Rh5DG140400

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000525
Physical Location & Seq
Reverse (-)
14335617 .. 14345841
10225 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG140400.1

Sequence Viewer

Length: 516 bp
ATGCAGACACCACTTTTTATTTGCAGAAAAAGCTCTTCAGCTTCTTTAACTGAACCTGTGGGGGCTCTACTTGAAGCCCGAGAAGAAGACACCTGGGCTTCAATAAGGAAACTTCTTAATCGTGAGACTGAATCTTCTCTCAAGATTTTATCGGTTAGAGCTGCTATTCGCTTGGATGAGAAGCCTGATAATATTGAAAAAGTTATGATTTCTTCTCTAATTGATGGAACTGGTACTGCTTTGTCCTCGCAAGATACGAGAACGAGAGCTTTAGCAGATCCTCTTGCAACAAGCACTTGGGAGGAGGTTTCTCCAAAGGATACTCTGATTACACCAGTGCAATGCAAATCACTGTGGAGACAGTTCAAATCAGAAACAGACATTCTCGATTGTCTGAAGAAGATGAAGAAACTGGTAATTCCACGACAGGATACAGAGAAAGAATCAAAAGTATCCTATATCCTATATCCCAGCTTCAATCTTCTATTTTCAAATGGGTGCAACTTGGAGGATTAG
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

171

Amino Acids

19.24

Weight (kDa)

5.7

Isoelectric Point (pI)

37.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 44 - 128 2.8e-19 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)
AclWI GGATC 1 cut(s) 272
AcuI CTGAAG 2 cut(s) 21, 416
AfaI GTAC 1 cut(s) 235
AgsI TTSAA 6 cut(s) 74, 102, 197, 367, 478, 492
AjnI CCWGG 1 cut(s) 92
AluBI AGCT 5 cut(s) 33, 41, 161, 269, 474
AluI AGCT 5 cut(s) 33, 41, 161, 269, 474
Alw26I GTCTC 2 cut(s) 119, 352
AlwI GGATC 1 cut(s) 272
Ama87I CYCGRG 1 cut(s) 78
ApeKI GCWGC 1 cut(s) 161
AvaI CYCGRG 1 cut(s) 78
BanII GRGCYC 1 cut(s) 67
BbsI GAAGAC 1 cut(s) 93
BbvI GCAGC 1 cut(s) 148
BccI CCATC 1 cut(s) 218
BciT130I CCWGG 1 cut(s) 94
BciVI GTATCC 3 cut(s) 313, 424, 463
BcoDI GTCTC 2 cut(s) 119, 352
BfuI GTATCC 3 cut(s) 313, 424, 463
BisI GCNGC 1 cut(s) 162
BlsI GCNGC 1 cut(s) 163
Bme1390I CCNGG 1 cut(s) 94
BmeT110I CYCGRG 1 cut(s) 78
BmrFI CCNGG 1 cut(s) 94
BpiI GAAGAC 1 cut(s) 93
BpuEI CTTGAG 1 cut(s) 125
BsaJI CCNNGG 1 cut(s) 93
Bse1I ACTGG 3 cut(s) 235, 335, 417
Bse3DI GCAATG 1 cut(s) 347
BseBI CCWGG 1 cut(s) 94
BseDI CCNNGG 1 cut(s) 93
BseGI GGATG 1 cut(s) 181
BseMI GCAATG 1 cut(s) 347
BseNI ACTGG 3 cut(s) 235, 335, 417
BseRI GAGGAG 1 cut(s) 317
BseXI GCAGC 1 cut(s) 148
BseYI CCCAGC 1 cut(s) 470
BsiHKCI CYCGRG 1 cut(s) 78
BsmAI GTCTC 2 cut(s) 119, 352
BsoBI CYCGRG 1 cut(s) 78
Bsp1286I GDGCHC 1 cut(s) 67
Bsp143I GATC 1 cut(s) 277
BspPI GGATC 1 cut(s) 272
BspQI GCTCTTC 1 cut(s) 40
BsrDI GCAATG 1 cut(s) 347
BsrI ACTGG 3 cut(s) 235, 335, 417
BssECI CCNNGG 1 cut(s) 93
BssMI GATC 1 cut(s) 277
Bst2UI CCWGG 1 cut(s) 94
Bst4CI ACNGT 2 cut(s) 354, 363
Bst6I CTCTTC 1 cut(s) 40
BstF5I GGATG 1 cut(s) 181
BstKTI GATC 1 cut(s) 280
BstMAI GTCTC 2 cut(s) 119, 352
BstMBI GATC 1 cut(s) 277
BstMWI GCNNNNNNNGC 1 cut(s) 30
BstNI CCWGG 1 cut(s) 94
BstSCI CCNGG 1 cut(s) 92
BstV1I GCAGC 1 cut(s) 148
BstV2I GAAGAC 1 cut(s) 93
BstX2I RGATCY 1 cut(s) 277
BstYI RGATCY 1 cut(s) 277
BsuI GTATCC 3 cut(s) 313, 424, 463
BtsCI GGATG 1 cut(s) 181
BtsIMutI CAGTG 2 cut(s) 342, 350
Csp6I GTAC 1 cut(s) 234
CviJI RGCY 9 cut(s) 33, 41, 65, 77, 98, 161, 184, 269, 474
CviKI_1 RGCY 9 cut(s) 33, 41, 65, 77, 98, 161, 184, 269, 474
CviQI GTAC 1 cut(s) 234
DpnI GATC 1 cut(s) 279
DpnII GATC 1 cut(s) 277
Eam1104I CTCTTC 1 cut(s) 40
EarI CTCTTC 1 cut(s) 40
Eco24I GRGCYC 1 cut(s) 67
Eco57I CTGAAG 2 cut(s) 21, 416
Eco88I CYCGRG 1 cut(s) 78
EcoRII CCWGG 1 cut(s) 92
EcoT38I GRGCYC 1 cut(s) 67
FaiI YATR 3 cut(s) 206, 459, 466
Fnu4HI GCNGC 1 cut(s) 162
FokI GGATG 1 cut(s) 188
FriOI GRGCYC 1 cut(s) 67
Fsp4HI GCNGC 1 cut(s) 162
GluI GCNGC 1 cut(s) 162
GsaI CCCAGC 1 cut(s) 474
HinfI GANTC 2 cut(s) 131, 443
Hpy188I TCNGA 3 cut(s) 327, 373, 396
Hpy188III TCNNGA 3 cut(s) 122, 142, 386
HpyCH4III ACNGT 2 cut(s) 354, 363
HpyCH4V TGCA 6 cut(s) 4, 24, 287, 340, 345, 501
HpyF10VI GCNNNNNNNGC 1 cut(s) 30
Kzo9I GATC 1 cut(s) 277
LguI GCTCTTC 1 cut(s) 40
LpnPI CCDG 9 cut(s) 69, 79, 106, 198, 216, 348, 398, 413, 484
Lsp1109I GCAGC 1 cut(s) 148
MalI GATC 1 cut(s) 279
MboI GATC 1 cut(s) 277
MboII GAAGA 9 cut(s) 27, 95, 98, 126, 204, 409, 412, 418, 473
MflI RGATCY 1 cut(s) 277
MhlI GDGCHC 1 cut(s) 67
MluCI AATT 2 cut(s) 219, 417
MnlI CCTC 5 cut(s) 256, 291, 295, 298, 502
MseI TTAA 2 cut(s) 47, 117
MspR9I CCNGG 1 cut(s) 94
MvaI CCWGG 1 cut(s) 94
MwoI GCNNNNNNNGC 1 cut(s) 30
NdeII GATC 1 cut(s) 277
PciSI GCTCTTC 1 cut(s) 40
PcsI WCGNNNNNNNCGW 1 cut(s) 254
PfeI GAWTC 2 cut(s) 131, 443
PkrI GCNGC 1 cut(s) 163
Psp6I CCWGG 1 cut(s) 92
PspFI CCCAGC 1 cut(s) 470
PspGI CCWGG 1 cut(s) 92
PsuI RGATCY 1 cut(s) 277
RsaI GTAC 1 cut(s) 235
RsaNI GTAC 1 cut(s) 234
SapI GCTCTTC 1 cut(s) 40
SaqAI TTAA 2 cut(s) 47, 117
SatI GCNGC 1 cut(s) 162
Sau3AI GATC 1 cut(s) 277
ScrFI CCNGG 1 cut(s) 94
SduI GDGCHC 1 cut(s) 67
SetI ASST 8 cut(s) 35, 43, 58, 95, 163, 271, 309, 476
SmlI CTYRAG 1 cut(s) 140
SmoI CTYRAG 1 cut(s) 140
Sse9I AATT 2 cut(s) 219, 417
SspI AATATT 1 cut(s) 193
StyD4I CCNGG 1 cut(s) 92
TaaI ACNGT 2 cut(s) 354, 363
TaqI TCGA 1 cut(s) 387
TasI AATT 2 cut(s) 219, 417
TfiI GAWTC 2 cut(s) 131, 443
Tru1I TTAA 2 cut(s) 47, 117
Tru9I TTAA 2 cut(s) 47, 117
TscAI CASTG 2 cut(s) 342, 357
TseI GCWGC 1 cut(s) 161
TspDTI ATGAA 1 cut(s) 419
TspRI CASTG 2 cut(s) 342, 357
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.