Rroxscaffold_2G00118840

Repeating coiled region of VPS13

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0002551
Physical Location & Seq
Reverse (-)
50695430 .. 50699793
4364 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00118840.1

Sequence Viewer

Length: 633 bp
ATGAGGTTTTATACTGCTGAGATAGTATCTGCTGTTTCAGATCCTCACAAGTGCGGGATTGTGAATAGTAAACTTAAGCTGGAAAATGTTATCATGGATGTTGATGGGCACAAATGGCTATGCTCATTCGCTTGCTTCGTTGCAACTATTGCTGTGGATGCCTTATCAGTTTGTTCAGACCTAGAGAATAGCTTGGAGAAGATCAAGCGCCGCTTGCTTCCGGTTTCCGTTGGAACTTGCTCCGGGCCCACTCCTCAATCTGTCGAACTTGATCGGCTTGCACTTTATCTGGATTGTGATATTTGCTTCATCCTCCATGGCATGTTGACAAGCAATGGAAGGATTTGCTTCCATCAGAGTGGGTTCAGGTTTTTTAGATTTGGTACTAAAGTTGGTAAACCAGTGAATAAATTGACCAAGAAGCATACTGATGTATTGGGACCTTTTTTTAGAAGTACAAAGTATTCAAATCTACGACAAAAAGAATTTGCTGATAGCGGTCAGCCTTTACATGAAGCAGCAGTTAATCTAGATGATGTGACTATCTGTTTGCCACAGGACGGGTATAAGGATGTACTGAAGTTAGCTGATAACTTTGGGTCATTATTGCCCACATATCTCTGTAAACTCTGA
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
Chorein_N PH Pex24p SHR-BD VPS13 VPS13_C VPS13_mid_rpt Vps62

Protein Analysis

210

Amino Acids

23.37

Weight (kDa)

8.3

Isoelectric Point (pI)

29.62

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)
AciI CCGC 3 cut(s) 54, 211, 498
AclWI GGATC 1 cut(s) 35
AcsI RAATTY 1 cut(s) 485
AcuI CTGAAG 1 cut(s) 599
AfaI GTAC 3 cut(s) 385, 457, 576
AfiI CCNNNNNNNGG 1 cut(s) 560
AflII CTTAAG 1 cut(s) 74
AgsI TTSAA 1 cut(s) 468
AluBI AGCT 3 cut(s) 79, 192, 587
AluI AGCT 3 cut(s) 79, 192, 587
AlwI GGATC 1 cut(s) 35
AoxI GGCC 1 cut(s) 245
ApaI GGGCCC 1 cut(s) 249
ApeKI GCWGC 1 cut(s) 518
ApoI RAATTY 1 cut(s) 485
ArsI GACNNNNNNTTYG 2 cut(s) 532, 564
AspLEI GCGC 1 cut(s) 210
AspS9I GGNCC 3 cut(s) 245, 246, 440
AsuC2I CCSGG 1 cut(s) 244
AvaII GGWCC 1 cut(s) 440
BaeGI GKGCMC 2 cut(s) 111, 249
BaeI ACNNNNGTAYC 2 cut(s) 375, 408
BanII GRGCYC 1 cut(s) 249
BbvI GCAGC 1 cut(s) 530
BccI CCATC 2 cut(s) 98, 360
BcnI CCSGG 1 cut(s) 244
BfaI CTAG 2 cut(s) 182, 530
BfoI RGCGCY 1 cut(s) 211
BfrI CTTAAG 1 cut(s) 74
BisI GCNGC 2 cut(s) 211, 519
BlsI GCNGC 2 cut(s) 212, 520
Bme1390I CCNGG 1 cut(s) 244
Bme18I GGWCC 1 cut(s) 440
BmgT120I GGNCC 3 cut(s) 245, 246, 440
BmiI GGNNCC 2 cut(s) 247, 441
BmrFI CCNGG 1 cut(s) 244
BmsI GCATC 1 cut(s) 148
BpuMI CCSGG 1 cut(s) 244
BsaJI CCNNGG 1 cut(s) 316
BsaWI WCCGGW 1 cut(s) 220
Bsc4I CCNNNNNNNGG 1 cut(s) 560
Bse1I ACTGG 1 cut(s) 401
Bse3DI GCAATG 1 cut(s) 340
BseDI CCNNGG 1 cut(s) 316
BseGI GGATG 4 cut(s) 103, 163, 309, 577
BseLI CCNNNNNNNGG 1 cut(s) 560
BseMI GCAATG 1 cut(s) 340
BseMII CTCAG 1 cut(s) 9
BseNI ACTGG 1 cut(s) 401
BseRI GAGGAG 1 cut(s) 243
BseSI GKGCMC 2 cut(s) 111, 249
BseXI GCAGC 1 cut(s) 530
BshFI GGCC 1 cut(s) 247
BsiSI CCGG 2 cut(s) 221, 243
BslFI GGGAC 1 cut(s) 453
BslI CCNNNNNNNGG 1 cut(s) 560
BsmFI GGGAC 1 cut(s) 453
BsnI GGCC 1 cut(s) 247
Bsp120I GGGCCC 1 cut(s) 245
Bsp1286I GDGCHC 2 cut(s) 111, 249
Bsp143I GATC 3 cut(s) 40, 201, 271
Bsp19I CCATGG 1 cut(s) 316
BspACI CCGC 3 cut(s) 54, 211, 498
BspANI GGCC 1 cut(s) 247
BspCNI CTCAG 1 cut(s) 10
BspLI GGNNCC 2 cut(s) 247, 441
BspPI GGATC 1 cut(s) 35
BspTI CTTAAG 1 cut(s) 74
BsrDI GCAATG 1 cut(s) 340
BsrI ACTGG 1 cut(s) 401
BssECI CCNNGG 1 cut(s) 316
BssMI GATC 3 cut(s) 40, 201, 271
BssT1I CCWWGG 1 cut(s) 316
BstAFI CTTAAG 1 cut(s) 74
BstAPI GCANNNNNTGC 1 cut(s) 149
BstC8I GCNNGC 3 cut(s) 133, 215, 279
BstDEI CTNAG 1 cut(s) 18
BstDSI CCRYGG 1 cut(s) 316
BstF5I GGATG 4 cut(s) 103, 163, 309, 577
BstH2I RGCGCY 1 cut(s) 211
BstHHI GCGC 1 cut(s) 210
BstKTI GATC 3 cut(s) 43, 204, 274
BstMBI GATC 3 cut(s) 40, 201, 271
BstMWI GCNNNNNNNGC 4 cut(s) 115, 149, 158, 214
BstNSI RCATGY 1 cut(s) 325
BstSCI CCNGG 1 cut(s) 242
BstSLI GKGCMC 2 cut(s) 111, 249
BstV1I GCAGC 1 cut(s) 530
BstX2I RGATCY 1 cut(s) 40
BstXI CCANNNNNNTGG 1 cut(s) 359
BstYI RGATCY 1 cut(s) 40
BsuRI GGCC 1 cut(s) 247
BtgI CCRYGG 1 cut(s) 316
BtsCI GGATG 4 cut(s) 103, 163, 309, 577
BtsIMutI CAGTG 1 cut(s) 408
Cac8I GCNNGC 3 cut(s) 133, 215, 279
CfoI GCGC 1 cut(s) 210
Cfr13I GGNCC 3 cut(s) 245, 246, 440
Csp6I GTAC 3 cut(s) 384, 456, 575
CviAII CATG 4 cut(s) 94, 317, 322, 512
CviJI RGCY 7 cut(s) 79, 118, 192, 247, 277, 505, 587
CviKI_1 RGCY 7 cut(s) 79, 118, 192, 247, 277, 505, 587
CviQI GTAC 3 cut(s) 384, 456, 575
DdeI CTNAG 1 cut(s) 18
DpnI GATC 3 cut(s) 42, 203, 273
DpnII GATC 3 cut(s) 40, 201, 271
Eco130I CCWWGG 1 cut(s) 316
Eco24I GRGCYC 1 cut(s) 249
Eco47I GGWCC 1 cut(s) 440
Eco57I CTGAAG 1 cut(s) 599
EcoO109I RGGNCCY 1 cut(s) 440
EcoT14I CCWWGG 1 cut(s) 316
EcoT38I GRGCYC 1 cut(s) 249
ErhI CCWWGG 1 cut(s) 316
FaeI CATG 4 cut(s) 97, 320, 325, 515
FaiI YATR 9 cut(s) 12, 95, 121, 318, 323, 426, 513, 567, 616
FalI AAGNNNNNCTT 2 cut(s) 197, 229
FaqI GGGAC 1 cut(s) 453
FatI CATG 4 cut(s) 93, 316, 321, 511
FauI CCCGC 1 cut(s) 47
Fnu4HI GCNGC 2 cut(s) 211, 519
FokI GGATG 4 cut(s) 110, 170, 296, 584
FriOI GRGCYC 1 cut(s) 249
Fsp4HI GCNGC 2 cut(s) 211, 519
FspBI CTAG 2 cut(s) 182, 530
GlaI GCGC 1 cut(s) 209
GluI GCNGC 2 cut(s) 211, 519
HaeII RGCGCY 1 cut(s) 211
HaeIII GGCC 1 cut(s) 247
HapII CCGG 2 cut(s) 221, 243
HhaI GCGC 1 cut(s) 210
Hin1II CATG 4 cut(s) 97, 320, 325, 515
Hin6I GCGC 1 cut(s) 208
HinP1I GCGC 1 cut(s) 208
HincII GTYRAC 1 cut(s) 327
HindII GTYRAC 1 cut(s) 327
HpaII CCGG 2 cut(s) 221, 243
Hpy166II GTNNAC 4 cut(s) 71, 327, 398, 626
Hpy188I TCNGA 4 cut(s) 40, 178, 357, 632
Hpy188III TCNNGA 2 cut(s) 290, 530
Hpy8I GTNNAC 4 cut(s) 71, 327, 398, 626
HpyAV CCTTC 1 cut(s) 333
HpyCH4V TGCA 2 cut(s) 143, 281
HpyF10VI GCNNNNNNNGC 4 cut(s) 115, 149, 158, 214
HpyF3I CTNAG 1 cut(s) 18
Hsp92II CATG 4 cut(s) 97, 320, 325, 515
HspAI GCGC 1 cut(s) 208
Kzo9I GATC 3 cut(s) 40, 201, 271
LmnI GCTCC 1 cut(s) 245
LpnPI CCDG 7 cut(s) 65, 234, 256, 275, 352, 414, 542
Lsp1109I GCAGC 1 cut(s) 530
LweI GCATC 1 cut(s) 148
MaeI CTAG 2 cut(s) 182, 530
MaeIII GTNAC 1 cut(s) 538
MalI GATC 3 cut(s) 42, 203, 273
MboI GATC 3 cut(s) 40, 201, 271
MboII GAAGA 1 cut(s) 211
MflI RGATCY 1 cut(s) 40
MhlI GDGCHC 2 cut(s) 111, 249
MluCI AATT 2 cut(s) 410, 485
MmeI TCCRAC 1 cut(s) 211
MnlI CCTC 3 cut(s) 54, 264, 323
MseI TTAA 2 cut(s) 75, 525
MslI CAYNNNNRTG 2 cut(s) 357, 429
MspCI CTTAAG 1 cut(s) 74
MspI CCGG 2 cut(s) 221, 243
MspR9I CCNGG 1 cut(s) 244
MwoI GCNNNNNNNGC 4 cut(s) 115, 149, 158, 214
NciI CCSGG 1 cut(s) 244
NcoI CCATGG 1 cut(s) 316
NdeII GATC 3 cut(s) 40, 201, 271
NlaIII CATG 4 cut(s) 97, 320, 325, 515
NlaIV GGNNCC 2 cut(s) 247, 441
NmuCI GTSAC 1 cut(s) 538
NspI RCATGY 1 cut(s) 325
PcsI WCGNNNNNNNCGW 1 cut(s) 135
PkrI GCNGC 2 cut(s) 212, 520
PpuMI RGGWCCY 1 cut(s) 440
Psp5II RGGWCCY 1 cut(s) 440
PspN4I GGNNCC 2 cut(s) 247, 441
PspOMI GGGCCC 1 cut(s) 245
PspPI GGNCC 3 cut(s) 245, 246, 440
PspPPI RGGWCCY 1 cut(s) 440
PsuI RGATCY 1 cut(s) 40
RsaI GTAC 3 cut(s) 385, 457, 576
RsaNI GTAC 3 cut(s) 384, 456, 575
RseI CAYNNNNRTG 2 cut(s) 357, 429
SaqAI TTAA 2 cut(s) 75, 525
SatI GCNGC 2 cut(s) 211, 519
Sau3AI GATC 3 cut(s) 40, 201, 271
Sau96I GGNCC 3 cut(s) 245, 246, 440
ScrFI CCNGG 1 cut(s) 244
SduI GDGCHC 2 cut(s) 111, 249
SetI ASST 7 cut(s) 8, 81, 183, 194, 371, 445, 589
SfaNI GCATC 1 cut(s) 148
SinI GGWCC 1 cut(s) 440
SmiMI CAYNNNNRTG 2 cut(s) 357, 429
SmlI CTYRAG 1 cut(s) 74
SmoI CTYRAG 1 cut(s) 74
Sse9I AATT 2 cut(s) 410, 485
SsiI CCGC 3 cut(s) 54, 211, 498
SspMI CTAG 2 cut(s) 182, 530
StyD4I CCNGG 1 cut(s) 242
StyI CCWWGG 1 cut(s) 316
TaqI TCGA 1 cut(s) 264
TasI AATT 2 cut(s) 410, 485
TatI WGTACW 2 cut(s) 455, 574
TauI GCSGC 1 cut(s) 213
Tru1I TTAA 2 cut(s) 75, 525
Tru9I TTAA 2 cut(s) 75, 525
TscAI CASTG 1 cut(s) 408
TseFI GTSAC 1 cut(s) 538
TseI GCWGC 1 cut(s) 518
Tsp45I GTSAC 1 cut(s) 538
TspDTI ATGAA 2 cut(s) 298, 528
TspGWI ACGGA 1 cut(s) 217
TspRI CASTG 1 cut(s) 408
Vha464I CTTAAG 1 cut(s) 74
VpaK11BI GGWCC 1 cut(s) 440
XapI RAATTY 1 cut(s) 485
XbaI TCTAGA 1 cut(s) 529
XceI RCATGY 1 cut(s) 325
XspI CTAG 2 cut(s) 182, 530
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.