Rroxscaffold_1G00000550

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0017552
Physical Location & Seq
Forward (+)
989091 .. 990188
1098 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00000550.1

Sequence Viewer

Length: 1098 bp
ATGAGAGACGTGTCCTTGTTTCTCCTGAAGAACTCTCTGGGATCGAAGATGAAGAAAGGCTTGAGAAACTTCTGCAACGACGATGGCTCAACCTCTACCCTCAACCAACATGGCAGTAGCCGCCCCAGCCCCCTTGGTCTTGCTCTTAGTCAACATGATCATGATCATACCTCCCCAGTAGGTCCTGTCAATGTCGACTCTGGCTTTAATAAACATTGGCAAAATGCTCCTGCTAATACTGATGATCATCAATATCGTCTTCAGGAAATGGAAAGGCAGCCAACGTTGGAGGAGATGATATTGAAGTTGGATTTGGAAGAGGAGATTGCAAGAAAATCAAAGGCGCTGCAGCTCATGAAAGAGGGCCATGAAGACGATGACTACAATGTTGATATGAATGGACTAATAATGCGAGGACCGGGTAGGATGTCTTGCGTAAATAATTCAGATATTTTGCGGTCTGCAAGGAATGCATTGAATCAGTACCCTCGTTTCTCTCTTGATGGAAGGGATGCCATGTACCGCTCTTCCTTCAGAAACAACTTACATTTGCAGCAGGATCATATTGGTATTGTAGGACAGGAAAAGCTGAGGCCAACTCATCGTGATCACAGAAGAAGCTCAGATGTATGCTTATCAATTGGTCGTGATGCAAGTAGCAGTACCACGAGGTCTTTGTATCGTCGTCGTTTGCCAGCAACTTTAGCAGGGGAGAGTGTCGTATGGTGCAAACCAGGTGTAGTAGCCAAACTGATGGGGCTAGACGCCATGCCAGTACCAGTAAGTGTTAATGGTAAATTCAAAGGTAGTAGTAATGAAAAGTTGTGTTACATCTTGAAGCACAGTCAACGAAACATGATCACTATGAGGAGCAGAGGTGAGCAGAGACATGAAATGGAGAAAAGATCAATGATGCACGCTATGGATTGTAGCATTCCTGCAGCACGTAATTGTAGCAGATTTAATAATTGTAAGAAAGGCAAGGCTGCTGCTACTACTACTACTGGTTCCTGCAGTACCACATCCAAAACTACTCCAGCTGGCAATTACTGTGTTGTTAAGCCATTAGTCACCATACAGCATTCAGATAATAACTAG
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
VARLMGL

Protein Analysis

365

Amino Acids

40.84

Weight (kDa)

9.4

Isoelectric Point (pI)

52.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
VARLMGL PF14383 242 - 258 8.3e-07 DUF761-associated sequence motif
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: OG0017552)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26415
fragaria_vesca FvH4_3g45980
malus_domestica MD11G1000700.v1.1
prunus_persica Prupe.6G001000_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0084091
rosa_laevigata RLG00000037081
rosa_roxburghii Rroxscaffold_1G00000550
rosa_samantha Rh5AG541700 Rh5BG567200 Rh5CG589000 Rh5DG575400
rosa_wichuraiana Rw5G050380

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 525
AccI GTMKAC 1 cut(s) 195
AciI CCGC 3 cut(s) 121, 457, 523
AclI AACGTT 1 cut(s) 284
AclWI GGATC 2 cut(s) 49, 567
AcsI RAATTY 1 cut(s) 797
AcuI CTGAAG 3 cut(s) 47, 245, 517
AcyI GRCGYC 1 cut(s) 765
AfaI GTAC 5 cut(s) 485, 521, 664, 777, 1018
AflIII ACRYGT 1 cut(s) 9
AgsI TTSAA 4 cut(s) 304, 478, 802, 838
AjiI CACGTC 1 cut(s) 10
AjnI CCWGG 1 cut(s) 733
AjuI GAANNNNNNNTTGG 2 cut(s) 296, 328
AluBI AGCT 4 cut(s) 352, 589, 621, 1040
AluI AGCT 4 cut(s) 352, 589, 621, 1040
Alw26I GTCTC 1 cut(s) 880
AlwI GGATC 2 cut(s) 49, 567
AoxI GGCC 2 cut(s) 364, 593
ApeKI GCWGC 7 cut(s) 277, 346, 349, 553, 941, 986, 989
ApoI RAATTY 1 cut(s) 797
AspLEI GCGC 1 cut(s) 346
AspS9I GGNCC 3 cut(s) 182, 364, 416
AsuC2I CCSGG 1 cut(s) 420
AsuHPI GGTGA 2 cut(s) 890, 1063
AvaII GGWCC 2 cut(s) 182, 416
BauI CACGAG 1 cut(s) 667
BbsI GAAGAC 2 cut(s) 251, 378
BbvCI CCTCAGC 1 cut(s) 590
BbvI GCAGC 7 cut(s) 289, 333, 361, 565, 953, 973, 976
BccI CCATC 3 cut(s) 77, 497, 748
BciT130I CCWGG 1 cut(s) 735
BclI TGATCA 5 cut(s) 157, 163, 244, 607, 858
BcnI CCSGG 1 cut(s) 420
BcoDI GTCTC 1 cut(s) 880
BfaI CTAG 2 cut(s) 761, 1096
BfmI CTRYAG 3 cut(s) 347, 939, 1012
BfoI RGCGCY 1 cut(s) 347
BisI GCNGC 8 cut(s) 121, 278, 347, 350, 554, 942, 987, 990
BlsI GCNGC 8 cut(s) 122, 279, 348, 351, 555, 943, 988, 991
Bme1390I CCNGG 2 cut(s) 420, 735
Bme18I GGWCC 2 cut(s) 182, 416
BmgBI CACGTC 1 cut(s) 10
BmgT120I GGNCC 3 cut(s) 182, 364, 416
BmiI GGNNCC 1 cut(s) 1009
BmrFI CCNGG 2 cut(s) 420, 735
BmrI ACTGGG 1 cut(s) 170
BmsI GCATC 3 cut(s) 502, 640, 903
BmuI ACTGGG 1 cut(s) 170
BpiI GAAGAC 2 cut(s) 251, 378
BplI GAGNNNNNCTC 2 cut(s) 583, 615
BpmI CTGGAG 1 cut(s) 1020
Bpu10I CCTNAGC 1 cut(s) 590
BpuEI CTTGAG 1 cut(s) 82
BpuMI CCSGG 1 cut(s) 420
BsaAI YACGTR 1 cut(s) 947
BsaBI GATNNNNATC 2 cut(s) 162, 246
BsaHI GRCGYC 1 cut(s) 765
BsaJI CCNNGG 1 cut(s) 133
BsaXI ACNNNNNCTCC 2 cut(s) 862, 892
Bse1I ACTGG 4 cut(s) 176, 773, 779, 1009
Bse8I GATNNNNATC 2 cut(s) 162, 246
BseBI CCWGG 1 cut(s) 735
BseDI CCNNGG 1 cut(s) 133
BseGI GGATG 3 cut(s) 432, 517, 1022
BseJI GATNNNNATC 2 cut(s) 162, 246
BseMII CTCAG 2 cut(s) 581, 636
BseNI ACTGG 4 cut(s) 176, 773, 779, 1009
BseRI GAGGAG 3 cut(s) 305, 335, 883
BseXI GCAGC 7 cut(s) 289, 333, 361, 565, 953, 973, 976
BseYI CCCAGC 1 cut(s) 125
BshFI GGCC 2 cut(s) 366, 595
BsiSI CCGG 1 cut(s) 419
BsmAI GTCTC 1 cut(s) 880
BsmI GAATGC 3 cut(s) 475, 933, 1081
BsnI GGCC 2 cut(s) 366, 595
Bsp143I GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
BspACI CCGC 3 cut(s) 121, 457, 523
BspANI GGCC 2 cut(s) 366, 595
BspCNI CTCAG 2 cut(s) 582, 635
BspHI TCATGA 2 cut(s) 160, 354
BspLI GGNNCC 1 cut(s) 1009
BspMAI CTGCAG 3 cut(s) 351, 943, 1016
BspPI GGATC 2 cut(s) 49, 567
BspQI GCTCTTC 1 cut(s) 532
BsrBI CCGCTC 1 cut(s) 525
BsrI ACTGG 4 cut(s) 176, 773, 779, 1009
BssECI CCNNGG 1 cut(s) 133
BssMI GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
BssNI GRCGYC 1 cut(s) 765
BssSI CACGAG 1 cut(s) 667
BssT1I CCWWGG 1 cut(s) 133
Bst2BI CACGAG 1 cut(s) 667
Bst2UI CCWGG 1 cut(s) 735
Bst4CI ACNGT 2 cut(s) 845, 1052
Bst6I CTCTTC 2 cut(s) 312, 532
BstACI GRCGYC 1 cut(s) 765
BstAPI GCANNNNNTGC 1 cut(s) 470
BstBAI YACGTR 1 cut(s) 947
BstC8I GCNNGC 3 cut(s) 696, 918, 1042
BstDEI CTNAG 3 cut(s) 146, 590, 622
BstF5I GGATG 3 cut(s) 432, 517, 1022
BstH2I RGCGCY 1 cut(s) 347
BstHHI GCGC 1 cut(s) 346
BstKTI GATC 8 cut(s) 44, 160, 166, 247, 562, 610, 861, 908
BstMAI GTCTC 1 cut(s) 880
BstMBI GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
BstMWI GCNNNNNNNGC 4 cut(s) 120, 126, 470, 704
BstNI CCWGG 1 cut(s) 735
BstSCI CCNGG 2 cut(s) 418, 733
BstSFI CTRYAG 3 cut(s) 347, 939, 1012
BstV1I GCAGC 7 cut(s) 289, 333, 361, 565, 953, 973, 976
BstV2I GAAGAC 2 cut(s) 251, 378
BstXI CCANNNNNNTGG 1 cut(s) 754
BsuRI GGCC 2 cut(s) 366, 595
BtrI CACGTC 1 cut(s) 10
BtsCI GGATG 3 cut(s) 432, 517, 1022
Cac8I GCNNGC 3 cut(s) 696, 918, 1042
CciI TCATGA 2 cut(s) 160, 354
CfoI GCGC 1 cut(s) 346
Cfr13I GGNCC 3 cut(s) 182, 364, 416
CseI GACGC 1 cut(s) 773
CsiI ACCWGGT 1 cut(s) 733
Csp6I GTAC 5 cut(s) 484, 520, 663, 776, 1017
CviAII CATG 9 cut(s) 110, 155, 161, 355, 368, 517, 769, 856, 890
CviQI GTAC 5 cut(s) 484, 520, 663, 776, 1017
DdeI CTNAG 3 cut(s) 146, 590, 622
DpnI GATC 8 cut(s) 43, 159, 165, 246, 561, 609, 860, 907
DpnII GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
Eam1104I CTCTTC 2 cut(s) 312, 532
EarI CTCTTC 2 cut(s) 312, 532
Eco130I CCWWGG 1 cut(s) 133
Eco47I GGWCC 2 cut(s) 182, 416
Eco57I CTGAAG 3 cut(s) 47, 245, 517
EcoO109I RGGNCCY 1 cut(s) 182
EcoRII CCWGG 1 cut(s) 733
EcoT14I CCWWGG 1 cut(s) 133
EcoT22I ATGCAT 1 cut(s) 475
ErhI CCWWGG 1 cut(s) 133
FaeI CATG 9 cut(s) 113, 158, 164, 358, 371, 520, 772, 859, 893
FalI AAGNNNNNCTT 2 cut(s) 44, 76
FatI CATG 9 cut(s) 109, 154, 160, 354, 367, 516, 768, 855, 889
FbaI TGATCA 5 cut(s) 157, 163, 244, 607, 858
FblI GTMKAC 1 cut(s) 195
Fnu4HI GCNGC 8 cut(s) 121, 278, 347, 350, 554, 942, 987, 990
FokI GGATG 3 cut(s) 439, 524, 1009
Fsp4HI GCNGC 8 cut(s) 121, 278, 347, 350, 554, 942, 987, 990
FspBI CTAG 2 cut(s) 761, 1096
GlaI GCGC 1 cut(s) 345
GluI GCNGC 8 cut(s) 121, 278, 347, 350, 554, 942, 987, 990
GsaI CCCAGC 1 cut(s) 129
GsuI CTGGAG 1 cut(s) 1020
HaeII RGCGCY 1 cut(s) 347
HaeIII GGCC 2 cut(s) 366, 595
HapII CCGG 1 cut(s) 419
HgaI GACGC 1 cut(s) 773
HhaI GCGC 1 cut(s) 346
Hin1I GRCGYC 1 cut(s) 765
Hin1II CATG 9 cut(s) 113, 158, 164, 358, 371, 520, 772, 859, 893
Hin6I GCGC 1 cut(s) 344
HinP1I GCGC 1 cut(s) 344
HincII GTYRAC 3 cut(s) 152, 196, 848
HindII GTYRAC 3 cut(s) 152, 196, 848
HinfI GANTC 2 cut(s) 197, 478
HpaII CCGG 1 cut(s) 419
HphI GGTGA 2 cut(s) 890, 1063
Hpy166II GTNNAC 3 cut(s) 152, 196, 848
Hpy188I TCNGA 4 cut(s) 448, 536, 625, 1087
Hpy188III TCNNGA 8 cut(s) 25, 161, 263, 355, 500, 605, 647, 835
Hpy8I GTNNAC 3 cut(s) 152, 196, 848
Hpy99I CGWCG 3 cut(s) 83, 687, 690
HpyAV CCTTC 2 cut(s) 501, 541
HpyCH4III ACNGT 2 cut(s) 845, 1052
HpyCH4IV ACGT 3 cut(s) 9, 284, 946
HpyF10VI GCNNNNNNNGC 4 cut(s) 120, 126, 470, 704
HpyF3I CTNAG 3 cut(s) 146, 590, 622
HpySE526I ACGT 3 cut(s) 9, 284, 946
Hsp92I GRCGYC 1 cut(s) 765
Hsp92II CATG 9 cut(s) 113, 158, 164, 358, 371, 520, 772, 859, 893
HspAI GCGC 1 cut(s) 344
Ksp22I TGATCA 5 cut(s) 157, 163, 244, 607, 858
Kzo9I GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
LguI GCTCTTC 1 cut(s) 532
LmnI GCTCC 2 cut(s) 232, 870
Lsp1109I GCAGC 7 cut(s) 289, 333, 361, 565, 953, 973, 976
LweI GCATC 3 cut(s) 502, 640, 903
MabI ACCWGGT 1 cut(s) 733
MaeI CTAG 2 cut(s) 761, 1096
MaeII ACGT 3 cut(s) 9, 284, 946
MaeIII GTNAC 2 cut(s) 827, 1069
MalI GATC 8 cut(s) 43, 159, 165, 246, 561, 609, 860, 907
MbiI CCGCTC 1 cut(s) 525
MboI GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
MboII GAAGA 8 cut(s) 40, 58, 64, 251, 329, 383, 519, 627
MfeI CAATTG 1 cut(s) 639
MluCI AATT 6 cut(s) 442, 639, 797, 949, 967, 1045
MlyI GAGTC 1 cut(s) 191
MmeI TCCRAC 2 cut(s) 267, 288
Mph1103I ATGCAT 1 cut(s) 475
MseI TTAA 4 cut(s) 207, 789, 963, 1059
MslI CAYNNNNRTG 1 cut(s) 159
MspA1I CMGCKG 1 cut(s) 1040
MspI CCGG 1 cut(s) 419
MspR9I CCNGG 2 cut(s) 420, 735
MunI CAATTG 1 cut(s) 639
Mva1269I GAATGC 3 cut(s) 475, 933, 1081
MvaI CCWGG 1 cut(s) 735
MwoI GCNNNNNNNGC 4 cut(s) 120, 126, 470, 704
NciI CCSGG 1 cut(s) 420
NdeII GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
NlaIII CATG 9 cut(s) 113, 158, 164, 358, 371, 520, 772, 859, 893
NlaIV GGNNCC 1 cut(s) 1009
NmuCI GTSAC 1 cut(s) 1069
NsiI ATGCAT 1 cut(s) 475
PagI TCATGA 2 cut(s) 160, 354
PciSI GCTCTTC 1 cut(s) 532
PctI GAATGC 3 cut(s) 475, 933, 1081
PfeI GAWTC 1 cut(s) 478
PkrI GCNGC 8 cut(s) 122, 279, 348, 351, 555, 943, 988, 991
PleI GAGTC 1 cut(s) 191
PpsI GAGTC 1 cut(s) 191
Ppu21I YACGTR 1 cut(s) 947
PpuMI RGGWCCY 1 cut(s) 182
Psp1406I AACGTT 1 cut(s) 284
Psp5II RGGWCCY 1 cut(s) 182
Psp6I CCWGG 1 cut(s) 733
PspFI CCCAGC 1 cut(s) 125
PspGI CCWGG 1 cut(s) 733
PspN4I GGNNCC 1 cut(s) 1009
PspPI GGNCC 3 cut(s) 182, 364, 416
PspPPI RGGWCCY 1 cut(s) 182
PstI CTGCAG 3 cut(s) 351, 943, 1016
PvuII CAGCTG 1 cut(s) 1040
RsaI GTAC 5 cut(s) 485, 521, 664, 777, 1018
RsaNI GTAC 5 cut(s) 484, 520, 663, 776, 1017
RseI CAYNNNNRTG 1 cut(s) 159
SalI GTCGAC 1 cut(s) 194
SapI GCTCTTC 1 cut(s) 532
SaqAI TTAA 4 cut(s) 207, 789, 963, 1059
SatI GCNGC 8 cut(s) 121, 278, 347, 350, 554, 942, 987, 990
Sau3AI GATC 8 cut(s) 41, 157, 163, 244, 559, 607, 858, 905
Sau96I GGNCC 3 cut(s) 182, 364, 416
SchI GAGTC 1 cut(s) 191
ScrFI CCNGG 2 cut(s) 420, 735
SexAI ACCWGGT 1 cut(s) 733
SfaNI GCATC 3 cut(s) 502, 640, 903
SfcI CTRYAG 3 cut(s) 347, 939, 1012
SinI GGWCC 2 cut(s) 182, 416
SmiMI CAYNNNNRTG 1 cut(s) 159
SmlI CTYRAG 1 cut(s) 61
SmoI CTYRAG 1 cut(s) 61
Sse9I AATT 6 cut(s) 442, 639, 797, 949, 967, 1045
SsiI CCGC 3 cut(s) 121, 457, 523
SspMI CTAG 2 cut(s) 761, 1096
StyD4I CCNGG 2 cut(s) 418, 733
StyI CCWWGG 1 cut(s) 133
TaaI ACNGT 2 cut(s) 845, 1052
TaiI ACGT 3 cut(s) 12, 287, 949
TaqI TCGA 2 cut(s) 44, 195
TasI AATT 6 cut(s) 442, 639, 797, 949, 967, 1045
TauI GCSGC 1 cut(s) 123
TfiI GAWTC 1 cut(s) 478
Tru1I TTAA 4 cut(s) 207, 789, 963, 1059
Tru9I TTAA 4 cut(s) 207, 789, 963, 1059
TseFI GTSAC 1 cut(s) 1069
TseI GCWGC 7 cut(s) 277, 346, 349, 553, 941, 986, 989
Tsp45I GTSAC 1 cut(s) 1069
TspDTI ATGAA 6 cut(s) 65, 371, 384, 410, 831, 906
VpaK11BI GGWCC 2 cut(s) 182, 416
XapI RAATTY 1 cut(s) 797
XmiI GTMKAC 1 cut(s) 195
XspI CTAG 2 cut(s) 761, 1096
Zsp2I ATGCAT 1 cut(s) 475
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.