Rh1DG057400

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000269
Physical Location & Seq
Forward (+)
9379877 .. 9380671
795 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG057400.1

Sequence Viewer

Length: 795 bp
ATGCACGGAAAGGAGATTGAAATGGATGCAAGTGACTTTGAAAATGTGATGGGGTTGAAGAATGCTGGGTCCGAGGTCGACTTTAAAGGTTCCACTAATGATCACCCTGAGTTGATGGCGATAATAAACTCCTTATGTGGGAAGGATAAGAAGATCAGTTTAAGGGACGTGCAGAACTACCTGAAGGATACAGAAGAAGTTGACAACAAGTTCAAGCGCCTGTTTGTGCTATTCACAATGAGCACTATCCTTAGCCCATCTGCCTCACTGACGATACCAAAGAAGTGGCTGCTGGCCCTGAAGGACACTCCCCTGATTAGCTCTTTAAACTGGGCTGGTTACTCATTCAAATGTTTGATGGAGGCCATCATCAGTTTCAAAAAAGACTCTCAGTCCTATTGTAGCGGTTGTGTCCTGTTTCTGCAACTATTCTATTTTGATTGTGTTTCACATGGGAAGACCATTGTGGACAAGTCCTTGTACCCAGTTGAAGCTTGGGGGGACCATGAAACGGGCAAACTGCTCAAATGGGTGAACAAGCAAGGTGGTTTGCTGGATGAAAATGTTCTTGTGGCAAAGGTTGGCGATCGTGTTGGTAGTGGAGATCAGGCCAAAGCACATGGGGTGATTAAGAAAGAAATGTCTGACTTGGCTGCTAAAGTGAATGGGTTGGAAAATAATATGTGCAATCTGAGAGATGATATGATGGGAAATATGGACAAAGTCTTGAGTATGCTGAACACTCTGACTGCACAAAATGTGAATGTCAATCAGAACCTTCAAACTGATGGCTAA
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

264

Amino Acids

29.32

Weight (kDa)

5.77

Isoelectric Point (pI)

21.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF1985 PF09331 2 - 121 7.1e-06 Domain of unknown function (DUF1985)
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: 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 1 cut(s) 78
AciI CCGC 1 cut(s) 405
AcuI CTGAAG 2 cut(s) 203, 320
AfaI GTAC 1 cut(s) 482
AfiI CCNNNNNNNGG 2 cut(s) 138, 511
AgsI TTSAA 8 cut(s) 20, 41, 58, 214, 349, 379, 491, 782
AhdI GACNNNNNGTC 1 cut(s) 391
AjiI CACGTC 1 cut(s) 169
AluBI AGCT 2 cut(s) 321, 494
AluI AGCT 2 cut(s) 321, 494
Alw21I GWGCWC 1 cut(s) 245
AoxI GGCC 3 cut(s) 294, 363, 609
ApeKI GCWGC 2 cut(s) 289, 653
Asp700I GAANNNNTTC 1 cut(s) 564
AspLEI GCGC 1 cut(s) 219
AspS9I GGNCC 3 cut(s) 69, 295, 502
AsuHPI GGTGA 3 cut(s) 95, 544, 637
AvaII GGWCC 2 cut(s) 69, 502
BbsI GAAGAC 1 cut(s) 464
Bbv12I GWGCWC 1 cut(s) 245
BbvI GCAGC 2 cut(s) 276, 640
BccI CCATC 7 cut(s) 43, 109, 265, 352, 374, 700, 782
BciVI GTATCC 1 cut(s) 181
BclI TGATCA 1 cut(s) 100
BfoI RGCGCY 1 cut(s) 220
BfuI GTATCC 1 cut(s) 181
BisI GCNGC 2 cut(s) 290, 654
BlsI GCNGC 2 cut(s) 291, 655
Bme18I GGWCC 2 cut(s) 69, 502
BmeRI GACNNNNNGTC 1 cut(s) 391
BmgBI CACGTC 1 cut(s) 169
BmgT120I GGNCC 3 cut(s) 69, 295, 502
BmiI GGNNCC 3 cut(s) 70, 91, 503
BmrI ACTGGG 2 cut(s) 340, 479
BmsI GCATC 1 cut(s) 16
BmuI ACTGGG 2 cut(s) 340, 479
BpiI GAAGAC 1 cut(s) 464
Bpu10I CCTNAGC 1 cut(s) 251
BpuEI CTTGAG 1 cut(s) 748
BsaJI CCNNGG 1 cut(s) 72
Bsc4I CCNNNNNNNGG 2 cut(s) 138, 511
Bse1I ACTGG 2 cut(s) 335, 485
BseDI CCNNGG 1 cut(s) 72
BseGI GGATG 2 cut(s) 31, 562
BseLI CCNNNNNNNGG 2 cut(s) 138, 511
BseMII CTCAG 3 cut(s) 99, 404, 683
BseNI ACTGG 2 cut(s) 335, 485
BseXI GCAGC 2 cut(s) 276, 640
BseYI CCCAGC 1 cut(s) 65
BsgI GTGCAG 2 cut(s) 191, 735
Bsh1285I CGRYCG 1 cut(s) 589
BshFI GGCC 3 cut(s) 296, 365, 611
BsiEI CGRYCG 1 cut(s) 589
BsiHKAI GWGCWC 1 cut(s) 245
BslFI GGGAC 2 cut(s) 179, 515
BslI CCNNNNNNNGG 2 cut(s) 138, 511
BsmFI GGGAC 2 cut(s) 179, 515
BsmI GAATGC 1 cut(s) 67
BsnI GGCC 3 cut(s) 296, 365, 611
Bsp1286I GDGCHC 1 cut(s) 245
Bsp143I GATC 4 cut(s) 100, 153, 586, 604
BspACI CCGC 1 cut(s) 405
BspANI GGCC 3 cut(s) 296, 365, 611
BspCNI CTCAG 3 cut(s) 100, 403, 684
BspLI GGNNCC 3 cut(s) 70, 91, 503
BsrI ACTGG 2 cut(s) 335, 485
BssECI CCNNGG 1 cut(s) 72
BssMI GATC 4 cut(s) 100, 153, 586, 604
BstC8I GCNNGC 1 cut(s) 294
BstDEI CTNAG 4 cut(s) 108, 251, 390, 692
BstF5I GGATG 2 cut(s) 31, 562
BstH2I RGCGCY 1 cut(s) 220
BstHHI GCGC 1 cut(s) 219
BstKTI GATC 4 cut(s) 103, 156, 589, 607
BstMBI GATC 4 cut(s) 100, 153, 586, 604
BstMCI CGRYCG 1 cut(s) 589
BstV1I GCAGC 2 cut(s) 276, 640
BstV2I GAAGAC 1 cut(s) 464
BstXI CCANNNNNNTGG 1 cut(s) 285
BsuI GTATCC 1 cut(s) 181
BsuRI GGCC 3 cut(s) 296, 365, 611
BtrI CACGTC 1 cut(s) 169
BtsCI GGATG 2 cut(s) 31, 562
BtsIMutI CAGTG 1 cut(s) 266
Cac8I GCNNGC 1 cut(s) 294
CfoI GCGC 1 cut(s) 219
Cfr13I GGNCC 3 cut(s) 69, 295, 502
Csp6I GTAC 1 cut(s) 481
CspCI CAANNNNNGTGG 2 cut(s) 526, 561
CviAII CATG 3 cut(s) 452, 506, 620
CviQI GTAC 1 cut(s) 481
DdeI CTNAG 4 cut(s) 108, 251, 390, 692
DpnI GATC 4 cut(s) 102, 155, 588, 606
DpnII GATC 4 cut(s) 100, 153, 586, 604
DraI TTTAAA 2 cut(s) 85, 327
DriI GACNNNNNGTC 1 cut(s) 391
Eam1105I GACNNNNNGTC 1 cut(s) 391
Eco47I GGWCC 2 cut(s) 69, 502
Eco57I CTGAAG 2 cut(s) 203, 320
FaeI CATG 3 cut(s) 455, 509, 623
FaiI YATR 8 cut(s) 136, 453, 507, 621, 683, 704, 716, 734
FaqI GGGAC 2 cut(s) 179, 515
FatI CATG 3 cut(s) 451, 505, 619
FbaI TGATCA 1 cut(s) 100
FblI GTMKAC 1 cut(s) 78
Fnu4HI GCNGC 2 cut(s) 290, 654
FokI GGATG 2 cut(s) 38, 569
Fsp4HI GCNGC 2 cut(s) 290, 654
GlaI GCGC 1 cut(s) 218
GluI GCNGC 2 cut(s) 290, 654
GsaI CCCAGC 1 cut(s) 69
HaeII RGCGCY 1 cut(s) 220
HaeIII GGCC 3 cut(s) 296, 365, 611
HhaI GCGC 1 cut(s) 219
Hin1II CATG 3 cut(s) 455, 509, 623
Hin6I GCGC 1 cut(s) 217
HinP1I GCGC 1 cut(s) 217
HincII GTYRAC 2 cut(s) 79, 202
HindII GTYRAC 2 cut(s) 79, 202
HindIII AAGCTT 1 cut(s) 492
HinfI GANTC 1 cut(s) 386
HphI GGTGA 3 cut(s) 95, 544, 637
Hpy166II GTNNAC 4 cut(s) 79, 202, 469, 535
Hpy188I TCNGA 5 cut(s) 73, 646, 693, 747, 774
Hpy188III TCNNGA 1 cut(s) 727
Hpy8I GTNNAC 4 cut(s) 79, 202, 469, 535
HpyAV CCTTC 4 cut(s) 136, 178, 295, 788
HpyCH4IV ACGT 1 cut(s) 168
HpyCH4V TGCA 6 cut(s) 4, 29, 172, 424, 687, 752
HpyF3I CTNAG 4 cut(s) 108, 251, 390, 692
HpySE526I ACGT 1 cut(s) 168
Hsp92II CATG 3 cut(s) 455, 509, 623
HspAI GCGC 1 cut(s) 217
Ksp22I TGATCA 1 cut(s) 100
Kzo9I GATC 4 cut(s) 100, 153, 586, 604
Lsp1109I GCAGC 2 cut(s) 276, 640
LweI GCATC 1 cut(s) 16
MaeII ACGT 1 cut(s) 168
MaeIII GTNAC 2 cut(s) 32, 338
MalI GATC 4 cut(s) 102, 155, 588, 606
MboI GATC 4 cut(s) 100, 153, 586, 604
MboII GAAGA 4 cut(s) 70, 163, 206, 469
MhlI GDGCHC 1 cut(s) 245
MlyI GAGTC 1 cut(s) 380
MmeI TCCRAC 1 cut(s) 651
MnlI CCTC 3 cut(s) 67, 274, 355
MroXI GAANNNNTTC 1 cut(s) 564
MseI TTAA 4 cut(s) 84, 161, 326, 630
MslI CAYNNNNRTG 1 cut(s) 349
Mva1269I GAATGC 1 cut(s) 67
NdeII GATC 4 cut(s) 100, 153, 586, 604
NlaIII CATG 3 cut(s) 455, 509, 623
NlaIV GGNNCC 3 cut(s) 70, 91, 503
NmuCI GTSAC 1 cut(s) 32
PctI GAATGC 1 cut(s) 67
PdmI GAANNNNTTC 1 cut(s) 564
PflFI GACNNNGTC 1 cut(s) 722
PkrI GCNGC 2 cut(s) 291, 655
Ple19I CGATCG 1 cut(s) 589
PleI GAGTC 1 cut(s) 380
PpsI GAGTC 1 cut(s) 380
PspFI CCCAGC 1 cut(s) 65
PspN4I GGNNCC 3 cut(s) 70, 91, 503
PspPI GGNCC 3 cut(s) 69, 295, 502
PsyI GACNNNGTC 1 cut(s) 722
PvuI CGATCG 1 cut(s) 589
RsaI GTAC 1 cut(s) 482
RsaNI GTAC 1 cut(s) 481
RseI CAYNNNNRTG 1 cut(s) 349
SalI GTCGAC 1 cut(s) 77
SaqAI TTAA 4 cut(s) 84, 161, 326, 630
SatI GCNGC 2 cut(s) 290, 654
Sau3AI GATC 4 cut(s) 100, 153, 586, 604
Sau96I GGNCC 3 cut(s) 69, 295, 502
SchI GAGTC 1 cut(s) 380
SduI GDGCHC 1 cut(s) 245
SetI ASST 9 cut(s) 78, 91, 171, 183, 323, 496, 547, 582, 780
SfaNI GCATC 1 cut(s) 16
SinI GGWCC 2 cut(s) 69, 502
SmiMI CAYNNNNRTG 1 cut(s) 349
SmlI CTYRAG 1 cut(s) 727
SmoI CTYRAG 1 cut(s) 727
SsiI CCGC 1 cut(s) 405
TaiI ACGT 1 cut(s) 171
TaqI TCGA 1 cut(s) 78
Tru1I TTAA 4 cut(s) 84, 161, 326, 630
Tru9I TTAA 4 cut(s) 84, 161, 326, 630
TscAI CASTG 1 cut(s) 273
TseFI GTSAC 1 cut(s) 32
TseI GCWGC 2 cut(s) 289, 653
Tsp45I GTSAC 1 cut(s) 32
TspDTI ATGAA 2 cut(s) 522, 573
TspGWI ACGGA 1 cut(s) 21
TspRI CASTG 1 cut(s) 273
Tth111I GACNNNGTC 1 cut(s) 722
VpaK11BI GGWCC 2 cut(s) 69, 502
XcmI CCANNNNNNNNNTGG 1 cut(s) 492
XmiI GTMKAC 1 cut(s) 78
XmnI GAANNNNTTC 1 cut(s) 564
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.