RchiOBHm_Chr3g0451501

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0006967
Physical Location & Seq
Forward (+)
2533297 .. 2534116
820 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 687 bp
ATGCACTATGTTCATGGAACTTCTATTTTGGGAGGGCCACTACAGCACGGACAGTCTAGCAATTCTTCAATGATACCTCCATGGCAATTTCCATCCAGTAATCTTAATTTTCAGGAACAGATGGCCAGGCCTTCATTACCATTTGCAGTGAACCATTACTTAACATCACAATTGTCTACTCAACCCATACCAGCTCAGGCTTCATCTACCTATTCCACCATTTCAACACCGTACTCTCATTTTCAACCTCCGCAGTTTTCGCAAGCACAGCATGCTCACTATCAGTATCCTCAAACTCATCATGCTATTCCACAACCACAGTTTCATTTACAACCTGAGATGGATCCAAATCTTCCGACTATGCGACAAATGAGGTTGGAGTTTCAAACTTTTGGTGATGGTGACCCTCTACAATGGCTTAATAAGGCAGAGCAATACTTCGAGTTGTATCAAATTCCAGAGGACAAAAAAGTGTCTATTGCTGCTATGCATCTAACCGATGAAGCAGCGGATGTTTGGCATCTATTCAAACATCAATACCCTGGGAATTGGTTTGGTTTTGCTGAACTTCTGATGCGAGAGTTTGGTTCCCATTCTAGAGCAGATTATCAGTCTGCTTTGATTAGGCTTAACCAAACTGGTTCACTCCGGGATTTTCAGATGATATATTGCTTGCCTGTTTCTTAG
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

228

Amino Acids

26.24

Weight (kDa)

6.12

Isoelectric Point (pI)

54.6

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)
AccI GTMKAC 1 cut(s) 176
AciI CCGC 2 cut(s) 251, 509
AclWI GGATC 2 cut(s) 338, 351
AcoI YGGCCR 1 cut(s) 123
AcsI RAATTY 1 cut(s) 453
AfaI GTAC 1 cut(s) 233
AgsI TTSAA 5 cut(s) 69, 225, 245, 386, 529
AjnI CCWGG 2 cut(s) 125, 541
AluBI AGCT 1 cut(s) 194
AluI AGCT 1 cut(s) 194
AlwI GGATC 2 cut(s) 338, 351
AoxI GGCC 3 cut(s) 35, 123, 128
ApeKI GCWGC 2 cut(s) 482, 506
ApoI RAATTY 1 cut(s) 453
AspS9I GGNCC 1 cut(s) 35
AsuC2I CCSGG 1 cut(s) 650
AsuHPI GGTGA 2 cut(s) 407, 413
BalI TGGCCA 1 cut(s) 125
BamHI GGATCC 1 cut(s) 343
BbvI GCAGC 2 cut(s) 469, 518
BccI CCATC 4 cut(s) 100, 115, 334, 392
BciT130I CCWGG 2 cut(s) 127, 543
BciVI GTATCC 1 cut(s) 297
BcnI CCSGG 1 cut(s) 650
BfaI CTAG 2 cut(s) 57, 597
BfmI CTRYAG 1 cut(s) 41
BfuI GTATCC 1 cut(s) 297
BisI GCNGC 2 cut(s) 483, 507
BlsI GCNGC 2 cut(s) 484, 508
Bme1390I CCNGG 3 cut(s) 127, 543, 650
BmgT120I GGNCC 1 cut(s) 35
BmiI GGNNCC 2 cut(s) 345, 589
BmrFI CCNGG 3 cut(s) 127, 543, 650
BmsI GCATC 3 cut(s) 499, 529, 564
Bpu10I CCTNAGC 1 cut(s) 195
BpuMI CCSGG 1 cut(s) 650
BsaBI GATNNNNATC 1 cut(s) 348
BsaJI CCNNGG 3 cut(s) 80, 541, 542
Bse1I ACTGG 2 cut(s) 96, 643
Bse8I GATNNNNATC 1 cut(s) 348
BseBI CCWGG 2 cut(s) 127, 543
BseDI CCNNGG 3 cut(s) 80, 541, 542
BseGI GGATG 2 cut(s) 92, 517
BseJI GATNNNNATC 1 cut(s) 348
BseMII CTCAG 2 cut(s) 209, 327
BseNI ACTGG 2 cut(s) 96, 643
BseXI GCAGC 2 cut(s) 469, 518
BshFI GGCC 3 cut(s) 37, 125, 130
BsiSI CCGG 1 cut(s) 649
BsnI GGCC 3 cut(s) 37, 125, 130
Bsp143I GATC 1 cut(s) 343
Bsp19I CCATGG 1 cut(s) 80
BspACI CCGC 2 cut(s) 251, 509
BspANI GGCC 3 cut(s) 37, 125, 130
BspCNI CTCAG 2 cut(s) 208, 328
BspLI GGNNCC 2 cut(s) 345, 589
BspPI GGATC 2 cut(s) 338, 351
BsrI ACTGG 2 cut(s) 96, 643
BssECI CCNNGG 3 cut(s) 80, 541, 542
BssMI GATC 1 cut(s) 343
BssT1I CCWWGG 1 cut(s) 80
Bst2UI CCWGG 2 cut(s) 127, 543
Bst4CI ACNGT 3 cut(s) 54, 231, 321
BstAPI GCANNNNNTGC 1 cut(s) 272
BstC8I GCNNGC 3 cut(s) 264, 273, 674
BstDEI CTNAG 3 cut(s) 195, 336, 684
BstDSI CCRYGG 1 cut(s) 80
BstEII GGTNACC 1 cut(s) 401
BstF5I GGATG 2 cut(s) 92, 517
BstKTI GATC 1 cut(s) 346
BstMBI GATC 1 cut(s) 343
BstMWI GCNNNNNNNGC 4 cut(s) 43, 259, 268, 272
BstNI CCWGG 2 cut(s) 127, 543
BstNSI RCATGY 1 cut(s) 275
BstPI GGTNACC 1 cut(s) 401
BstSCI CCNGG 3 cut(s) 125, 541, 648
BstSFI CTRYAG 1 cut(s) 41
BstV1I GCAGC 2 cut(s) 469, 518
BstX2I RGATCY 1 cut(s) 343
BstYI RGATCY 1 cut(s) 343
BsuI GTATCC 1 cut(s) 297
BsuRI GGCC 3 cut(s) 37, 125, 130
BtgI CCRYGG 1 cut(s) 80
BtsCI GGATG 2 cut(s) 92, 517
BtsI GCAGTG 1 cut(s) 153
BtsIMutI CAGTG 1 cut(s) 153
Cac8I GCNNGC 3 cut(s) 264, 273, 674
Cfr13I GGNCC 1 cut(s) 35
Csp6I GTAC 1 cut(s) 232
CviAII CATG 4 cut(s) 14, 81, 272, 302
CviJI RGCY 7 cut(s) 37, 125, 130, 194, 200, 418, 628
CviKI_1 RGCY 7 cut(s) 37, 125, 130, 194, 200, 418, 628
CviQI GTAC 1 cut(s) 232
DdeI CTNAG 3 cut(s) 195, 336, 684
DpnI GATC 1 cut(s) 345
DpnII GATC 1 cut(s) 343
EaeI YGGCCR 1 cut(s) 123
Eco130I CCWWGG 1 cut(s) 80
Eco147I AGGCCT 1 cut(s) 130
Eco91I GGTNACC 1 cut(s) 401
EcoO65I GGTNACC 1 cut(s) 401
EcoRII CCWGG 2 cut(s) 125, 541
EcoT14I CCWWGG 1 cut(s) 80
EcoT22I ATGCAT 1 cut(s) 492
ErhI CCWWGG 1 cut(s) 80
FaeI CATG 4 cut(s) 17, 84, 275, 305
FaiI YATR 9 cut(s) 9, 15, 82, 188, 273, 303, 362, 488, 667
FatI CATG 4 cut(s) 13, 80, 271, 301
FblI GTMKAC 1 cut(s) 176
Fnu4HI GCNGC 2 cut(s) 483, 507
FokI GGATG 2 cut(s) 79, 524
Fsp4HI GCNGC 2 cut(s) 483, 507
FspBI CTAG 2 cut(s) 57, 597
GluI GCNGC 2 cut(s) 483, 507
HaeIII GGCC 3 cut(s) 37, 125, 130
HapII CCGG 1 cut(s) 649
Hin1II CATG 4 cut(s) 17, 84, 275, 305
HpaII CCGG 1 cut(s) 649
HphI GGTGA 2 cut(s) 407, 413
Hpy166II GTNNAC 3 cut(s) 151, 177, 644
Hpy188I TCNGA 3 cut(s) 357, 573, 660
Hpy188III TCNNGA 3 cut(s) 113, 458, 597
Hpy8I GTNNAC 3 cut(s) 151, 177, 644
HpyAV CCTTC 1 cut(s) 141
HpyCH4III ACNGT 3 cut(s) 54, 231, 321
HpyCH4V TGCA 3 cut(s) 4, 146, 490
HpyF10VI GCNNNNNNNGC 4 cut(s) 43, 259, 268, 272
HpyF3I CTNAG 3 cut(s) 195, 336, 684
Hsp92II CATG 4 cut(s) 17, 84, 275, 305
Kzo9I GATC 1 cut(s) 343
Lsp1109I GCAGC 2 cut(s) 469, 518
LweI GCATC 3 cut(s) 499, 529, 564
MaeI CTAG 2 cut(s) 57, 597
MaeIII GTNAC 1 cut(s) 401
MalI GATC 1 cut(s) 345
MboI GATC 1 cut(s) 343
MboII GAAGA 2 cut(s) 57, 344
MfeI CAATTG 1 cut(s) 170
MflI RGATCY 1 cut(s) 343
MlsI TGGCCA 1 cut(s) 125
MluCI AATT 6 cut(s) 61, 86, 106, 170, 453, 547
MluNI TGGCCA 1 cut(s) 125
MmeI TCCRAC 2 cut(s) 357, 380
MnlI CCTC 7 cut(s) 26, 87, 258, 300, 366, 417, 454
Mox20I TGGCCA 1 cut(s) 125
Mph1103I ATGCAT 1 cut(s) 492
MscI TGGCCA 1 cut(s) 125
MseI TTAA 4 cut(s) 105, 161, 420, 630
Msp20I TGGCCA 1 cut(s) 125
MspA1I CMGCKG 1 cut(s) 509
MspI CCGG 1 cut(s) 649
MspR9I CCNGG 3 cut(s) 127, 543, 650
MunI CAATTG 1 cut(s) 170
MvaI CCWGG 2 cut(s) 127, 543
MwoI GCNNNNNNNGC 4 cut(s) 43, 259, 268, 272
NciI CCSGG 1 cut(s) 650
NcoI CCATGG 1 cut(s) 80
NdeII GATC 1 cut(s) 343
NlaIII CATG 4 cut(s) 17, 84, 275, 305
NlaIV GGNNCC 2 cut(s) 345, 589
NmuCI GTSAC 1 cut(s) 401
NsiI ATGCAT 1 cut(s) 492
NspI RCATGY 1 cut(s) 275
PaeI GCATGC 1 cut(s) 275
PasI CCCWGGG 1 cut(s) 542
PceI AGGCCT 1 cut(s) 130
PfoI TCCNGGA 1 cut(s) 648
PkrI GCNGC 2 cut(s) 484, 508
Psp6I CCWGG 2 cut(s) 125, 541
PspEI GGTNACC 1 cut(s) 401
PspGI CCWGG 2 cut(s) 125, 541
PspN4I GGNNCC 2 cut(s) 345, 589
PspPI GGNCC 1 cut(s) 35
PsuI RGATCY 1 cut(s) 343
RsaI GTAC 1 cut(s) 233
RsaNI GTAC 1 cut(s) 232
SaqAI TTAA 4 cut(s) 105, 161, 420, 630
SatI GCNGC 2 cut(s) 483, 507
Sau3AI GATC 1 cut(s) 343
Sau96I GGNCC 1 cut(s) 35
ScrFI CCNGG 3 cut(s) 127, 543, 650
SetI ASST 6 cut(s) 79, 196, 212, 250, 337, 377
SfaNI GCATC 3 cut(s) 499, 529, 564
SfcI CTRYAG 1 cut(s) 41
SphI GCATGC 1 cut(s) 275
Sse9I AATT 6 cut(s) 61, 86, 106, 170, 453, 547
SseBI AGGCCT 1 cut(s) 130
SsiI CCGC 2 cut(s) 251, 509
SspMI CTAG 2 cut(s) 57, 597
StuI AGGCCT 1 cut(s) 130
StyD4I CCNGG 3 cut(s) 125, 541, 648
StyI CCWWGG 1 cut(s) 80
TaaI ACNGT 3 cut(s) 54, 231, 321
TaqI TCGA 1 cut(s) 441
TasI AATT 6 cut(s) 61, 86, 106, 170, 453, 547
Tru1I TTAA 4 cut(s) 105, 161, 420, 630
Tru9I TTAA 4 cut(s) 105, 161, 420, 630
TscAI CASTG 1 cut(s) 153
TseFI GTSAC 1 cut(s) 401
TseI GCWGC 2 cut(s) 482, 506
Tsp45I GTSAC 1 cut(s) 401
TspDTI ATGAA 4 cut(s) 123, 192, 314, 516
TspGWI ACGGA 1 cut(s) 63
TspRI CASTG 1 cut(s) 153
XapI RAATTY 1 cut(s) 453
XbaI TCTAGA 1 cut(s) 596
XceI RCATGY 1 cut(s) 275
XmiI GTMKAC 1 cut(s) 176
XspI CTAG 2 cut(s) 57, 597
Zsp2I ATGCAT 1 cut(s) 492
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.