Rh7CG401200

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7C
OG0000525
Physical Location & Seq
Forward (+)
51265484 .. 51269697
4214 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7CG401200.1

Sequence Viewer

Length: 873 bp
ATGGAGACCAAGTACTTTGACCAAACTGTAAAGAACACAAAGCGACGTGACGTATTGGAGAAAAAGGCATACGAGTTTGTGCACCCAGCGTACACTACCCTGATCAACAACATACGTTTCAGAACGTTTAAAGAGTTCAAAGTGAAACTGCAACAGGCATTAGACAATAAAGAAGACATAGATGCATCTGTTCAGACCCTCACTGAGTCTTCCATTATTGAGTTTAACCATGGATGTACAGATGCTGCCATAAAAGATGCTAATTGGGATGTTTCAAGCACTCGAAATATACTTAGCTCCGATATAAAGGGGCATGCAGAAACTGCTTCCGTCTTCGAAGATTTGAAAAGAGTGAATCTCAAGGACAAGAAGGAGGCTAAGGAGCAGTTTGACAGGATGGAAAAAAAGCTTGCAGAAGAGAGAGAAAGATATGCCAAACAGCTGGCGAAACTGCAGGCGCTTAGCAACAGGGGGCCATTAGATTTTGTTGGACAGATATTTGAGGATGTCGGCAATGCAGTTGGTGGCGCTGTTGTTGTTGCAGCTAATGCCGTCGGCGGCGTTGCTGTTGATGGAGCTAATGCCGTCGCCGGCGTTGCTGTTGATGGAGCTAATGCCGTAGCCGGCGTTGCTGTTGATGGAGCTAATGCCGTAGCCGGCGTTGCTGTTGATGGAGCTAATGCCGTCGCCGGCGTTGCTGTTGATGGAGCTAATGCCGTCGCCGGCGTTGCTGTTGATGGAGCTAATGCCGTAGCCGGCGTTGCTGTTGATGGAGCTAATGCCGTCGGCGGCGCTGCTGTCGATGTAGCTAACGCCGTCGGGGGCGCAGCTGTTGATGTAGCTAACGCCGTCGGTGGCGTTCTACGTTTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0012505 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RHD3

Protein Analysis

290

Amino Acids

29.95

Weight (kDa)

5.05

Isoelectric Point (pI)

21.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 2 - 124 5.2e-14 Sey1 three-helix bundle domain
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: OG0000525)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G45160
fragaria_vesca FvH4_3g11890
malus_domestica MD00G1023300.v1.1 MD00G1023500.v1.1 MD00G1046300.v1.1 MD00G1046400.v1.1 MD00G1047200.v1.1 MD05G1180600.v1.1 MD05G1256900.v1.1 MD05G1257200.v1.1 MD05G1257300.v1.1 MD05G1257400.v1.1 MD05G1257900.v1.1 MD05G1258000.v1.1 MD10G1213100.v1.1 MD10G1237400.v1.1
prunus_persica Prupe.4G106400_v2.0.a1 Prupe.4G106400_v2.0.a1 Prupe.4G106900_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.I001700_v2.0.a1
pyrus_communis pycom05g23620 pycom05g23630 pycom05g23880 pycom05g24090 pycom05g24270 pycom10g19870
rosa_chinensis RchiOBHm_Chr5g0019311 RchiOBHm_Chr5g0019391 RchiOBHm_Chr5g0019401 RchiOBHm_Chr7g0226131 RchiOBHm_Chr7g0226141 RchiOBHm_Chr7g0226161
rosa_laevigata RLG00000001766 RLG00000001767 RLG00000032437 RLG00000032441 RLG00000032445
rosa_multiflora Rmu_sc0001350.1_g000022 Rmu_sc0001350.1_g000031 Rmu_sc0002141.1_g000028 Rmu_sc0002759.1_g000037 Rmu_sc0002759.1_g000039 Rmu_sc0005292.1_g000004 Rmu_sc0005292.1_g000050
rosa_roxburghii Rroxscaffold_1G00058650 Rroxscaffold_1G00058670 Rroxscaffold_1G00074270 Rroxscaffold_2G00108890 Rroxscaffold_2G00125570
rosa_rugosa Rorug05G0050100 Rorug05G0050200 Rorug05G0050300 Rorug05G0050500 Rorug05G0050600 Rorug05G0050700
rosa_samantha Rh5AG140700 Rh5AG141000 Rh5AG141300 Rh5AG390000 Rh5BG139700 Rh5BG139800 Rh5BG139900 Rh5BG140000 Rh5CG151000 Rh5CG151500 Rh5CG151600 Rh5DG140200 Rh5DG140400 Rh5DG140600 Rh7AG368100 Rh7AG381400 Rh7AG381700 Rh7CG386400 Rh7CG400900 Rh7CG401200 Rh7DG380400 Rh7DG380500
rosa_wichuraiana Rw5G012510 Rw5G012530 Rw5G012540 Rw7G031980 Rw7G031990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 558, 789
AclI AACGTT 1 cut(s) 125
AfaI GTAC 3 cut(s) 14, 92, 238
AgsI TTSAA 3 cut(s) 139, 276, 346
AjiI CACGTC 1 cut(s) 47
Alw21I GWGCWC 1 cut(s) 84
Alw44I GTGCAC 1 cut(s) 80
AlwNI CAGNNNCTG 2 cut(s) 245, 323
AoxI GGCC 1 cut(s) 473
ApaLI GTGCAC 1 cut(s) 80
ApeKI GCWGC 4 cut(s) 245, 542, 794, 827
AspLEI GCGC 4 cut(s) 460, 530, 794, 827
AspS9I GGNCC 1 cut(s) 473
AsuII TTCGAA 1 cut(s) 336
BaeGI GKGCMC 1 cut(s) 84
BbsI GAAGAC 3 cut(s) 180, 201, 325
Bbv12I GWGCWC 1 cut(s) 84
BbvI GCAGC 4 cut(s) 232, 554, 781, 839
BccI CCATC 8 cut(s) 391, 566, 599, 632, 665, 698, 731, 764
BclI TGATCA 1 cut(s) 102
BfmI CTRYAG 1 cut(s) 452
BfoI RGCGCY 3 cut(s) 461, 531, 795
BisI GCNGC 6 cut(s) 246, 543, 559, 790, 795, 828
BlpI GCTNAGC 1 cut(s) 461
BlsI GCNGC 6 cut(s) 247, 544, 560, 791, 796, 829
BmcAI AGTACT 1 cut(s) 14
BmgBI CACGTC 1 cut(s) 47
BmgT120I GGNCC 1 cut(s) 473
BmiI GGNNCC 1 cut(s) 474
BmsI GCATC 4 cut(s) 172, 194, 232, 247
BpiI GAAGAC 3 cut(s) 180, 201, 325
BplI GAGNNNNNCTC 2 cut(s) 342, 374
Bpu10I CCTNAGC 1 cut(s) 378
Bpu1102I GCTNAGC 1 cut(s) 461
Bpu14I TTCGAA 1 cut(s) 336
BpuEI CTTGAG 1 cut(s) 344
BsaJI CCNNGG 1 cut(s) 229
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bse118I RCCGGY 6 cut(s) 590, 623, 656, 689, 722, 755
Bse3DI GCAATG 1 cut(s) 520
BseDI CCNNGG 1 cut(s) 229
BseGI GGATG 4 cut(s) 239, 274, 402, 511
BseMI GCAATG 1 cut(s) 520
BseMII CTCAG 1 cut(s) 195
BseSI GKGCMC 1 cut(s) 84
BseXI GCAGC 4 cut(s) 232, 554, 781, 839
BseYI CCCAGC 1 cut(s) 85
BshFI GGCC 1 cut(s) 475
BsiHKAI GWGCWC 1 cut(s) 84
BsiSI CCGG 6 cut(s) 591, 624, 657, 690, 723, 756
BsnI GGCC 1 cut(s) 475
Bsp119I TTCGAA 1 cut(s) 336
Bsp1286I GDGCHC 1 cut(s) 84
Bsp1407I TGTACA 1 cut(s) 236
Bsp143I GATC 1 cut(s) 102
Bsp1720I GCTNAGC 1 cut(s) 461
Bsp19I CCATGG 1 cut(s) 229
BspACI CCGC 2 cut(s) 558, 789
BspANI GGCC 1 cut(s) 475
BspCNI CTCAG 1 cut(s) 196
BspLI GGNNCC 1 cut(s) 474
BspMAI CTGCAG 1 cut(s) 456
BspT104I TTCGAA 1 cut(s) 336
BsrDI GCAATG 1 cut(s) 520
BsrFI RCCGGY 6 cut(s) 590, 623, 656, 689, 722, 755
BsrGI TGTACA 1 cut(s) 236
BssAI RCCGGY 6 cut(s) 590, 623, 656, 689, 722, 755
BssECI CCNNGG 1 cut(s) 229
BssMI GATC 1 cut(s) 102
BssT1I CCWWGG 1 cut(s) 229
Bst4CI ACNGT 1 cut(s) 28
Bst6I CTCTTC 1 cut(s) 411
BstAPI GCANNNNNTGC 2 cut(s) 323, 548
BstAUI TGTACA 1 cut(s) 236
BstBI TTCGAA 1 cut(s) 336
BstDEI CTNAG 4 cut(s) 204, 293, 378, 461
BstDSI CCRYGG 1 cut(s) 229
BstF5I GGATG 4 cut(s) 239, 274, 402, 511
BstH2I RGCGCY 3 cut(s) 461, 531, 795
BstHHI GCGC 4 cut(s) 460, 530, 794, 827
BstKTI GATC 1 cut(s) 105
BstMBI GATC 1 cut(s) 102
BstMWI GCNNNNNNNGC 8 cut(s) 323, 548, 596, 629, 662, 695, 728, 761
BstNSI RCATGY 1 cut(s) 317
BstSFI CTRYAG 1 cut(s) 452
BstSLI GKGCMC 1 cut(s) 84
BstV1I GCAGC 4 cut(s) 232, 554, 781, 839
BstV2I GAAGAC 3 cut(s) 180, 201, 325
BstXI CCANNNNNNTGG 1 cut(s) 442
BsuRI GGCC 1 cut(s) 475
BtgI CCRYGG 1 cut(s) 229
BtrI CACGTC 1 cut(s) 47
BtsCI GGATG 4 cut(s) 239, 274, 402, 511
BtsIMutI CAGTG 1 cut(s) 201
CaiI CAGNNNCTG 2 cut(s) 245, 323
CfoI GCGC 4 cut(s) 460, 530, 794, 827
Cfr10I RCCGGY 6 cut(s) 590, 623, 656, 689, 722, 755
Cfr13I GGNCC 1 cut(s) 473
Csp6I GTAC 3 cut(s) 13, 91, 237
CviAII CATG 2 cut(s) 230, 314
CviQI GTAC 3 cut(s) 13, 91, 237
DdeI CTNAG 4 cut(s) 204, 293, 378, 461
DpnI GATC 1 cut(s) 104
DpnII GATC 1 cut(s) 102
DraI TTTAAA 1 cut(s) 130
Eam1104I CTCTTC 1 cut(s) 411
EarI CTCTTC 1 cut(s) 411
Eco130I CCWWGG 1 cut(s) 229
EcoT14I CCWWGG 1 cut(s) 229
EcoT22I ATGCAT 1 cut(s) 187
ErhI CCWWGG 1 cut(s) 229
FaeI CATG 2 cut(s) 233, 317
FaiI YATR 9 cut(s) 70, 113, 179, 231, 251, 290, 305, 315, 432
FatI CATG 2 cut(s) 229, 313
FbaI TGATCA 1 cut(s) 102
Fnu4HI GCNGC 6 cut(s) 246, 543, 559, 790, 795, 828
FokI GGATG 4 cut(s) 246, 281, 409, 518
Fsp4HI GCNGC 6 cut(s) 246, 543, 559, 790, 795, 828
GlaI GCGC 4 cut(s) 459, 529, 793, 826
GluI GCNGC 6 cut(s) 246, 543, 559, 790, 795, 828
GsaI CCCAGC 1 cut(s) 89
HaeII RGCGCY 3 cut(s) 461, 531, 795
HaeIII GGCC 1 cut(s) 475
HapII CCGG 6 cut(s) 591, 624, 657, 690, 723, 756
HhaI GCGC 4 cut(s) 460, 530, 794, 827
Hin1II CATG 2 cut(s) 233, 317
Hin6I GCGC 4 cut(s) 458, 528, 792, 825
HinP1I GCGC 4 cut(s) 458, 528, 792, 825
HindIII AAGCTT 1 cut(s) 407
HinfI GANTC 2 cut(s) 206, 355
HpaII CCGG 6 cut(s) 591, 624, 657, 690, 723, 756
Hpy166II GTNNAC 2 cut(s) 82, 93
Hpy188I TCNGA 3 cut(s) 122, 195, 301
Hpy8I GTNNAC 2 cut(s) 82, 93
Hpy99I CGWCG 8 cut(s) 48, 557, 590, 689, 722, 788, 821, 854
HpyAV CCTTC 1 cut(s) 364
HpyCH4III ACNGT 1 cut(s) 28
HpyCH4IV ACGT 5 cut(s) 46, 51, 115, 125, 865
HpyCH4V TGCA 8 cut(s) 82, 151, 185, 317, 413, 454, 518, 542
HpyF10VI GCNNNNNNNGC 8 cut(s) 323, 548, 596, 629, 662, 695, 728, 761
HpyF3I CTNAG 4 cut(s) 204, 293, 378, 461
HpySE526I ACGT 5 cut(s) 46, 51, 115, 125, 865
Hsp92II CATG 2 cut(s) 233, 317
HspAI GCGC 4 cut(s) 458, 528, 792, 825
KroI GCCGGC 6 cut(s) 590, 623, 656, 689, 722, 755
KroNI GCCGGC 6 cut(s) 592, 625, 658, 691, 724, 757
Ksp22I TGATCA 1 cut(s) 102
Kzo9I GATC 1 cut(s) 102
LmnI GCTCC 9 cut(s) 302, 382, 575, 608, 641, 674, 707, 740, 773
Lsp1109I GCAGC 4 cut(s) 232, 554, 781, 839
LweI GCATC 4 cut(s) 172, 194, 232, 247
MaeII ACGT 5 cut(s) 46, 51, 115, 125, 865
MaeIII GTNAC 1 cut(s) 47
MalI GATC 1 cut(s) 104
MboI GATC 1 cut(s) 102
MboII GAAGA 5 cut(s) 185, 201, 325, 350, 428
MhlI GDGCHC 1 cut(s) 84
MluCI AATT 1 cut(s) 262
MlyI GAGTC 1 cut(s) 215
MmeI TCCRAC 1 cut(s) 469
MnlI CCTC 3 cut(s) 209, 367, 496
Mph1103I ATGCAT 1 cut(s) 187
MreI CGCCGGCG 3 cut(s) 590, 689, 722
MroNI GCCGGC 6 cut(s) 590, 623, 656, 689, 722, 755
MseI TTAA 2 cut(s) 129, 225
MspA1I CMGCKG 2 cut(s) 442, 830
MspI CCGG 6 cut(s) 591, 624, 657, 690, 723, 756
MwoI GCNNNNNNNGC 8 cut(s) 323, 548, 596, 629, 662, 695, 728, 761
NaeI GCCGGC 6 cut(s) 592, 625, 658, 691, 724, 757
NcoI CCATGG 1 cut(s) 229
NdeII GATC 1 cut(s) 102
NgoMIV GCCGGC 6 cut(s) 590, 623, 656, 689, 722, 755
NlaIII CATG 2 cut(s) 233, 317
NlaIV GGNNCC 1 cut(s) 474
NmuCI GTSAC 1 cut(s) 47
NsiI ATGCAT 1 cut(s) 187
NspI RCATGY 1 cut(s) 317
NspV TTCGAA 1 cut(s) 336
PaeI GCATGC 1 cut(s) 317
PdiI GCCGGC 6 cut(s) 592, 625, 658, 691, 724, 757
PfeI GAWTC 1 cut(s) 355
PkrI GCNGC 6 cut(s) 247, 544, 560, 791, 796, 829
PleI GAGTC 1 cut(s) 214
PpsI GAGTC 1 cut(s) 214
Psp1406I AACGTT 1 cut(s) 125
PspFI CCCAGC 1 cut(s) 85
PspN4I GGNNCC 1 cut(s) 474
PspPI GGNCC 1 cut(s) 473
PstI CTGCAG 1 cut(s) 456
PstNI CAGNNNCTG 2 cut(s) 245, 323
PvuII CAGCTG 2 cut(s) 442, 830
RsaI GTAC 3 cut(s) 14, 92, 238
RsaNI GTAC 3 cut(s) 13, 91, 237
SaqAI TTAA 2 cut(s) 129, 225
SatI GCNGC 6 cut(s) 246, 543, 559, 790, 795, 828
Sau3AI GATC 1 cut(s) 102
Sau96I GGNCC 1 cut(s) 473
ScaI AGTACT 1 cut(s) 14
SchI GAGTC 1 cut(s) 215
SduI GDGCHC 1 cut(s) 84
SfaNI GCATC 4 cut(s) 172, 194, 232, 247
SfcI CTRYAG 1 cut(s) 452
SfuI TTCGAA 1 cut(s) 336
SgrAI CRCCGGYG 3 cut(s) 590, 689, 722
SmlI CTYRAG 1 cut(s) 359
SmoI CTYRAG 1 cut(s) 359
SphI GCATGC 1 cut(s) 317
Sse9I AATT 1 cut(s) 262
SsiI CCGC 2 cut(s) 558, 789
StyI CCWWGG 1 cut(s) 229
TaaI ACNGT 1 cut(s) 28
TaiI ACGT 5 cut(s) 49, 54, 118, 128, 868
TaqI TCGA 3 cut(s) 283, 336, 801
TasI AATT 1 cut(s) 262
TatI WGTACW 2 cut(s) 12, 236
TauI GCSGC 2 cut(s) 561, 792
TfiI GAWTC 1 cut(s) 355
Tru1I TTAA 2 cut(s) 129, 225
Tru9I TTAA 2 cut(s) 129, 225
TscAI CASTG 1 cut(s) 208
TseFI GTSAC 1 cut(s) 47
TseI GCWGC 4 cut(s) 245, 542, 794, 827
Tsp45I GTSAC 1 cut(s) 47
TspGWI ACGGA 1 cut(s) 319
TspRI CASTG 1 cut(s) 208
VneI GTGCAC 1 cut(s) 80
XceI RCATGY 1 cut(s) 317
ZrmI AGTACT 1 cut(s) 14
Zsp2I ATGCAT 1 cut(s) 187
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.