Rw1G014640

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000756
Physical Location & Seq
Reverse (-)
32729676 .. 32730554
879 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G014640.1

Sequence Viewer

Length: 639 bp
ATGCCAGAAGAAATTATGACCCCTTTTGAAGCTTTATATGGTTATGCTCCCCCACCTGTCATACCCTACCTTCCCGGCTCTTCATCAATTGCTCAAGTGGATCACCAACTGAGGGACAGAGATATGTTATTAGCTGTGATAAAGCGAAACCTTGTGCAAGCTCAGACAAGAATGAAAAGCTTCCATGACAAAAAACACTCTGACCGGACTTTTGAGGTGGGTGACATGGTCTTTCTCAAACTCCAACCCTACAGACAACAAACTGCGCATCAAGGTGTTTTTCACAAACTCTCTCCTAAATATTATGGCCCTTTCACTGTATTGGAGAAAATCGGTTCCGTAGCTTATAGACTTGAGCTGCCGGCTGGTGCTAGAATACACAATGTATTCCATGTTTCACTTCTAAAAAAGAGAGTTGGGGAGTCTGTCCAAGTGAGCAACCACTTACCACCCATCATGGACCCAGCCAACCCCAAGTGGGAACCATCTACTGTGCTCCAAAGAAAAATGGTGAAACGCAACGGTGCTGCAGCTACTCAGTGGCTCATACATTGGCTGGGTACAGCTCCTGAGGAGGCCACGTGGGAATACGCTGATGAGATCCTTCTCCGATTTCCCAGTTTTGATCATGAAACTTGA
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

212

Amino Acids

24.3

Weight (kDa)

9.02

Isoelectric Point (pI)

49.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_Tf2-1 PF24626 74 - 137 6.6e-24 Tf2-1-like, SH3 domain
Integrase_p58_C PF22938 103 - 137 3.3e-07 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)
Acc16I TGCGCA 1 cut(s) 267
AclWI GGATC 2 cut(s) 108, 595
AcvI CACGTG 1 cut(s) 582
AfaI GTAC 1 cut(s) 562
AfiI CCNNNNNNNGG 2 cut(s) 112, 478
AgsI TTSAA 1 cut(s) 29
AluBI AGCT 8 cut(s) 32, 134, 161, 180, 344, 358, 533, 566
AluI AGCT 8 cut(s) 32, 134, 161, 180, 344, 358, 533, 566
Alw21I GWGCWC 1 cut(s) 498
AlwI GGATC 2 cut(s) 108, 595
AlwNI CAGNNNCTG 1 cut(s) 569
AoxI GGCC 2 cut(s) 307, 576
ApeKI GCWGC 3 cut(s) 358, 527, 530
ArsI GACNNNNNNTTYG 2 cut(s) 194, 226
Asp700I GAANNNNTTC 1 cut(s) 179
AspLEI GCGC 1 cut(s) 268
AspS9I GGNCC 2 cut(s) 308, 460
AsuC2I CCSGG 1 cut(s) 75
AsuHPI GGTGA 3 cut(s) 95, 233, 523
AvaII GGWCC 1 cut(s) 460
AxyI CCTNAGG 1 cut(s) 570
BbrPI CACGTG 1 cut(s) 582
Bbv12I GWGCWC 1 cut(s) 498
BbvI GCAGC 3 cut(s) 345, 514, 542
BccI CCATC 2 cut(s) 461, 493
BclI TGATCA 1 cut(s) 625
BcnI CCSGG 1 cut(s) 75
BfaI CTAG 1 cut(s) 372
BfmI CTRYAG 2 cut(s) 250, 528
BisI GCNGC 3 cut(s) 359, 528, 531
BlsI GCNGC 3 cut(s) 360, 529, 532
Bme1390I CCNGG 1 cut(s) 75
Bme18I GGWCC 1 cut(s) 460
BmgT120I GGNCC 2 cut(s) 308, 460
BmiI GGNNCC 3 cut(s) 337, 462, 483
BmrFI CCNGG 1 cut(s) 75
BmrI ACTGGG 1 cut(s) 612
BmsI GCATC 1 cut(s) 277
BmuI ACTGGG 1 cut(s) 612
BpuEI CTTGAG 2 cut(s) 78, 374
BpuMI CCSGG 1 cut(s) 75
BsaAI YACGTR 1 cut(s) 582
BsaWI WCCGGW 1 cut(s) 204
BsaXI ACNNNNNCTCC 2 cut(s) 566, 596
Bsc4I CCNNNNNNNGG 2 cut(s) 112, 478
Bse118I RCCGGY 1 cut(s) 361
Bse1I ACTGG 1 cut(s) 618
Bse21I CCTNAGG 1 cut(s) 570
BseLI CCNNNNNNNGG 2 cut(s) 112, 478
BseMII CTCAG 4 cut(s) 101, 176, 551, 561
BseNI ACTGG 1 cut(s) 618
BseRI GAGGAG 1 cut(s) 587
BseXI GCAGC 3 cut(s) 345, 514, 542
BseYI CCCAGC 2 cut(s) 463, 556
BshFI GGCC 2 cut(s) 309, 578
BsiHKAI GWGCWC 1 cut(s) 498
BsiSI CCGG 3 cut(s) 75, 205, 362
BslFI GGGAC 1 cut(s) 128
BslI CCNNNNNNNGG 2 cut(s) 112, 478
BsmFI GGGAC 1 cut(s) 128
BsnI GGCC 2 cut(s) 309, 578
Bsp1286I GDGCHC 1 cut(s) 498
Bsp143I GATC 3 cut(s) 100, 600, 625
BspANI GGCC 2 cut(s) 309, 578
BspCNI CTCAG 4 cut(s) 102, 175, 550, 562
BspHI TCATGA 1 cut(s) 628
BspLI GGNNCC 3 cut(s) 337, 462, 483
BspMAI CTGCAG 1 cut(s) 532
BspPI GGATC 2 cut(s) 108, 595
BspQI GCTCTTC 1 cut(s) 85
BsrFI RCCGGY 1 cut(s) 361
BsrI ACTGG 1 cut(s) 618
BssAI RCCGGY 1 cut(s) 361
BssMI GATC 3 cut(s) 100, 600, 625
Bst4CI ACNGT 3 cut(s) 319, 493, 524
Bst6I CTCTTC 1 cut(s) 85
BstBAI YACGTR 1 cut(s) 582
BstC8I GCNNGC 2 cut(s) 159, 363
BstDEI CTNAG 4 cut(s) 110, 162, 537, 570
BstHHI GCGC 1 cut(s) 268
BstKTI GATC 3 cut(s) 103, 603, 628
BstMBI GATC 3 cut(s) 100, 600, 625
BstSCI CCNGG 1 cut(s) 73
BstSFI CTRYAG 2 cut(s) 250, 528
BstV1I GCAGC 3 cut(s) 345, 514, 542
BstX2I RGATCY 1 cut(s) 600
BstYI RGATCY 1 cut(s) 600
Bsu36I CCTNAGG 1 cut(s) 570
BsuRI GGCC 2 cut(s) 309, 578
BtsIMutI CAGTG 2 cut(s) 315, 545
Cac8I GCNNGC 2 cut(s) 159, 363
CaiI CAGNNNCTG 1 cut(s) 569
CciI TCATGA 1 cut(s) 628
CfoI GCGC 1 cut(s) 268
Cfr10I RCCGGY 1 cut(s) 361
Cfr13I GGNCC 2 cut(s) 308, 460
Csp6I GTAC 1 cut(s) 561
CviAII CATG 5 cut(s) 185, 226, 392, 457, 629
CviQI GTAC 1 cut(s) 561
DdeI CTNAG 4 cut(s) 110, 162, 537, 570
DpnI GATC 3 cut(s) 102, 602, 627
DpnII GATC 3 cut(s) 100, 600, 625
Eam1104I CTCTTC 1 cut(s) 85
EarI CTCTTC 1 cut(s) 85
Eco47I GGWCC 1 cut(s) 460
Eco72I CACGTG 1 cut(s) 582
Eco81I CCTNAGG 1 cut(s) 570
FaeI CATG 5 cut(s) 188, 229, 395, 460, 632
FaqI GGGAC 1 cut(s) 128
FatI CATG 5 cut(s) 184, 225, 391, 456, 628
FbaI TGATCA 1 cut(s) 625
Fnu4HI GCNGC 3 cut(s) 359, 528, 531
Fsp4HI GCNGC 3 cut(s) 359, 528, 531
FspBI CTAG 1 cut(s) 372
FspI TGCGCA 1 cut(s) 267
GlaI GCGC 1 cut(s) 267
GluI GCNGC 3 cut(s) 359, 528, 531
GsaI CCCAGC 2 cut(s) 467, 560
HaeIII GGCC 2 cut(s) 309, 578
HapII CCGG 3 cut(s) 75, 205, 362
HhaI GCGC 1 cut(s) 268
Hin1II CATG 5 cut(s) 188, 229, 395, 460, 632
Hin6I GCGC 1 cut(s) 266
HinP1I GCGC 1 cut(s) 266
HindIII AAGCTT 2 cut(s) 30, 178
HinfI GANTC 1 cut(s) 422
HpaII CCGG 3 cut(s) 75, 205, 362
HphI GGTGA 3 cut(s) 95, 233, 523
Hpy188I TCNGA 3 cut(s) 165, 202, 611
Hpy188III TCNNGA 2 cut(s) 569, 629
HpyAV CCTTC 2 cut(s) 80, 614
HpyCH4III ACNGT 3 cut(s) 319, 493, 524
HpyCH4IV ACGT 1 cut(s) 581
HpyCH4V TGCA 2 cut(s) 157, 530
HpyF3I CTNAG 4 cut(s) 110, 162, 537, 570
HpySE526I ACGT 1 cut(s) 581
Hsp92II CATG 5 cut(s) 188, 229, 395, 460, 632
HspAI GCGC 1 cut(s) 266
KroI GCCGGC 1 cut(s) 361
KroNI GCCGGC 1 cut(s) 363
Ksp22I TGATCA 1 cut(s) 625
Kzo9I GATC 3 cut(s) 100, 600, 625
LguI GCTCTTC 1 cut(s) 85
LmnI GCTCC 3 cut(s) 52, 501, 571
Lsp1109I GCAGC 3 cut(s) 345, 514, 542
LweI GCATC 1 cut(s) 277
MaeI CTAG 1 cut(s) 372
MaeII ACGT 1 cut(s) 581
MaeIII GTNAC 1 cut(s) 221
MalI GATC 3 cut(s) 102, 602, 627
MboI GATC 3 cut(s) 100, 600, 625
MboII GAAGA 2 cut(s) 20, 72
MfeI CAATTG 1 cut(s) 87
MflI RGATCY 1 cut(s) 600
MhlI GDGCHC 1 cut(s) 498
MluCI AATT 2 cut(s) 12, 87
MlyI GAGTC 1 cut(s) 431
MmeI TCCRAC 1 cut(s) 268
MnlI CCTC 4 cut(s) 105, 208, 565, 568
MroNI GCCGGC 1 cut(s) 361
MroXI GAANNNNTTC 1 cut(s) 179
MslI CAYNNNNRTG 1 cut(s) 273
MspI CCGG 3 cut(s) 75, 205, 362
MspR9I CCNGG 1 cut(s) 75
MunI CAATTG 1 cut(s) 87
NaeI GCCGGC 1 cut(s) 363
NciI CCSGG 1 cut(s) 75
NdeII GATC 3 cut(s) 100, 600, 625
NgoMIV GCCGGC 1 cut(s) 361
NlaIII CATG 5 cut(s) 188, 229, 395, 460, 632
NlaIV GGNNCC 3 cut(s) 337, 462, 483
NmuCI GTSAC 1 cut(s) 221
NsbI TGCGCA 1 cut(s) 267
PagI TCATGA 1 cut(s) 628
PciSI GCTCTTC 1 cut(s) 85
PdiI GCCGGC 1 cut(s) 363
PdmI GAANNNNTTC 1 cut(s) 179
PflFI GACNNNGTC 1 cut(s) 227
PkrI GCNGC 3 cut(s) 360, 529, 532
PleI GAGTC 1 cut(s) 430
PmaCI CACGTG 1 cut(s) 582
PmlI CACGTG 1 cut(s) 582
PpsI GAGTC 1 cut(s) 430
Ppu21I YACGTR 1 cut(s) 582
PspCI CACGTG 1 cut(s) 582
PspFI CCCAGC 2 cut(s) 463, 556
PspN4I GGNNCC 3 cut(s) 337, 462, 483
PspPI GGNCC 2 cut(s) 308, 460
PstI CTGCAG 1 cut(s) 532
PstNI CAGNNNCTG 1 cut(s) 569
PsuI RGATCY 1 cut(s) 600
PsyI GACNNNGTC 1 cut(s) 227
RsaI GTAC 1 cut(s) 562
RsaNI GTAC 1 cut(s) 561
RseI CAYNNNNRTG 1 cut(s) 273
SapI GCTCTTC 1 cut(s) 85
SatI GCNGC 3 cut(s) 359, 528, 531
Sau3AI GATC 3 cut(s) 100, 600, 625
Sau96I GGNCC 2 cut(s) 308, 460
SchI GAGTC 1 cut(s) 431
ScrFI CCNGG 1 cut(s) 75
SduI GDGCHC 1 cut(s) 498
SfaNI GCATC 1 cut(s) 277
SfcI CTRYAG 2 cut(s) 250, 528
SinI GGWCC 1 cut(s) 460
SmiMI CAYNNNNRTG 1 cut(s) 273
SmlI CTYRAG 2 cut(s) 93, 353
SmoI CTYRAG 2 cut(s) 93, 353
Sse9I AATT 2 cut(s) 12, 87
SspI AATATT 1 cut(s) 302
SspMI CTAG 1 cut(s) 372
StyD4I CCNGG 1 cut(s) 73
TaaI ACNGT 3 cut(s) 319, 493, 524
TaiI ACGT 1 cut(s) 584
TasI AATT 2 cut(s) 12, 87
TscAI CASTG 2 cut(s) 322, 545
TseFI GTSAC 1 cut(s) 221
TseI GCWGC 3 cut(s) 358, 527, 530
Tsp45I GTSAC 1 cut(s) 221
TspDTI ATGAA 2 cut(s) 72, 188
TspGWI ACGGA 1 cut(s) 328
TspRI CASTG 2 cut(s) 322, 545
Tth111I GACNNNGTC 1 cut(s) 227
VpaK11BI GGWCC 1 cut(s) 460
XmnI GAANNNNTTC 1 cut(s) 179
XspI CTAG 1 cut(s) 372
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.