Rroxscaffold_5G00335960

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000560
Physical Location & Seq
Reverse (-)
3669390 .. 3673424
4035 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00335960.1

Sequence Viewer

Length: 435 bp
ATGGACATAGACTGCAATGAAACTCATCAACAAACCAGTTCTCTTGTGTGCGATGGAAAAGCCAACCAAGTACCGGCATATGGAAAATTCCATATTGAAGATGAGCGACCAATGATCGAGGTAGAAGAAGAGCCGAGTTTGAGAAGCCAACCGGTGTTAACTTTGAAGAAGACTTCATTATCCGTGATGAAGACCCCATTGGCCGAGGTGGAAGCTTCAATAGACGCAACCATGATGAAGACCTCATTAGCCGCGGCGAGAACCTTCAATAGCCGCAACCATGGTGAAGACTTCACCGGCCACCGTGAAGGTGGTATCTTGGAGCAAAGAAGGAGAAAAGAAGTAAAAGAGGGATTGAAAGGCAAAATTGGGAAATCTGGCTGTGCAGATCGGTCAACTTCGACAGATCACCGAGACCAGCTCAGAAAGATCTAG
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
No domains found.

Protein Analysis

144

Amino Acids

16.07

Weight (kDa)

6.97

Isoelectric Point (pI)

52.39

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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Orthologous Genes (Group: OG0000560)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g21400 FvH4_1g29793 FvH4_2g35581 FvH4_4g18554 FvH4_6g21671
pyrus_communis pycom11g14070
rosa_chinensis RchiOBHm_Chr6g0263201
rosa_laevigata RLG00000001861 RLG00000002050 RLG00000018783 RLG00000022649 RLG00000030152
rosa_multiflora Rmu_co8107100.1_g000001 Rmu_sc0000805.1_g000009 Rmu_sc0001347.1_g000002 Rmu_sc0001896.1_g000004 Rmu_sc0002170.1_g000040 Rmu_sc0002413.1_g000005 Rmu_sc0002489.1_g000053 Rmu_sc0002942.1_g000015 Rmu_sc0003071.1_g000022 Rmu_sc0003623.1_g000021 Rmu_sc0004063.1_g000005 Rmu_sc0004574.1_g000014 Rmu_sc0004723.1_g000009 Rmu_sc0005177.1_g000013 Rmu_sc0005994.1_g000011 Rmu_sc0006163.1_g000006 Rmu_sc0006583.1_g000008 Rmu_sc0008303.1_g000005 Rmu_sc0009027.1_g000002 Rmu_sc0009027.1_g000003 Rmu_sc0011790.1_g000009 Rmu_sc0011833.1_g000005 Rmu_sc0013493.1_g000006 Rmu_sc0016701.1_g000002 Rmu_sc0022033.1_g000001 Rmu_sc0022185.1_g000001 Rmu_sc0027245.1_g000005 Rmu_sc0030292.1_g000002 Rmu_ssc0000242.1_g000003
rosa_roxburghii Rroxscaffold_1G00015200 Rroxscaffold_1G00059290 Rroxscaffold_2G00079850 Rroxscaffold_2G00079860 Rroxscaffold_2G00107520 Rroxscaffold_2G00123420 Rroxscaffold_2G00123430 Rroxscaffold_3G00265790 Rroxscaffold_5G00335960 Rroxscaffold_5G00338270 Rroxscaffold_5G00343980 Rroxscaffold_5G00343990
rosa_samantha Rh1AG036500 Rh1DG429900 Rh2AG172600 Rh2AG610900 Rh2BG180200 Rh2BG180300 Rh2BG340600 Rh2BG400300 Rh2BG468400 Rh2BG478200 Rh2BG612500 Rh2BG612600 Rh3BG290000 Rh3BG290100 Rh3BG345200 Rh3BG345300 Rh3BG359800 Rh3CG291300 Rh4CG156300 Rh4CG264600 Rh5AG430300 Rh5BG185400 Rh6DG198700 Rh7CG199900 Rh7CG200000 Rh7CG370300 Rh7CG370600 Rh7CG395500 Rh7DG405800 Rh7DG405900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 254
AciI CCGC 3 cut(s) 252, 254, 274
AcoI YGGCCR 2 cut(s) 201, 298
AcsI RAATTY 1 cut(s) 86
AfaI GTAC 1 cut(s) 72
AfiI CCNNNNNNNGG 2 cut(s) 73, 80
AgeI ACCGGT 1 cut(s) 151
AgsI TTSAA 5 cut(s) 98, 166, 219, 268, 358
AjuI GAANNNNNNNTTGG 2 cut(s) 182, 214
AluBI AGCT 2 cut(s) 215, 421
AluI AGCT 2 cut(s) 215, 421
Alw26I GTCTC 1 cut(s) 408
AoxI GGCC 2 cut(s) 201, 298
ApoI RAATTY 1 cut(s) 86
AsiGI ACCGGT 1 cut(s) 151
AsuHPI GGTGA 3 cut(s) 286, 296, 401
BbsI GAAGAC 4 cut(s) 176, 197, 245, 294
BccI CCATC 1 cut(s) 47
BcoDI GTCTC 1 cut(s) 408
BfaI CTAG 1 cut(s) 433
BglII AGATCT 1 cut(s) 429
BisI GCNGC 3 cut(s) 252, 255, 274
BlsI GCNGC 3 cut(s) 253, 256, 275
BpiI GAAGAC 4 cut(s) 176, 197, 245, 294
BplI GAGNNNNNCTC 1 cut(s) 405
BsaI GGTCTC 1 cut(s) 408
BsaJI CCNNGG 3 cut(s) 204, 252, 280
BsaWI WCCGGW 1 cut(s) 151
Bsc4I CCNNNNNNNGG 2 cut(s) 73, 80
Bse118I RCCGGY 3 cut(s) 73, 151, 296
Bse1I ACTGG 1 cut(s) 36
Bse3DI GCAATG 1 cut(s) 22
BseDI CCNNGG 3 cut(s) 204, 252, 280
BseLI CCNNNNNNNGG 2 cut(s) 73, 80
BseMI GCAATG 1 cut(s) 22
BseNI ACTGG 1 cut(s) 36
BsgI GTGCAG 1 cut(s) 405
Bsh1236I CGCG 1 cut(s) 254
BshFI GGCC 2 cut(s) 203, 300
BshTI ACCGGT 1 cut(s) 151
BsiSI CCGG 3 cut(s) 74, 152, 297
BslI CCNNNNNNNGG 2 cut(s) 73, 80
BsmAI GTCTC 1 cut(s) 408
BsnI GGCC 2 cut(s) 203, 300
Bso31I GGTCTC 1 cut(s) 408
Bsp143I GATC 4 cut(s) 114, 388, 406, 429
Bsp19I CCATGG 1 cut(s) 280
BspACI CCGC 3 cut(s) 252, 254, 274
BspANI GGCC 2 cut(s) 203, 300
BspCNI CTCAG 1 cut(s) 435
BspFNI CGCG 1 cut(s) 254
BspQI GCTCTTC 1 cut(s) 123
BspTNI GGTCTC 1 cut(s) 408
BsrDI GCAATG 1 cut(s) 22
BsrFI RCCGGY 3 cut(s) 73, 151, 296
BsrI ACTGG 1 cut(s) 36
BssAI RCCGGY 3 cut(s) 73, 151, 296
BssECI CCNNGG 3 cut(s) 204, 252, 280
BssMI GATC 4 cut(s) 114, 388, 406, 429
BssT1I CCWWGG 1 cut(s) 280
Bst4CI ACNGT 1 cut(s) 305
Bst6I CTCTTC 1 cut(s) 123
BstDEI CTNAG 1 cut(s) 422
BstDSI CCRYGG 2 cut(s) 252, 280
BstFNI CGCG 1 cut(s) 254
BstKTI GATC 4 cut(s) 117, 391, 409, 432
BstMAI GTCTC 1 cut(s) 408
BstMBI GATC 4 cut(s) 114, 388, 406, 429
BstUI CGCG 1 cut(s) 254
BstV2I GAAGAC 4 cut(s) 176, 197, 245, 294
BstX2I RGATCY 1 cut(s) 429
BstYI RGATCY 1 cut(s) 429
BsuRI GGCC 2 cut(s) 203, 300
BtgI CCRYGG 2 cut(s) 252, 280
BtgZI GCGATG 1 cut(s) 66
Cfr10I RCCGGY 3 cut(s) 73, 151, 296
Cfr42I CCGCGG 1 cut(s) 255
CseI GACGC 1 cut(s) 233
Csp6I GTAC 1 cut(s) 71
CspAI ACCGGT 1 cut(s) 151
CviAII CATG 2 cut(s) 232, 281
CviQI GTAC 1 cut(s) 71
DdeI CTNAG 1 cut(s) 422
DpnI GATC 4 cut(s) 116, 390, 408, 431
DpnII GATC 4 cut(s) 114, 388, 406, 429
EaeI YGGCCR 2 cut(s) 201, 298
Eam1104I CTCTTC 1 cut(s) 123
EarI CTCTTC 1 cut(s) 123
Eco130I CCWWGG 1 cut(s) 280
Eco31I GGTCTC 1 cut(s) 408
EcoT14I CCWWGG 1 cut(s) 280
ErhI CCWWGG 1 cut(s) 280
FaeI CATG 2 cut(s) 235, 284
FaiI YATR 6 cut(s) 8, 79, 81, 93, 233, 282
FatI CATG 2 cut(s) 231, 280
FauNDI CATATG 1 cut(s) 79
Fnu4HI GCNGC 3 cut(s) 252, 255, 274
Fsp4HI GCNGC 3 cut(s) 252, 255, 274
FspBI CTAG 1 cut(s) 433
GluI GCNGC 3 cut(s) 252, 255, 274
HaeIII GGCC 2 cut(s) 203, 300
HapII CCGG 3 cut(s) 74, 152, 297
HgaI GACGC 1 cut(s) 233
Hin1II CATG 2 cut(s) 235, 284
HincII GTYRAC 2 cut(s) 159, 396
HindII GTYRAC 2 cut(s) 159, 396
HindIII AAGCTT 1 cut(s) 213
HpaI GTTAAC 1 cut(s) 159
HpaII CCGG 3 cut(s) 74, 152, 297
HphI GGTGA 3 cut(s) 286, 296, 401
Hpy166II GTNNAC 2 cut(s) 159, 396
Hpy188I TCNGA 1 cut(s) 425
Hpy8I GTNNAC 2 cut(s) 159, 396
HpyAV CCTTC 3 cut(s) 274, 302, 324
HpyCH4III ACNGT 1 cut(s) 305
HpyCH4V TGCA 2 cut(s) 15, 386
HpyF3I CTNAG 1 cut(s) 422
Hsp92II CATG 2 cut(s) 235, 284
KspAI GTTAAC 1 cut(s) 159
KspI CCGCGG 1 cut(s) 255
Kzo9I GATC 4 cut(s) 114, 388, 406, 429
LguI GCTCTTC 1 cut(s) 123
LmnI GCTCC 1 cut(s) 322
LpnPI CCDG 6 cut(s) 49, 87, 165, 310, 363, 431
MaeI CTAG 1 cut(s) 433
MalI GATC 4 cut(s) 116, 390, 408, 431
MboI GATC 4 cut(s) 114, 388, 406, 429
MboII GAAGA 8 cut(s) 110, 137, 140, 178, 181, 202, 250, 299
MflI RGATCY 1 cut(s) 429
MluCI AATT 2 cut(s) 86, 366
MnlI CCTC 4 cut(s) 112, 199, 253, 343
MseI TTAA 1 cut(s) 158
MspA1I CMGCKG 1 cut(s) 254
MspI CCGG 3 cut(s) 74, 152, 297
MvnI CGCG 1 cut(s) 254
NcoI CCATGG 1 cut(s) 280
NdeI CATATG 1 cut(s) 79
NdeII GATC 4 cut(s) 114, 388, 406, 429
NlaIII CATG 2 cut(s) 235, 284
NmeAIII GCCGAG 2 cut(s) 159, 229
PciSI GCTCTTC 1 cut(s) 123
PinAI ACCGGT 1 cut(s) 151
PkrI GCNGC 3 cut(s) 253, 256, 275
PsuI RGATCY 1 cut(s) 429
RsaI GTAC 1 cut(s) 72
RsaNI GTAC 1 cut(s) 71
SacII CCGCGG 1 cut(s) 255
SapI GCTCTTC 1 cut(s) 123
SaqAI TTAA 1 cut(s) 158
SatI GCNGC 3 cut(s) 252, 255, 274
Sau3AI GATC 4 cut(s) 114, 388, 406, 429
SetI ASST 7 cut(s) 123, 210, 217, 245, 266, 313, 423
Sfr303I CCGCGG 1 cut(s) 255
SgrBI CCGCGG 1 cut(s) 255
Sse9I AATT 2 cut(s) 86, 366
SsiI CCGC 3 cut(s) 252, 254, 274
SspMI CTAG 1 cut(s) 433
StyI CCWWGG 1 cut(s) 280
TaaI ACNGT 1 cut(s) 305
TaqI TCGA 2 cut(s) 117, 401
TaqII GACCGA 1 cut(s) 381
TasI AATT 2 cut(s) 86, 366
TauI GCSGC 3 cut(s) 254, 257, 276
Tru1I TTAA 1 cut(s) 158
Tru9I TTAA 1 cut(s) 158
TspDTI ATGAA 4 cut(s) 33, 165, 203, 251
TspGWI ACGGA 1 cut(s) 172
XapI RAATTY 1 cut(s) 86
XcmI CCANNNNNNNNNTGG 1 cut(s) 308
XspI CTAG 1 cut(s) 433
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.