Rroxscaffold_4G00292540

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000612
Physical Location & Seq
Reverse (-)
12815730 .. 12819284
3555 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00292540.1

Sequence Viewer

Length: 1050 bp
ATGGGTGGTTTTGAAAACCCTTATACCTCTTCTGTTTCTTCAACAATGGCAGCTTTGCAAAAACGAATCACTGGTAGAAGATCAAAACCCCTAGGTGCTACTGTCTCAACCCAAGAGTTCAACTCCTTTCACACCATTGACCGCAAGCTTTTCACCCGATTGGTGTTCAGTCTGGGCCGTGACCCGACCGAGTCGGCCCAAGTCATGGCTTTGTGGATGTGGCTGGAGCACAATGGCAACGAGTTTAACTTGGTCTACAAGGCACTGATGACTCTACCCAATACCCTTCTCAATGCCATGACTGACGAGTCGGTTTCGGCCTTGAATTGCATTCACAGCAATGTGTTTCCTTTCTCTGATTCAGGCATTACTCCTGACATTCCTATGCTGCAAGCCATGAGCAACAGTGGTGTCACACTCAGATTCTTTCATGAAAGTCGCGGCGAAATTGCGAGTGGAGTCATCACATTGCTTAAAGATGTTTGCTTGAGAGTGTTTGGAGACTTGTTGTTTCAACCCCACCCGGAGAAAAAGGGTGGTGATGGTTTGTACAATCCAGTAATGGGTGATATTGCTCAGGGCAATGTGCAGTGGGGTAATGATATTCCATTATATTGGCACCCACAAATGAATAGTGCTAATCTTTACTATTTGCGTGGAGGTTTTGATCCTCATAAGCTTGCAGTTCAGCGCCAGAATTTGAATGAGGAAATGGAGGAGGTTTTGAGCTGTTTGAATTTGAATGATCATGAAGATCAAGAAGTATTCCCTCAAGATAGGACTATTTTCCTAACATTTTCTAGAGGGTTTCCAATTGCAGAAAATAAGCTCAGAGAGTTCTTCACTAGGAGATTTGGGGAGATTATTGATGTAATCTGTATGCAAGAAGCTAAGGAACCTCTGTATGCCCGGCTTGTGCTACAATCTGCTTCCTCCATTCCGGTGGTTCTTGGTGGGAAAAGCATGGTTCAATTCTGCATTGATGGCAGGCATGTTCGGGCGAGGAAATTTGTGCTCAGGCATGCTCGCGCTGGGCAAAGGAGAGACTGA
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

349

Amino Acids

39.45

Weight (kDa)

6.8

Isoelectric Point (pI)

47.0

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: OG0000612)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G49290 AT5G13620
fragaria_vesca FvH4_1g08631 FvH4_2g11491 FvH4_3g26240 FvH4_7g20310 FvH4_7g20310 FvH4_7g20311
malus_domestica MD02G1091200.v1.1 MD07G1180400.v1.1 MD15G1217400.v1.1
prunus_persica Prupe.2G219300_v2.0.a1 Prupe.2G219700_v2.0.a1 Prupe.7G199100_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0364241 RchiOBHm_Chr1g0364261 RchiOBHm_Chr2g0094911 RchiOBHm_Chr5g0048831 RchiOBHm_Chr5g0048891 RchiOBHm_Chr5g0048921 RchiOBHm_Chr6g0270221
rosa_laevigata RLG00000013804 RLG00000016530 RLG00000027499 RLG00000027502 RLG00000027503 RLG00000034558
rosa_multiflora Rmu_co8509593.1_g000001 Rmu_sc0002138.1_g000006 Rmu_sc0003628.1_g000024 Rmu_sc0006611.1_g000002 Rmu_sc0011253.1_g000002 Rmu_sc0011664.1_g000001 Rmu_sc0023830.1_g000002 Rmu_sc0023830.1_g000003
rosa_roxburghii Rroxscaffold_1G00033000 Rroxscaffold_2G00146780 Rroxscaffold_4G00292480 Rroxscaffold_4G00292520 Rroxscaffold_4G00292540 Rroxscaffold_7G00198040
rosa_rugosa Rorug01G0315200 Rorug01G0315300.1 Rorug02G0048800 Rorug05G0241300 Rorug06G0053800
rosa_samantha Rh1AG322400 Rh1AG322500 Rh1BG285300 Rh1BG285400 Rh1CG301700 Rh1CG301900 Rh1DG316700 Rh1DG316800 Rh2AG095400 Rh2BG096400 Rh2CG098400 Rh2DG095100 Rh5AG321000 Rh5AG321300 Rh5BG331300 Rh5BG331400 Rh5BG331500 Rh5CG356900 Rh5DG342800 Rh5DG342900 Rh5DG343100 Rh5DG343300 Rh6AG172300 Rh6BG176600 Rh6CG172500 Rh6DG163800
rosa_wichuraiana Rw1G028560 Rw1G028570 Rw2G007180 Rw5G030080 Rw5G030110 Rw5G030290 Rw5G030320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 307
AccB1I GGYRCC 1 cut(s) 618
AccB7I CCANNNNNTGG 1 cut(s) 205
AccI GTMKAC 1 cut(s) 255
AccII CGCG 2 cut(s) 441, 1029
AciI CCGC 2 cut(s) 142, 441
AclWI GGATC 1 cut(s) 662
AcsI RAATTY 3 cut(s) 697, 736, 1007
AfaI GTAC 1 cut(s) 551
AfiI CCNNNNNNNGG 2 cut(s) 205, 563
AgsI TTSAA 9 cut(s) 14, 42, 121, 325, 515, 703, 736, 742, 971
AluBI AGCT 6 cut(s) 53, 148, 679, 729, 829, 890
AluI AGCT 6 cut(s) 53, 148, 679, 729, 829, 890
Alw21I GWGCWC 2 cut(s) 231, 1017
Alw26I GTCTC 3 cut(s) 109, 495, 1038
AlwI GGATC 1 cut(s) 662
AoxI GGCC 3 cut(s) 175, 195, 318
ApeKI GCWGC 2 cut(s) 50, 388
ApoI RAATTY 3 cut(s) 697, 736, 1007
AspA2I CCTAGG 1 cut(s) 91
AspLEI GCGC 2 cut(s) 693, 1031
AspS9I GGNCC 2 cut(s) 175, 196
AsuC2I CCSGG 2 cut(s) 524, 910
AsuHPI GGTGA 3 cut(s) 145, 551, 578
AvrII CCTAGG 1 cut(s) 91
BanI GGYRCC 1 cut(s) 618
Bbv12I GWGCWC 2 cut(s) 231, 1017
BbvI GCAGC 2 cut(s) 62, 375
BccI CCATC 2 cut(s) 536, 977
BceAI ACGGC 1 cut(s) 162
BclI TGATCA 1 cut(s) 745
BcnI CCSGG 2 cut(s) 524, 910
BcoDI GTCTC 3 cut(s) 109, 495, 1038
BfaI CTAG 3 cut(s) 92, 801, 846
BfoI RGCGCY 1 cut(s) 694
BisI GCNGC 3 cut(s) 51, 389, 442
BlnI CCTAGG 1 cut(s) 91
BlsI GCNGC 3 cut(s) 52, 390, 443
Bme1390I CCNGG 2 cut(s) 524, 910
BmgT120I GGNCC 2 cut(s) 175, 196
BmiI GGNNCC 2 cut(s) 620, 897
BmrFI CCNGG 2 cut(s) 524, 910
BplI GAGNNNNNCTC 2 cut(s) 107, 139
BpmI CTGGAG 1 cut(s) 245
Bpu10I CCTNAGC 3 cut(s) 576, 891, 1016
BpuEI CTTGAG 2 cut(s) 508, 756
BpuMI CCSGG 2 cut(s) 524, 910
BsaJI CCNNGG 1 cut(s) 91
BsaWI WCCGGW 1 cut(s) 940
Bsc4I CCNNNNNNNGG 2 cut(s) 205, 563
Bse1I ACTGG 2 cut(s) 76, 557
Bse3DI GCAATG 3 cut(s) 346, 467, 589
BseDI CCNNGG 1 cut(s) 91
BseGI GGATG 1 cut(s) 222
BseLI CCNNNNNNNGG 2 cut(s) 205, 563
BseMI GCAATG 3 cut(s) 346, 467, 589
BseMII CTCAG 4 cut(s) 433, 590, 844, 1030
BseNI ACTGG 2 cut(s) 76, 557
BseRI GAGGAG 1 cut(s) 731
BseXI GCAGC 2 cut(s) 62, 375
BseYI CCCAGC 1 cut(s) 1031
BsgI GTGCAG 1 cut(s) 608
Bsh1236I CGCG 2 cut(s) 441, 1029
Bsh1285I CGRYCG 1 cut(s) 189
BshFI GGCC 3 cut(s) 177, 197, 320
BshNI GGYRCC 1 cut(s) 618
BsiEI CGRYCG 1 cut(s) 189
BsiHKAI GWGCWC 2 cut(s) 231, 1017
BsiSI CCGG 3 cut(s) 524, 910, 941
BslI CCNNNNNNNGG 2 cut(s) 205, 563
BsmAI GTCTC 3 cut(s) 109, 495, 1038
BsmI GAATGC 1 cut(s) 330
BsnI GGCC 3 cut(s) 177, 197, 320
Bsp1286I GDGCHC 2 cut(s) 231, 1017
Bsp1407I TGTACA 1 cut(s) 549
Bsp143I GATC 4 cut(s) 80, 667, 745, 754
BspACI CCGC 2 cut(s) 142, 441
BspANI GGCC 3 cut(s) 177, 197, 320
BspCNI CTCAG 4 cut(s) 432, 589, 843, 1029
BspFNI CGCG 2 cut(s) 441, 1029
BspHI TCATGA 2 cut(s) 430, 748
BspLI GGNNCC 2 cut(s) 620, 897
BspPI GGATC 1 cut(s) 662
BspT107I GGYRCC 1 cut(s) 618
BsrDI GCAATG 3 cut(s) 346, 467, 589
BsrGI TGTACA 1 cut(s) 549
BsrI ACTGG 2 cut(s) 76, 557
BssECI CCNNGG 1 cut(s) 91
BssMI GATC 4 cut(s) 80, 667, 745, 754
BssT1I CCWWGG 1 cut(s) 91
Bst4CI ACNGT 2 cut(s) 103, 407
Bst6I CTCTTC 1 cut(s) 34
BstAUI TGTACA 1 cut(s) 549
BstC8I GCNNGC 6 cut(s) 146, 393, 681, 989, 1023, 1027
BstDEI CTNAG 5 cut(s) 419, 576, 830, 891, 1016
BstF5I GGATG 1 cut(s) 222
BstFNI CGCG 2 cut(s) 441, 1029
BstH2I RGCGCY 1 cut(s) 694
BstHHI GCGC 2 cut(s) 693, 1031
BstKTI GATC 4 cut(s) 83, 670, 748, 757
BstMAI GTCTC 3 cut(s) 109, 495, 1038
BstMBI GATC 4 cut(s) 80, 667, 745, 754
BstMCI CGRYCG 1 cut(s) 189
BstMWI GCNNNNNNNGC 2 cut(s) 336, 984
BstNSI RCATGY 2 cut(s) 995, 1025
BstSCI CCNGG 2 cut(s) 522, 908
BstUI CGCG 2 cut(s) 441, 1029
BstV1I GCAGC 2 cut(s) 62, 375
BstXI CCANNNNNNTGG 2 cut(s) 615, 943
BsuRI GGCC 3 cut(s) 177, 197, 320
BtsCI GGATG 1 cut(s) 222
BtsI GCAGTG 1 cut(s) 596
BtsIMutI CAGTG 4 cut(s) 69, 263, 412, 596
Cac8I GCNNGC 6 cut(s) 146, 393, 681, 989, 1023, 1027
CciI TCATGA 2 cut(s) 430, 748
CfoI GCGC 2 cut(s) 693, 1031
Cfr13I GGNCC 2 cut(s) 175, 196
Csp6I GTAC 1 cut(s) 550
CviAII CATG 8 cut(s) 205, 298, 397, 431, 749, 964, 992, 1022
CviQI GTAC 1 cut(s) 550
DdeI CTNAG 5 cut(s) 419, 576, 830, 891, 1016
DpnI GATC 4 cut(s) 82, 669, 747, 756
DpnII GATC 4 cut(s) 80, 667, 745, 754
DrdI GACNNNNNNGTC 1 cut(s) 307
DseDI GACNNNNNNGTC 1 cut(s) 307
Eam1104I CTCTTC 1 cut(s) 34
EarI CTCTTC 1 cut(s) 34
Eco130I CCWWGG 1 cut(s) 91
EcoT14I CCWWGG 1 cut(s) 91
ErhI CCWWGG 1 cut(s) 91
FaeI CATG 8 cut(s) 208, 301, 400, 434, 752, 967, 995, 1025
FatI CATG 8 cut(s) 204, 297, 396, 430, 748, 963, 991, 1021
FbaI TGATCA 1 cut(s) 745
FblI GTMKAC 1 cut(s) 255
Fnu4HI GCNGC 3 cut(s) 51, 389, 442
FokI GGATG 1 cut(s) 229
Fsp4HI GCNGC 3 cut(s) 51, 389, 442
FspBI CTAG 3 cut(s) 92, 801, 846
GlaI GCGC 2 cut(s) 692, 1030
GluI GCNGC 3 cut(s) 51, 389, 442
GsaI CCCAGC 1 cut(s) 1035
GsuI CTGGAG 1 cut(s) 245
HaeII RGCGCY 1 cut(s) 694
HaeIII GGCC 3 cut(s) 177, 197, 320
HapII CCGG 3 cut(s) 524, 910, 941
HhaI GCGC 2 cut(s) 693, 1031
Hin1II CATG 8 cut(s) 208, 301, 400, 434, 752, 967, 995, 1025
Hin6I GCGC 2 cut(s) 691, 1029
HinP1I GCGC 2 cut(s) 691, 1029
HindIII AAGCTT 2 cut(s) 146, 677
HinfI GANTC 7 cut(s) 66, 191, 271, 308, 359, 423, 459
HpaII CCGG 3 cut(s) 524, 910, 941
HphI GGTGA 3 cut(s) 145, 551, 578
Hpy166II GTNNAC 1 cut(s) 256
Hpy188I TCNGA 3 cut(s) 358, 422, 833
Hpy188III TCNNGA 6 cut(s) 374, 431, 749, 758, 773, 801
Hpy8I GTNNAC 1 cut(s) 256
HpyAV CCTTC 1 cut(s) 296
HpyCH4III ACNGT 2 cut(s) 103, 407
HpyCH4V TGCA 8 cut(s) 58, 330, 391, 589, 683, 818, 883, 978
HpyF10VI GCNNNNNNNGC 2 cut(s) 336, 984
HpyF3I CTNAG 5 cut(s) 419, 576, 830, 891, 1016
Hsp92II CATG 8 cut(s) 208, 301, 400, 434, 752, 967, 995, 1025
HspAI GCGC 2 cut(s) 691, 1029
Ksp22I TGATCA 1 cut(s) 745
Kzo9I GATC 4 cut(s) 80, 667, 745, 754
LmnI GCTCC 1 cut(s) 226
Lsp1109I GCAGC 2 cut(s) 62, 375
MaeI CTAG 3 cut(s) 92, 801, 846
MaeIII GTNAC 2 cut(s) 179, 412
MalI GATC 4 cut(s) 82, 669, 747, 756
MboI GATC 4 cut(s) 80, 667, 745, 754
MboII GAAGA 5 cut(s) 21, 30, 90, 764, 832
MfeI CAATTG 1 cut(s) 813
MhlI GDGCHC 2 cut(s) 231, 1017
MluCI AATT 7 cut(s) 325, 447, 697, 736, 813, 971, 1007
MlyI GAGTC 4 cut(s) 200, 265, 317, 468
MseI TTAA 2 cut(s) 246, 474
MslI CAYNNNNRTG 3 cut(s) 339, 383, 941
MspI CCGG 3 cut(s) 524, 910, 941
MspR9I CCNGG 2 cut(s) 524, 910
MunI CAATTG 1 cut(s) 813
Mva1269I GAATGC 1 cut(s) 330
MvnI CGCG 2 cut(s) 441, 1029
MwoI GCNNNNNNNGC 2 cut(s) 336, 984
NciI CCSGG 2 cut(s) 524, 910
NdeII GATC 4 cut(s) 80, 667, 745, 754
NlaIII CATG 8 cut(s) 208, 301, 400, 434, 752, 967, 995, 1025
NlaIV GGNNCC 2 cut(s) 620, 897
NmuCI GTSAC 2 cut(s) 179, 412
NspI RCATGY 2 cut(s) 995, 1025
PaeI GCATGC 1 cut(s) 1025
PagI TCATGA 2 cut(s) 430, 748
PctI GAATGC 1 cut(s) 330
PfeI GAWTC 3 cut(s) 66, 359, 423
PflFI GACNNNGTC 1 cut(s) 190
PflMI CCANNNNNTGG 1 cut(s) 205
PkrI GCNGC 3 cut(s) 52, 390, 443
PleI GAGTC 4 cut(s) 199, 265, 316, 467
PpsI GAGTC 4 cut(s) 199, 265, 316, 467
PspFI CCCAGC 1 cut(s) 1031
PspN4I GGNNCC 2 cut(s) 620, 897
PspPI GGNCC 2 cut(s) 175, 196
PsyI GACNNNGTC 1 cut(s) 190
RsaI GTAC 1 cut(s) 551
RsaNI GTAC 1 cut(s) 550
RseI CAYNNNNRTG 3 cut(s) 339, 383, 941
SaqAI TTAA 2 cut(s) 246, 474
SatI GCNGC 3 cut(s) 51, 389, 442
Sau3AI GATC 4 cut(s) 80, 667, 745, 754
Sau96I GGNCC 2 cut(s) 175, 196
SchI GAGTC 4 cut(s) 200, 265, 317, 468
ScrFI CCNGG 2 cut(s) 524, 910
SduI GDGCHC 2 cut(s) 231, 1017
SmiMI CAYNNNNRTG 3 cut(s) 339, 383, 941
SmlI CTYRAG 2 cut(s) 487, 771
SmoI CTYRAG 2 cut(s) 487, 771
SphI GCATGC 1 cut(s) 1025
Sse9I AATT 7 cut(s) 325, 447, 697, 736, 813, 971, 1007
SsiI CCGC 2 cut(s) 142, 441
SspMI CTAG 3 cut(s) 92, 801, 846
StyD4I CCNGG 2 cut(s) 522, 908
StyI CCWWGG 1 cut(s) 91
TaaI ACNGT 2 cut(s) 103, 407
TaqII GACCGA 1 cut(s) 203
TasI AATT 7 cut(s) 325, 447, 697, 736, 813, 971, 1007
TatI WGTACW 1 cut(s) 549
TauI GCSGC 1 cut(s) 444
TfiI GAWTC 3 cut(s) 66, 359, 423
Tru1I TTAA 2 cut(s) 246, 474
Tru9I TTAA 2 cut(s) 246, 474
TscAI CASTG 4 cut(s) 76, 270, 412, 596
TseFI GTSAC 2 cut(s) 179, 412
TseI GCWGC 2 cut(s) 50, 388
Tsp45I GTSAC 2 cut(s) 179, 412
TspDTI ATGAA 4 cut(s) 419, 447, 644, 765
TspRI CASTG 4 cut(s) 76, 270, 412, 596
Tth111I GACNNNGTC 1 cut(s) 190
Van91I CCANNNNNTGG 1 cut(s) 205
XapI RAATTY 3 cut(s) 697, 736, 1007
XbaI TCTAGA 1 cut(s) 800
XceI RCATGY 2 cut(s) 995, 1025
XmaJI CCTAGG 1 cut(s) 91
XmiI GTMKAC 1 cut(s) 255
XspI CTAG 3 cut(s) 92, 801, 846
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.