MD05G1258000.v1.1

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0000525
Physical Location & Seq
Forward (+)
39425456 .. 39427274
1819 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1258000.v1.1.491

Sequence Viewer

Length: 546 bp
ATGTGGGATGCAGTTTCAAAGCCCCAAGCCCACAAAAAGTCACCGTTCACTGTGTTTTTTAATGTACAAGTAGTTGCTTTGTCCAATTATCTAGAGAAGGAGGAGACGTTAAAGGAGGAGGTTGCTCAACTGAGGCAGCGCTTTGTCAATTCCATTTCTCCAGGAGGCCTTGTTGGTGATAGGAAGGGCGTTGTCCCTGCCTCAGGATTTTCTCTTAGTACACAGGAGATGTGGAGAGTAATCAAACTGAACAAGGACCTGGACCTTCCCGCTCACAAGGTTATGGTTGCCACTGTGCGGTGTGAAGAGATTTCCACCGATATATTCAAACAGTTGATCGAAGATAAATCTGTCTACATTACGTACATTACCATGCTTAGACACCTACGTTCTAAAGCACTTGGAGAGTTTAAAGTGAGATTGGAGCAGTCATTAAAGGAAGGAAGTGGGTCATTTAATTCATCTGCTCAGAACTGTATACAGTCTTCCATGCACGATTTTGACCAAGAATGTAAAGGTAATAGGATTTTTCGATCTAATTTATAA
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

182

Amino Acids

20.56

Weight (kDa)

8.97

Isoelectric Point (pI)

52.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RHD3_GTPase PF05879 1 - 90 1.8e-28 Root hair defective 3 GTP-binding protein (RHD3) GTPase domain
Sey1_3HB PF20428 115 - 174 4.3e-07 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)
AanI TTATAA 1 cut(s) 544
AccBSI CCGCTC 1 cut(s) 272
AccI GTMKAC 2 cut(s) 354, 478
AciI CCGC 2 cut(s) 270, 298
AfaI GTAC 3 cut(s) 66, 220, 365
AfeI AGCGCT 1 cut(s) 140
AfiI CCNNNNNNNGG 2 cut(s) 203, 297
AgsI TTSAA 2 cut(s) 18, 328
AjnI CCWGG 2 cut(s) 160, 258
Alw26I GTCTC 1 cut(s) 98
Aor51HI AGCGCT 1 cut(s) 140
AoxI GGCC 1 cut(s) 166
ApeKI GCWGC 1 cut(s) 136
AspLEI GCGC 1 cut(s) 141
AspS9I GGNCC 2 cut(s) 256, 262
AsuHPI GGTGA 2 cut(s) 33, 188
AvaII GGWCC 2 cut(s) 256, 262
AxyI CCTNAGG 1 cut(s) 202
BarI GAAGNNNNNNTAC 2 cut(s) 469, 501
BbsI GAAGAC 1 cut(s) 477
BbvI GCAGC 1 cut(s) 148
BciT130I CCWGG 2 cut(s) 162, 260
BcoDI GTCTC 1 cut(s) 98
BfaI CTAG 1 cut(s) 92
BfoI RGCGCY 1 cut(s) 142
BisI GCNGC 1 cut(s) 137
BlsI GCNGC 1 cut(s) 138
Bme1390I CCNGG 2 cut(s) 162, 260
Bme18I GGWCC 2 cut(s) 256, 262
BmgT120I GGNCC 2 cut(s) 256, 262
BmrFI CCNGG 2 cut(s) 162, 260
BpiI GAAGAC 1 cut(s) 477
BpmI CTGGAG 1 cut(s) 144
BsaAI YACGTR 1 cut(s) 363
BsaXI ACNNNNNCTCC 4 cut(s) 92, 122, 156, 186
Bsc4I CCNNNNNNNGG 2 cut(s) 203, 297
Bse21I CCTNAGG 1 cut(s) 202
BseBI CCWGG 2 cut(s) 162, 260
BseGI GGATG 1 cut(s) 13
BseLI CCNNNNNNNGG 2 cut(s) 203, 297
BseMII CTCAG 3 cut(s) 122, 216, 482
BseRI GAGGAG 2 cut(s) 116, 131
BseXI GCAGC 1 cut(s) 148
BshFI GGCC 1 cut(s) 168
BslFI GGGAC 1 cut(s) 179
BslI CCNNNNNNNGG 2 cut(s) 203, 297
BsmAI GTCTC 1 cut(s) 98
BsmBI CGTCTC 1 cut(s) 98
BsmFI GGGAC 1 cut(s) 179
BsnI GGCC 1 cut(s) 168
Bsp1407I TGTACA 1 cut(s) 64
Bsp143I GATC 2 cut(s) 336, 533
BspACI CCGC 2 cut(s) 270, 298
BspANI GGCC 1 cut(s) 168
BspCNI CTCAG 3 cut(s) 123, 215, 481
BsrBI CCGCTC 1 cut(s) 272
BsrGI TGTACA 1 cut(s) 64
BssMI GATC 2 cut(s) 336, 533
BssNAI GTATAC 1 cut(s) 479
Bst1107I GTATAC 1 cut(s) 479
Bst2UI CCWGG 2 cut(s) 162, 260
Bst4CI ACNGT 6 cut(s) 45, 52, 295, 333, 476, 483
Bst6I CTCTTC 1 cut(s) 300
BstAUI TGTACA 1 cut(s) 64
BstBAI YACGTR 1 cut(s) 363
BstDEI CTNAG 5 cut(s) 131, 202, 215, 377, 468
BstENI CCTNNNNNAGG 1 cut(s) 201
BstF5I GGATG 1 cut(s) 13
BstH2I RGCGCY 1 cut(s) 142
BstHHI GCGC 1 cut(s) 141
BstKTI GATC 2 cut(s) 339, 536
BstMAI GTCTC 1 cut(s) 98
BstMBI GATC 2 cut(s) 336, 533
BstNI CCWGG 2 cut(s) 162, 260
BstSCI CCNGG 2 cut(s) 160, 258
BstSNI TACGTA 1 cut(s) 363
BstV1I GCAGC 1 cut(s) 148
BstV2I GAAGAC 1 cut(s) 477
BstZ17I GTATAC 1 cut(s) 479
Bsu36I CCTNAGG 1 cut(s) 202
BsuRI GGCC 1 cut(s) 168
BtsCI GGATG 1 cut(s) 13
BtsIMutI CAGTG 2 cut(s) 48, 291
CfoI GCGC 1 cut(s) 141
Cfr13I GGNCC 2 cut(s) 256, 262
Csp6I GTAC 3 cut(s) 65, 219, 364
CviAII CATG 2 cut(s) 373, 490
CviJI RGCY 3 cut(s) 22, 29, 168
CviKI_1 RGCY 3 cut(s) 22, 29, 168
CviQI GTAC 3 cut(s) 65, 219, 364
DdeI CTNAG 5 cut(s) 131, 202, 215, 377, 468
DpnI GATC 2 cut(s) 338, 535
DpnII GATC 2 cut(s) 336, 533
DraI TTTAAA 1 cut(s) 412
Eam1104I CTCTTC 1 cut(s) 300
EarI CTCTTC 1 cut(s) 300
Eco105I TACGTA 1 cut(s) 363
Eco147I AGGCCT 1 cut(s) 168
Eco47I GGWCC 2 cut(s) 256, 262
Eco47III AGCGCT 1 cut(s) 140
Eco81I CCTNAGG 1 cut(s) 202
EcoNI CCTNNNNNAGG 1 cut(s) 201
EcoO109I RGGNCCY 1 cut(s) 256
EcoRII CCWGG 2 cut(s) 160, 258
Esp3I CGTCTC 1 cut(s) 98
FaeI CATG 2 cut(s) 376, 493
FaiI YATR 6 cut(s) 284, 323, 374, 479, 491, 544
FaqI GGGAC 1 cut(s) 179
FatI CATG 2 cut(s) 372, 489
FauI CCCGC 1 cut(s) 277
FblI GTMKAC 2 cut(s) 354, 478
Fnu4HI GCNGC 1 cut(s) 137
FokI GGATG 1 cut(s) 20
Fsp4HI GCNGC 1 cut(s) 137
FspBI CTAG 1 cut(s) 92
GlaI GCGC 1 cut(s) 140
GluI GCNGC 1 cut(s) 137
GsuI CTGGAG 1 cut(s) 144
HaeII RGCGCY 1 cut(s) 142
HaeIII GGCC 1 cut(s) 168
HhaI GCGC 1 cut(s) 141
Hin1II CATG 2 cut(s) 376, 493
Hin6I GCGC 1 cut(s) 139
HinP1I GCGC 1 cut(s) 139
HphI GGTGA 2 cut(s) 33, 188
Hpy166II GTNNAC 4 cut(s) 48, 221, 355, 479
Hpy188I TCNGA 1 cut(s) 471
Hpy188III TCNNGA 2 cut(s) 92, 204
Hpy8I GTNNAC 4 cut(s) 48, 221, 355, 479
HpyAV CCTTC 4 cut(s) 91, 178, 275, 434
HpyCH4III ACNGT 6 cut(s) 45, 52, 295, 333, 476, 483
HpyCH4IV ACGT 3 cut(s) 107, 362, 388
HpyCH4V TGCA 2 cut(s) 11, 493
HpyF3I CTNAG 5 cut(s) 131, 202, 215, 377, 468
HpySE526I ACGT 3 cut(s) 107, 362, 388
Hsp92II CATG 2 cut(s) 376, 493
HspAI GCGC 1 cut(s) 139
Kzo9I GATC 2 cut(s) 336, 533
LmnI GCTCC 1 cut(s) 424
LpnPI CCDG 7 cut(s) 147, 174, 189, 209, 210, 245, 272
Lsp1109I GCAGC 1 cut(s) 148
MaeI CTAG 1 cut(s) 92
MaeII ACGT 3 cut(s) 107, 362, 388
MaeIII GTNAC 1 cut(s) 39
MalI GATC 2 cut(s) 338, 535
MbiI CCGCTC 1 cut(s) 272
MboI GATC 2 cut(s) 336, 533
MboII GAAGA 3 cut(s) 317, 353, 477
MluCI AATT 4 cut(s) 85, 148, 457, 538
MnlI CCTC 6 cut(s) 94, 109, 112, 126, 158, 211
MseI TTAA 5 cut(s) 60, 110, 411, 434, 456
MslI CAYNNNNRTG 1 cut(s) 371
MspR9I CCNGG 2 cut(s) 162, 260
MvaI CCWGG 2 cut(s) 162, 260
NdeII GATC 2 cut(s) 336, 533
NlaIII CATG 2 cut(s) 376, 493
NmuCI GTSAC 1 cut(s) 39
PceI AGGCCT 1 cut(s) 168
PfoI TCCNGGA 1 cut(s) 160
PkrI GCNGC 1 cut(s) 138
Ppu21I YACGTR 1 cut(s) 363
PpuMI RGGWCCY 1 cut(s) 256
PsiI TTATAA 1 cut(s) 544
Psp5II RGGWCCY 1 cut(s) 256
Psp6I CCWGG 2 cut(s) 160, 258
PspGI CCWGG 2 cut(s) 160, 258
PspPI GGNCC 2 cut(s) 256, 262
PspPPI RGGWCCY 1 cut(s) 256
RsaI GTAC 3 cut(s) 66, 220, 365
RsaNI GTAC 3 cut(s) 65, 219, 364
RseI CAYNNNNRTG 1 cut(s) 371
SaqAI TTAA 5 cut(s) 60, 110, 411, 434, 456
SatI GCNGC 1 cut(s) 137
Sau3AI GATC 2 cut(s) 336, 533
Sau96I GGNCC 2 cut(s) 256, 262
ScrFI CCNGG 2 cut(s) 162, 260
SetI ASST 9 cut(s) 110, 123, 261, 267, 282, 365, 387, 391, 520
SinI GGWCC 2 cut(s) 256, 262
SmiMI CAYNNNNRTG 1 cut(s) 371
SnaBI TACGTA 1 cut(s) 363
Sse9I AATT 4 cut(s) 85, 148, 457, 538
SseBI AGGCCT 1 cut(s) 168
SsiI CCGC 2 cut(s) 270, 298
SspMI CTAG 1 cut(s) 92
StuI AGGCCT 1 cut(s) 168
StyD4I CCNGG 2 cut(s) 160, 258
TaaI ACNGT 6 cut(s) 45, 52, 295, 333, 476, 483
TaiI ACGT 3 cut(s) 110, 365, 391
TaqI TCGA 2 cut(s) 339, 532
TasI AATT 4 cut(s) 85, 148, 457, 538
TatI WGTACW 2 cut(s) 64, 218
Tru1I TTAA 5 cut(s) 60, 110, 411, 434, 456
Tru9I TTAA 5 cut(s) 60, 110, 411, 434, 456
TscAI CASTG 2 cut(s) 55, 298
TseFI GTSAC 1 cut(s) 39
TseI GCWGC 1 cut(s) 136
Tsp45I GTSAC 1 cut(s) 39
TspDTI ATGAA 1 cut(s) 450
TspRI CASTG 2 cut(s) 55, 298
VpaK11BI GGWCC 2 cut(s) 256, 262
XagI CCTNNNNNAGG 1 cut(s) 201
XbaI TCTAGA 1 cut(s) 91
XmiI GTMKAC 2 cut(s) 354, 478
XspI CTAG 1 cut(s) 92
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.