Rmu_sc0033125.1_g000001

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0033125.1
OG0000250
Physical Location & Seq
Reverse (-)
111 .. 743
633 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0033125.1_g000001.1.cds

Sequence Viewer

Length: 429 bp
atggcagaatatgaagcgctgattgttggcttactcctcgccatcgactcgggagctaacagcttcaacatattcagcgactcccaattagtagttaaccagcatcacaaaaaccctagcggaaatcttcaacatagagatcaatctcagttagatgaacgagatcatcgaatacaagcgcaacggaacattgccagaggacaaagtcgaagcacgacagctcaagcagagtgcaacccgctacaacattcaaaatggcaagctttaccgctaggggttcacccaccccaacctccagtgcctaaccccagaagagggaaaggttgtgctggcaacgatacacgacggagaatatggcaaccattcaggcgccaggtccttacccaatcgtacaatgcgacaatgctacttttggcccacgctctgtga
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
RVT_1 RVT_3 Retrotrans_gag rve

Protein Analysis

142

Amino Acids

15.97

Weight (kDa)

10.16

Isoelectric Point (pI)

66.92

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: OG0000250)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g22373 FvH4_1g22374 FvH4_1g25831 FvH4_1g28031 FvH4_2g11354 FvH4_3g11301 FvH4_3g11302 FvH4_3g14364 FvH4_3g20862 FvH4_4g15482 FvH4_4g15483 FvH4_4g15484 FvH4_5g25502 FvH4_5g37242 FvH4_6g18432 FvH4_6g18433 FvH4_6g20952 FvH4_7g02201 FvH4_7g10991
prunus_persica Prupe.6G166700_v2.0.a1
pyrus_communis pycom01g03860 pycom02g16130 pycom05g08340 pycom07g08280 pycom16g20980 pycom16g25810
rosa_chinensis RchiOBHm_Chr5g0018261
rosa_laevigata RLG00000022447
rosa_multiflora Rmu_co7963284.1_g000001 Rmu_co7968088.1_g000001 Rmu_co8036800.1_g000001 Rmu_co8110294.1_g000001 Rmu_co8291955.1_g000001 Rmu_co8396209.1_g000002 Rmu_co8413879.1_g000001 Rmu_co8464165.1_g000001 Rmu_co8469565.1_g000001 Rmu_co8485695.1_g000003 Rmu_co8486821.1_g000003 Rmu_co8515379.1_g000001 Rmu_sc0000239.1_g000074 Rmu_sc0000327.1_g000028 Rmu_sc0000509.1_g000002 Rmu_sc0000677.1_g000042 Rmu_sc0000756.1_g000032 Rmu_sc0000782.1_g000013 Rmu_sc0001144.1_g000044 Rmu_sc0001861.1_g000003 Rmu_sc0002371.1_g000016 Rmu_sc0002451.1_g000061 Rmu_sc0002764.1_g000053 Rmu_sc0002868.1_g000041 Rmu_sc0003735.1_g000026 Rmu_sc0004654.1_g000006 Rmu_sc0005038.1_g000020 Rmu_sc0005236.1_g000001 Rmu_sc0006725.1_g000004 Rmu_sc0010685.1_g000001 Rmu_sc0011973.1_g000010 Rmu_sc0012722.1_g000001 Rmu_sc0015925.1_g000002 Rmu_sc0017188.1_g000001 Rmu_sc0021806.1_g000001 Rmu_sc0033125.1_g000001 Rmu_sc0038204.1_g000001 Rmu_ssc0000215.1_g000038
rosa_roxburghii Rroxscaffold_1G00001020 Rroxscaffold_1G00027520 Rroxscaffold_3G00228140 Rroxscaffold_4G00320850 Rroxscaffold_4G00321830 Rroxscaffold_4G00321840 Rroxscaffold_4G00332450 Rroxscaffold_5G00344360 Rroxscaffold_5G00365190 Rroxscaffold_5G00377320 Rroxscaffold_5G00377330 Rroxscaffold_7G00183080 Rroxscaffold_7G00184560 Rroxscaffold_7G00216010
rosa_rugosa Rorug02G0381000
rosa_samantha Rh1AG155000 Rh1AG167000 Rh2AG095000 Rh3BG335500 Rh4AG082900 Rh4CG090200 Rh5CG445500 Rh7DG403200
rosa_wichuraiana Rw0G001000 Rw0G014090 Rw0G019800 Rw0G020130 Rw0G020350 Rw1G002560 Rw1G013310 Rw1G014300 Rw1G014670 Rw1G016610 Rw1G021110 Rw1G024950 Rw1G028180 Rw2G020910 Rw2G024170 Rw2G024770 Rw2G029990 Rw2G031960 Rw2G034100 Rw3G013950 Rw3G028980 Rw3G029200 Rw4G004150 Rw4G008130 Rw4G012200 Rw4G018750 Rw4G019330 Rw4G021010 Rw4G022120 Rw4G030810 Rw5G015840 Rw5G015850 Rw5G022430 Rw5G022480 Rw5G026870 Rw5G033550 Rw6G009170 Rw6G010190 Rw6G011570 Rw6G018280 Rw6G023730 Rw7G025660 Rw7G029890 Rw7G031130 Rw7G042550

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 369
AciI CCGC 3 cut(s) 120, 239, 269
AcyI GRCGYC 1 cut(s) 370
AfaI GTAC 1 cut(s) 392
AfeI AGCGCT 1 cut(s) 18
AfiI CCNNNNNNNGG 2 cut(s) 314, 315
AgsI TTSAA 3 cut(s) 67, 131, 252
AjnI CCWGG 1 cut(s) 372
AluBI AGCT 4 cut(s) 56, 63, 221, 263
AluI AGCT 4 cut(s) 56, 63, 221, 263
Ama87I CYCGRG 1 cut(s) 49
Aor51HI AGCGCT 1 cut(s) 18
AoxI GGCC 1 cut(s) 414
AspLEI GCGC 3 cut(s) 19, 181, 372
AspS9I GGNCC 2 cut(s) 376, 415
AsuHPI GGTGA 1 cut(s) 272
AvaI CYCGRG 1 cut(s) 49
AvaII GGWCC 1 cut(s) 376
BanI GGYRCC 1 cut(s) 369
BccI CCATC 1 cut(s) 50
BciT130I CCWGG 1 cut(s) 374
BfaI CTAG 2 cut(s) 117, 272
BfoI RGCGCY 2 cut(s) 20, 373
Bme1390I CCNGG 1 cut(s) 374
Bme18I GGWCC 1 cut(s) 376
BmeT110I CYCGRG 1 cut(s) 49
BmgT120I GGNCC 2 cut(s) 376, 415
BmiI GGNNCC 1 cut(s) 371
BmrFI CCNGG 1 cut(s) 374
BmsI GCATC 1 cut(s) 112
BpmI CTGGAG 1 cut(s) 279
BpuEI CTTGAG 1 cut(s) 207
BsaHI GRCGYC 1 cut(s) 370
Bsc4I CCNNNNNNNGG 2 cut(s) 314, 315
Bse1I ACTGG 1 cut(s) 296
Bse3DI GCAATG 1 cut(s) 189
BseBI CCWGG 1 cut(s) 374
BseLI CCNNNNNNNGG 2 cut(s) 314, 315
BseMI GCAATG 1 cut(s) 189
BseMII CTCAG 1 cut(s) 161
BseNI ACTGG 1 cut(s) 296
BseRI GAGGAG 1 cut(s) 26
BshFI GGCC 1 cut(s) 416
BshNI GGYRCC 1 cut(s) 369
BsiHKCI CYCGRG 1 cut(s) 49
BslI CCNNNNNNNGG 2 cut(s) 314, 315
BsnI GGCC 1 cut(s) 416
BsoBI CYCGRG 1 cut(s) 49
Bsp143I GATC 2 cut(s) 139, 163
BspACI CCGC 3 cut(s) 120, 239, 269
BspANI GGCC 1 cut(s) 416
BspCNI CTCAG 1 cut(s) 160
BspLI GGNNCC 1 cut(s) 371
BspT107I GGYRCC 1 cut(s) 369
BsrDI GCAATG 1 cut(s) 189
BsrI ACTGG 1 cut(s) 296
BssMI GATC 2 cut(s) 139, 163
BssNI GRCGYC 1 cut(s) 370
Bst2UI CCWGG 1 cut(s) 374
Bst6I CTCTTC 1 cut(s) 307
BstACI GRCGYC 1 cut(s) 370
BstC8I GCNNGC 2 cut(s) 261, 331
BstDEI CTNAG 1 cut(s) 147
BstH2I RGCGCY 2 cut(s) 20, 373
BstHHI GCGC 3 cut(s) 19, 181, 372
BstKTI GATC 2 cut(s) 142, 166
BstMBI GATC 2 cut(s) 139, 163
BstNI CCWGG 1 cut(s) 374
BstSCI CCNGG 1 cut(s) 372
BsuRI GGCC 1 cut(s) 416
BtsIMutI CAGTG 1 cut(s) 303
Cac8I GCNNGC 2 cut(s) 261, 331
CfoI GCGC 3 cut(s) 19, 181, 372
Cfr13I GGNCC 2 cut(s) 376, 415
Csp6I GTAC 1 cut(s) 391
CviJI RGCY 6 cut(s) 30, 56, 63, 221, 263, 416
CviKI_1 RGCY 6 cut(s) 30, 56, 63, 221, 263, 416
CviQI GTAC 1 cut(s) 391
DdeI CTNAG 1 cut(s) 147
DinI GGCGCC 1 cut(s) 371
DpnI GATC 2 cut(s) 141, 165
DpnII GATC 2 cut(s) 139, 163
Eam1104I CTCTTC 1 cut(s) 307
EarI CTCTTC 1 cut(s) 307
Eco47I GGWCC 1 cut(s) 376
Eco47III AGCGCT 1 cut(s) 18
Eco88I CYCGRG 1 cut(s) 49
EcoO109I RGGNCCY 1 cut(s) 376
EcoRII CCWGG 1 cut(s) 372
EgeI GGCGCC 1 cut(s) 371
EheI GGCGCC 1 cut(s) 371
FaiI YATR 4 cut(s) 12, 71, 135, 355
FauI CCCGC 1 cut(s) 246
FspBI CTAG 2 cut(s) 117, 272
GlaI GCGC 3 cut(s) 18, 180, 371
GsuI CTGGAG 1 cut(s) 279
HaeII RGCGCY 2 cut(s) 20, 373
HaeIII GGCC 1 cut(s) 416
HhaI GCGC 3 cut(s) 19, 181, 372
Hin1I GRCGYC 1 cut(s) 370
Hin6I GCGC 3 cut(s) 17, 179, 370
HinP1I GCGC 3 cut(s) 17, 179, 370
HincII GTYRAC 1 cut(s) 97
HindII GTYRAC 1 cut(s) 97
HindIII AAGCTT 1 cut(s) 261
HinfI GANTC 2 cut(s) 47, 80
HpaI GTTAAC 1 cut(s) 97
HphI GGTGA 1 cut(s) 272
Hpy166II GTNNAC 2 cut(s) 97, 280
Hpy188III TCNNGA 1 cut(s) 51
Hpy8I GTNNAC 2 cut(s) 97, 280
Hpy99I CGWCG 1 cut(s) 348
HpyCH4V TGCA 1 cut(s) 234
HpyF3I CTNAG 1 cut(s) 147
Hsp92I GRCGYC 1 cut(s) 370
HspAI GCGC 3 cut(s) 17, 179, 370
KasI GGCGCC 1 cut(s) 369
KspAI GTTAAC 1 cut(s) 97
Kzo9I GATC 2 cut(s) 139, 163
LmnI GCTCC 1 cut(s) 53
LpnPI CCDG 8 cut(s) 113, 208, 309, 315, 322, 352, 359, 386
LweI GCATC 1 cut(s) 112
MaeI CTAG 2 cut(s) 117, 272
MalI GATC 2 cut(s) 141, 165
MboI GATC 2 cut(s) 139, 163
MboII GAAGA 2 cut(s) 119, 324
MluCI AATT 1 cut(s) 86
Mly113I GGCGCC 1 cut(s) 370
MlyI GAGTC 2 cut(s) 41, 74
MnlI CCTC 4 cut(s) 47, 191, 303, 308
MseI TTAA 1 cut(s) 96
MspR9I CCNGG 1 cut(s) 374
MvaI CCWGG 1 cut(s) 374
NarI GGCGCC 1 cut(s) 370
NdeII GATC 2 cut(s) 139, 163
NlaIV GGNNCC 1 cut(s) 371
PcsI WCGNNNNNNNCGW 2 cut(s) 166, 395
PflFI GACNNNGTC 1 cut(s) 204
PleI GAGTC 2 cut(s) 41, 74
PluTI GGCGCC 1 cut(s) 373
PpsI GAGTC 2 cut(s) 41, 74
PpuMI RGGWCCY 1 cut(s) 376
Psp5II RGGWCCY 1 cut(s) 376
Psp6I CCWGG 1 cut(s) 372
PspGI CCWGG 1 cut(s) 372
PspN4I GGNNCC 1 cut(s) 371
PspPI GGNCC 2 cut(s) 376, 415
PspPPI RGGWCCY 1 cut(s) 376
PsyI GACNNNGTC 1 cut(s) 204
RsaI GTAC 1 cut(s) 392
RsaNI GTAC 1 cut(s) 391
SaqAI TTAA 1 cut(s) 96
Sau3AI GATC 2 cut(s) 139, 163
Sau96I GGNCC 2 cut(s) 376, 415
SchI GAGTC 2 cut(s) 41, 74
ScrFI CCNGG 1 cut(s) 374
SetI ASST 7 cut(s) 58, 65, 223, 265, 295, 325, 378
SfaNI GCATC 1 cut(s) 112
SfoI GGCGCC 1 cut(s) 371
SinI GGWCC 1 cut(s) 376
SmlI CTYRAG 1 cut(s) 222
SmoI CTYRAG 1 cut(s) 222
Sse9I AATT 1 cut(s) 86
SsiI CCGC 3 cut(s) 120, 239, 269
SspDI GGCGCC 1 cut(s) 369
SspMI CTAG 2 cut(s) 117, 272
StyD4I CCNGG 1 cut(s) 372
TaqI TCGA 3 cut(s) 45, 169, 208
TasI AATT 1 cut(s) 86
Tru1I TTAA 1 cut(s) 96
Tru9I TTAA 1 cut(s) 96
TscAI CASTG 1 cut(s) 303
TspDTI ATGAA 2 cut(s) 27, 171
TspGWI ACGGA 2 cut(s) 199, 361
TspRI CASTG 1 cut(s) 303
Tth111I GACNNNGTC 1 cut(s) 204
VpaK11BI GGWCC 1 cut(s) 376
XspI CTAG 2 cut(s) 117, 272
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.