Rmu_sc0006343.1_g000011

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0006343.1
OG0000146
Physical Location & Seq
Forward (+)
51255 .. 51995
741 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0006343.1_g000011.1.cds

Sequence Viewer

Length: 615 bp
atgcggatgcgcattgaagtacgagggaaggttggttatctgaccggagtgaaggctgaacctaccatgaattttgtagagtatgaagcttgggccacgaacaatgaaaagatctttgaattgaacaagaagtgttttgaagcaaagcagaatggacggctcattcctacctactataatgagttagtgacgatgttccaggagattgatcaaagggtggcttctcagaattataatgttgcagctgtggttcaagagacttcaacgatgtcccggatgcttgttcacatgtttttgaatggacttgacccaaagtatgatgaggtatgtggagagatcctacgcaaggaacctaaactctccttggagcagagctatgcttacattcacaaggtgcaatcagagaaacaggctatggaacattcgatatctaccaaatcttctgttatggtttttcaacgtaaacagggtcctcttccaagcttctcaggtctttctccacgtcatcctctaggtaaaccaaatccatatgcaaacaaaaagtgcattctctgtggggaattaggtcatagcaaggagcagtgctatgaagtgattagttaccctgattggtga
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

204

Amino Acids

23.48

Weight (kDa)

8.5

Isoelectric Point (pI)

37.08

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)
AanI TTATAA 1 cut(s) 234
Acc16I TGCGCA 1 cut(s) 11
AciI CCGC 1 cut(s) 4
AclWI GGATC 1 cut(s) 331
AcsI RAATTY 1 cut(s) 70
AdeI CACNNNGTG 1 cut(s) 394
AfaI GTAC 1 cut(s) 21
AfiI CCNNNNNNNGG 1 cut(s) 346
AflIII ACRYGT 1 cut(s) 288
AgsI TTSAA 8 cut(s) 17, 119, 124, 140, 254, 264, 298, 458
AjiI CACGTC 1 cut(s) 503
AjnI CCWGG 1 cut(s) 198
AluBI AGCT 4 cut(s) 89, 245, 375, 483
AluI AGCT 4 cut(s) 89, 245, 375, 483
Alw26I GTCTC 1 cut(s) 251
AlwI GGATC 1 cut(s) 331
AoxI GGCC 1 cut(s) 93
ApeKI GCWGC 1 cut(s) 242
ApoI RAATTY 1 cut(s) 70
AspLEI GCGC 1 cut(s) 12
AspS9I GGNCC 2 cut(s) 93, 470
AsuC2I CCSGG 1 cut(s) 274
AvaII GGWCC 1 cut(s) 470
BbvI GCAGC 1 cut(s) 254
BceAI ACGGC 1 cut(s) 173
BciT130I CCWGG 1 cut(s) 200
BclI TGATCA 1 cut(s) 208
BcnI CCSGG 1 cut(s) 274
BcoDI GTCTC 1 cut(s) 251
BfaI CTAG 1 cut(s) 512
BglII AGATCT 1 cut(s) 111
BisI GCNGC 1 cut(s) 243
BlsI GCNGC 1 cut(s) 244
Bme1390I CCNGG 2 cut(s) 200, 274
Bme18I GGWCC 1 cut(s) 470
BmgBI CACGTC 1 cut(s) 503
BmgT120I GGNCC 2 cut(s) 93, 470
BmiI GGNNCC 2 cut(s) 351, 471
BmrFI CCNGG 2 cut(s) 200, 274
BmsI GCATC 1 cut(s) 267
BpuMI CCSGG 1 cut(s) 274
BsaJI CCNNGG 1 cut(s) 363
BsaWI WCCGGW 1 cut(s) 44
Bsc4I CCNNNNNNNGG 1 cut(s) 346
BseBI CCWGG 1 cut(s) 200
BseDI CCNNGG 1 cut(s) 363
BseGI GGATG 3 cut(s) 12, 282, 505
BseLI CCNNNNNNNGG 1 cut(s) 346
BseMII CTCAG 2 cut(s) 239, 501
BseXI GCAGC 1 cut(s) 254
BshFI GGCC 1 cut(s) 95
BsiSI CCGG 2 cut(s) 45, 274
BslFI GGGAC 1 cut(s) 256
BslI CCNNNNNNNGG 1 cut(s) 346
BsmAI GTCTC 1 cut(s) 251
BsmFI GGGAC 1 cut(s) 256
BsmI GAATGC 1 cut(s) 546
BsnI GGCC 1 cut(s) 95
Bsp143I GATC 3 cut(s) 111, 208, 336
BspACI CCGC 1 cut(s) 4
BspANI GGCC 1 cut(s) 95
BspCNI CTCAG 2 cut(s) 238, 500
BspLI GGNNCC 2 cut(s) 351, 471
BspPI GGATC 1 cut(s) 331
BssECI CCNNGG 1 cut(s) 363
BssMI GATC 3 cut(s) 111, 208, 336
BssT1I CCWWGG 1 cut(s) 363
Bst2UI CCWGG 1 cut(s) 200
Bst6I CTCTTC 1 cut(s) 480
BstDEI CTNAG 2 cut(s) 225, 487
BstENI CCTNNNNNAGG 1 cut(s) 344
BstF5I GGATG 3 cut(s) 12, 282, 505
BstHHI GCGC 1 cut(s) 12
BstKTI GATC 3 cut(s) 114, 211, 339
BstMAI GTCTC 1 cut(s) 251
BstMBI GATC 3 cut(s) 111, 208, 336
BstNI CCWGG 1 cut(s) 200
BstNSI RCATGY 1 cut(s) 292
BstSCI CCNGG 2 cut(s) 198, 272
BstV1I GCAGC 1 cut(s) 254
BstX2I RGATCY 2 cut(s) 111, 336
BstYI RGATCY 2 cut(s) 111, 336
BsuRI GGCC 1 cut(s) 95
BtrI CACGTC 1 cut(s) 503
BtsCI GGATG 3 cut(s) 12, 282, 505
BtsI GCAGTG 1 cut(s) 587
BtsIMutI CAGTG 1 cut(s) 587
CfoI GCGC 1 cut(s) 12
Cfr13I GGNCC 2 cut(s) 93, 470
Csp6I GTAC 1 cut(s) 20
CviAII CATG 2 cut(s) 67, 289
CviJI RGCY 9 cut(s) 56, 89, 95, 160, 221, 245, 375, 413, 483
CviKI_1 RGCY 9 cut(s) 56, 89, 95, 160, 221, 245, 375, 413, 483
CviQI GTAC 1 cut(s) 20
DdeI CTNAG 2 cut(s) 225, 487
DpnI GATC 3 cut(s) 113, 210, 338
DpnII GATC 3 cut(s) 111, 208, 336
DraIII CACNNNGTG 1 cut(s) 394
Eam1104I CTCTTC 1 cut(s) 480
EarI CTCTTC 1 cut(s) 480
Eco130I CCWWGG 1 cut(s) 363
Eco32I GATATC 1 cut(s) 429
Eco47I GGWCC 1 cut(s) 470
EcoNI CCTNNNNNAGG 1 cut(s) 344
EcoO109I RGGNCCY 1 cut(s) 470
EcoRII CCWGG 1 cut(s) 198
EcoRV GATATC 1 cut(s) 429
EcoT14I CCWWGG 1 cut(s) 363
ErhI CCWWGG 1 cut(s) 363
FaeI CATG 2 cut(s) 70, 292
FalI AAGNNNNNCTT 2 cut(s) 205, 237
FaqI GGGAC 1 cut(s) 256
FatI CATG 2 cut(s) 66, 288
FauNDI CATATG 1 cut(s) 529
FbaI TGATCA 1 cut(s) 208
Fnu4HI GCNGC 1 cut(s) 243
FokI GGATG 3 cut(s) 19, 289, 492
Fsp4HI GCNGC 1 cut(s) 243
FspAI RTGCGCAY 1 cut(s) 11
FspBI CTAG 1 cut(s) 512
FspI TGCGCA 1 cut(s) 11
GlaI GCGC 1 cut(s) 11
GluI GCNGC 1 cut(s) 243
HaeIII GGCC 1 cut(s) 95
HapII CCGG 2 cut(s) 45, 274
HhaI GCGC 1 cut(s) 12
Hin1II CATG 2 cut(s) 70, 292
Hin6I GCGC 1 cut(s) 10
HinP1I GCGC 1 cut(s) 10
HindIII AAGCTT 2 cut(s) 87, 481
HpaII CCGG 2 cut(s) 45, 274
Hpy166II GTNNAC 3 cut(s) 286, 464, 518
Hpy188I TCNGA 3 cut(s) 42, 228, 403
Hpy188III TCNNGA 1 cut(s) 254
Hpy8I GTNNAC 3 cut(s) 286, 464, 518
HpyAV CCTTC 2 cut(s) 22, 46
HpyCH4IV ACGT 2 cut(s) 460, 502
HpyCH4V TGCA 4 cut(s) 242, 397, 533, 546
HpyF3I CTNAG 2 cut(s) 225, 487
HpySE526I ACGT 2 cut(s) 460, 502
Hsp92II CATG 2 cut(s) 70, 292
HspAI GCGC 1 cut(s) 10
Ksp22I TGATCA 1 cut(s) 208
Kzo9I GATC 3 cut(s) 111, 208, 336
LmnI GCTCC 2 cut(s) 367, 577
LpnPI CCDG 7 cut(s) 58, 185, 212, 287, 395, 452, 474
Lsp1109I GCAGC 1 cut(s) 254
LweI GCATC 1 cut(s) 267
MaeI CTAG 1 cut(s) 512
MaeII ACGT 2 cut(s) 460, 502
MaeIII GTNAC 2 cut(s) 187, 599
MalI GATC 3 cut(s) 113, 210, 338
MboI GATC 3 cut(s) 111, 208, 336
MboII GAAGA 2 cut(s) 432, 467
MflI RGATCY 2 cut(s) 111, 336
MluCI AATT 4 cut(s) 70, 119, 229, 560
MnlI CCTC 4 cut(s) 17, 316, 483, 519
MspA1I CMGCKG 1 cut(s) 245
MspI CCGG 2 cut(s) 45, 274
MspR9I CCNGG 2 cut(s) 200, 274
Mva1269I GAATGC 1 cut(s) 546
MvaI CCWGG 1 cut(s) 200
NciI CCSGG 1 cut(s) 274
NdeI CATATG 1 cut(s) 529
NdeII GATC 3 cut(s) 111, 208, 336
NlaIII CATG 2 cut(s) 70, 292
NlaIV GGNNCC 2 cut(s) 351, 471
NmuCI GTSAC 1 cut(s) 187
NsbI TGCGCA 1 cut(s) 11
NspI RCATGY 1 cut(s) 292
PciI ACATGT 1 cut(s) 288
PctI GAATGC 1 cut(s) 546
PfoI TCCNGGA 2 cut(s) 198, 272
PkrI GCNGC 1 cut(s) 244
PpuMI RGGWCCY 1 cut(s) 470
PscI ACATGT 1 cut(s) 288
PsiI TTATAA 1 cut(s) 234
Psp5II RGGWCCY 1 cut(s) 470
Psp6I CCWGG 1 cut(s) 198
PspGI CCWGG 1 cut(s) 198
PspN4I GGNNCC 2 cut(s) 351, 471
PspPI GGNCC 2 cut(s) 93, 470
PspPPI RGGWCCY 1 cut(s) 470
PsuI RGATCY 2 cut(s) 111, 336
PvuII CAGCTG 1 cut(s) 245
RsaI GTAC 1 cut(s) 21
RsaNI GTAC 1 cut(s) 20
SatI GCNGC 1 cut(s) 243
Sau3AI GATC 3 cut(s) 111, 208, 336
Sau96I GGNCC 2 cut(s) 93, 470
ScrFI CCNGG 2 cut(s) 200, 274
SfaNI GCATC 1 cut(s) 267
SinI GGWCC 1 cut(s) 470
Sse9I AATT 4 cut(s) 70, 119, 229, 560
SsiI CCGC 1 cut(s) 4
SspMI CTAG 1 cut(s) 512
StyD4I CCNGG 2 cut(s) 198, 272
StyI CCWWGG 1 cut(s) 363
TaiI ACGT 2 cut(s) 463, 505
TaqI TCGA 1 cut(s) 425
TasI AATT 4 cut(s) 70, 119, 229, 560
TscAI CASTG 1 cut(s) 587
TseFI GTSAC 1 cut(s) 187
TseI GCWGC 1 cut(s) 242
Tsp45I GTSAC 1 cut(s) 187
TspDTI ATGAA 4 cut(s) 83, 99, 120, 603
TspRI CASTG 1 cut(s) 587
VpaK11BI GGWCC 1 cut(s) 470
XagI CCTNNNNNAGG 1 cut(s) 344
XapI RAATTY 1 cut(s) 70
XceI RCATGY 1 cut(s) 292
XspI CTAG 1 cut(s) 512
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.