Rroxscaffold_4G00322270

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0001407
Physical Location & Seq
Forward (+)
52414834 .. 52431858
17025 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00322270.1

Sequence Viewer

Length: 1284 bp
ATGATGAGTTCAAAGTTAGATAGACTTGAGAAAAAGATGGAGCAATTACTTGAGAAGCAAGATCGTGAGCCACACATTTCACAAGATAAGGCCATGCATTCTACTCTTTCTACTTGTCTTTTATGTGAGTCTCCTAGCCATGTTACTCAAGAATGCCATTTAGCACATCAATATCCCGATTTTGTGGAGGAGCAAGCAAGGGTAATAAATAATTTTCAAGGAAGGCAACAAAAGAATGACCCTTACTCTCCAACATATAATCCGGGGTGGAGGAATCACCCCAATTTTTCATGGGGAGGCAACCAAGGTGGATCAAGTTCACAAGGTGGTGGTTCTTATAGTCATCAAGGTCAAGGAGGTTCTAACTATGTTCATAGAGGCCCTAGTGGCTCAAGTTTTATTCCCCAAGGTCAAGGAGGTTACTATGGTGCATCGCATAGCCAAAATGGCTCAAGTTTTTCATCTTTTGGCCCTCACAACAATCAAGGGCAGATTTCACCTATGCATGGTACACATGGGAATGTCACTTATCCTTATGGTTCGAATGTTCAAAATGGTCCTCCCGGATTTGTGCAAGGTAGTGGCTATGGAAACACCAAGTTTCAAGGTGGTTCTAGTGTTTTTCATGGAGGCAACCAAGGCGGGAATTACAATCATACATCTATGTCACATGCTCCTTTGCATTCTAGTGAGCCTAGCAAACCCGGTTTTAAAGAGTTGATGAATAAACTCATAGAAGCTCAAAATTCTACAAATGCGATCAATAAGCAAACTATTGATTCTCTTCAAGCGGGCTTGCACAAATTGGAGACTCAAGTTGGGCAAATGGCCTCTTCTATGCATTCAAGACCACAAGGGTCTCTTCCTAGCAATACGGTGCCTAACCCTCGCCACAATGAGCAAGCAAATGCTATATCTATTCTTAGAAGTGGAAAGGTCTATGACAATAAGGTACACATGCCACAAACTTCATCTCCTACTTCCTTGCATGTGTATGATAATATGTATGACCCCTATTCATCCTCATCCCATTCTTATAATGGTTATGTTCCCTCTCCTATGCATGCTCCCAACTCCCCCATTTCAAATTCTAGTGATGAGTATGTTATGGTAGAGGATTGCTCTAGTGATAGTGATTTTGAATTGATTGATGGTGCCACGAGGGAAGAAAATGTACCTCGTGGTAATGTTGAAAATTCTTTAAATATGCATGATTTTAATTCAAAGGCGGATGGGAACCGGGGGAAGAAAATGTACCCCCGGAAATTGGAGTGGGTGATGTGA
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
Asp_protease_2 RVT_1 Retrotrans_gag rve

Protein Analysis

427

Amino Acids

46.77

Weight (kDa)

6.55

Isoelectric Point (pI)

55.66

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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1038
AccB1I GGYRCC 2 cut(s) 877, 1154
AciI CCGC 3 cut(s) 642, 791, 1229
AclWI GGATC 1 cut(s) 319
AcsI RAATTY 3 cut(s) 745, 1087, 1195
AdeI CACNNNGTG 1 cut(s) 326
AfaI GTAC 4 cut(s) 511, 954, 1176, 1256
AfiI CCNNNNNNNGG 2 cut(s) 506, 1267
AluBI AGCT 1 cut(s) 740
AluI AGCT 1 cut(s) 740
Alw26I GTCTC 3 cut(s) 135, 803, 864
AlwI GGATC 1 cut(s) 319
AoxI GGCC 4 cut(s) 90, 379, 469, 828
ApoI RAATTY 3 cut(s) 745, 1087, 1195
AspS9I GGNCC 3 cut(s) 380, 470, 557
AsuC2I CCSGG 5 cut(s) 264, 564, 705, 1241, 1261
AsuHPI GGTGA 2 cut(s) 269, 489
AsuII TTCGAA 1 cut(s) 542
AvaII GGWCC 1 cut(s) 557
BanI GGYRCC 2 cut(s) 877, 1154
BarI GAAGNNNNNNTAC 4 cut(s) 1158, 1190, 1238, 1270
BauI CACGAG 2 cut(s) 1159, 1179
BccI CCATC 3 cut(s) 31, 1145, 1226
BcnI CCSGG 5 cut(s) 264, 564, 705, 1241, 1261
BcoDI GTCTC 3 cut(s) 135, 803, 864
BfaI CTAG 8 cut(s) 135, 384, 615, 687, 696, 867, 1092, 1125
BglI GCCNNNNNGGC 2 cut(s) 387, 447
Bme1390I CCNGG 5 cut(s) 264, 564, 705, 1241, 1261
Bme18I GGWCC 1 cut(s) 557
BmgT120I GGNCC 3 cut(s) 380, 470, 557
BmiI GGNNCC 3 cut(s) 879, 1156, 1238
BmrFI CCNGG 5 cut(s) 264, 564, 705, 1241, 1261
BmsI GCATC 1 cut(s) 440
BplI GAGNNNNNCTC 2 cut(s) 1106, 1138
Bpu14I TTCGAA 1 cut(s) 542
BpuEI CTTGAG 6 cut(s) 47, 71, 132, 376, 436, 798
BpuMI CCSGG 5 cut(s) 264, 564, 705, 1241, 1261
BsaI GGTCTC 1 cut(s) 864
BsaJI CCNNGG 6 cut(s) 263, 304, 406, 637, 1240, 1259
BsaXI ACNNNNNCTCC 2 cut(s) 958, 988
Bsc4I CCNNNNNNNGG 2 cut(s) 506, 1267
BseDI CCNNGG 6 cut(s) 263, 304, 406, 637, 1240, 1259
BseGI GGATG 3 cut(s) 1019, 1025, 1237
BseLI CCNNNNNNNGG 2 cut(s) 506, 1267
BseRI GAGGAG 1 cut(s) 203
BshFI GGCC 4 cut(s) 92, 381, 471, 830
BshNI GGYRCC 2 cut(s) 877, 1154
BsiSI CCGG 5 cut(s) 263, 564, 705, 1240, 1261
BslI CCNNNNNNNGG 2 cut(s) 506, 1267
BsmAI GTCTC 3 cut(s) 135, 803, 864
BsmI GAATGC 4 cut(s) 97, 158, 682, 841
BsnI GGCC 4 cut(s) 92, 381, 471, 830
Bso31I GGTCTC 1 cut(s) 864
Bsp119I TTCGAA 1 cut(s) 542
Bsp143I GATC 3 cut(s) 61, 311, 759
BspACI CCGC 3 cut(s) 642, 791, 1229
BspANI GGCC 4 cut(s) 92, 381, 471, 830
BspLI GGNNCC 3 cut(s) 879, 1156, 1238
BspPI GGATC 1 cut(s) 319
BspT104I TTCGAA 1 cut(s) 542
BspT107I GGYRCC 2 cut(s) 877, 1154
BspTNI GGTCTC 1 cut(s) 864
BssECI CCNNGG 6 cut(s) 263, 304, 406, 637, 1240, 1259
BssMI GATC 3 cut(s) 61, 311, 759
BssSI CACGAG 2 cut(s) 1159, 1179
BssT1I CCWWGG 3 cut(s) 304, 406, 637
Bst2BI CACGAG 2 cut(s) 1159, 1179
Bst4CI ACNGT 1 cut(s) 877
Bst6I CTCTTC 3 cut(s) 789, 838, 867
BstBI TTCGAA 1 cut(s) 542
BstC8I GCNNGC 5 cut(s) 195, 793, 797, 903, 1065
BstDEI CTNAG 1 cut(s) 923
BstF5I GGATG 3 cut(s) 1019, 1025, 1237
BstKTI GATC 3 cut(s) 64, 314, 762
BstMAI GTCTC 3 cut(s) 135, 803, 864
BstMBI GATC 3 cut(s) 61, 311, 759
BstMWI GCNNNNNNNGC 3 cut(s) 387, 447, 639
BstNSI RCATGY 4 cut(s) 674, 961, 992, 1067
BstSCI CCNGG 5 cut(s) 262, 562, 703, 1239, 1259
BsuRI GGCC 4 cut(s) 92, 381, 471, 830
BtgZI GCGATG 1 cut(s) 417
BtsCI GGATG 3 cut(s) 1019, 1025, 1237
Cac8I GCNNGC 5 cut(s) 195, 793, 797, 903, 1065
Cfr13I GGNCC 3 cut(s) 380, 470, 557
Csp6I GTAC 4 cut(s) 510, 953, 1175, 1255
CspCI CAANNNNNGTGG 2 cut(s) 289, 324
CviQI GTAC 4 cut(s) 510, 953, 1175, 1255
DdeI CTNAG 1 cut(s) 923
DpnI GATC 3 cut(s) 63, 313, 761
DpnII GATC 3 cut(s) 61, 311, 759
DraI TTTAAA 2 cut(s) 712, 1203
DraIII CACNNNGTG 1 cut(s) 326
Eam1104I CTCTTC 3 cut(s) 789, 838, 867
EarI CTCTTC 3 cut(s) 789, 838, 867
EciI GGCGGA 1 cut(s) 1244
Eco130I CCWWGG 3 cut(s) 304, 406, 637
Eco31I GGTCTC 1 cut(s) 864
Eco47I GGWCC 1 cut(s) 557
EcoO109I RGGNCCY 1 cut(s) 380
EcoT14I CCWWGG 3 cut(s) 304, 406, 637
EcoT22I ATGCAT 5 cut(s) 99, 507, 843, 1065, 1212
ErhI CCWWGG 3 cut(s) 304, 406, 637
FalI AAGNNNNNCTT 2 cut(s) 846, 878
FauI CCCGC 2 cut(s) 635, 784
FokI GGATG 3 cut(s) 1006, 1012, 1244
FspBI CTAG 8 cut(s) 135, 384, 615, 687, 696, 867, 1092, 1125
HaeIII GGCC 4 cut(s) 92, 381, 471, 830
HapII CCGG 5 cut(s) 263, 564, 705, 1240, 1261
HinfI GANTC 4 cut(s) 128, 274, 779, 811
HpaII CCGG 5 cut(s) 263, 564, 705, 1240, 1261
HphI GGTGA 2 cut(s) 269, 489
Hpy166II GTNNAC 3 cut(s) 320, 512, 955
Hpy188III TCNNGA 4 cut(s) 65, 149, 176, 846
Hpy8I GTNNAC 3 cut(s) 320, 512, 955
HpyAV CCTTC 1 cut(s) 216
HpyCH4III ACNGT 1 cut(s) 877
HpyF10VI GCNNNNNNNGC 3 cut(s) 387, 447, 639
HpyF3I CTNAG 1 cut(s) 923
Kzo9I GATC 3 cut(s) 61, 311, 759
LmnI GCTCC 4 cut(s) 40, 190, 679, 1072
LpnPI CCDG 5 cut(s) 276, 577, 718, 1253, 1274
LweI GCATC 1 cut(s) 440
MaeI CTAG 8 cut(s) 135, 384, 615, 687, 696, 867, 1092, 1125
MaeIII GTNAC 4 cut(s) 142, 419, 523, 666
MalI GATC 3 cut(s) 63, 313, 761
MboI GATC 3 cut(s) 61, 311, 759
MboII GAAGA 5 cut(s) 776, 825, 854, 1178, 1258
MlyI GAGTC 2 cut(s) 137, 805
MmeI TCCRAC 1 cut(s) 275
Mph1103I ATGCAT 5 cut(s) 99, 507, 843, 1065, 1212
MseI TTAA 3 cut(s) 711, 1202, 1218
MslI CAYNNNNRTG 3 cut(s) 519, 687, 993
MspI CCGG 5 cut(s) 263, 564, 705, 1240, 1261
MspR9I CCNGG 5 cut(s) 264, 564, 705, 1241, 1261
Mva1269I GAATGC 4 cut(s) 97, 158, 682, 841
MwoI GCNNNNNNNGC 3 cut(s) 387, 447, 639
NciI CCSGG 5 cut(s) 264, 564, 705, 1241, 1261
NdeII GATC 3 cut(s) 61, 311, 759
NlaIV GGNNCC 3 cut(s) 879, 1156, 1238
NmuCI GTSAC 2 cut(s) 523, 666
NsiI ATGCAT 5 cut(s) 99, 507, 843, 1065, 1212
NspI RCATGY 4 cut(s) 674, 961, 992, 1067
NspV TTCGAA 1 cut(s) 542
PaeI GCATGC 1 cut(s) 1067
PctI GAATGC 4 cut(s) 97, 158, 682, 841
PfeI GAWTC 2 cut(s) 274, 779
PfoI TCCNGGA 1 cut(s) 562
PleI GAGTC 2 cut(s) 136, 805
PpsI GAGTC 2 cut(s) 136, 805
PsiI TTATAA 1 cut(s) 1038
PspN4I GGNNCC 3 cut(s) 879, 1156, 1238
PspPI GGNCC 3 cut(s) 380, 470, 557
RsaI GTAC 4 cut(s) 511, 954, 1176, 1256
RsaNI GTAC 4 cut(s) 510, 953, 1175, 1255
RseI CAYNNNNRTG 3 cut(s) 519, 687, 993
SaqAI TTAA 3 cut(s) 711, 1202, 1218
Sau3AI GATC 3 cut(s) 61, 311, 759
Sau96I GGNCC 3 cut(s) 380, 470, 557
SchI GAGTC 2 cut(s) 137, 805
ScrFI CCNGG 5 cut(s) 264, 564, 705, 1241, 1261
SfaNI GCATC 1 cut(s) 440
SfuI TTCGAA 1 cut(s) 542
SinI GGWCC 1 cut(s) 557
SmiMI CAYNNNNRTG 3 cut(s) 519, 687, 993
SmlI CTYRAG 6 cut(s) 26, 50, 147, 391, 451, 813
SmoI CTYRAG 6 cut(s) 26, 50, 147, 391, 451, 813
SphI GCATGC 1 cut(s) 1067
SsiI CCGC 3 cut(s) 642, 791, 1229
SspMI CTAG 8 cut(s) 135, 384, 615, 687, 696, 867, 1092, 1125
StyD4I CCNGG 5 cut(s) 262, 562, 703, 1239, 1259
StyI CCWWGG 3 cut(s) 304, 406, 637
TaaI ACNGT 1 cut(s) 877
TaqI TCGA 1 cut(s) 542
TfiI GAWTC 2 cut(s) 274, 779
Tru1I TTAA 3 cut(s) 711, 1202, 1218
Tru9I TTAA 3 cut(s) 711, 1202, 1218
TseFI GTSAC 2 cut(s) 523, 666
Tsp45I GTSAC 2 cut(s) 523, 666
TspDTI ATGAA 7 cut(s) 279, 362, 450, 614, 737, 960, 1008
VpaK11BI GGWCC 1 cut(s) 557
XapI RAATTY 3 cut(s) 745, 1087, 1195
XceI RCATGY 4 cut(s) 674, 961, 992, 1067
XcmI CCANNNNNNNNNTGG 1 cut(s) 1037
XspI CTAG 8 cut(s) 135, 384, 615, 687, 696, 867, 1092, 1125
Zsp2I ATGCAT 5 cut(s) 99, 507, 843, 1065, 1212
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.