Rroxscaffold_3G00229930

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000269
Physical Location & Seq
Reverse (-)
14481022 .. 14481802
781 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00229930.1

Sequence Viewer

Length: 642 bp
ATGAGAAAAAGGCACTGTTCAGCAATTGGATTTAATGTGTTGTTGAAGATGTCGGGAAGGAAAATTCACCACTCTATGTTGCGTGTCCTTGTGGACTCCGTAGACCCCAATGCATGTACTATAACTATGCGGGGAAAGAAGATTGAAATGGATGCAAGTGACTTTGAAAATGTGATGGGGTTGAAGAATGTTGGGTCCGAGGTCGACTTTAAAGGTTCCACTAATGATCACCCCGAGTTGATGGCGATAATAAACTCCTTGTGTGGGAAGGATAAGAAGATCGGTTTAAGGGACGTGCGAACTACTCGAAGGATACAAAAGAAGTTGACAACAAGTTCAAGCGCCCGTTTGCCATCGTCGTTTCCAAAAAGACTCCCGTCCTATTGTAGCGGTTGTGTCCTCGTTTCGCAACTGTTCTATTTTGATTGTGTTTCACATGGGAAGACCATTGTGGACAAGTCCTTGTACCCAGTTGAAGCTTGGGGGGACCATGAAACGGGCAAACTACTCAAATGGATGAACAAGCAAGGTGGTTTGCTGGATGAAAATGTTCTTGTGGCAAAGATTGGCCATCGTGTTGGTAGTGGAGATCGAGCCAAAGCATATGGGGTGATTAAGAAAGAAATGTCGACTTGGTGGTAA
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

213

Amino Acids

23.82

Weight (kDa)

9.65

Isoelectric Point (pI)

31.46

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000269)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29141 FvH4_1g29142 FvH4_2g04882 FvH4_2g04883 FvH4_2g07612 FvH4_3g26550 FvH4_3g26551 FvH4_3g31781 FvH4_3g31810 FvH4_3g31812 FvH4_4g08580 FvH4_4g08581 FvH4_4g08649 FvH4_4g08910 FvH4_4g10124 FvH4_4g10125 FvH4_4g28760 FvH4_5g16042 FvH4_5g24070 FvH4_5g30680 FvH4_5g37871 FvH4_5g37872 FvH4_7g03531 FvH4_7g12891 FvH4_7g12892 FvH4_7g12893
rosa_chinensis RchiOBHm_Chr7g0204351
rosa_laevigata RLG00000001882 RLG00000002339 RLG00000004189 RLG00000009211 RLG00000009212 RLG00000013650 RLG00000019919 RLG00000019920 RLG00000019921 RLG00000020177 RLG00000020178 RLG00000023368 RLG00000028208 RLG00000029086 RLG00000029688 RLG00000032551 RLG00000034335 RLG00000034807
rosa_multiflora Rmu_sc0000308.1_g000017 Rmu_sc0000308.1_g000018 Rmu_sc0003422.1_g000004 Rmu_sc0003776.1_g000026 Rmu_sc0005399.1_g000010 Rmu_sc0005399.1_g000012 Rmu_sc0009924.1_g000004
rosa_roxburghii Rroxscaffold_1G00053720 Rroxscaffold_1G00053730 Rroxscaffold_1G00054020 Rroxscaffold_2G00133470 Rroxscaffold_2G00133480 Rroxscaffold_3G00229920 Rroxscaffold_3G00229930 Rroxscaffold_3G00229940 Rroxscaffold_3G00245890 Rroxscaffold_3G00245900 Rroxscaffold_4G00317860 Rroxscaffold_5G00346620 Rroxscaffold_6G00396640 Rroxscaffold_6G00396930 Rroxscaffold_6G00396940 Rroxscaffold_6G00401510 Rroxscaffold_7G00201920 Rroxscaffold_7G00201930 Rroxscaffold_7G00201940
rosa_rugosa Rorug01G0116700 Rorug01G0116700 Rorug04G0072900 Rorug04G0073000 Rorug04G0112000 Rorug07G0258800
rosa_samantha Rh1AG123800 Rh1AG297000 Rh1DG057400 Rh1DG057500 Rh1DG129000 Rh2BG298000 Rh2BG471200 Rh2BG471300 Rh2BG471400 Rh2BG621400 Rh3CG245500 Rh3CG245600 Rh4DG157200 Rh4DG157300 Rh4DG157400 Rh4DG157500 Rh4DG157600 Rh4DG157700 Rh5DG402200 Rh6AG050900 Rh6AG051000 Rh6AG088400 Rh6AG088500 Rh6AG088600 Rh6AG088700 Rh6AG139800 Rh6AG139900 Rh6AG140000 Rh6CG077200 Rh6CG077300 Rh6CG077400 Rh6CG077500 Rh7CG225300 Rh7CG225400 Rh7CG225500 Rh7CG225600 Rh7CG267500 Rh7CG267600 Rh7CG267800 Rh7CG267900 Rh7CG338700 Rh7CG338800 Rh7CG338900 Rh7CG430900 Rh7CG431000 Rh7CG431100 Rh7DG219700 Rh7DG219800 Rh7DG219900 Rh7DG220000 Rh7DG257600 Rh7DG271500 Rh7DG367700 Rh7DG408600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 3 cut(s) 102, 204, 629
AciI CCGC 2 cut(s) 130, 390
AcoI YGGCCR 1 cut(s) 568
AcsI RAATTY 1 cut(s) 63
AfaI GTAC 2 cut(s) 118, 467
AfiI CCNNNNNNNGG 2 cut(s) 264, 496
AgsI TTSAA 6 cut(s) 46, 146, 167, 184, 339, 476
AjiI CACGTC 1 cut(s) 295
AluBI AGCT 1 cut(s) 479
AluI AGCT 1 cut(s) 479
Ama87I CYCGRG 1 cut(s) 233
AoxI GGCC 1 cut(s) 568
ApoI RAATTY 1 cut(s) 63
Asp700I GAANNNNTTC 1 cut(s) 549
AspLEI GCGC 1 cut(s) 344
AspS9I GGNCC 2 cut(s) 195, 487
AsuHPI GGTGA 3 cut(s) 59, 221, 622
AvaI CYCGRG 1 cut(s) 233
AvaII GGWCC 2 cut(s) 195, 487
BalI TGGCCA 1 cut(s) 570
BbsI GAAGAC 1 cut(s) 449
BccI CCATC 4 cut(s) 169, 235, 361, 579
BciVI GTATCC 1 cut(s) 306
BclI TGATCA 1 cut(s) 226
BfoI RGCGCY 1 cut(s) 345
BfuI GTATCC 1 cut(s) 306
Bme18I GGWCC 2 cut(s) 195, 487
BmeT110I CYCGRG 1 cut(s) 233
BmgBI CACGTC 1 cut(s) 295
BmgT120I GGNCC 2 cut(s) 195, 487
BmiI GGNNCC 3 cut(s) 196, 217, 488
BmrI ACTGGG 1 cut(s) 464
BmsI GCATC 1 cut(s) 142
BmuI ACTGGG 1 cut(s) 464
BoxI GACNNNNGTC 1 cut(s) 376
BpiI GAAGAC 1 cut(s) 449
BsaJI CCNNGG 1 cut(s) 198
Bsc4I CCNNNNNNNGG 2 cut(s) 264, 496
Bse1I ACTGG 1 cut(s) 470
BseDI CCNNGG 1 cut(s) 198
BseGI GGATG 3 cut(s) 157, 522, 547
BseLI CCNNNNNNNGG 2 cut(s) 264, 496
BseNI ACTGG 1 cut(s) 470
BshFI GGCC 1 cut(s) 570
BsiHKCI CYCGRG 1 cut(s) 233
BslFI GGGAC 2 cut(s) 305, 500
BslI CCNNNNNNNGG 2 cut(s) 264, 496
BsmFI GGGAC 2 cut(s) 305, 500
BsnI GGCC 1 cut(s) 570
BsoBI CYCGRG 1 cut(s) 233
Bsp143I GATC 3 cut(s) 226, 279, 589
BspACI CCGC 2 cut(s) 130, 390
BspANI GGCC 1 cut(s) 570
BspLI GGNNCC 3 cut(s) 196, 217, 488
BsrI ACTGG 1 cut(s) 470
BssECI CCNNGG 1 cut(s) 198
BssMI GATC 3 cut(s) 226, 279, 589
Bst4CI ACNGT 2 cut(s) 17, 414
BstF5I GGATG 3 cut(s) 157, 522, 547
BstH2I RGCGCY 1 cut(s) 345
BstHHI GCGC 1 cut(s) 344
BstKTI GATC 3 cut(s) 229, 282, 592
BstMBI GATC 3 cut(s) 226, 279, 589
BstNSI RCATGY 1 cut(s) 117
BstPAI GACNNNNGTC 1 cut(s) 376
BstV2I GAAGAC 1 cut(s) 449
BstXI CCANNNNNNTGG 1 cut(s) 578
BsuI GTATCC 1 cut(s) 306
BsuRI GGCC 1 cut(s) 570
BtrI CACGTC 1 cut(s) 295
BtsCI GGATG 3 cut(s) 157, 522, 547
BtsIMutI CAGTG 1 cut(s) 13
CfoI GCGC 1 cut(s) 344
Cfr13I GGNCC 2 cut(s) 195, 487
Csp6I GTAC 2 cut(s) 117, 466
CspCI CAANNNNNGTGG 2 cut(s) 511, 546
CviAII CATG 3 cut(s) 114, 437, 491
CviJI RGCY 3 cut(s) 479, 570, 596
CviKI_1 RGCY 3 cut(s) 479, 570, 596
CviQI GTAC 2 cut(s) 117, 466
DpnI GATC 3 cut(s) 228, 281, 591
DpnII GATC 3 cut(s) 226, 279, 589
DraI TTTAAA 1 cut(s) 211
EaeI YGGCCR 1 cut(s) 568
Eco47I GGWCC 2 cut(s) 195, 487
Eco88I CYCGRG 1 cut(s) 233
EcoT22I ATGCAT 1 cut(s) 115
FaeI CATG 3 cut(s) 117, 440, 494
FaiI YATR 8 cut(s) 77, 115, 122, 128, 438, 492, 604, 606
FaqI GGGAC 2 cut(s) 305, 500
FatI CATG 3 cut(s) 113, 436, 490
FauI CCCGC 1 cut(s) 123
FauNDI CATATG 1 cut(s) 604
FbaI TGATCA 1 cut(s) 226
FblI GTMKAC 3 cut(s) 102, 204, 629
FokI GGATG 3 cut(s) 164, 529, 554
GlaI GCGC 1 cut(s) 343
HaeII RGCGCY 1 cut(s) 345
HaeIII GGCC 1 cut(s) 570
HhaI GCGC 1 cut(s) 344
Hin1II CATG 3 cut(s) 117, 440, 494
Hin6I GCGC 1 cut(s) 342
HinP1I GCGC 1 cut(s) 342
HincII GTYRAC 3 cut(s) 205, 327, 630
HindII GTYRAC 3 cut(s) 205, 327, 630
HindIII AAGCTT 1 cut(s) 477
HinfI GANTC 2 cut(s) 95, 372
HphI GGTGA 3 cut(s) 59, 221, 622
Hpy166II GTNNAC 6 cut(s) 94, 103, 205, 327, 454, 630
Hpy188I TCNGA 1 cut(s) 199
Hpy188III TCNNGA 1 cut(s) 54
Hpy8I GTNNAC 6 cut(s) 94, 103, 205, 327, 454, 630
Hpy99I CGWCG 1 cut(s) 361
HpyAV CCTTC 3 cut(s) 51, 262, 303
HpyCH4III ACNGT 2 cut(s) 17, 414
HpyCH4IV ACGT 1 cut(s) 294
HpyCH4V TGCA 2 cut(s) 113, 155
HpySE526I ACGT 1 cut(s) 294
Hsp92II CATG 3 cut(s) 117, 440, 494
HspAI GCGC 1 cut(s) 342
Ksp22I TGATCA 1 cut(s) 226
Kzo9I GATC 3 cut(s) 226, 279, 589
LpnPI CCDG 2 cut(s) 483, 524
LweI GCATC 1 cut(s) 142
MaeII ACGT 1 cut(s) 294
MaeIII GTNAC 1 cut(s) 158
MalI GATC 3 cut(s) 228, 281, 591
MboI GATC 3 cut(s) 226, 279, 589
MboII GAAGA 5 cut(s) 58, 151, 196, 289, 454
MfeI CAATTG 1 cut(s) 24
MlsI TGGCCA 1 cut(s) 570
MluCI AATT 2 cut(s) 24, 63
MluNI TGGCCA 1 cut(s) 570
MlyI GAGTC 2 cut(s) 89, 366
MnlI CCTC 2 cut(s) 193, 410
Mox20I TGGCCA 1 cut(s) 570
Mph1103I ATGCAT 1 cut(s) 115
MroXI GAANNNNTTC 1 cut(s) 549
MscI TGGCCA 1 cut(s) 570
MseI TTAA 4 cut(s) 33, 210, 287, 615
Msp20I TGGCCA 1 cut(s) 570
MunI CAATTG 1 cut(s) 24
NdeI CATATG 1 cut(s) 604
NdeII GATC 3 cut(s) 226, 279, 589
NlaIII CATG 3 cut(s) 117, 440, 494
NlaIV GGNNCC 3 cut(s) 196, 217, 488
NmuCI GTSAC 1 cut(s) 158
NsiI ATGCAT 1 cut(s) 115
NspI RCATGY 1 cut(s) 117
PdmI GAANNNNTTC 1 cut(s) 549
PleI GAGTC 2 cut(s) 89, 366
PpsI GAGTC 2 cut(s) 89, 366
PshAI GACNNNNGTC 1 cut(s) 376
PspN4I GGNNCC 3 cut(s) 196, 217, 488
PspPI GGNCC 2 cut(s) 195, 487
RsaI GTAC 2 cut(s) 118, 467
RsaNI GTAC 2 cut(s) 117, 466
SalI GTCGAC 2 cut(s) 203, 628
SaqAI TTAA 4 cut(s) 33, 210, 287, 615
Sau3AI GATC 3 cut(s) 226, 279, 589
Sau96I GGNCC 2 cut(s) 195, 487
SchI GAGTC 2 cut(s) 89, 366
SetI ASST 5 cut(s) 204, 217, 297, 481, 532
SfaNI GCATC 1 cut(s) 142
SinI GGWCC 2 cut(s) 195, 487
Sse9I AATT 2 cut(s) 24, 63
SsiI CCGC 2 cut(s) 130, 390
TaaI ACNGT 2 cut(s) 17, 414
TaiI ACGT 1 cut(s) 297
TaqI TCGA 4 cut(s) 204, 307, 592, 629
TasI AATT 2 cut(s) 24, 63
TatI WGTACW 1 cut(s) 116
Tru1I TTAA 4 cut(s) 33, 210, 287, 615
Tru9I TTAA 4 cut(s) 33, 210, 287, 615
TscAI CASTG 1 cut(s) 20
TseFI GTSAC 1 cut(s) 158
Tsp45I GTSAC 1 cut(s) 158
TspDTI ATGAA 3 cut(s) 507, 533, 558
TspGWI ACGGA 1 cut(s) 88
TspRI CASTG 1 cut(s) 20
VpaK11BI GGWCC 2 cut(s) 195, 487
XapI RAATTY 1 cut(s) 63
XceI RCATGY 1 cut(s) 117
XcmI CCANNNNNNNNNTGG 1 cut(s) 477
XmiI GTMKAC 3 cut(s) 102, 204, 629
XmnI GAANNNNTTC 1 cut(s) 549
Zsp2I ATGCAT 1 cut(s) 115
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.