Rroxscaffold_1G00074260

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000602
Physical Location & Seq
Reverse (-)
95280996 .. 95300693
19698 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00074260.1

Sequence Viewer

Length: 1305 bp
ATGCAGCTCAGCTTTGATGAGAATTGGTTGGCACTAGAAACAACTGTTCAAACTGATCTTGTAAGGGATTTTGGTGGAAAGCTCAGCTCAATTCTAAACATTTACATTTCTGGATATGACAAGGAGACAGAGTACTTTGACGAACTTATTAGGAACTCGAAACGGCATCAACTGTTGGTGACAAAGGCATTCAATTTGATACGACCTGCATACGCTACTATGCTGAGACACCTCCATTCCGAAGCACTTGAAAATTTTAAAATAAGACTGGTGCAATCATTAGTCCGACAAGAAGGGTTTGCTTCATCCGTTATTGCCCATACTGAATCTTGCATGCGTGAGTTTGACCAAGCATGTGCAGATGCTTCAATAGATGCTGCCATAAATTCTAATGGGAATGCATATGGCGTTCTTGAGGAAAAATCCAAAAGGGAACTTAATCGCGATATGGAAGCATATGCATCATCTCAAGTTGACGAACAGTTGTCAAGATTGAAACTGGACTGTGAGAGACAATTTTGGGAAGCTTTAAGTCTTAATGATCCTATAGCGGCTCTGCTACTTGAGGGTGACGACGACATCTGGAGTAAAAAAAGGGGACTTCTTCATGATGCCATAGAACTTGTAGATGAACGTTTTTCAAATGAGTTTAATGGTTATGCGTTGGACCAAGGAAGAAGTGCCGAAATGTTGCAAATTTTGCGGGATTATGCAAGAAGAGTGGCGGAGGAAAAACCAAGACAGGAGGCTACTCGTGTTCTGACTCACATGGTTAATAGGTTTCTCCAAGCCTTCAATTACGATAGTGATGCAAATGCTAGAACTTGGACTGTGGAGGTTGACATTAGAATTATTATCCGGAATGCTCACTATGAGTCCCTTAAGATTTTATCTACTCTGGCTGCCATTCGCCTGGATGAGACGCAAGATGATGTTGAACGAGTCCTCTCTTCTACTTTAATCGATGGAGAAATAAGTTCTACAACTCTTGACTCAGTTAATTGGGATATGGTTTCTTCAAACGATACCCTAATTACACCGCTGGAGTGCCAGTCGTTGTGGAGACAGTTCAAAAAAAAAACCAGGCTTGCTGTCGTTCAAGCTTATGCAACACAGGTGTTTCACAGGCGAAAATGGATAATTACGGTTATCATAGTGTTGTTGTCAGCCTACGGAATCCCTAATGCCGCATCTTTTGTACCTGAAATTCTAGGACTGCTGCTGCCACGCTTGAGAGGTCAAGTTATTACTTTTTCAGCCATATTTCTAGCTGTGCAGAAATTCGCACTCGCAAAGATGAGATAA
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

434

Amino Acids

49.62

Weight (kDa)

5.47

Isoelectric Point (pI)

40.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 23 - 387 3.5e-62 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: OG0000602)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G48195 AT3G48440 AT5G63260 AT5G63260
fragaria_vesca FvH4_5g07100 FvH4_5g07100 FvH4_5g07100 FvH4_5g07100 FvH4_5g07100 FvH4_5g07100 FvH4_5g07100
malus_domestica MD06G1158800.v1.1 MD06G1159000.v1.1 MD06G1159200.v1.1 MD14G1165100.v1.1 MD14G1165300.v1.1 MD14G1165400.v1.1 MD14G1165500.v1.1
prunus_persica Prupe.5G158300_v2.0.a1 Prupe.5G158300_v2.0.a1 Prupe.5G158400_v2.0.a1 Prupe.5G158400_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158500_v2.0.a1 Prupe.5G158600_v2.0.a1 Prupe.5G158700_v2.0.a1 Prupe.5G158800_v2.0.a1 Prupe.5G158900_v2.0.a1 Prupe.5G159000_v2.0.a1 Prupe.5G159100_v2.0.a1 Prupe.5G159100_v2.0.a1
pyrus_communis pycom02g00910 pycom06g14200 pycom14g13760 pycom14g13790 pycom14g13800
rosa_chinensis RchiOBHm_Chr5g0019351 RchiOBHm_Chr5g0022771 RchiOBHm_Chr7g0191441 RchiOBHm_Chr7g0191531
rosa_laevigata RLG00000004449 RLG00000032440
rosa_multiflora Rmu_sc0001809.1_g000062 Rmu_sc0005292.1_g000027
rosa_roxburghii Rroxscaffold_1G00074260 Rroxscaffold_6G00390280 Rroxscaffold_7G00168660
rosa_rugosa Rorug05G0049600 Rorug05G0049700 Rorug05G0049800 Rorug06G0510400
rosa_samantha Rh5CG151400 Rh5DG140300 Rh7AG118400 Rh7BG120400 Rh7CG123200 Rh7DG121300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 214
AccII CGCG 1 cut(s) 444
AccIII TCCGGA 1 cut(s) 858
AciI CCGC 5 cut(s) 551, 703, 725, 1040, 1188
AclI AACGTT 1 cut(s) 634
AclWI GGATC 1 cut(s) 536
AcsI RAATTY 5 cut(s) 253, 385, 696, 1206, 1280
AfaI GTAC 2 cut(s) 134, 1200
AflII CTTAAG 1 cut(s) 881
AjnI CCWGG 2 cut(s) 912, 1082
AluBI AGCT 7 cut(s) 7, 12, 82, 87, 527, 1103, 1271
AluI AGCT 7 cut(s) 7, 12, 82, 87, 527, 1103, 1271
Alw26I GTCTC 5 cut(s) 119, 220, 505, 914, 1057
AlwI GGATC 1 cut(s) 536
Aor13HI TCCGGA 1 cut(s) 858
ApeKI GCWGC 5 cut(s) 4, 377, 902, 1219, 1222
ApoI RAATTY 5 cut(s) 253, 385, 696, 1206, 1280
AspS9I GGNCC 1 cut(s) 667
AsuHPI GGTGA 2 cut(s) 190, 581
AvaII GGWCC 1 cut(s) 667
BauI CACGAG 1 cut(s) 753
BbvI GCAGC 5 cut(s) 16, 364, 889, 1206, 1209
BccI CCATC 1 cut(s) 959
BceAI ACGGC 1 cut(s) 179
BcgI CGANNNNNNTGC 2 cut(s) 791, 825
BciT130I CCWGG 2 cut(s) 914, 1084
BcoDI GTCTC 5 cut(s) 119, 220, 505, 914, 1057
BfaI CTAG 4 cut(s) 35, 819, 1211, 1268
BfmI CTRYAG 1 cut(s) 546
BfrI CTTAAG 1 cut(s) 881
BfuAI ACCTGC 1 cut(s) 214
BisI GCNGC 7 cut(s) 5, 378, 552, 903, 1188, 1220, 1223
BlpI GCTNAGC 2 cut(s) 8, 83
BlsI GCNGC 7 cut(s) 6, 379, 553, 904, 1189, 1221, 1224
BmcAI AGTACT 1 cut(s) 134
Bme1390I CCNGG 2 cut(s) 914, 1084
Bme18I GGWCC 1 cut(s) 667
BmgT120I GGNCC 1 cut(s) 667
BmrFI CCNGG 2 cut(s) 914, 1084
BmsI GCATC 7 cut(s) 175, 352, 364, 470, 601, 799, 1199
BpmI CTGGAG 2 cut(s) 604, 1064
Bpu1102I GCTNAGC 2 cut(s) 8, 83
BpuEI CTTGAG 4 cut(s) 434, 453, 584, 1252
Bsa29I ATCGAT 1 cut(s) 963
BsaJI CCNNGG 1 cut(s) 670
BsaWI WCCGGW 1 cut(s) 858
BsaXI ACNNNNNCTCC 4 cut(s) 116, 146, 1037, 1067
Bse1I ACTGG 3 cut(s) 273, 504, 1051
BseAI TCCGGA 1 cut(s) 858
BseBI CCWGG 2 cut(s) 914, 1084
BseCI ATCGAT 1 cut(s) 963
BseDI CCNNGG 1 cut(s) 670
BseGI GGATG 2 cut(s) 305, 922
BseMII CTCAG 4 cut(s) 22, 97, 215, 1008
BseNI ACTGG 3 cut(s) 273, 504, 1051
BseXI GCAGC 5 cut(s) 16, 364, 889, 1206, 1209
BsgI GTGCAG 2 cut(s) 378, 1295
Bsh1236I CGCG 1 cut(s) 444
BshVI ATCGAT 1 cut(s) 963
BsiSI CCGG 1 cut(s) 859
BslFI GGGAC 2 cut(s) 612, 862
BsmAI GTCTC 5 cut(s) 119, 220, 505, 914, 1057
BsmBI CGTCTC 1 cut(s) 914
BsmFI GGGAC 2 cut(s) 612, 862
BsmI GAATGC 3 cut(s) 188, 403, 868
Bsp13I TCCGGA 1 cut(s) 858
Bsp143I GATC 2 cut(s) 55, 541
Bsp1720I GCTNAGC 2 cut(s) 8, 83
Bsp68I TCGCGA 1 cut(s) 444
BspACI CCGC 5 cut(s) 551, 703, 725, 1040, 1188
BspCNI CTCAG 4 cut(s) 21, 96, 216, 1007
BspDI ATCGAT 1 cut(s) 963
BspEI TCCGGA 1 cut(s) 858
BspFNI CGCG 1 cut(s) 444
BspHI TCATGA 1 cut(s) 607
BspMI ACCTGC 1 cut(s) 214
BspPI GGATC 1 cut(s) 536
BspTI CTTAAG 1 cut(s) 881
BsrI ACTGG 3 cut(s) 273, 504, 1051
BssECI CCNNGG 1 cut(s) 670
BssMI GATC 2 cut(s) 55, 541
BssSI CACGAG 1 cut(s) 753
BssT1I CCWWGG 1 cut(s) 670
Bst2BI CACGAG 1 cut(s) 753
Bst2UI CCWGG 2 cut(s) 914, 1084
Bst4CI ACNGT 7 cut(s) 46, 174, 483, 506, 832, 1068, 1147
Bst6I CTCTTC 2 cut(s) 712, 955
BstAFI CTTAAG 1 cut(s) 881
BstAPI GCANNNNNTGC 1 cut(s) 700
BstC8I GCNNGC 2 cut(s) 335, 1089
BstDEI CTNAG 4 cut(s) 8, 83, 224, 994
BstF5I GGATG 2 cut(s) 305, 922
BstFNI CGCG 1 cut(s) 444
BstKTI GATC 2 cut(s) 58, 544
BstMAI GTCTC 5 cut(s) 119, 220, 505, 914, 1057
BstMBI GATC 2 cut(s) 55, 541
BstMWI GCNNNNNNNGC 1 cut(s) 700
BstNI CCWGG 2 cut(s) 914, 1084
BstNSI RCATGY 2 cut(s) 337, 357
BstSCI CCNGG 2 cut(s) 912, 1082
BstSFI CTRYAG 1 cut(s) 546
BstUI CGCG 1 cut(s) 444
BstV1I GCAGC 5 cut(s) 16, 364, 889, 1206, 1209
BstXI CCANNNNNNTGG 1 cut(s) 913
Bsu15I ATCGAT 1 cut(s) 963
BsuTUI ATCGAT 1 cut(s) 963
BtsCI GGATG 2 cut(s) 305, 922
BtuMI TCGCGA 1 cut(s) 444
BveI ACCTGC 1 cut(s) 214
Cac8I GCNNGC 2 cut(s) 335, 1089
CciI TCATGA 1 cut(s) 607
Cfr13I GGNCC 1 cut(s) 667
ClaI ATCGAT 1 cut(s) 963
CseI GACGC 1 cut(s) 931
Csp6I GTAC 2 cut(s) 133, 1199
CspCI CAANNNNNGTGG 2 cut(s) 702, 737
CviAII CATG 4 cut(s) 334, 354, 608, 769
CviQI GTAC 2 cut(s) 133, 1199
DdeI CTNAG 4 cut(s) 8, 83, 224, 994
DpnI GATC 2 cut(s) 57, 543
DpnII GATC 2 cut(s) 55, 541
DraI TTTAAA 1 cut(s) 259
Eam1104I CTCTTC 2 cut(s) 712, 955
EarI CTCTTC 2 cut(s) 712, 955
EciI GGCGGA 1 cut(s) 740
Eco130I CCWWGG 1 cut(s) 670
Eco47I GGWCC 1 cut(s) 667
EcoRII CCWGG 2 cut(s) 912, 1082
EcoT14I CCWWGG 1 cut(s) 670
EcoT22I ATGCAT 2 cut(s) 403, 463
ErhI CCWWGG 1 cut(s) 670
Esp3I CGTCTC 1 cut(s) 914
FaeI CATG 4 cut(s) 337, 357, 611, 772
FaqI GGGAC 2 cut(s) 612, 862
FatI CATG 4 cut(s) 333, 353, 607, 768
FauI CCCGC 1 cut(s) 696
FauNDI CATATG 2 cut(s) 403, 457
Fnu4HI GCNGC 7 cut(s) 5, 378, 552, 903, 1188, 1220, 1223
FokI GGATG 2 cut(s) 292, 929
Fsp4HI GCNGC 7 cut(s) 5, 378, 552, 903, 1188, 1220, 1223
FspBI CTAG 4 cut(s) 35, 819, 1211, 1268
GluI GCNGC 7 cut(s) 5, 378, 552, 903, 1188, 1220, 1223
GsuI CTGGAG 2 cut(s) 604, 1064
HapII CCGG 1 cut(s) 859
HgaI GACGC 1 cut(s) 931
Hin1II CATG 4 cut(s) 337, 357, 611, 772
HincII GTYRAC 2 cut(s) 475, 841
HindII GTYRAC 2 cut(s) 475, 841
HindIII AAGCTT 2 cut(s) 525, 1101
HinfI GANTC 6 cut(s) 326, 763, 875, 942, 992, 1176
HpaII CCGG 1 cut(s) 859
HphI GGTGA 2 cut(s) 190, 581
Hpy166II GTNNAC 2 cut(s) 475, 841
Hpy188I TCNGA 3 cut(s) 241, 287, 762
Hpy188III TCNNGA 8 cut(s) 111, 413, 443, 489, 583, 608, 859, 989
Hpy8I GTNNAC 2 cut(s) 475, 841
Hpy99I CGWCG 1 cut(s) 578
HpyAV CCTTC 2 cut(s) 287, 802
HpyCH4III ACNGT 7 cut(s) 46, 174, 483, 506, 832, 1068, 1147
HpyCH4IV ACGT 1 cut(s) 634
HpyF10VI GCNNNNNNNGC 1 cut(s) 700
HpyF3I CTNAG 4 cut(s) 8, 83, 224, 994
HpySE526I ACGT 1 cut(s) 634
Hsp92II CATG 4 cut(s) 337, 357, 611, 772
Kpn2I TCCGGA 1 cut(s) 858
Kzo9I GATC 2 cut(s) 55, 541
Lsp1109I GCAGC 5 cut(s) 16, 364, 889, 1206, 1209
LweI GCATC 7 cut(s) 175, 352, 364, 470, 601, 799, 1199
MaeI CTAG 4 cut(s) 35, 819, 1211, 1268
MaeII ACGT 1 cut(s) 634
MaeIII GTNAC 2 cut(s) 178, 569
MalI GATC 2 cut(s) 57, 543
MboI GATC 2 cut(s) 55, 541
MboII GAAGA 5 cut(s) 596, 687, 729, 942, 1008
MlyI GAGTC 4 cut(s) 757, 884, 951, 986
MmeI TCCRAC 2 cut(s) 310, 645
MnlI CCTC 8 cut(s) 242, 409, 559, 721, 739, 829, 956, 1229
Mph1103I ATGCAT 2 cut(s) 403, 463
MroI TCCGGA 1 cut(s) 858
MseI TTAA 9 cut(s) 258, 438, 530, 537, 651, 774, 882, 959, 999
MspA1I CMGCKG 1 cut(s) 1042
MspCI CTTAAG 1 cut(s) 881
MspI CCGG 1 cut(s) 859
MspR9I CCNGG 2 cut(s) 914, 1084
Mva1269I GAATGC 3 cut(s) 188, 403, 868
MvaI CCWGG 2 cut(s) 914, 1084
MvnI CGCG 1 cut(s) 444
MwoI GCNNNNNNNGC 1 cut(s) 700
NdeI CATATG 2 cut(s) 403, 457
NdeII GATC 2 cut(s) 55, 541
NlaIII CATG 4 cut(s) 337, 357, 611, 772
NmuCI GTSAC 2 cut(s) 178, 569
NruI TCGCGA 1 cut(s) 444
NsiI ATGCAT 2 cut(s) 403, 463
NspI RCATGY 2 cut(s) 337, 357
PaeI GCATGC 1 cut(s) 337
PagI TCATGA 1 cut(s) 607
PctI GAATGC 3 cut(s) 188, 403, 868
PfeI GAWTC 2 cut(s) 326, 1176
PkrI GCNGC 7 cut(s) 6, 379, 553, 904, 1189, 1221, 1224
PleI GAGTC 4 cut(s) 757, 883, 950, 986
PpsI GAGTC 4 cut(s) 757, 883, 950, 986
Psp1406I AACGTT 1 cut(s) 634
Psp6I CCWGG 2 cut(s) 912, 1082
PspGI CCWGG 2 cut(s) 912, 1082
PspPI GGNCC 1 cut(s) 667
RruI TCGCGA 1 cut(s) 444
RsaI GTAC 2 cut(s) 134, 1200
RsaNI GTAC 2 cut(s) 133, 1199
SaqAI TTAA 9 cut(s) 258, 438, 530, 537, 651, 774, 882, 959, 999
SatI GCNGC 7 cut(s) 5, 378, 552, 903, 1188, 1220, 1223
Sau3AI GATC 2 cut(s) 55, 541
Sau96I GGNCC 1 cut(s) 667
ScaI AGTACT 1 cut(s) 134
SchI GAGTC 4 cut(s) 757, 884, 951, 986
ScrFI CCNGG 2 cut(s) 914, 1084
SfaNI GCATC 7 cut(s) 175, 352, 364, 470, 601, 799, 1199
SfcI CTRYAG 1 cut(s) 546
SinI GGWCC 1 cut(s) 667
SmlI CTYRAG 5 cut(s) 413, 468, 563, 881, 1231
SmoI CTYRAG 5 cut(s) 413, 468, 563, 881, 1231
SphI GCATGC 1 cut(s) 337
SsiI CCGC 5 cut(s) 551, 703, 725, 1040, 1188
SspMI CTAG 4 cut(s) 35, 819, 1211, 1268
StyD4I CCNGG 2 cut(s) 912, 1082
StyI CCWWGG 1 cut(s) 670
TaaI ACNGT 7 cut(s) 46, 174, 483, 506, 832, 1068, 1147
TaiI ACGT 1 cut(s) 637
TaqI TCGA 2 cut(s) 158, 963
TatI WGTACW 1 cut(s) 132
TauI GCSGC 2 cut(s) 554, 1190
TfiI GAWTC 2 cut(s) 326, 1176
Tru1I TTAA 9 cut(s) 258, 438, 530, 537, 651, 774, 882, 959, 999
Tru9I TTAA 9 cut(s) 258, 438, 530, 537, 651, 774, 882, 959, 999
TseFI GTSAC 2 cut(s) 178, 569
TseI GCWGC 5 cut(s) 4, 377, 902, 1219, 1222
Tsp45I GTSAC 2 cut(s) 178, 569
TspDTI ATGAA 3 cut(s) 294, 596, 645
TspGWI ACGGA 2 cut(s) 298, 1188
Vha464I CTTAAG 1 cut(s) 881
VpaK11BI GGWCC 1 cut(s) 667
XapI RAATTY 5 cut(s) 253, 385, 696, 1206, 1280
XceI RCATGY 2 cut(s) 337, 357
XspI CTAG 4 cut(s) 35, 819, 1211, 1268
ZrmI AGTACT 1 cut(s) 134
Zsp2I ATGCAT 2 cut(s) 403, 463
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.