Rroxscaffold_3G00275380

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0002857
Physical Location & Seq
Reverse (-)
66848052 .. 66857890
9839 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00275380.1

Sequence Viewer

Length: 1023 bp
ATGTCGGTTGGATTGGATCAATTTTTCGCAGAGGCCCAATATCAACACCTTTGGGGCCTTGCACAATTGGTGCACCAAAAGCCCAATCTAATTTTATGTCCAAGTAATTTGCTGAAAGCCTTTTCACTAGGTCCAAGTCCCTCGTTGCTACTTGCTAGTAGCGCAGGGCGATGTAGAGCGGACGTCCGCACCGTCGAGAAAGTACGCACGGTGACGCCGCAGCAGCGTTCGGCGACAACGCCACAAGACTTGTTGGACGGAGACAAGGGGTCGATCTCGACCTTCTTCTTGATGGTGGAGTCGCCGGCTATCAATTTGCGATCGGCGCGAACCTTGAAGTTGCAAGTGAGGTTGCTGCCCGAACCTTCAACCTTGATCTCCTCCGACCTTAATCGCTGCCCGAAGCGGTCTAGGATGTCTCGGCCTCCGTCCAGCAAGATTCGAGCCGCCGTCGGAGCTCGAACTTGGCTGCAGCATTGCCGTTCGCACTTTAGCGACAGTGCGTACGTCCGCTCTACATCGCCTCCGTATCTTGGAGCAAAGAAGAAGAAAAGAAGTAAAAGAGGGATTGAAAAGCAAAATCAGCAAATCTGCCTGTACAGATCAGTCAACTTCGACAGATCACTGAGACCAGTTCCAGACGATCCAGAGGATGATCTTTATATTGATGGAAAGCCTCAGATGTCTAGTTTCCAAATCTTTTTACGGCTCATCAATATCATTTTTCTAGAGAAAGTTATGGCCGATTTAGTACAAGAAGGTCAGCCTGCGCGTGAATCTGAGGTTGGACGGGAATTTATGTTTCGAGGCCCAAATCAAACCAAGAAGCCCGAGGACGAGTTGGTTTTGAAGGTTTTGCAAAGTCAGGAAGTAATTTGTATCCTAAACTTCCATGAGGTTGCTGTCAAAGGTGATTCCTTATTGACTTTGTTTATTCATGCATTCAAGCAGATCTTGTTTAGACTCTGTAATGTTCCGTGTATTGTTTATAATCTTCTGCTCAGTTACTTGGGTGGCCTTTGA
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

340

Amino Acids

38.35

Weight (kDa)

9.59

Isoelectric Point (pI)

59.07

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 990
AatII GACGTC 1 cut(s) 186
AccBSI CCGCTC 2 cut(s) 179, 513
AccII CGCG 2 cut(s) 328, 772
AciI CCGC 6 cut(s) 179, 187, 218, 406, 447, 511
AclWI GGATC 2 cut(s) 24, 638
AcoI YGGCCR 1 cut(s) 741
AcsI RAATTY 1 cut(s) 794
AcyI GRCGYC 2 cut(s) 183, 215
AfaI GTAC 4 cut(s) 204, 506, 599, 753
AfiI CCNNNNNNNGG 1 cut(s) 533
AgsI TTSAA 5 cut(s) 337, 369, 572, 850, 946
AhdI GACNNNNNGTC 1 cut(s) 268
AjuI GAANNNNNNNTTGG 2 cut(s) 768, 800
AluBI AGCT 1 cut(s) 458
AluI AGCT 1 cut(s) 458
Alw21I GWGCWC 2 cut(s) 75, 460
Alw26I GTCTC 3 cut(s) 255, 423, 622
Alw44I GTGCAC 1 cut(s) 71
AlwI GGATC 2 cut(s) 24, 638
Ama87I CYCGRG 1 cut(s) 830
AoxI GGCC 6 cut(s) 33, 55, 422, 741, 808, 1015
ApaLI GTGCAC 1 cut(s) 71
ApeKI GCWGC 6 cut(s) 220, 223, 355, 396, 469, 472
ApoI RAATTY 1 cut(s) 794
AspLEI GCGC 3 cut(s) 164, 328, 772
AspS9I GGNCC 4 cut(s) 34, 55, 131, 809
AsuHPI GGTGA 2 cut(s) 223, 923
AvaI CYCGRG 1 cut(s) 830
AvaII GGWCC 1 cut(s) 131
BaeGI GKGCMC 1 cut(s) 75
BanII GRGCYC 1 cut(s) 460
Bbv12I GWGCWC 2 cut(s) 75, 460
BbvI GCAGC 6 cut(s) 232, 235, 342, 383, 456, 484
BccI CCATC 2 cut(s) 286, 662
BceAI ACGGC 3 cut(s) 434, 465, 722
BciVI GTATCC 1 cut(s) 890
BcoDI GTCTC 3 cut(s) 255, 423, 622
BfaI CTAG 5 cut(s) 128, 156, 411, 687, 728
BfmI CTRYAG 1 cut(s) 470
BfuI GTATCC 1 cut(s) 890
BglII AGATCT 1 cut(s) 951
BisI GCNGC 8 cut(s) 218, 221, 224, 356, 397, 447, 470, 473
BlsI GCNGC 8 cut(s) 219, 222, 225, 357, 398, 448, 471, 474
Bme18I GGWCC 1 cut(s) 131
BmeRI GACNNNNNGTC 1 cut(s) 268
BmeT110I CYCGRG 1 cut(s) 830
BmgT120I GGNCC 4 cut(s) 34, 55, 131, 809
BmiI GGNNCC 1 cut(s) 56
BsaHI GRCGYC 2 cut(s) 183, 215
BsaI GGTCTC 1 cut(s) 622
BsaJI CCNNGG 1 cut(s) 831
BsaXI ACNNNNNCTCC 2 cut(s) 508, 538
Bsc4I CCNNNNNNNGG 1 cut(s) 533
Bse118I RCCGGY 1 cut(s) 304
Bse1I ACTGG 1 cut(s) 632
Bse3DI GCAATG 1 cut(s) 475
BseDI CCNNGG 1 cut(s) 831
BseGI GGATG 2 cut(s) 420, 658
BseLI CCNNNNNNNGG 1 cut(s) 533
BseMI GCAATG 1 cut(s) 475
BseMII CTCAG 4 cut(s) 617, 692, 771, 1015
BseNI ACTGG 1 cut(s) 632
BseRI GAGGAG 1 cut(s) 370
BseSI GKGCMC 1 cut(s) 75
BseXI GCAGC 6 cut(s) 232, 235, 342, 383, 456, 484
Bsh1236I CGCG 2 cut(s) 328, 772
Bsh1285I CGRYCG 1 cut(s) 323
BshFI GGCC 6 cut(s) 35, 57, 424, 743, 810, 1017
BsiEI CGRYCG 1 cut(s) 323
BsiHKAI GWGCWC 2 cut(s) 75, 460
BsiHKCI CYCGRG 1 cut(s) 830
BsiSI CCGG 1 cut(s) 305
BsiWI CGTACG 1 cut(s) 504
BslFI GGGAC 1 cut(s) 123
BslI CCNNNNNNNGG 1 cut(s) 533
BsmAI GTCTC 3 cut(s) 255, 423, 622
BsmFI GGGAC 1 cut(s) 123
BsmI GAATGC 1 cut(s) 941
BsnI GGCC 6 cut(s) 35, 57, 424, 743, 810, 1017
Bso31I GGTCTC 1 cut(s) 622
BsoBI CYCGRG 1 cut(s) 830
Bsp1286I GDGCHC 2 cut(s) 75, 460
Bsp1407I TGTACA 1 cut(s) 597
Bsp143I GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
BspACI CCGC 6 cut(s) 179, 187, 218, 406, 447, 511
BspANI GGCC 6 cut(s) 35, 57, 424, 743, 810, 1017
BspCNI CTCAG 4 cut(s) 618, 691, 772, 1014
BspFNI CGCG 2 cut(s) 328, 772
BspLI GGNNCC 1 cut(s) 56
BspMAI CTGCAG 1 cut(s) 474
BspPI GGATC 2 cut(s) 24, 638
BspTNI GGTCTC 1 cut(s) 622
BsrBI CCGCTC 2 cut(s) 179, 513
BsrDI GCAATG 1 cut(s) 475
BsrFI RCCGGY 1 cut(s) 304
BsrGI TGTACA 1 cut(s) 597
BsrI ACTGG 1 cut(s) 632
BssAI RCCGGY 1 cut(s) 304
BssECI CCNNGG 1 cut(s) 831
BssMI GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
BssNI GRCGYC 2 cut(s) 183, 215
Bst4CI ACNGT 3 cut(s) 193, 211, 500
BstACI GRCGYC 2 cut(s) 183, 215
BstAUI TGTACA 1 cut(s) 597
BstC8I GCNNGC 2 cut(s) 306, 768
BstDEI CTNAG 4 cut(s) 626, 678, 780, 1001
BstF5I GGATG 2 cut(s) 420, 658
BstFNI CGCG 2 cut(s) 328, 772
BstHHI GCGC 3 cut(s) 164, 328, 772
BstKTI GATC 9 cut(s) 19, 276, 323, 378, 605, 623, 646, 658, 954
BstMAI GTCTC 3 cut(s) 255, 423, 622
BstMBI GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
BstMCI CGRYCG 1 cut(s) 323
BstMWI GCNNNNNNNGC 6 cut(s) 79, 161, 223, 325, 455, 583
BstSFI CTRYAG 1 cut(s) 470
BstSLI GKGCMC 1 cut(s) 75
BstUI CGCG 2 cut(s) 328, 772
BstV1I GCAGC 6 cut(s) 232, 235, 342, 383, 456, 484
BstX2I RGATCY 1 cut(s) 951
BstYI RGATCY 1 cut(s) 951
BsuI GTATCC 1 cut(s) 890
BsuRI GGCC 6 cut(s) 35, 57, 424, 743, 810, 1017
BtgZI GCGATG 2 cut(s) 184, 504
BtsCI GGATG 2 cut(s) 420, 658
BtsIMutI CAGTG 2 cut(s) 505, 623
Cac8I GCNNGC 2 cut(s) 306, 768
CfoI GCGC 3 cut(s) 164, 328, 772
Cfr10I RCCGGY 1 cut(s) 304
Cfr13I GGNCC 4 cut(s) 34, 55, 131, 809
CseI GACGC 1 cut(s) 223
Csp6I GTAC 4 cut(s) 203, 505, 598, 752
CspCI CAANNNNNGTGG 2 cut(s) 231, 266
CviAII CATG 2 cut(s) 893, 938
CviQI GTAC 4 cut(s) 203, 505, 598, 752
DdeI CTNAG 4 cut(s) 626, 678, 780, 1001
DpnI GATC 9 cut(s) 18, 275, 322, 377, 604, 622, 645, 657, 953
DpnII GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
DriI GACNNNNNGTC 1 cut(s) 268
EaeI YGGCCR 1 cut(s) 741
Eam1105I GACNNNNNGTC 1 cut(s) 268
Ecl136II GAGCTC 1 cut(s) 458
Eco24I GRGCYC 1 cut(s) 460
Eco31I GGTCTC 1 cut(s) 622
Eco47I GGWCC 1 cut(s) 131
Eco53kI GAGCTC 1 cut(s) 458
Eco88I CYCGRG 1 cut(s) 830
EcoICRI GAGCTC 1 cut(s) 458
EcoO109I RGGNCCY 1 cut(s) 55
EcoT22I ATGCAT 1 cut(s) 943
EcoT38I GRGCYC 1 cut(s) 460
FaeI CATG 2 cut(s) 896, 941
FaiI YATR 7 cut(s) 97, 663, 740, 800, 894, 939, 990
FalI AAGNNNNNCTT 2 cut(s) 938, 970
FaqI GGGAC 1 cut(s) 123
FatI CATG 2 cut(s) 892, 937
Fnu4HI GCNGC 8 cut(s) 218, 221, 224, 356, 397, 447, 470, 473
FokI GGATG 2 cut(s) 427, 665
FriOI GRGCYC 1 cut(s) 460
Fsp4HI GCNGC 8 cut(s) 218, 221, 224, 356, 397, 447, 470, 473
FspBI CTAG 5 cut(s) 128, 156, 411, 687, 728
GlaI GCGC 3 cut(s) 163, 327, 771
GluI GCNGC 8 cut(s) 218, 221, 224, 356, 397, 447, 470, 473
HaeIII GGCC 6 cut(s) 35, 57, 424, 743, 810, 1017
HapII CCGG 1 cut(s) 305
HgaI GACGC 1 cut(s) 223
HhaI GCGC 3 cut(s) 164, 328, 772
Hin1I GRCGYC 2 cut(s) 183, 215
Hin1II CATG 2 cut(s) 896, 941
Hin6I GCGC 3 cut(s) 162, 326, 770
HinP1I GCGC 3 cut(s) 162, 326, 770
HincII GTYRAC 1 cut(s) 610
HindII GTYRAC 1 cut(s) 610
HinfI GANTC 5 cut(s) 299, 439, 776, 914, 963
HpaII CCGG 1 cut(s) 305
HphI GGTGA 2 cut(s) 223, 923
Hpy166II GTNNAC 2 cut(s) 73, 610
Hpy188I TCNGA 4 cut(s) 385, 455, 681, 781
Hpy188III TCNNGA 7 cut(s) 196, 277, 289, 638, 647, 728, 866
Hpy8I GTNNAC 2 cut(s) 73, 610
Hpy99I CGWCG 2 cut(s) 197, 455
HpyAV CCTTC 4 cut(s) 292, 375, 752, 844
HpyCH4III ACNGT 3 cut(s) 193, 211, 500
HpyCH4IV ACGT 2 cut(s) 183, 507
HpyCH4V TGCA 6 cut(s) 62, 73, 343, 472, 859, 941
HpyF10VI GCNNNNNNNGC 6 cut(s) 79, 161, 223, 325, 455, 583
HpyF3I CTNAG 4 cut(s) 626, 678, 780, 1001
HpySE526I ACGT 2 cut(s) 183, 507
Hsp92I GRCGYC 2 cut(s) 183, 215
Hsp92II CATG 2 cut(s) 896, 941
HspAI GCGC 3 cut(s) 162, 326, 770
KroI GCCGGC 1 cut(s) 304
KroNI GCCGGC 1 cut(s) 306
Kzo9I GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
LmnI GCTCC 2 cut(s) 455, 536
LpnPI CCDG 9 cut(s) 150, 318, 445, 608, 645, 651, 660, 780, 851
Lsp1109I GCAGC 6 cut(s) 232, 235, 342, 383, 456, 484
MaeI CTAG 5 cut(s) 128, 156, 411, 687, 728
MaeII ACGT 2 cut(s) 183, 507
MaeIII GTNAC 2 cut(s) 211, 1004
MalI GATC 9 cut(s) 18, 275, 322, 377, 604, 622, 645, 657, 953
MbiI CCGCTC 2 cut(s) 179, 513
MboI GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
MboII GAAGA 4 cut(s) 277, 556, 559, 986
MfeI CAATTG 1 cut(s) 65
MflI RGATCY 1 cut(s) 951
MhlI GDGCHC 2 cut(s) 75, 460
MluCI AATT 7 cut(s) 20, 65, 90, 106, 313, 794, 873
MlyI GAGTC 2 cut(s) 308, 957
MmeI TCCRAC 4 cut(s) 234, 408, 433, 766
Mph1103I ATGCAT 1 cut(s) 943
MroNI GCCGGC 1 cut(s) 304
MseI TTAA 1 cut(s) 390
MspI CCGG 1 cut(s) 305
MunI CAATTG 1 cut(s) 65
Mva1269I GAATGC 1 cut(s) 941
MvnI CGCG 2 cut(s) 328, 772
MwoI GCNNNNNNNGC 6 cut(s) 79, 161, 223, 325, 455, 583
NaeI GCCGGC 1 cut(s) 306
NdeII GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
NgoMIV GCCGGC 1 cut(s) 304
NlaIII CATG 2 cut(s) 896, 941
NlaIV GGNNCC 1 cut(s) 56
NmeAIII GCCGAG 1 cut(s) 400
NmuCI GTSAC 1 cut(s) 211
NsiI ATGCAT 1 cut(s) 943
PcsI WCGNNNNNNNCGW 1 cut(s) 189
PctI GAATGC 1 cut(s) 941
PdiI GCCGGC 1 cut(s) 306
PfeI GAWTC 3 cut(s) 439, 776, 914
Pfl23II CGTACG 1 cut(s) 504
PkrI GCNGC 8 cut(s) 219, 222, 225, 357, 398, 448, 471, 474
Ple19I CGATCG 1 cut(s) 323
PleI GAGTC 2 cut(s) 307, 957
PpsI GAGTC 2 cut(s) 307, 957
PsiI TTATAA 1 cut(s) 990
Psp124BI GAGCTC 1 cut(s) 460
PspLI CGTACG 1 cut(s) 504
PspN4I GGNNCC 1 cut(s) 56
PspPI GGNCC 4 cut(s) 34, 55, 131, 809
PstI CTGCAG 1 cut(s) 474
PsuI RGATCY 1 cut(s) 951
PvuI CGATCG 1 cut(s) 323
RsaI GTAC 4 cut(s) 204, 506, 599, 753
RsaNI GTAC 4 cut(s) 203, 505, 598, 752
SacI GAGCTC 1 cut(s) 460
SaqAI TTAA 1 cut(s) 390
SatI GCNGC 8 cut(s) 218, 221, 224, 356, 397, 447, 470, 473
Sau3AI GATC 9 cut(s) 16, 273, 320, 375, 602, 620, 643, 655, 951
Sau96I GGNCC 4 cut(s) 34, 55, 131, 809
SchI GAGTC 2 cut(s) 308, 957
SduI GDGCHC 2 cut(s) 75, 460
SfcI CTRYAG 1 cut(s) 470
SinI GGWCC 1 cut(s) 131
Sse9I AATT 7 cut(s) 20, 65, 90, 106, 313, 794, 873
SsiI CCGC 6 cut(s) 179, 187, 218, 406, 447, 511
SspMI CTAG 5 cut(s) 128, 156, 411, 687, 728
SstI GAGCTC 1 cut(s) 460
TaaI ACNGT 3 cut(s) 193, 211, 500
TaiI ACGT 2 cut(s) 186, 510
TaqI TCGA 7 cut(s) 195, 272, 278, 442, 460, 615, 805
TasI AATT 7 cut(s) 20, 65, 90, 106, 313, 794, 873
TatI WGTACW 2 cut(s) 597, 751
TauI GCSGC 2 cut(s) 220, 449
TfiI GAWTC 3 cut(s) 439, 776, 914
Tru1I TTAA 1 cut(s) 390
Tru9I TTAA 1 cut(s) 390
TscAI CASTG 2 cut(s) 505, 630
TseFI GTSAC 1 cut(s) 211
TseI GCWGC 6 cut(s) 220, 223, 355, 396, 469, 472
Tsp45I GTSAC 1 cut(s) 211
TspDTI ATGAA 1 cut(s) 926
TspGWI ACGGA 4 cut(s) 273, 417, 516, 966
TspRI CASTG 2 cut(s) 505, 630
VneI GTGCAC 1 cut(s) 71
VpaK11BI GGWCC 1 cut(s) 131
XapI RAATTY 1 cut(s) 794
XbaI TCTAGA 1 cut(s) 727
XspI CTAG 5 cut(s) 128, 156, 411, 687, 728
ZraI GACGTC 1 cut(s) 184
Zsp2I ATGCAT 1 cut(s) 943
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.