RchiOBHm_Chr2g0126521

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000756
Physical Location & Seq
Forward (+)
41050340 .. 41051079
740 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ49850

Sequence Viewer

Length: 483 bp
ATGACGCCTTTCCAAGCATTATATGGTTATCCTCCTCCCAAAGTGCAGCTCTATCTCCCTGGTTCTACTGCAGTTCATGAGGTAGATCAACAACTCAAGGATAGGGATTCCTTGCTAGCCATGCTCAAGCAGAACTTAAAGAAGGCTCAGGAGAGAATGAAGCACTTCTACGACAAAAAACACACTGAGAGGAGCTTCATTGTTGGAGATTGGGTTTACCTCAAGCTTCAACCTTACAGACAGCATTCAGTTCAGAGAAGATTAGTTCACAAACTTTCTGCCAAATATTATGGGCCATTTGAAATTGTGCAGAAGATAGGATCAGTGGCCTACAAACTGAATTTGCCTGCGACTTCAAAGATACATCCTGTGTTCCACGTCTCCTTGCTTAAAAAGAAATTGGGACAGCATGTTGTTGTGAAGCCACACTTACCACCTGAGATTGATCCTGATAATCCTCGAAAAAGGTGCAGCCGTAACTAA
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

160

Amino Acids

18.68

Weight (kDa)

10.0

Isoelectric Point (pI)

37.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_Tf2-1 PF24626 69 - 132 1.7e-23 Tf2-1-like, SH3 domain
Integrase_p58_C PF22938 98 - 132 9.6e-06 Integrase p58, C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 328, 440
AcsI RAATTY 1 cut(s) 340
AcyI GRCGYC 1 cut(s) 5
AgsI TTSAA 3 cut(s) 230, 302, 357
AjiI CACGTC 1 cut(s) 379
AjnI CCWGG 1 cut(s) 58
AluBI AGCT 3 cut(s) 49, 195, 226
AluI AGCT 3 cut(s) 49, 195, 226
Alw26I GTCTC 1 cut(s) 385
AlwI GGATC 2 cut(s) 328, 440
AoxI GGCC 2 cut(s) 293, 327
ApeKI GCWGC 2 cut(s) 46, 471
ApoI RAATTY 1 cut(s) 340
Asp700I GAANNNNTTC 1 cut(s) 164
AspS9I GGNCC 1 cut(s) 293
AsuNHI GCTAGC 1 cut(s) 115
BarI GAAGNNNNNNTAC 2 cut(s) 152, 184
BbvI GCAGC 1 cut(s) 58
BceAI ACGGC 1 cut(s) 459
BcgI CGANNNNNNTGC 1 cut(s) 450
BciT130I CCWGG 1 cut(s) 60
BcoDI GTCTC 1 cut(s) 385
BfaI CTAG 1 cut(s) 116
BfmI CTRYAG 1 cut(s) 69
BisI GCNGC 2 cut(s) 47, 472
BlsI GCNGC 2 cut(s) 48, 473
Bme1390I CCNGG 1 cut(s) 60
BmgBI CACGTC 1 cut(s) 379
BmgT120I GGNCC 1 cut(s) 293
BmrFI CCNGG 1 cut(s) 60
BmtI GCTAGC 1 cut(s) 119
Bpu10I CCTNAGC 1 cut(s) 147
BpuEI CTTGAG 3 cut(s) 80, 110, 206
BsaHI GRCGYC 1 cut(s) 5
BsaJI CCNNGG 1 cut(s) 58
BsaXI ACNNNNNCTCC 2 cut(s) 198, 228
BseBI CCWGG 1 cut(s) 60
BseDI CCNNGG 1 cut(s) 58
BseGI GGATG 1 cut(s) 364
BseMII CTCAG 3 cut(s) 161, 177, 429
BseRI GAGGAG 2 cut(s) 24, 205
BseXI GCAGC 1 cut(s) 58
BsgI GTGCAG 2 cut(s) 65, 329
BshFI GGCC 2 cut(s) 295, 329
BslFI GGGAC 1 cut(s) 417
BsmAI GTCTC 1 cut(s) 385
BsmBI CGTCTC 1 cut(s) 385
BsmFI GGGAC 1 cut(s) 417
BsmI GAATGC 1 cut(s) 244
BsnI GGCC 2 cut(s) 295, 329
Bsp143I GATC 3 cut(s) 85, 320, 445
BspANI GGCC 2 cut(s) 295, 329
BspCNI CTCAG 3 cut(s) 160, 178, 430
BspHI TCATGA 1 cut(s) 76
BspMAI CTGCAG 1 cut(s) 73
BspOI GCTAGC 1 cut(s) 119
BspPI GGATC 2 cut(s) 328, 440
BssECI CCNNGG 1 cut(s) 58
BssMI GATC 3 cut(s) 85, 320, 445
BssNI GRCGYC 1 cut(s) 5
Bst2UI CCWGG 1 cut(s) 60
BstACI GRCGYC 1 cut(s) 5
BstC8I GCNNGC 2 cut(s) 117, 348
BstDEI CTNAG 3 cut(s) 147, 186, 438
BstF5I GGATG 1 cut(s) 364
BstKTI GATC 3 cut(s) 88, 323, 448
BstMAI GTCTC 1 cut(s) 385
BstMBI GATC 3 cut(s) 85, 320, 445
BstMWI GCNNNNNNNGC 1 cut(s) 121
BstNI CCWGG 1 cut(s) 60
BstNSI RCATGY 1 cut(s) 413
BstSCI CCNGG 1 cut(s) 58
BstSFI CTRYAG 1 cut(s) 69
BstV1I GCAGC 1 cut(s) 58
BsuRI GGCC 2 cut(s) 295, 329
BtrI CACGTC 1 cut(s) 379
BtsCI GGATG 1 cut(s) 364
BtsIMutI CAGTG 2 cut(s) 183, 330
Cac8I GCNNGC 2 cut(s) 117, 348
CciI TCATGA 1 cut(s) 76
Cfr13I GGNCC 1 cut(s) 293
CseI GACGC 1 cut(s) 13
CviAII CATG 3 cut(s) 77, 121, 410
CviJI RGCY 9 cut(s) 49, 119, 146, 195, 226, 295, 329, 424, 474
CviKI_1 RGCY 9 cut(s) 49, 119, 146, 195, 226, 295, 329, 424, 474
DdeI CTNAG 3 cut(s) 147, 186, 438
DpnI GATC 3 cut(s) 87, 322, 447
DpnII GATC 3 cut(s) 85, 320, 445
EcoRII CCWGG 1 cut(s) 58
Esp3I CGTCTC 1 cut(s) 385
FaeI CATG 3 cut(s) 80, 124, 413
FaiI YATR 6 cut(s) 22, 24, 78, 122, 291, 411
FalI AAGNNNNNCTT 4 cut(s) 119, 151, 413, 445
FaqI GGGAC 1 cut(s) 417
FatI CATG 3 cut(s) 76, 120, 409
Fnu4HI GCNGC 2 cut(s) 47, 472
FokI GGATG 1 cut(s) 351
Fsp4HI GCNGC 2 cut(s) 47, 472
FspBI CTAG 1 cut(s) 116
GluI GCNGC 2 cut(s) 47, 472
HaeIII GGCC 2 cut(s) 295, 329
HgaI GACGC 1 cut(s) 13
Hin1I GRCGYC 1 cut(s) 5
Hin1II CATG 3 cut(s) 80, 124, 413
HindIII AAGCTT 1 cut(s) 224
HinfI GANTC 1 cut(s) 107
Hpy166II GTNNAC 2 cut(s) 217, 268
Hpy188I TCNGA 1 cut(s) 255
Hpy188III TCNNGA 3 cut(s) 77, 149, 449
Hpy8I GTNNAC 2 cut(s) 217, 268
HpyAV CCTTC 1 cut(s) 136
HpyCH4IV ACGT 1 cut(s) 378
HpyCH4V TGCA 4 cut(s) 46, 71, 310, 471
HpyF10VI GCNNNNNNNGC 1 cut(s) 121
HpyF3I CTNAG 3 cut(s) 147, 186, 438
HpySE526I ACGT 1 cut(s) 378
Hsp92I GRCGYC 1 cut(s) 5
Hsp92II CATG 3 cut(s) 80, 124, 413
Kzo9I GATC 3 cut(s) 85, 320, 445
LmnI GCTCC 1 cut(s) 192
LpnPI CCDG 7 cut(s) 45, 72, 134, 360, 381, 450, 462
Lsp1109I GCAGC 1 cut(s) 58
MaeI CTAG 1 cut(s) 116
MaeII ACGT 1 cut(s) 378
MaeIII GTNAC 1 cut(s) 476
MalI GATC 3 cut(s) 87, 322, 447
MboI GATC 3 cut(s) 85, 320, 445
MboII GAAGA 2 cut(s) 270, 325
MluCI AATT 3 cut(s) 303, 340, 398
MmeI TCCRAC 1 cut(s) 184
MnlI CCTC 6 cut(s) 42, 45, 73, 183, 230, 468
MroXI GAANNNNTTC 1 cut(s) 164
MseI TTAA 2 cut(s) 137, 390
MspR9I CCNGG 1 cut(s) 60
Mva1269I GAATGC 1 cut(s) 244
MvaI CCWGG 1 cut(s) 60
MwoI GCNNNNNNNGC 1 cut(s) 121
NdeII GATC 3 cut(s) 85, 320, 445
NheI GCTAGC 1 cut(s) 115
NlaIII CATG 3 cut(s) 80, 124, 413
NspI RCATGY 1 cut(s) 413
PagI TCATGA 1 cut(s) 76
PctI GAATGC 1 cut(s) 244
PdmI GAANNNNTTC 1 cut(s) 164
PfeI GAWTC 1 cut(s) 107
PkrI GCNGC 2 cut(s) 48, 473
Psp6I CCWGG 1 cut(s) 58
PspGI CCWGG 1 cut(s) 58
PspPI GGNCC 1 cut(s) 293
PstI CTGCAG 1 cut(s) 73
SaqAI TTAA 2 cut(s) 137, 390
SatI GCNGC 2 cut(s) 47, 472
Sau3AI GATC 3 cut(s) 85, 320, 445
Sau96I GGNCC 1 cut(s) 293
ScrFI CCNGG 1 cut(s) 60
SetI ASST 9 cut(s) 51, 84, 197, 222, 228, 235, 381, 439, 470
SfcI CTRYAG 1 cut(s) 69
SmlI CTYRAG 3 cut(s) 95, 125, 221
SmoI CTYRAG 3 cut(s) 95, 125, 221
Sse9I AATT 3 cut(s) 303, 340, 398
SspI AATATT 1 cut(s) 287
SspMI CTAG 1 cut(s) 116
StyD4I CCNGG 1 cut(s) 58
TaiI ACGT 1 cut(s) 381
TaqI TCGA 1 cut(s) 460
TasI AATT 3 cut(s) 303, 340, 398
TfiI GAWTC 1 cut(s) 107
Tru1I TTAA 2 cut(s) 137, 390
Tru9I TTAA 2 cut(s) 137, 390
TscAI CASTG 2 cut(s) 190, 330
TseI GCWGC 2 cut(s) 46, 471
TspDTI ATGAA 3 cut(s) 65, 173, 187
TspRI CASTG 2 cut(s) 190, 330
XapI RAATTY 1 cut(s) 340
XceI RCATGY 1 cut(s) 413
XcmI CCANNNNNNNNNTGG 1 cut(s) 20
XmnI GAANNNNTTC 1 cut(s) 164
XspI CTAG 1 cut(s) 116
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.