Rmu_sc0003008.1_g000047

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003008.1
OG0000499
Physical Location & Seq
Reverse (-)
155829 .. 158760
2932 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003008.1_g000047.1.cds

Sequence Viewer

Length: 1077 bp
atggaacagacagaagctgacctgagaagacaaaaactatgcaattcgatccaaccatctaaatttgaaaaggaactcgaggttctgaagaaggccttgaagaatgaggaggagaatgaatccgtgataaaagagatttttgaccgtaggcaagttagctatgctgaatataagaaatctatggatttacagctgataaaaattgagcgaaacttagttgagctagaggagatcgtgtcagatgagtcaggagtcaatgaactgtacaaaagacgcatagagatggagaagagactaaaaaatcttgatgtcttctgtgcggctatgtattctactctcgaatcgaaggagtctagtggtgtctcccttctcaaagaagctaagctgcagcctcctaccgaactagcacaagaccctagctgcagccttcctccgcatagcccgcgcaccagccccctgcacctgcgtccatcgctgcatcacaggcccactgccgcacatccccattccgacctcagcctcacctcaccggccggcctcagcctcaacctcacctcaccggccgtcctcctccccagcgcccctcgatctgcagcagcaccaacacctcaccggccggcctcctcaccagcacgtcgaactgcagcagcagcccaggcctctgatctgcagcacctccgaccagcgaccagcgacccggatattgagttcaaccgaacatctacaaagcatgctcaagcagttatcttgatgcgacaccatatggataaggcactcagattggagtatatgtcgatcaagaatgcaagagagctatgggtagcgctagaagagcgctttggcaatgtccaagattccctcctccctgacttgaaggttcaatggaacaatctgcactttgctgacttcaagtctgcaagtgaggaactagttgcaagctacagggcatatagggacctgagagagcaagaagtgtaccttgcagaagaagaagaaggtggtggagatgtcaatctcaccatagaggacttcaaagctgaagatgaagtgcacatggatgtaacagactttgattag
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 zf-CCHC

Protein Analysis

358

Amino Acids

40.56

Weight (kDa)

5.48

Isoelectric Point (pI)

65.59

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: OG0000499)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G02510
fragaria_vesca FvH4_6g16970 FvH4_6g16980 FvH4_7g01220 FvH4_7g01220 FvH4_7g01220 FvH4_7g01240
malus_domestica MD05G1161500.v1.1
pyrus_communis pycom05g15160
rosa_chinensis RchiOBHm_Chr1g0316711 RchiOBHm_Chr1g0316801 RchiOBHm_Chr1g0316871 RchiOBHm_Chr1g0316881 RchiOBHm_Chr1g0316951 RchiOBHm_Chr3g0470991 RchiOBHm_Chr4g0402171
rosa_laevigata RLG00000001679 RLG00000001680 RLG00000007591 RLG00000009108 RLG00000024215 RLG00000024221 RLG00000030636 RLG00000030640 RLG00000030642 RLG00000030648 RLG00000030651 RLG00000030658 RLG00000030667
rosa_multiflora Rmu_sc0000839.1_g000010 Rmu_sc0002667.1_g000003 Rmu_sc0003008.1_g000023 Rmu_sc0003008.1_g000047 Rmu_sc0005604.1_g000001 Rmu_sc0005939.1_g000001 Rmu_sc0006790.1_g000011 Rmu_sc0007472.1_g000004 Rmu_sc0017515.1_g000001 Rmu_sc0019753.1_g000003 Rmu_sc0020172.1_g000001 Rmu_sc0023783.1_g000001
rosa_roxburghii Rroxscaffold_4G00330760 Rroxscaffold_4G00330800 Rroxscaffold_4G00330810 Rroxscaffold_4G00330950
rosa_rugosa Rorug01G0011200 Rorug01G0011500 Rorug01G0011600 Rorug01G0012300 Rorug01G0012300 Rorug01G0012400 Rorug01G0012500 Rorug01G0012600 Rorug01G0012600 Rorug01G0013400 Rorug01G0013400 Rorug01G0013500
rosa_samantha Rh1AG021100 Rh1AG022800 Rh1AG023300 Rh1AG023500 Rh1AG024000 Rh1AG024300 Rh1BG016000 Rh1BG016300 Rh1BG021300 Rh1BG021500 Rh1CG020300 Rh1CG022500 Rh1DG016300 Rh1DG016400 Rh1DG017300 Rh1DG017400 Rh1DG017700 Rh1DG017800 Rh1DG018200 Rh1DG019100 Rh1DG019900 Rh1DG020200 Rh1DG020800 Rh1DG021300 Rh1DG021400 Rh1DG021800 Rh3DG186400
rosa_wichuraiana Rw1G001370 Rw1G001480 Rw1G001650 Rw1G001680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 471
Acc36I ACCTGC 1 cut(s) 471
AccII CGCG 1 cut(s) 445
AciI CCGC 4 cut(s) 320, 434, 443, 495
AclWI GGATC 1 cut(s) 43
AcoI YGGCCR 3 cut(s) 531, 561, 614
AcsI RAATTY 1 cut(s) 62
AcuI CTGAAG 2 cut(s) 107, 1059
AfaI GTAC 2 cut(s) 266, 977
AfeI AGCGCT 2 cut(s) 825, 836
AgsI TTSAA 7 cut(s) 68, 100, 712, 874, 881, 910, 1033
AhdI GACNNNNNGTC 1 cut(s) 910
AhlI ACTAGT 1 cut(s) 928
AjiI CACGTC 1 cut(s) 635
AjnI CCWGG 1 cut(s) 654
AjuI GAANNNNNNNTTGG 2 cut(s) 822, 854
AloI GAACNNNNNNTCC 2 cut(s) 692, 724
Alw21I GWGCWC 1 cut(s) 1053
Alw26I GTCTC 2 cut(s) 286, 367
Alw44I GTGCAC 1 cut(s) 1049
AlwI GGATC 1 cut(s) 43
AlwNI CAGNNNCTG 1 cut(s) 17
Ama87I CYCGRG 1 cut(s) 77
Aor51HI AGCGCT 2 cut(s) 825, 836
AoxI GGCC 8 cut(s) 93, 485, 531, 535, 561, 614, 618, 657
ApaLI GTGCAC 1 cut(s) 1049
ApoI RAATTY 1 cut(s) 62
AspLEI GCGC 4 cut(s) 447, 581, 826, 837
AspS9I GGNCC 2 cut(s) 486, 955
AsuC2I CCSGG 1 cut(s) 698
AsuHPI GGTGA 7 cut(s) 514, 519, 544, 549, 602, 618, 1009
AvaI CYCGRG 1 cut(s) 77
AvaII GGWCC 1 cut(s) 955
BaeGI GKGCMC 1 cut(s) 1053
BbsI GAAGAC 2 cut(s) 34, 304
Bbv12I GWGCWC 1 cut(s) 1053
BbvCI CCTCAGC 2 cut(s) 515, 539
BccI CCATC 3 cut(s) 64, 277, 478
BceAI ACGGC 1 cut(s) 548
BciT130I CCWGG 1 cut(s) 656
BcnI CCSGG 1 cut(s) 698
BcoDI GTCTC 2 cut(s) 286, 367
BcuI ACTAGT 1 cut(s) 928
BfaI CTAG 6 cut(s) 224, 354, 404, 417, 827, 929
BfmI CTRYAG 6 cut(s) 386, 421, 591, 642, 668, 940
BfoI RGCGCY 3 cut(s) 582, 827, 838
BfuAI ACCTGC 1 cut(s) 471
BlpI GCTNAGC 1 cut(s) 381
Bme1390I CCNGG 2 cut(s) 656, 698
Bme18I GGWCC 1 cut(s) 955
BmeRI GACNNNNNGTC 1 cut(s) 910
BmeT110I CYCGRG 1 cut(s) 77
BmgBI CACGTC 1 cut(s) 635
BmgT120I GGNCC 2 cut(s) 486, 955
BmiI GGNNCC 1 cut(s) 956
BmrFI CCNGG 2 cut(s) 656, 698
BmsI GCATC 2 cut(s) 487, 741
BpiI GAAGAC 2 cut(s) 34, 304
Bpu10I CCTNAGC 2 cut(s) 515, 539
Bpu1102I GCTNAGC 1 cut(s) 381
BpuEI CTTGAG 1 cut(s) 720
BpuMI CCSGG 1 cut(s) 698
BsaBI GATNNNNATC 1 cut(s) 1011
BsaJI CCNNGG 1 cut(s) 654
BsaXI ACNNNNNCTCC 4 cut(s) 221, 251, 776, 806
Bse118I RCCGGY 5 cut(s) 529, 533, 559, 612, 616
Bse3DI GCAATG 1 cut(s) 850
Bse8I GATNNNNATC 1 cut(s) 1011
BseBI CCWGG 1 cut(s) 656
BseDI CCNNGG 1 cut(s) 654
BseGI GGATG 2 cut(s) 499, 1063
BseJI GATNNNNATC 1 cut(s) 1011
BseMI GCAATG 1 cut(s) 850
BseMII CTCAG 5 cut(s) 14, 529, 553, 790, 950
BseRI GAGGAG 6 cut(s) 122, 125, 242, 560, 613, 851
BseSI GKGCMC 1 cut(s) 1053
BseX3I CGGCCG 3 cut(s) 531, 561, 614
BseYI CCCAGC 1 cut(s) 575
BsgI GTGCAG 2 cut(s) 443, 878
Bsh1236I CGCG 1 cut(s) 445
Bsh1285I CGRYCG 3 cut(s) 534, 564, 617
BshFI GGCC 8 cut(s) 95, 487, 533, 537, 563, 616, 620, 659
BsiEI CGRYCG 3 cut(s) 534, 564, 617
BsiHKAI GWGCWC 1 cut(s) 1053
BsiHKCI CYCGRG 1 cut(s) 77
BsiSI CCGG 6 cut(s) 530, 534, 560, 613, 617, 698
BslFI GGGAC 1 cut(s) 968
BsmAI GTCTC 2 cut(s) 286, 367
BsmFI GGGAC 1 cut(s) 968
BsmI GAATGC 1 cut(s) 808
BsnI GGCC 8 cut(s) 95, 487, 533, 537, 563, 616, 620, 659
BsoBI CYCGRG 1 cut(s) 77
Bsp1286I GDGCHC 1 cut(s) 1053
Bsp1407I TGTACA 1 cut(s) 264
Bsp143I GATC 5 cut(s) 48, 231, 587, 664, 795
Bsp1720I GCTNAGC 1 cut(s) 381
BspACI CCGC 4 cut(s) 320, 434, 443, 495
BspANI GGCC 8 cut(s) 95, 487, 533, 537, 563, 616, 620, 659
BspCNI CTCAG 5 cut(s) 15, 528, 552, 789, 951
BspFNI CGCG 1 cut(s) 445
BspLI GGNNCC 1 cut(s) 956
BspMAI CTGCAG 5 cut(s) 390, 425, 595, 646, 672
BspMI ACCTGC 1 cut(s) 471
BspPI GGATC 1 cut(s) 43
BspQI GCTCTTC 1 cut(s) 825
BsrDI GCAATG 1 cut(s) 850
BsrFI RCCGGY 5 cut(s) 529, 533, 559, 612, 616
BsrGI TGTACA 1 cut(s) 264
BssAI RCCGGY 5 cut(s) 529, 533, 559, 612, 616
BssECI CCNNGG 1 cut(s) 654
BssMI GATC 5 cut(s) 48, 231, 587, 664, 795
Bst2UI CCWGG 1 cut(s) 656
Bst4CI ACNGT 2 cut(s) 146, 264
Bst6I CTCTTC 2 cut(s) 284, 825
BstAUI TGTACA 1 cut(s) 264
BstC8I GCNNGC 5 cut(s) 443, 535, 618, 732, 937
BstDEI CTNAG 7 cut(s) 23, 214, 381, 515, 539, 776, 959
BstF5I GGATG 2 cut(s) 499, 1063
BstFNI CGCG 1 cut(s) 445
BstH2I RGCGCY 3 cut(s) 582, 827, 838
BstHHI GCGC 4 cut(s) 447, 581, 826, 837
BstKTI GATC 5 cut(s) 51, 234, 590, 667, 798
BstMAI GTCTC 2 cut(s) 286, 367
BstMBI GATC 5 cut(s) 48, 231, 587, 664, 795
BstMCI CGRYCG 3 cut(s) 534, 564, 617
BstMWI GCNNNNNNNGC 6 cut(s) 442, 472, 484, 650, 656, 832
BstNI CCWGG 1 cut(s) 656
BstNSI RCATGY 1 cut(s) 734
BstSCI CCNGG 2 cut(s) 654, 696
BstSFI CTRYAG 6 cut(s) 386, 421, 591, 642, 668, 940
BstSLI GKGCMC 1 cut(s) 1053
BstUI CGCG 1 cut(s) 445
BstV2I GAAGAC 2 cut(s) 34, 304
BstZI CGGCCG 3 cut(s) 531, 561, 614
BsuRI GGCC 8 cut(s) 95, 487, 533, 537, 563, 616, 620, 659
BtgZI GCGATG 1 cut(s) 456
BtrI CACGTC 1 cut(s) 635
BtsCI GGATG 2 cut(s) 499, 1063
BtsI GCAGTG 1 cut(s) 489
BtsIMutI CAGTG 1 cut(s) 489
BveI ACCTGC 1 cut(s) 471
Cac8I GCNNGC 5 cut(s) 443, 535, 618, 732, 937
CaiI CAGNNNCTG 1 cut(s) 17
CfoI GCGC 4 cut(s) 447, 581, 826, 837
Cfr10I RCCGGY 5 cut(s) 529, 533, 559, 612, 616
Cfr13I GGNCC 2 cut(s) 486, 955
CseI GACGC 2 cut(s) 282, 455
Csp6I GTAC 2 cut(s) 265, 976
CviAII CATG 2 cut(s) 731, 1054
CviQI GTAC 2 cut(s) 265, 976
DdeI CTNAG 7 cut(s) 23, 214, 381, 515, 539, 776, 959
DpnI GATC 5 cut(s) 50, 233, 589, 666, 797
DpnII GATC 5 cut(s) 48, 231, 587, 664, 795
DriI GACNNNNNGTC 1 cut(s) 910
EaeI YGGCCR 3 cut(s) 531, 561, 614
EagI CGGCCG 3 cut(s) 531, 561, 614
Eam1104I CTCTTC 2 cut(s) 284, 825
Eam1105I GACNNNNNGTC 1 cut(s) 910
EarI CTCTTC 2 cut(s) 284, 825
EclXI CGGCCG 3 cut(s) 531, 561, 614
Eco147I AGGCCT 2 cut(s) 95, 659
Eco47I GGWCC 1 cut(s) 955
Eco47III AGCGCT 2 cut(s) 825, 836
Eco52I CGGCCG 3 cut(s) 531, 561, 614
Eco57I CTGAAG 2 cut(s) 107, 1059
Eco88I CYCGRG 1 cut(s) 77
EcoO109I RGGNCCY 1 cut(s) 955
EcoRII CCWGG 1 cut(s) 654
FaeI CATG 2 cut(s) 734, 1057
FalI AAGNNNNNCTT 4 cut(s) 80, 112, 963, 995
FaqI GGGAC 1 cut(s) 968
FatI CATG 2 cut(s) 730, 1053
FauI CCCGC 1 cut(s) 450
FauNDI CATATG 1 cut(s) 762
FokI GGATG 2 cut(s) 486, 1070
FseI GGCCGGCC 2 cut(s) 537, 620
FspBI CTAG 6 cut(s) 224, 354, 404, 417, 827, 929
GlaI GCGC 4 cut(s) 446, 580, 825, 836
GsaI CCCAGC 1 cut(s) 579
HaeII RGCGCY 3 cut(s) 582, 827, 838
HaeIII GGCC 8 cut(s) 95, 487, 533, 537, 563, 616, 620, 659
HapII CCGG 6 cut(s) 530, 534, 560, 613, 617, 698
HgaI GACGC 2 cut(s) 282, 455
HhaI GCGC 4 cut(s) 447, 581, 826, 837
Hin1II CATG 2 cut(s) 734, 1057
Hin6I GCGC 4 cut(s) 445, 579, 824, 835
HinP1I GCGC 4 cut(s) 445, 579, 824, 835
HinfI GANTC 6 cut(s) 119, 245, 252, 341, 350, 854
HpaII CCGG 6 cut(s) 530, 534, 560, 613, 617, 698
HphI GGTGA 7 cut(s) 514, 519, 544, 549, 602, 618, 1009
Hpy166II GTNNAC 2 cut(s) 976, 1051
Hpy188I TCNGA 6 cut(s) 87, 241, 511, 664, 680, 779
Hpy188III TCNNGA 5 cut(s) 249, 305, 338, 748, 799
Hpy8I GTNNAC 2 cut(s) 976, 1051
Hpy99I CGWCG 1 cut(s) 639
HpyAV CCTTC 6 cut(s) 85, 340, 377, 437, 868, 989
HpyCH4III ACNGT 2 cut(s) 146, 264
HpyCH4IV ACGT 1 cut(s) 634
HpyF10VI GCNNNNNNNGC 6 cut(s) 442, 472, 484, 650, 656, 832
HpyF3I CTNAG 7 cut(s) 23, 214, 381, 515, 539, 776, 959
HpySE526I ACGT 1 cut(s) 634
Hsp92II CATG 2 cut(s) 734, 1057
HspAI GCGC 4 cut(s) 445, 579, 824, 835
KroI GCCGGC 2 cut(s) 533, 616
KroNI GCCGGC 2 cut(s) 535, 618
Kzo9I GATC 5 cut(s) 48, 231, 587, 664, 795
LguI GCTCTTC 1 cut(s) 825
LweI GCATC 2 cut(s) 487, 741
MaeI CTAG 6 cut(s) 224, 354, 404, 417, 827, 929
MaeII ACGT 1 cut(s) 634
MaeIII GTNAC 1 cut(s) 1060
MalI GATC 5 cut(s) 50, 233, 589, 666, 797
MboI GATC 5 cut(s) 48, 231, 587, 664, 795
MhlI GDGCHC 1 cut(s) 1053
MluCI AATT 3 cut(s) 43, 62, 201
MlyI GAGTC 3 cut(s) 254, 261, 359
MmeI TCCRAC 3 cut(s) 76, 534, 703
MroNI GCCGGC 2 cut(s) 533, 616
MslI CAYNNNNRTG 2 cut(s) 281, 1056
MspA1I CMGCKG 1 cut(s) 193
MspI CCGG 6 cut(s) 530, 534, 560, 613, 617, 698
MspR9I CCNGG 2 cut(s) 656, 698
Mva1269I GAATGC 1 cut(s) 808
MvaI CCWGG 1 cut(s) 656
MvnI CGCG 1 cut(s) 445
MwoI GCNNNNNNNGC 6 cut(s) 442, 472, 484, 650, 656, 832
NaeI GCCGGC 2 cut(s) 535, 618
NciI CCSGG 1 cut(s) 698
NdeI CATATG 1 cut(s) 762
NdeII GATC 5 cut(s) 48, 231, 587, 664, 795
NgoMIV GCCGGC 2 cut(s) 533, 616
NlaIII CATG 2 cut(s) 734, 1057
NlaIV GGNNCC 1 cut(s) 956
NspI RCATGY 1 cut(s) 734
PaeI GCATGC 1 cut(s) 734
PaeR7I CTCGAG 1 cut(s) 77
PaqCI CACCTGC 1 cut(s) 471
PceI AGGCCT 2 cut(s) 95, 659
PciSI GCTCTTC 1 cut(s) 825
PctI GAATGC 1 cut(s) 808
PdiI GCCGGC 2 cut(s) 535, 618
PfeI GAWTC 3 cut(s) 119, 341, 854
PleI GAGTC 3 cut(s) 253, 260, 358
PpsI GAGTC 3 cut(s) 253, 260, 358
PpuMI RGGWCCY 1 cut(s) 955
Psp5II RGGWCCY 1 cut(s) 955
Psp6I CCWGG 1 cut(s) 654
PspFI CCCAGC 1 cut(s) 575
PspGI CCWGG 1 cut(s) 654
PspN4I GGNNCC 1 cut(s) 956
PspPI GGNCC 2 cut(s) 486, 955
PspPPI RGGWCCY 1 cut(s) 955
PspXI VCTCGAGB 1 cut(s) 77
PstI CTGCAG 5 cut(s) 390, 425, 595, 646, 672
PstNI CAGNNNCTG 1 cut(s) 17
PvuII CAGCTG 1 cut(s) 193
RigI GGCCGGCC 2 cut(s) 537, 620
RsaI GTAC 2 cut(s) 266, 977
RsaNI GTAC 2 cut(s) 265, 976
RseI CAYNNNNRTG 2 cut(s) 281, 1056
SapI GCTCTTC 1 cut(s) 825
Sau3AI GATC 5 cut(s) 48, 231, 587, 664, 795
Sau96I GGNCC 2 cut(s) 486, 955
SchI GAGTC 3 cut(s) 254, 261, 359
ScrFI CCNGG 2 cut(s) 656, 698
SduI GDGCHC 1 cut(s) 1053
SfaNI GCATC 2 cut(s) 487, 741
SfcI CTRYAG 6 cut(s) 386, 421, 591, 642, 668, 940
Sfr274I CTCGAG 1 cut(s) 77
SinI GGWCC 1 cut(s) 955
SlaI CTCGAG 1 cut(s) 77
SmiMI CAYNNNNRTG 2 cut(s) 281, 1056
SmlI CTYRAG 2 cut(s) 77, 735
SmoI CTYRAG 2 cut(s) 77, 735
SpeI ACTAGT 1 cut(s) 928
SphI GCATGC 1 cut(s) 734
Sse9I AATT 3 cut(s) 43, 62, 201
SseBI AGGCCT 2 cut(s) 95, 659
SsiI CCGC 4 cut(s) 320, 434, 443, 495
SspMI CTAG 6 cut(s) 224, 354, 404, 417, 827, 929
StuI AGGCCT 2 cut(s) 95, 659
StyD4I CCNGG 2 cut(s) 654, 696
TaaI ACNGT 2 cut(s) 146, 264
TaiI ACGT 1 cut(s) 637
TaqI TCGA 7 cut(s) 47, 78, 339, 344, 586, 637, 794
TasI AATT 3 cut(s) 43, 62, 201
TatI WGTACW 1 cut(s) 264
TauI GCSGC 2 cut(s) 323, 497
TfiI GAWTC 3 cut(s) 119, 341, 854
TscAI CASTG 1 cut(s) 496
TspDTI ATGAA 3 cut(s) 132, 273, 1059
TspGWI ACGGA 1 cut(s) 112
TspRI CASTG 1 cut(s) 496
VneI GTGCAC 1 cut(s) 1049
VpaK11BI GGWCC 1 cut(s) 955
XapI RAATTY 1 cut(s) 62
XceI RCATGY 1 cut(s) 734
XhoI CTCGAG 1 cut(s) 77
XspI CTAG 6 cut(s) 224, 354, 404, 417, 827, 929
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.