1_g000003 Rmu_sc0000498.1_g000068 Rmu_sc0000508.1_g000014 Rmu_sc0000602.1_g000001 Rmu_sc0000633.1_g000002 Rmu_sc0000638.1_g000030 Rmu_sc0000756.1_g000016 Rmu_sc0000756.1_g000017 Rmu_sc0000785.1_g000037 Rmu_sc0000795.1_g000017 Rmu_sc0000796.1_g000030 Rmu_sc0000863.1_g000023 Rmu_sc0000920.1_g000021 Rmu_sc0000960.1_g000015 Rmu_sc0000982.1_g000102 Rmu_sc0001036.1_g000008 Rmu_sc0001036.1_g000009 Rmu_sc0001643.1_g000029 Rmu_sc0001687.1_g000026 Rmu_sc0001708.1_g000037 Rmu_sc0001768.1_g000015 Rmu_sc0001790.1_g000022 Rmu_sc0002180.1_g000007 Rmu_sc0002211.1_g000006 Rmu_sc0002270.1_g000010 Rmu_sc0002404.1_g000031 Rmu_sc0002858.1_g000016 Rmu_sc0003063.1_g000028 Rmu_sc0003730.1_g000017 Rmu_sc0004087.1_g000020 Rmu_sc0004618.1_g000048 Rmu_sc0004724.1_g000005 Rmu_sc0005167.1_g000036 Rmu_sc0005781.1_g000003 Rmu_sc0005878.1_g000012 Rmu_sc0006011.1_g000003 Rmu_sc0006343.1_g000011 Rmu_sc0006573.1_g000007 Rmu_sc0006599.1_g000007 Rmu_sc0006803.1_g000014 Rmu_sc0006836.1_g000002 Rmu_sc0006849.1_g000002 Rmu_sc0007109.1_g000009 Rmu_sc0009268.1_g000016 Rmu_sc0009618.1_g000017 Rmu_sc0009674.1_g000009 Rmu_sc0010244.1_g000009 Rmu_sc0011151.1_g000004 Rmu_sc0011356.1_g000001 Rmu_sc0011674.1_g000002 Rmu_sc0011778.1_g000016 Rmu_sc0012342.1_g000001 Rmu_sc0012467.1_g000002 Rmu_sc0012574.1_g000003 Rmu_sc0012913.1_g000005 Rmu_sc0013612.1_g000020 Rmu_sc0014824.1_g000001 Rmu_sc0017869.1_g000002 Rmu_sc0018085.1_g000003 Rmu_sc0024789.1_g000001 Rmu_sc0025106.1_g000013 Rmu_sc0034502.1_g000001 Rmu_sc0034547.1_g000001 Rmu_sc0035094.1_g000001 Rmu_sc0035095.1_g000001 Rmu_ssc0000100.1_g000027 Rmu_ssc0000244.1_g000005 Rmu_ssc0000371.1_g000029 Rmu_ssc0000381.1_g000004
rosa_roxburghii Rroxscaffold_1G00015480 Rroxscaffold_1G00023580 Rroxscaffold_1G00039340 Rroxscaffold_1G00047080 Rroxscaffold_2G00095820 Rroxscaffold_2G00125200 Rroxscaffold_2G00128330 Rroxscaffold_3G00270860
rosa_rugosa Rorug06G0120700
rosa_samantha Rh3BG173100 Rh6AG089600 Rh7AG488100 Rh7DG389600
rosa_wichuraiana Rw0G001150 Rw0G001990 Rw0G002010 Rw0G019540 Rw1G013730 Rw1G024110 Rw1G029190 Rw2G018850 Rw2G021090 Rw2G022260 Rw2G023180 Rw2G027280 Rw3G010190 Rw3G020660 Rw3G029380 Rw4G002390 Rw4G002690 Rw4G033260 Rw5G011960 Rw5G023110 Rw5G025250 Rw5G028950 Rw5G033740 Rw5G033950 Rw5G037900 Rw6G009640 Rw6G011620 Rw6G027720 Rw7G010680 Rw7G042070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 265
AclWI GGATC 1 cut(s) 489
AcsI RAATTY 1 cut(s) 122
AfiI CCNNNNNNNGG 4 cut(s) 57, 239, 271, 314
AflIII ACRYGT 1 cut(s) 72
AgsI TTSAA 1 cut(s) 38
AluBI AGCT 3 cut(s) 141, 363, 508
AluI AGCT 3 cut(s) 141, 363, 508
Alw26I GTCTC 1 cut(s) 35
AlwI GGATC 1 cut(s) 489
AlwNI CAGNNNCTG 1 cut(s) 26
AoxI GGCC 3 cut(s) 3, 189, 198
ApeKI GCWGC 1 cut(s) 26
ApoI RAATTY 1 cut(s) 122
ArsI GACNNNNNNTTYG 2 cut(s) 107, 139
AspA2I CCTAGG 1 cut(s) 238
AspS9I GGNCC 1 cut(s) 230
AsuC2I CCSGG 1 cut(s) 273
AsuHPI GGTGA 2 cut(s) 249, 376
AsuII TTCGAA 1 cut(s) 154
AvaII GGWCC 1 cut(s) 230
AvrII CCTAGG 1 cut(s) 238
BbsI GAAGAC 1 cut(s) 120
BbvI GCAGC 1 cut(s) 13
BclI TGATCA 1 cut(s) 85
BcnI CCSGG 1 cut(s) 273
BcoDI GTCTC 1 cut(s) 35
BfaI CTAG 2 cut(s) 239, 432
BfmI CTRYAG 1 cut(s) 27
BglI GCCNNNNNGGC 1 cut(s) 197
BisI GCNGC 2 cut(s) 27, 265
BlnI CCTAGG 1 cut(s) 238
BlsI GCNGC 2 cut(s) 28, 266
Bme1390I CCNGG 1 cut(s) 273
Bme18I GGWCC 1 cut(s) 230
BmgT120I GGNCC 1 cut(s) 230
BmiI GGNNCC 1 cut(s) 231
BmrFI CCNGG 1 cut(s) 273
BmsI GCATC 1 cut(s) 51
BpiI GAAGAC 1 cut(s) 120
Bpu14I TTCGAA 1 cut(s) 154
BpuMI CCSGG 1 cut(s) 273
BsaJI CCNNGG 4 cut(s) 51, 201, 238, 406
BsaWI WCCGGW 1 cut(s) 307
Bsc4I CCNNNNNNNGG 4 cut(s) 57, 239, 271, 314
Bse3DI GCAATG 1 cut(s) 186
BseDI CCNNGG 4 cut(s) 51, 201, 238, 406
BseGI GGATG 1 cut(s) 66
BseLI CCNNNNNNNGG 4 cut(s) 57, 239, 271, 314
BseMI GCAATG 1 cut(s) 186
BseXI GCAGC 1 cut(s) 13
BshFI GGCC 3 cut(s) 5, 191, 200
BsiSI CCGG 2 cut(s) 272, 308
BslI CCNNNNNNNGG 4 cut(s) 57, 239, 271, 314
BsmAI GTCTC 1 cut(s) 35
BsnI GGCC 3 cut(s) 5, 191, 200
Bsp119I TTCGAA 1 cut(s) 154
Bsp143I GATC 3 cut(s) 85, 127, 481
Bsp19I CCATGG 1 cut(s) 51
BspACI CCGC 1 cut(s) 265
BspANI GGCC 3 cut(s) 5, 191, 200
BspLI GGNNCC 1 cut(s) 231
BspMAI CTGCAG 1 cut(s) 31
BspPI GGATC 1 cut(s) 489
BspT104I TTCGAA 1 cut(s) 154
BsrDI GCAATG 1 cut(s) 186
BssECI CCNNGG 4 cut(s) 51, 201, 238, 406
BssMI GATC 3 cut(s) 85, 127, 481
BssT1I CCWWGG 3 cut(s) 51, 238, 406
Bst4CI ACNGT 1 cut(s) 22
BstBI TTCGAA 1 cut(s) 154
BstC8I GCNNGC 1 cut(s) 335
BstDSI CCRYGG 1 cut(s) 51
BstENI CCTNNNNNAGG 1 cut(s) 237
BstF5I GGATG 1 cut(s) 66
BstKTI GATC 3 cut(s) 88, 130, 484
BstMAI GTCTC 1 cut(s) 35
BstMBI GATC 3 cut(s) 85, 127, 481
BstMWI GCNNNNNNNGC 1 cut(s) 197
BstNSI RCATGY 1 cut(s) 76
BstSCI CCNGG 1 cut(s) 271
BstSFI CTRYAG 1 cut(s) 27
BstV1I GCAGC 1 cut(s) 13
BstV2I GAAGAC 1 cut(s) 120
BstX2I RGATCY 1 cut(s) 481
BstYI RGATCY 1 cut(s) 481
BsuRI GGCC 3 cut(s) 5, 191, 200
BtgI CCRYGG 1 cut(s) 51
BtsCI GGATG 1 cut(s) 66
BtsI GCAGTG 1 cut(s) 344
BtsIMutI CAGTG 2 cut(s) 27, 344
Cac8I GCNNGC 1 cut(s) 335
CaiI CAGNNNCTG 1 cut(s) 26
Cfr13I GGNCC 1 cut(s) 230
CviAII CATG 3 cut(s) 52, 73, 208
CviJI RGCY 8 cut(s) 5, 26, 141, 191, 200, 243, 363, 508
CviKI_1 RGCY 8 cut(s) 5, 26, 141, 191, 200, 243, 363, 508
DpnI GATC 3 cut(s) 87, 129, 483
DpnII GATC 3 cut(s) 85, 127, 481
Eco130I CCWWGG 3 cut(s) 51, 238, 406
Eco147I AGGCCT 2 cut(s) 191, 200
Eco47I GGWCC 1 cut(s) 230
EcoNI CCTNNNNNAGG 1 cut(s) 237
EcoO109I RGGNCCY 1 cut(s) 230
EcoT14I CCWWGG 3 cut(s) 51, 238, 406
ErhI CCWWGG 3 cut(s) 51, 238, 406
FaeI CATG 3 cut(s) 55, 76, 211
FatI CATG 3 cut(s) 51, 72, 207
FauNDI CATATG 1 cut(s) 289
FbaI TGATCA 1 cut(s) 85
Fnu4HI GCNGC 2 cut(s) 27, 265
FokI GGATG 1 cut(s) 73
Fsp4HI GCNGC 2 cut(s) 27, 265
FspBI CTAG 2 cut(s) 239, 432
GluI GCNGC 2 cut(s) 27, 265
HaeIII GGCC 3 cut(s) 5, 191, 200
HapII CCGG 2 cut(s) 272, 308
Hin1II CATG 3 cut(s) 55, 76, 211
HinfI GANTC 3 cut(s) 103, 116, 439
HpaII CCGG 2 cut(s) 272, 308
HphI GGTGA 2 cut(s) 249, 376
Hpy166II GTNNAC 1 cut(s) 70
Hpy188I TCNGA 2 cut(s) 429, 486
Hpy188III TCNNGA 2 cut(s) 38, 110
Hpy8I GTNNAC 1 cut(s) 70
HpyAV CCTTC 2 cut(s) 264, 453
HpyCH4III ACNGT 1 cut(s) 22
HpyCH4V TGCA 3 cut(s) 29, 163, 293
HpyF10VI GCNNNNNNNGC 1 cut(s) 197
Hsp92II CATG 3 cut(s) 55, 76, 211
Ksp22I TGATCA 1 cut(s) 85
Kzo9I GATC 3 cut(s) 85, 127, 481
LpnPI CCDG 5 cut(s) 161, 173, 212, 285, 321
Lsp1109I GCAGC 1 cut(s) 13
LweI GCATC 1 cut(s) 51
MaeI CTAG 2 cut(s) 239, 432
MalI GATC 3 cut(s) 87, 129, 483
MboI GATC 3 cut(s) 85, 127, 481
MboII GAAGA 2 cut(s) 98, 125
MflI RGATCY 1 cut(s) 481
MluCI AATT 4 cut(s) 122, 350, 357, 523
MlyI GAGTC 1 cut(s) 110
MmeI TCCRAC 1 cut(s) 241
MnlI CCTC 6 cut(s) 16, 190, 211, 243, 279, 456
MseI TTAA 1 cut(s) 81
MspA1I CMGCKG 1 cut(s) 508
MspI CCGG 2 cut(s) 272, 308
MspR9I CCNGG 1 cut(s) 273
MwoI GCNNNNNNNGC 1 cut(s) 197
NciI CCSGG 1 cut(s) 273
NcoI CCATGG 1 cut(s) 51
NdeI CATATG 1 cut(s) 289
NdeII GATC 3 cut(s) 85, 127, 481
NlaIII CATG 3 cut(s) 55, 76, 211
NlaIV GGNNCC 1 cut(s) 231
NspI RCATGY 1 cut(s) 76
NspV TTCGAA 1 cut(s) 154
PceI AGGCCT 2 cut(s) 191, 200
PciI ACATGT 1 cut(s) 72
PfeI GAWTC 2 cut(s) 103, 439
PkrI GCNGC 2 cut(s) 28, 266
PleI GAGTC 1 cut(s) 110
PpsI GAGTC 1 cut(s) 110
PpuMI RGGWCCY 1 cut(s) 230
PscI ACATGT 1 cut(s) 72
Psp5II RGGWCCY 1 cut(s) 230
PspN4I GGNNCC 1 cut(s) 231
PspPI GGNCC 1 cut(s) 230
PspPPI RGGWCCY 1 cut(s) 230
PstI CTGCAG 1 cut(s) 31
PstNI CAGNNNCTG 1 cut(s) 26
PsuI RGATCY 1 cut(s) 481
PvuII CAGCTG 1 cut(s) 508
SaqAI TTAA 1 cut(s) 81
SatI GCNGC 2 cut(s) 27, 265
Sau3AI GATC 3 cut(s) 85, 127, 481
Sau96I GGNCC 1 cut(s) 230
SchI GAGTC 1 cut(s) 110
ScrFI CCNGG 1 cut(s) 273
SetI ASST 6 cut(s) 143, 162, 365, 369, 408, 510
SfaNI GCATC 1 cut(s) 51
SfcI CTRYAG 1 cut(s) 27
SfiI GGCCNNNNNGGCC 1 cut(s) 197
SfuI TTCGAA 1 cut(s) 154
SinI GGWCC 1 cut(s) 230
Sse9I AATT 4 cut(s) 122, 350, 357, 523
SseBI AGGCCT 2 cut(s) 191, 200
SsiI CCGC 1 cut(s) 265
SspMI CTAG 2 cut(s) 239, 432
StuI AGGCCT 2 cut(s) 191, 200
StyD4I CCNGG 1 cut(s) 271
StyI CCWWGG 3 cut(s) 51, 238, 406
TaaI ACNGT 1 cut(s) 22
TaqI TCGA 4 cut(s) 119, 126, 154, 298
TaqII GACCGA 1 cut(s) 193
TasI AATT 4 cut(s) 122, 350, 357, 523
TauI GCSGC 1 cut(s) 267
TfiI GAWTC 2 cut(s) 103, 439
Tru1I TTAA 1 cut(s) 81
Tru9I TTAA 1 cut(s) 81
TscAI CASTG 2 cut(s) 27, 344
TseI GCWGC 1 cut(s) 26
TspDTI ATGAA 1 cut(s) 363
TspGWI ACGGA 1 cut(s) 73
TspRI CASTG 2 cut(s) 27, 344
VpaK11BI GGWCC 1 cut(s) 230
XagI CCTNNNNNAGG 1 cut(s) 237
XapI RAATTY 1 cut(s) 122
XceI RCATGY 1 cut(s) 76
XmaJI CCTAGG 1 cut(s) 238
XspI CTAG 2 cut(s) 239, 432
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.