Rh3CG353200

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0000268
Physical Location & Seq
Reverse (-)
42913174 .. 42915002
1829 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG353200.1

Sequence Viewer

Length: 840 bp
ATGAAGGGTTATTTGAAGAGCGGTGTGAAATTATTTGAACTTATTCCATCACTTGATAGGGCATTGTTACCGCTTAGGAACAAGGTTGTGGAAGAGGATTTTAAGTCCAATAACTCTAGTCATGTCCTTACTTATTCACTTCAAAAATTGGAACATCATGCAGCTAACTTTGTTTACGTTCTCATTTTCGTCAGAAAAATCCAAGCGGATGAGCTGATTGCTTGCGGTAAGAATGTGAAGAAATATAATGAGTTTAAGAAATTGGTGGCTTCTAAGTGGCATACACTCACGCCTACTGAAAAAGCCAAGTACAATATTCCAGGCCCTAATGTTTCATCTGGAATTACAAAGAAAAGTAGGAATACATCCAAATCCTCAGTTGCCATCTCCACTCGATGTAGTCCACACCAATTTCAACAAGTTGTTTCTAAATTTTCTGGGGAACAGATTGCAGCAATAACTGAACTGGGCTTTGGTACGCTAGTAAAATTTTCATGCACACGAGTACGTCGAGACATATATCGATTTTTGATTGATAAGTTTGACACTGAGGAGTGTTTGATTAAGCTGCATGGTAAGAGTATGAAAGTGAGTTCTTCAGATTTTAAACAGATTAGGAGTATACCTAAAGGAGGAACAGATGTAGACTTCAGCGGCTCAATTGAAGACCCTGACATGAAAGCATTGTTAGATGGAGCAAACGGAGTAGATGATCATTTTGGAGTCAGCTTCATTATGTTGGCATTGAGAACCTTGCTTTGCCCAAATACATCAACACATCTCAATCCAAAGTATCTTCTTGCATTGAAGAATTTGAAGACTATAAGAAGCATGAACTAG
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
HMG_box

Protein Analysis

279

Amino Acids

31.28

Weight (kDa)

9.62

Isoelectric Point (pI)

29.66

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: OG0000268)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23642 FvH4_2g09911 FvH4_2g09911 FvH4_2g09911 FvH4_3g18421 FvH4_4g05321 FvH4_6g28332 FvH4_7g31231
prunus_persica Prupe.2G063700_v2.0.a1 Prupe.5G238300_v2.0.a1 Prupe.6G153700_v2.0.a1 Prupe.7G017400_v2.0.a1 Prupe.7G070100_v2.0.a1 Prupe.7G070100_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0345471 RchiOBHm_Chr1g0366901 RchiOBHm_Chr2g0162601 RchiOBHm_Chr6g0266661 RchiOBHm_Chr6g0266671
rosa_laevigata RLG00000005047 RLG00000007971 RLG00000008530 RLG00000009009 RLG00000009046 RLG00000014086 RLG00000017162 RLG00000017163 RLG00000017440 RLG00000019098 RLG00000022623 RLG00000024566 RLG00000027733 RLG00000029878 RLG00000029945 RLG00000030127 RLG00000030157 RLG00000031078 RLG00000031080 RLG00000034338 RLG00000034670
rosa_multiflora Rmu_sc0002106.1_g000007 Rmu_sc0002531.1_g000064 Rmu_sc0003433.1_g000005 Rmu_sc0004704.1_g000001 Rmu_sc0004704.1_g000002 Rmu_sc0004888.1_g000042 Rmu_sc0005599.1_g000031 Rmu_sc0006413.1_g000014 Rmu_sc0006413.1_g000018
rosa_roxburghii Rroxscaffold_1G00031940 Rroxscaffold_1G00032500 Rroxscaffold_1G00074770 Rroxscaffold_1G00074780 Rroxscaffold_1G00075150 Rroxscaffold_2G00125060 Rroxscaffold_2G00125070 Rroxscaffold_2G00125800 Rroxscaffold_2G00125820 Rroxscaffold_2G00139560 Rroxscaffold_2G00140550 Rroxscaffold_4G00314090 Rroxscaffold_6G00390050 Rroxscaffold_6G00390520 Rroxscaffold_6G00390530 Rroxscaffold_6G00428030 Rroxscaffold_7G00201570 Rroxscaffold_7G00201580 Rroxscaffold_7G00207070 Rroxscaffold_7G00207080 Rroxscaffold_7G00207240
rosa_rugosa Rorug01G0408000 Rorug01G0408100 Rorug01G0408100 Rorug01G0408200 Rorug02G0155200 Rorug02G0181500 Rorug02G0288400 Rorug03G0208600 Rorug03G0272300 Rorug06G0005500 Rorug06G0005600 Rorug06G0026300.1 Rorug06G0026400 Rorug06G0026500 Rorug06G0026600 Rorug06G0026600 Rorug06G0026600 Rorug06G0145800 Rorug07G0305200
rosa_samantha Rh1AG062100 Rh1BG131900 Rh1BG157000 Rh1CG021100 Rh1CG321600 Rh1DG188200 Rh2DG388300 Rh3AG320500 Rh3BG355400 Rh3CG352400 Rh3CG353200 Rh4AG045800 Rh4DG171700 Rh5AG196000 Rh5AG196100 Rh5CG346800 Rh6BG147600 Rh6BG147700 Rh6CG143200 Rh6CG143500 Rh6CG174600 Rh6CG391800 Rh6DG132100 Rh6DG132300 Rh6DG167100 Rh6DG167200 Rh7AG211600 Rh7BG307000 Rh7BG307300 Rh7BG398300
rosa_wichuraiana Rw0G001830 Rw0G001840 Rw0G018160 Rw0G018170 Rw3G028040 Rw5G017860 Rw5G026710 Rw6G012630 Rw6G012650 Rw6G012780 Rw6G012800 Rw7G019130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 21
AccI GTMKAC 2 cut(s) 622, 645
AciI CCGC 5 cut(s) 21, 71, 206, 225, 654
AcsI RAATTY 3 cut(s) 431, 488, 811
AcuI CTGAAG 2 cut(s) 582, 634
AfaI GTAC 3 cut(s) 311, 478, 507
AfiI CCNNNNNNNGG 1 cut(s) 632
AgsI TTSAA 7 cut(s) 16, 38, 143, 416, 665, 808, 817
AjnI CCWGG 1 cut(s) 319
AjuI GAANNNNNNNTTGG 2 cut(s) 456, 488
AluBI AGCT 4 cut(s) 164, 214, 568, 729
AluI AGCT 4 cut(s) 164, 214, 568, 729
Alw26I GTCTC 1 cut(s) 507
AoxI GGCC 1 cut(s) 322
ApeKI GCWGC 3 cut(s) 161, 452, 568
ApoI RAATTY 3 cut(s) 431, 488, 811
Asp700I GAANNNNTTC 1 cut(s) 42
AspS9I GGNCC 1 cut(s) 323
BaeI ACNNNNGTAYC 2 cut(s) 468, 501
BauI CACGAG 1 cut(s) 501
BbsI GAAGAC 2 cut(s) 672, 824
BbvI GCAGC 3 cut(s) 173, 464, 555
BccI CCATC 3 cut(s) 55, 392, 686
BciT130I CCWGG 1 cut(s) 321
BclI TGATCA 1 cut(s) 712
BcoDI GTCTC 1 cut(s) 507
BfaI CTAG 3 cut(s) 117, 482, 838
BisI GCNGC 4 cut(s) 162, 453, 569, 655
BlsI GCNGC 4 cut(s) 163, 454, 570, 656
Bme1390I CCNGG 1 cut(s) 321
BmgT120I GGNCC 1 cut(s) 323
BmrFI CCNGG 1 cut(s) 321
BmrI ACTGGG 1 cut(s) 476
BmuI ACTGGG 1 cut(s) 476
BpiI GAAGAC 2 cut(s) 672, 824
Bpu10I CCTNAGC 1 cut(s) 74
Bsa29I ATCGAT 1 cut(s) 523
Bsc4I CCNNNNNNNGG 1 cut(s) 632
Bse1I ACTGG 1 cut(s) 471
BseBI CCWGG 1 cut(s) 321
BseCI ATCGAT 1 cut(s) 523
BseGI GGATG 2 cut(s) 214, 365
BseLI CCNNNNNNNGG 1 cut(s) 632
BseMII CTCAG 2 cut(s) 390, 540
BseNI ACTGG 1 cut(s) 471
BseRI GAGGAG 1 cut(s) 566
BseXI GCAGC 3 cut(s) 173, 464, 555
BshFI GGCC 1 cut(s) 324
BshVI ATCGAT 1 cut(s) 523
BslI CCNNNNNNNGG 1 cut(s) 632
BsmAI GTCTC 1 cut(s) 507
BsnI GGCC 1 cut(s) 324
Bsp143I GATC 1 cut(s) 712
BspACI CCGC 5 cut(s) 21, 71, 206, 225, 654
BspANI GGCC 1 cut(s) 324
BspCNI CTCAG 2 cut(s) 389, 541
BspDI ATCGAT 1 cut(s) 523
BspQI GCTCTTC 1 cut(s) 11
BsrBI CCGCTC 1 cut(s) 21
BsrI ACTGG 1 cut(s) 471
BssMI GATC 1 cut(s) 712
BssNAI GTATAC 1 cut(s) 623
BssSI CACGAG 1 cut(s) 501
Bst1107I GTATAC 1 cut(s) 623
Bst2BI CACGAG 1 cut(s) 501
Bst2UI CCWGG 1 cut(s) 321
Bst6I CTCTTC 2 cut(s) 11, 87
BstC8I GCNNGC 1 cut(s) 223
BstDEI CTNAG 4 cut(s) 74, 273, 376, 549
BstENI CCTNNNNNAGG 1 cut(s) 630
BstF5I GGATG 2 cut(s) 214, 365
BstKTI GATC 1 cut(s) 715
BstMAI GTCTC 1 cut(s) 507
BstMBI GATC 1 cut(s) 712
BstNI CCWGG 1 cut(s) 321
BstSCI CCNGG 1 cut(s) 319
BstV1I GCAGC 3 cut(s) 173, 464, 555
BstV2I GAAGAC 2 cut(s) 672, 824
BstZ17I GTATAC 1 cut(s) 623
Bsu15I ATCGAT 1 cut(s) 523
BsuRI GGCC 1 cut(s) 324
BsuTUI ATCGAT 1 cut(s) 523
BtsCI GGATG 2 cut(s) 214, 365
BtsIMutI CAGTG 1 cut(s) 546
Cac8I GCNNGC 1 cut(s) 223
Cfr13I GGNCC 1 cut(s) 323
ClaI ATCGAT 1 cut(s) 523
Csp6I GTAC 3 cut(s) 310, 477, 506
CviAII CATG 6 cut(s) 122, 158, 495, 572, 676, 832
CviJI RGCY 9 cut(s) 164, 214, 269, 305, 324, 471, 568, 657, 729
CviKI_1 RGCY 9 cut(s) 164, 214, 269, 305, 324, 471, 568, 657, 729
CviQI GTAC 3 cut(s) 310, 477, 506
DdeI CTNAG 4 cut(s) 74, 273, 376, 549
DpnI GATC 1 cut(s) 714
DpnII GATC 1 cut(s) 712
DraI TTTAAA 1 cut(s) 607
Eam1104I CTCTTC 2 cut(s) 11, 87
EarI CTCTTC 2 cut(s) 11, 87
Eco57I CTGAAG 2 cut(s) 582, 634
EcoNI CCTNNNNNAGG 1 cut(s) 630
EcoO109I RGGNCCY 1 cut(s) 323
EcoRII CCWGG 1 cut(s) 319
FaeI CATG 6 cut(s) 125, 161, 498, 575, 679, 835
FatI CATG 6 cut(s) 121, 157, 494, 571, 675, 831
FbaI TGATCA 1 cut(s) 712
FblI GTMKAC 2 cut(s) 622, 645
Fnu4HI GCNGC 4 cut(s) 162, 453, 569, 655
FokI GGATG 2 cut(s) 221, 352
Fsp4HI GCNGC 4 cut(s) 162, 453, 569, 655
FspBI CTAG 3 cut(s) 117, 482, 838
GluI GCNGC 4 cut(s) 162, 453, 569, 655
HaeIII GGCC 1 cut(s) 324
Hin1II CATG 6 cut(s) 125, 161, 498, 575, 679, 835
HinfI GANTC 1 cut(s) 723
Hpy166II GTNNAC 4 cut(s) 175, 404, 623, 646
Hpy188I TCNGA 2 cut(s) 194, 601
Hpy188III TCNNGA 2 cut(s) 339, 512
Hpy8I GTNNAC 4 cut(s) 175, 404, 623, 646
Hpy99I CGWCG 1 cut(s) 513
HpyCH4IV ACGT 2 cut(s) 177, 508
HpyCH4V TGCA 5 cut(s) 161, 452, 498, 571, 803
HpyF3I CTNAG 4 cut(s) 74, 273, 376, 549
HpySE526I ACGT 2 cut(s) 177, 508
Hsp92II CATG 6 cut(s) 125, 161, 498, 575, 679, 835
Ksp22I TGATCA 1 cut(s) 712
Kzo9I GATC 1 cut(s) 712
LguI GCTCTTC 1 cut(s) 11
LmnI GCTCC 1 cut(s) 695
LpnPI CCDG 6 cut(s) 306, 324, 333, 423, 452, 684
Lsp1109I GCAGC 3 cut(s) 173, 464, 555
MaeI CTAG 3 cut(s) 117, 482, 838
MaeII ACGT 2 cut(s) 177, 508
MaeIII GTNAC 1 cut(s) 66
MalI GATC 1 cut(s) 714
MbiI CCGCTC 1 cut(s) 21
MboI GATC 1 cut(s) 712
MboII GAAGA 8 cut(s) 28, 104, 250, 588, 677, 788, 820, 829
MfeI CAATTG 1 cut(s) 660
MluCI AATT 9 cut(s) 29, 146, 260, 342, 410, 431, 488, 660, 811
MlyI GAGTC 1 cut(s) 732
MnlI CCTC 4 cut(s) 88, 385, 544, 626
MroXI GAANNNNTTC 1 cut(s) 42
MseI TTAA 4 cut(s) 102, 255, 564, 606
MspA1I CMGCKG 1 cut(s) 654
MspR9I CCNGG 1 cut(s) 321
MunI CAATTG 1 cut(s) 660
MvaI CCWGG 1 cut(s) 321
NdeII GATC 1 cut(s) 712
NlaIII CATG 6 cut(s) 125, 161, 498, 575, 679, 835
PciSI GCTCTTC 1 cut(s) 11
PcsI WCGNNNNNNNCGW 1 cut(s) 508
PdmI GAANNNNTTC 1 cut(s) 42
PkrI GCNGC 4 cut(s) 163, 454, 570, 656
PleI GAGTC 1 cut(s) 731
PpsI GAGTC 1 cut(s) 731
Psp6I CCWGG 1 cut(s) 319
PspGI CCWGG 1 cut(s) 319
PspPI GGNCC 1 cut(s) 323
RsaI GTAC 3 cut(s) 311, 478, 507
RsaNI GTAC 3 cut(s) 310, 477, 506
SapI GCTCTTC 1 cut(s) 11
SaqAI TTAA 4 cut(s) 102, 255, 564, 606
SatI GCNGC 4 cut(s) 162, 453, 569, 655
Sau3AI GATC 1 cut(s) 712
Sau96I GGNCC 1 cut(s) 323
SchI GAGTC 1 cut(s) 732
ScrFI CCNGG 1 cut(s) 321
SetI ASST 9 cut(s) 87, 166, 180, 216, 511, 570, 628, 731, 755
Sse9I AATT 9 cut(s) 29, 146, 260, 342, 410, 431, 488, 660, 811
SsiI CCGC 5 cut(s) 21, 71, 206, 225, 654
SspI AATATT 1 cut(s) 316
SspMI CTAG 3 cut(s) 117, 482, 838
StyD4I CCNGG 1 cut(s) 319
TaiI ACGT 2 cut(s) 180, 511
TaqI TCGA 3 cut(s) 394, 511, 523
TasI AATT 9 cut(s) 29, 146, 260, 342, 410, 431, 488, 660, 811
TatI WGTACW 1 cut(s) 309
TauI GCSGC 1 cut(s) 657
Tru1I TTAA 4 cut(s) 102, 255, 564, 606
Tru9I TTAA 4 cut(s) 102, 255, 564, 606
TscAI CASTG 1 cut(s) 553
TseI GCWGC 3 cut(s) 161, 452, 568
TspDTI ATGAA 6 cut(s) 17, 324, 483, 599, 692, 721
TspGWI ACGGA 1 cut(s) 717
TspRI CASTG 1 cut(s) 553
XagI CCTNNNNNAGG 1 cut(s) 630
XapI RAATTY 3 cut(s) 431, 488, 811
XmiI GTMKAC 2 cut(s) 622, 645
XmnI GAANNNNTTC 1 cut(s) 42
XspI CTAG 3 cut(s) 117, 482, 838
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.