Rmu_sc0006081.1_g000001

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0006081.1
OG0000562
Physical Location & Seq
Forward (+)
712 .. 1185
474 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0006081.1_g000001.1.cds

Sequence Viewer

Length: 474 bp
atggagccatctgttgctgccatctttagctattatgagtcttctcagcatatctggaaatctgtgaaagagatgtatggcaatcaaaataattgtgccagagtttttcaacttcaaatagacatcaccagtcttaagcaaggagcaacttcttttgttcatcatcttggcagcatgaaaagcatgtggaatgaggtaaatatctatagaccttacaccacagatgcagctattctacaaaaaagggttgaagaagataaagtgttccagctcttagccatcttaggacctgagtataaagatctttacagccacatactcatgtgtcccaaactaccttccttgtccagcatatgttctaccattaggcatgaagagactaggagaaaagtcatgaatgaagactctaagacatctgtctctaaagctagagcttttgcaagtgatcataagttaactgagaagaaaccttaa
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 Retrotran_gag_3 rve

Protein Analysis

157

Amino Acids

18.05

Weight (kDa)

8.93

Isoelectric Point (pI)

53.35

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: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AflII CTTAAG 1 cut(s) 134
AgsI TTSAA 3 cut(s) 110, 116, 251
AluBI AGCT 5 cut(s) 30, 230, 271, 428, 434
AluI AGCT 5 cut(s) 30, 230, 271, 428, 434
Alw26I GTCTC 2 cut(s) 371, 424
ApeKI GCWGC 3 cut(s) 17, 171, 227
AspS9I GGNCC 1 cut(s) 287
AsuHPI GGTGA 1 cut(s) 118
AvaII GGWCC 1 cut(s) 287
BbsI GAAGAC 2 cut(s) 33, 408
BbvI GCAGC 3 cut(s) 4, 183, 239
BccI CCATC 3 cut(s) 16, 29, 287
BclI TGATCA 1 cut(s) 445
BcoDI GTCTC 2 cut(s) 371, 424
BfaI CTAG 2 cut(s) 381, 429
BfmI CTRYAG 1 cut(s) 205
BfrI CTTAAG 1 cut(s) 134
BglII AGATCT 1 cut(s) 301
BisI GCNGC 3 cut(s) 18, 172, 228
BlsI GCNGC 3 cut(s) 19, 173, 229
Bme18I GGWCC 1 cut(s) 287
BmgT120I GGNCC 1 cut(s) 287
BmiI GGNNCC 1 cut(s) 6
BmsI GCATC 1 cut(s) 214
BoxI GACNNNNGTC 1 cut(s) 416
BpiI GAAGAC 2 cut(s) 33, 408
Bse1I ACTGG 1 cut(s) 129
BseMII CTCAG 3 cut(s) 59, 282, 450
BseNI ACTGG 1 cut(s) 129
BseXI GCAGC 3 cut(s) 4, 183, 239
BslFI GGGAC 1 cut(s) 312
BsmAI GTCTC 2 cut(s) 371, 424
BsmFI GGGAC 1 cut(s) 312
Bsp143I GATC 2 cut(s) 301, 445
BspCNI CTCAG 3 cut(s) 58, 283, 451
BspHI TCATGA 1 cut(s) 393
BspLI GGNNCC 1 cut(s) 6
BspTI CTTAAG 1 cut(s) 134
BsrI ACTGG 1 cut(s) 129
BssMI GATC 2 cut(s) 301, 445
Bst6I CTCTTC 1 cut(s) 369
BstAFI CTTAAG 1 cut(s) 134
BstDEI CTNAG 6 cut(s) 45, 274, 283, 291, 408, 459
BstKTI GATC 2 cut(s) 304, 448
BstMAI GTCTC 2 cut(s) 371, 424
BstMBI GATC 2 cut(s) 301, 445
BstMWI GCNNNNNNNGC 1 cut(s) 180
BstNSI RCATGY 1 cut(s) 187
BstPAI GACNNNNGTC 1 cut(s) 416
BstSFI CTRYAG 1 cut(s) 205
BstV1I GCAGC 3 cut(s) 4, 183, 239
BstV2I GAAGAC 2 cut(s) 33, 408
BstX2I RGATCY 1 cut(s) 301
BstYI RGATCY 1 cut(s) 301
CciI TCATGA 1 cut(s) 393
Cfr13I GGNCC 1 cut(s) 287
CviAII CATG 5 cut(s) 175, 184, 322, 371, 394
CviJI RGCY 8 cut(s) 7, 30, 230, 271, 278, 312, 428, 434
CviKI_1 RGCY 8 cut(s) 7, 30, 230, 271, 278, 312, 428, 434
DdeI CTNAG 6 cut(s) 45, 274, 283, 291, 408, 459
DpnI GATC 2 cut(s) 303, 447
DpnII GATC 2 cut(s) 301, 445
Eam1104I CTCTTC 1 cut(s) 369
EarI CTCTTC 1 cut(s) 369
Eco47I GGWCC 1 cut(s) 287
EcoO109I RGGNCCY 1 cut(s) 287
FaeI CATG 5 cut(s) 178, 187, 325, 374, 397
FaqI GGGAC 1 cut(s) 312
FatI CATG 5 cut(s) 174, 183, 321, 370, 393
FauNDI CATATG 1 cut(s) 353
FbaI TGATCA 1 cut(s) 445
Fnu4HI GCNGC 3 cut(s) 18, 172, 228
Fsp4HI GCNGC 3 cut(s) 18, 172, 228
FspBI CTAG 2 cut(s) 381, 429
GluI GCNGC 3 cut(s) 18, 172, 228
Hin1II CATG 5 cut(s) 178, 187, 325, 374, 397
HincII GTYRAC 1 cut(s) 456
HindII GTYRAC 1 cut(s) 456
HinfI GANTC 2 cut(s) 38, 404
HpaI GTTAAC 1 cut(s) 456
HphI GGTGA 1 cut(s) 118
Hpy166II GTNNAC 1 cut(s) 456
Hpy188III TCNNGA 2 cut(s) 55, 394
Hpy8I GTNNAC 1 cut(s) 456
HpyAV CCTTC 1 cut(s) 348
HpyCH4V TGCA 2 cut(s) 227, 440
HpyF10VI GCNNNNNNNGC 1 cut(s) 180
HpyF3I CTNAG 6 cut(s) 45, 274, 283, 291, 408, 459
Hsp92II CATG 5 cut(s) 178, 187, 325, 374, 397
Ksp22I TGATCA 1 cut(s) 445
KspAI GTTAAC 1 cut(s) 456
Kzo9I GATC 2 cut(s) 301, 445
LmnI GCTCC 2 cut(s) 4, 143
LpnPI CCDG 6 cut(s) 40, 112, 142, 281, 303, 361
Lsp1109I GCAGC 3 cut(s) 4, 183, 239
LweI GCATC 1 cut(s) 214
MaeI CTAG 2 cut(s) 381, 429
MalI GATC 2 cut(s) 303, 447
MboI GATC 2 cut(s) 301, 445
MboII GAAGA 5 cut(s) 33, 263, 266, 386, 413
MflI RGATCY 1 cut(s) 301
MluCI AATT 1 cut(s) 91
MlyI GAGTC 2 cut(s) 47, 398
MnlI CCTC 1 cut(s) 187
MseI TTAA 3 cut(s) 135, 455, 472
MslI CAYNNNNRTG 1 cut(s) 320
MspCI CTTAAG 1 cut(s) 134
MwoI GCNNNNNNNGC 1 cut(s) 180
NdeI CATATG 1 cut(s) 353
NdeII GATC 2 cut(s) 301, 445
NlaIII CATG 5 cut(s) 178, 187, 325, 374, 397
NlaIV GGNNCC 1 cut(s) 6
NspI RCATGY 1 cut(s) 187
PagI TCATGA 1 cut(s) 393
PkrI GCNGC 3 cut(s) 19, 173, 229
PleI GAGTC 2 cut(s) 46, 398
PpsI GAGTC 2 cut(s) 46, 398
PpuMI RGGWCCY 1 cut(s) 287
PshAI GACNNNNGTC 1 cut(s) 416
Psp5II RGGWCCY 1 cut(s) 287
PspN4I GGNNCC 1 cut(s) 6
PspPI GGNCC 1 cut(s) 287
PspPPI RGGWCCY 1 cut(s) 287
PsuI RGATCY 1 cut(s) 301
RseI CAYNNNNRTG 1 cut(s) 320
SaqAI TTAA 3 cut(s) 135, 455, 472
SatI GCNGC 3 cut(s) 18, 172, 228
Sau3AI GATC 2 cut(s) 301, 445
Sau96I GGNCC 1 cut(s) 287
SchI GAGTC 2 cut(s) 47, 398
SfaNI GCATC 1 cut(s) 214
SfcI CTRYAG 1 cut(s) 205
SinI GGWCC 1 cut(s) 287
SmiMI CAYNNNNRTG 1 cut(s) 320
SmlI CTYRAG 1 cut(s) 134
SmoI CTYRAG 1 cut(s) 134
Sse9I AATT 1 cut(s) 91
SspMI CTAG 2 cut(s) 381, 429
TasI AATT 1 cut(s) 91
Tru1I TTAA 3 cut(s) 135, 455, 472
Tru9I TTAA 3 cut(s) 135, 455, 472
TseI GCWGC 3 cut(s) 17, 171, 227
TspDTI ATGAA 5 cut(s) 149, 191, 387, 410, 414
Vha464I CTTAAG 1 cut(s) 134
VpaK11BI GGWCC 1 cut(s) 287
XceI RCATGY 1 cut(s) 187
XspI CTAG 2 cut(s) 381, 429
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.