RchiOBHm_Chr2g0133891

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0001407
Physical Location & Seq
Forward (+)
50890856 .. 50892217
1362 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1248 bp
ATGGCGGACCAAAGACAAAGAGTTGACACTTTTAGTGGTGGAACTATTGCAAGCAAGCTTCCCGATGTTGCTTGGGACACATATGAAGAGCTTTCACTTAATTCCCTTCATTGGGATGATCATGATGCAAGGAGACAACAAGTGCATAACAAGGAGAGTACACCTAGCCGAGGTGGTATCTATGAGGTTCAAGGAACATCATCCGGGCCTTCTATGCATGAGTTCAAGAGGCTAGAAAGCAAGATTGACCAATTTCTAAATCAAGTGAACCGGAATCCTCCTCAATCTCAAGTCAAGATGGCAACTTCTACATCATGTTTGCTTTGTGAAAGTCTAGCACATTCCACTCAAGAGTGTCACTTATCATCCAAGTTTCCGGACTTTGTTGAAGAACAAGTGAACCAAGTGGGTAATTTTGTGCCAAGGAACCAAAGAAATGATCCTTACTCTAACACTTATAATCCCGGTTGGAGAAATCATCCCAATTTTTCTTGGAGAGACCAAGGAGGTTTATCTAGTGCGTTTCAAGGTGGAAAGCAAAGCTTTAGAGGTGGCCAAGGTCAAGACTCATCAAATGTTGCTAATTATGGCAATGCACACCAAGGAAGCACTAATTTTTCACAATATGGTCAACATGGACAGCAAGCATATGGGTCTAATTCTCAAGGCCAATTTACCTCAAGTCAAGGATTTCATGGTCAAAACACCCCTCCTGGGTTTACACAAGGTGTTGGCTATAGTGGTAGCAAGTTTCAAGGCAATCCTAGCTCATTTCAAGGCCCCCACCAAGGCGAGAACTACAATTCTCCTCCTATTCTCCAAGGCATTCCTATTCAAGCTCCAAATGAACCAAAGAAGCCTAATTTTGAAGACTTGATGGGAGAGTTTCTCAAGGTTCAAACTTCTACTAATGCGGAGACCAAGCAAAACATCTCTTCACTAGTTCAAGGGTATCAAACTCTACAACAAGGCATGGCTAGACTAGAGGTACAAGTGGGCCAAATGGCCACCAATATGAGTGAGAGACCAAAAGGAGCCTTACCTTCACAACCGGAGCCAAATCCAAGAGGAAAACTCCATGAATGCAATGCCATCACCACTCTACGTTCGGGAAAGGTATATGATAATCATGTTTACATGCCTACATCTTCTAGTTTCCATACAAATCCTCTATTTGATGACGATGTTGATTTGCATTCATATGGGGCCAAGAGGGAAGAAAATGGAAGAAAATGTACCTTCCGGTAA
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 Retrotrans_gag rve

Protein Analysis

415

Amino Acids

46.05

Weight (kDa)

6.57

Isoelectric Point (pI)

44.57

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) 459
AccIII TCCGGA 1 cut(s) 376
AciI CCGC 2 cut(s) 5, 914
AclWI GGATC 1 cut(s) 434
AcoI YGGCCR 2 cut(s) 553, 1005
AdeI CACNNNGTG 1 cut(s) 728
AfaI GTAC 3 cut(s) 160, 990, 1237
AfiI CCNNNNNNNGG 5 cut(s) 111, 112, 170, 714, 788
AhlI ACTAGT 1 cut(s) 940
AjnI CCWGG 1 cut(s) 712
AluBI AGCT 5 cut(s) 58, 91, 543, 768, 839
AluI AGCT 5 cut(s) 58, 91, 543, 768, 839
Alw26I GTCTC 4 cut(s) 127, 492, 911, 1018
AlwI GGATC 1 cut(s) 434
Aor13HI TCCGGA 1 cut(s) 376
AoxI GGCC 7 cut(s) 206, 553, 667, 778, 997, 1005, 1206
AspS9I GGNCC 5 cut(s) 7, 206, 779, 997, 1206
AsuC2I CCSGG 2 cut(s) 205, 465
AsuHPI GGTGA 1 cut(s) 1087
AvaII GGWCC 1 cut(s) 7
BalI TGGCCA 2 cut(s) 555, 1007
BarI GAAGNNNNNNTAC 1 cut(s) 1219
BbsI GAAGAC 1 cut(s) 876
BccI CCATC 3 cut(s) 292, 871, 1100
BciT130I CCWGG 1 cut(s) 714
BclI TGATCA 1 cut(s) 118
BcnI CCSGG 2 cut(s) 205, 465
BcoDI GTCTC 4 cut(s) 127, 492, 911, 1018
BcuI ACTAGT 1 cut(s) 940
BfaI CTAG 9 cut(s) 165, 233, 335, 516, 765, 941, 978, 983, 1152
BfmI CTRYAG 1 cut(s) 736
Bme1390I CCNGG 3 cut(s) 205, 465, 714
Bme18I GGWCC 1 cut(s) 7
BmgT120I GGNCC 5 cut(s) 7, 206, 779, 997, 1206
BmiI GGNNCC 5 cut(s) 428, 781, 1036, 1056, 1207
BmrFI CCNGG 3 cut(s) 205, 465, 714
BmsI GCATC 1 cut(s) 115
BpiI GAAGAC 1 cut(s) 876
BplI GAGNNNNNCTC 4 cut(s) 873, 905, 1059, 1091
BpuEI CTTGAG 5 cut(s) 273, 333, 648, 664, 875
BpuMI CCSGG 2 cut(s) 205, 465
BsaI GGTCTC 3 cut(s) 492, 911, 1018
BsaJI CCNNGG 8 cut(s) 169, 422, 502, 556, 601, 713, 787, 820
BsaWI WCCGGW 4 cut(s) 270, 376, 1051, 1242
Bsc4I CCNNNNNNNGG 5 cut(s) 111, 112, 170, 714, 788
Bse3DI GCAATG 2 cut(s) 598, 1093
BseAI TCCGGA 1 cut(s) 376
BseBI CCWGG 1 cut(s) 714
BseDI CCNNGG 8 cut(s) 169, 422, 502, 556, 601, 713, 787, 820
BseGI GGATG 4 cut(s) 121, 200, 365, 478
BseLI CCNNNNNNNGG 5 cut(s) 111, 112, 170, 714, 788
BseMI GCAATG 2 cut(s) 598, 1093
BseRI GAGGAG 2 cut(s) 270, 798
BshFI GGCC 7 cut(s) 208, 555, 669, 780, 999, 1007, 1208
BsiSI CCGG 6 cut(s) 204, 271, 377, 465, 1052, 1243
BslFI GGGAC 1 cut(s) 89
BslI CCNNNNNNNGG 5 cut(s) 111, 112, 170, 714, 788
BsmAI GTCTC 4 cut(s) 127, 492, 911, 1018
BsmFI GGGAC 1 cut(s) 89
BsmI GAATGC 3 cut(s) 825, 1088, 1195
BsnI GGCC 7 cut(s) 208, 555, 669, 780, 999, 1007, 1208
Bso31I GGTCTC 3 cut(s) 492, 911, 1018
Bsp13I TCCGGA 1 cut(s) 376
Bsp143I GATC 2 cut(s) 118, 439
BspACI CCGC 2 cut(s) 5, 914
BspANI GGCC 7 cut(s) 208, 555, 669, 780, 999, 1007, 1208
BspEI TCCGGA 1 cut(s) 376
BspHI TCATGA 1 cut(s) 121
BspLI GGNNCC 5 cut(s) 428, 781, 1036, 1056, 1207
BspPI GGATC 1 cut(s) 434
BspQI GCTCTTC 1 cut(s) 81
BspTNI GGTCTC 3 cut(s) 492, 911, 1018
BsrDI GCAATG 2 cut(s) 598, 1093
BssECI CCNNGG 8 cut(s) 169, 422, 502, 556, 601, 713, 787, 820
BssMI GATC 2 cut(s) 118, 439
BssT1I CCWWGG 6 cut(s) 422, 502, 556, 601, 787, 820
Bst2UI CCWGG 1 cut(s) 714
Bst6I CTCTTC 2 cut(s) 81, 940
BstC8I GCNNGC 3 cut(s) 52, 56, 645
BstENI CCTNNNNNAGG 1 cut(s) 168
BstF5I GGATG 4 cut(s) 121, 200, 365, 478
BstKTI GATC 2 cut(s) 121, 442
BstMAI GTCTC 4 cut(s) 127, 492, 911, 1018
BstMBI GATC 2 cut(s) 118, 439
BstMWI GCNNNNNNNGC 2 cut(s) 214, 765
BstNI CCWGG 1 cut(s) 714
BstNSI RCATGY 1 cut(s) 1141
BstSCI CCNGG 3 cut(s) 203, 463, 712
BstSFI CTRYAG 1 cut(s) 736
BstV2I GAAGAC 1 cut(s) 876
BsuRI GGCC 7 cut(s) 208, 555, 669, 780, 999, 1007, 1208
BtsCI GGATG 4 cut(s) 121, 200, 365, 478
Cac8I GCNNGC 3 cut(s) 52, 56, 645
CciI TCATGA 1 cut(s) 121
Cfr13I GGNCC 5 cut(s) 7, 206, 779, 997, 1206
Csp6I GTAC 3 cut(s) 159, 989, 1236
CviAII CATG 9 cut(s) 122, 218, 315, 635, 695, 973, 1079, 1130, 1138
CviQI GTAC 3 cut(s) 159, 989, 1236
DpnI GATC 2 cut(s) 120, 441
DpnII GATC 2 cut(s) 118, 439
DraIII CACNNNGTG 1 cut(s) 728
EaeI YGGCCR 2 cut(s) 553, 1005
Eam1104I CTCTTC 2 cut(s) 81, 940
EarI CTCTTC 2 cut(s) 81, 940
EciI GGCGGA 1 cut(s) 20
Eco130I CCWWGG 6 cut(s) 422, 502, 556, 601, 787, 820
Eco31I GGTCTC 3 cut(s) 492, 911, 1018
Eco47I GGWCC 1 cut(s) 7
EcoNI CCTNNNNNAGG 1 cut(s) 168
EcoO109I RGGNCCY 1 cut(s) 779
EcoRII CCWGG 1 cut(s) 712
EcoT14I CCWWGG 6 cut(s) 422, 502, 556, 601, 787, 820
EcoT22I ATGCAT 1 cut(s) 219
ErhI CCWWGG 6 cut(s) 422, 502, 556, 601, 787, 820
FaeI CATG 9 cut(s) 125, 221, 318, 638, 698, 976, 1082, 1133, 1141
FalI AAGNNNNNCTT 2 cut(s) 527, 559
FaqI GGGAC 1 cut(s) 89
FatI CATG 9 cut(s) 121, 217, 314, 634, 694, 972, 1078, 1129, 1137
FauNDI CATATG 3 cut(s) 82, 649, 1201
FbaI TGATCA 1 cut(s) 118
FokI GGATG 4 cut(s) 128, 187, 352, 465
FspBI CTAG 9 cut(s) 165, 233, 335, 516, 765, 941, 978, 983, 1152
HaeIII GGCC 7 cut(s) 208, 555, 669, 780, 999, 1007, 1208
HapII CCGG 6 cut(s) 204, 271, 377, 465, 1052, 1243
Hin1II CATG 9 cut(s) 125, 221, 318, 638, 698, 976, 1082, 1133, 1141
HincII GTYRAC 2 cut(s) 25, 632
HindII GTYRAC 2 cut(s) 25, 632
HindIII AAGCTT 2 cut(s) 56, 541
HinfI GANTC 2 cut(s) 274, 566
HpaII CCGG 6 cut(s) 204, 271, 377, 465, 1052, 1243
HphI GGTGA 1 cut(s) 1087
Hpy166II GTNNAC 7 cut(s) 25, 161, 268, 400, 632, 720, 1135
Hpy188III TCNNGA 8 cut(s) 62, 122, 226, 295, 350, 377, 563, 1110
Hpy8I GTNNAC 7 cut(s) 25, 161, 268, 400, 632, 720, 1135
HpyAV CCTTC 3 cut(s) 116, 219, 1053
HpyCH4IV ACGT 1 cut(s) 1105
HpyCH4V TGCA 7 cut(s) 50, 128, 145, 217, 596, 1086, 1195
HpyF10VI GCNNNNNNNGC 2 cut(s) 214, 765
HpySE526I ACGT 1 cut(s) 1105
Hsp92II CATG 9 cut(s) 125, 221, 318, 638, 698, 976, 1082, 1133, 1141
Kpn2I TCCGGA 1 cut(s) 376
Ksp22I TGATCA 1 cut(s) 118
Kzo9I GATC 2 cut(s) 118, 439
LguI GCTCTTC 1 cut(s) 81
LmnI GCTCC 3 cut(s) 844, 1034, 1054
LpnPI CCDG 7 cut(s) 217, 284, 390, 478, 699, 726, 1065
LweI GCATC 1 cut(s) 115
MaeI CTAG 9 cut(s) 165, 233, 335, 516, 765, 941, 978, 983, 1152
MaeII ACGT 1 cut(s) 1105
MaeIII GTNAC 1 cut(s) 356
MalI GATC 2 cut(s) 120, 441
MboI GATC 2 cut(s) 118, 439
MboII GAAGA 7 cut(s) 98, 401, 881, 927, 1140, 1229, 1239
MlsI TGGCCA 2 cut(s) 555, 1007
MluNI TGGCCA 2 cut(s) 555, 1007
MlyI GAGTC 1 cut(s) 560
MmeI TCCRAC 1 cut(s) 449
Mox20I TGGCCA 2 cut(s) 555, 1007
Mph1103I ATGCAT 1 cut(s) 219
MroI TCCGGA 1 cut(s) 376
MscI TGGCCA 2 cut(s) 555, 1007
MseI TTAA 1 cut(s) 99
MslI CAYNNNNRTG 3 cut(s) 114, 1013, 1200
Msp20I TGGCCA 2 cut(s) 555, 1007
MspI CCGG 6 cut(s) 204, 271, 377, 465, 1052, 1243
MspR9I CCNGG 3 cut(s) 205, 465, 714
Mva1269I GAATGC 3 cut(s) 825, 1088, 1195
MvaI CCWGG 1 cut(s) 714
MwoI GCNNNNNNNGC 2 cut(s) 214, 765
NciI CCSGG 2 cut(s) 205, 465
NdeI CATATG 3 cut(s) 82, 649, 1201
NdeII GATC 2 cut(s) 118, 439
NlaIII CATG 9 cut(s) 125, 221, 318, 638, 698, 976, 1082, 1133, 1141
NlaIV GGNNCC 5 cut(s) 428, 781, 1036, 1056, 1207
NmeAIII GCCGAG 1 cut(s) 194
NmuCI GTSAC 1 cut(s) 356
NsiI ATGCAT 1 cut(s) 219
NspI RCATGY 1 cut(s) 1141
PagI TCATGA 1 cut(s) 121
PciSI GCTCTTC 1 cut(s) 81
PctI GAATGC 3 cut(s) 825, 1088, 1195
PfeI GAWTC 1 cut(s) 274
PleI GAGTC 1 cut(s) 560
PpsI GAGTC 1 cut(s) 560
PsiI TTATAA 1 cut(s) 459
Psp6I CCWGG 1 cut(s) 712
PspGI CCWGG 1 cut(s) 712
PspN4I GGNNCC 5 cut(s) 428, 781, 1036, 1056, 1207
PspPI GGNCC 5 cut(s) 7, 206, 779, 997, 1206
RsaI GTAC 3 cut(s) 160, 990, 1237
RsaNI GTAC 3 cut(s) 159, 989, 1236
RseI CAYNNNNRTG 3 cut(s) 114, 1013, 1200
SapI GCTCTTC 1 cut(s) 81
SaqAI TTAA 1 cut(s) 99
Sau3AI GATC 2 cut(s) 118, 439
Sau96I GGNCC 5 cut(s) 7, 206, 779, 997, 1206
SchI GAGTC 1 cut(s) 560
ScrFI CCNGG 3 cut(s) 205, 465, 714
SfaNI GCATC 1 cut(s) 115
SfcI CTRYAG 1 cut(s) 736
SinI GGWCC 1 cut(s) 7
SmiMI CAYNNNNRTG 3 cut(s) 114, 1013, 1200
SmlI CTYRAG 5 cut(s) 288, 348, 663, 679, 890
SmoI CTYRAG 5 cut(s) 288, 348, 663, 679, 890
SpeI ACTAGT 1 cut(s) 940
SsiI CCGC 2 cut(s) 5, 914
SspMI CTAG 9 cut(s) 165, 233, 335, 516, 765, 941, 978, 983, 1152
StyD4I CCNGG 3 cut(s) 203, 463, 712
StyI CCWWGG 6 cut(s) 422, 502, 556, 601, 787, 820
TaiI ACGT 1 cut(s) 1108
TatI WGTACW 1 cut(s) 158
TfiI GAWTC 1 cut(s) 274
Tru1I TTAA 1 cut(s) 99
Tru9I TTAA 1 cut(s) 99
TseFI GTSAC 1 cut(s) 356
Tsp45I GTSAC 1 cut(s) 356
TspDTI ATGAA 6 cut(s) 98, 99, 683, 861, 1095, 1188
VpaK11BI GGWCC 1 cut(s) 7
XagI CCTNNNNNAGG 1 cut(s) 168
XceI RCATGY 1 cut(s) 1141
XspI CTAG 9 cut(s) 165, 233, 335, 516, 765, 941, 978, 983, 1152
Zsp2I ATGCAT 1 cut(s) 219
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.