MD00G1023300.v1.1

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr00
OG0000525
Physical Location & Seq
Forward (+)
3910733 .. 3913567
2835 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1023300.v1.1.491

Sequence Viewer

Length: 963 bp
ATGTTTTCACTGCAAGAAGCTGTTGAAACTGGTCCCGTACAAGGCTTTGGTAAAAGGCTCAGTTCCATTCTAGCCACCTATCTTTCCGAGAAGTATGACATGGAGGCCATCTACTTTGATGAACGTGTAAGGAACTCAAAACGACAACTGTTGGAGTCAAAAGCATTGGATTTTGTTTACCCTGCGTACTCGGCCATGCTCGGACACCTACGTTATAAAGCCCTTGAAGATTTTCAAGTGAGGCTGGAGCAATTGTTGAACAAAGATGAGGGATTTGCTTCATCTGTTCGTACCTGTGCTCAGTCTTCTATGCTTGAGTTCGAGAAAGGATGTGCAGATGTTGCCATACAACAAGCTAATTGGGATGCTTCAAAAGTCCGGGAAAAGCTTCGACGTGATATAGATGCACATGCATCATCGGTTCGTAGTGCAAAACTGGCAGAATTGAATTCCAACTATGAGAAAAAACTTTCTTCGTCTTTAAGTGGTCCTGTAGAAGCTTTACTCGAAACTGGTGCAAAAGACACCTGGGCTTCGATACGAAAACTACTTAATCATGAGACTGAAGTTGCAGTATCAGAGTTCTCAACTGCAGTTGCCAATTTTGAGTTGGACAACGAAATGGTTGCCAAAATGAAGCAACATTTGAAGGATTATGTGAGAAATGTGGTGGAGACAAAAGCAAGAGAAGAGGTTGGGAAAATTATGATCCACATGAAGGATCGCGATTCAATGCCTAGGGTTTGGACTGGGAACGAAGACATTAGAAGTATTACCAAGGATGCACGAACTGCGTCTTTGAAGCTTTTGTCGACCATGGCTGCCATTCTCTTGGATGAGAAGCCTGATAATATTGAAAATGTCCTCGTTTCTTCTCTGGTACTCAGGAAATTAAGGGAACACTACCTCAACCTACATGCTCCACTCACAAAGCTTCAACAAAAGAAAATTCAAAGAACTTAG
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

321

Amino Acids

36.36

Weight (kDa)

8.32

Isoelectric Point (pI)

38.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 15 - 294 1e-78 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) 216
AccI GTMKAC 1 cut(s) 812
AccII CGCG 1 cut(s) 726
AclWI GGATC 2 cut(s) 703, 729
AcoI YGGCCR 1 cut(s) 192
AcsI RAATTY 2 cut(s) 448, 948
AcuI CTGAAG 1 cut(s) 585
AfaI GTAC 4 cut(s) 39, 188, 292, 882
AfiI CCNNNNNNNGG 2 cut(s) 41, 718
AflIII ACRYGT 1 cut(s) 124
AjiI CACGTC 1 cut(s) 395
AjnI CCWGG 1 cut(s) 527
AluBI AGCT 6 cut(s) 20, 356, 388, 500, 805, 934
AluI AGCT 6 cut(s) 20, 356, 388, 500, 805, 934
Alw21I GWGCWC 1 cut(s) 301
Alw26I GTCTC 2 cut(s) 554, 668
AlwI GGATC 2 cut(s) 703, 729
AoxI GGCC 2 cut(s) 105, 192
ApeKI GCWGC 1 cut(s) 821
ApoI RAATTY 2 cut(s) 448, 948
Asp700I GAANNNNTTC 2 cut(s) 231, 387
AspA2I CCTAGG 1 cut(s) 737
AspS9I GGNCC 2 cut(s) 32, 488
AsuC2I CCSGG 1 cut(s) 380
AvaII GGWCC 2 cut(s) 32, 488
AvrII CCTAGG 1 cut(s) 737
BbsI GAAGAC 2 cut(s) 297, 765
Bbv12I GWGCWC 1 cut(s) 301
BbvI GCAGC 1 cut(s) 808
BccI CCATC 1 cut(s) 116
BcgI CGANNNNNNTGC 4 cut(s) 497, 531, 608, 642
BciT130I CCWGG 1 cut(s) 529
BcnI CCSGG 1 cut(s) 380
BcoDI GTCTC 2 cut(s) 554, 668
BfaI CTAG 2 cut(s) 71, 738
BfmI CTRYAG 2 cut(s) 492, 591
BisI GCNGC 1 cut(s) 822
BlnI CCTAGG 1 cut(s) 737
BlsI GCNGC 1 cut(s) 823
Bme1390I CCNGG 2 cut(s) 380, 529
Bme18I GGWCC 2 cut(s) 32, 488
BmgBI CACGTC 1 cut(s) 395
BmgT120I GGNCC 2 cut(s) 32, 488
BmiI GGNNCC 1 cut(s) 34
BmrFI CCNGG 2 cut(s) 380, 529
BmrI ACTGGG 1 cut(s) 759
BmsI GCATC 4 cut(s) 355, 394, 422, 772
BmuI ACTGGG 1 cut(s) 759
BpiI GAAGAC 2 cut(s) 297, 765
BpmI CTGGAG 1 cut(s) 266
BpuEI CTTGAG 1 cut(s) 335
BpuMI CCSGG 1 cut(s) 380
BsaJI CCNNGG 4 cut(s) 528, 737, 777, 816
BsaXI ACNNNNNCTCC 2 cut(s) 239, 269
Bsc4I CCNNNNNNNGG 2 cut(s) 41, 718
Bse1I ACTGG 4 cut(s) 34, 441, 517, 754
BseBI CCWGG 1 cut(s) 529
BseDI CCNNGG 4 cut(s) 528, 737, 777, 816
BseGI GGATG 4 cut(s) 335, 370, 787, 841
BseLI CCNNNNNNNGG 2 cut(s) 41, 718
BseMII CTCAG 3 cut(s) 73, 314, 898
BseNI ACTGG 4 cut(s) 34, 441, 517, 754
BseXI GCAGC 1 cut(s) 808
BsgI GTGCAG 1 cut(s) 354
Bsh1236I CGCG 1 cut(s) 726
BshFI GGCC 2 cut(s) 107, 194
BsiHKAI GWGCWC 1 cut(s) 301
BsiSI CCGG 1 cut(s) 379
BslFI GGGAC 1 cut(s) 18
BslI CCNNNNNNNGG 2 cut(s) 41, 718
BsmAI GTCTC 2 cut(s) 554, 668
BsmFI GGGAC 1 cut(s) 18
BsnI GGCC 2 cut(s) 107, 194
Bsp1286I GDGCHC 1 cut(s) 301
Bsp143I GATC 2 cut(s) 708, 721
Bsp19I CCATGG 1 cut(s) 816
Bsp68I TCGCGA 1 cut(s) 726
BspANI GGCC 2 cut(s) 107, 194
BspCNI CTCAG 3 cut(s) 72, 313, 897
BspFNI CGCG 1 cut(s) 726
BspHI TCATGA 1 cut(s) 556
BspLI GGNNCC 1 cut(s) 34
BspMAI CTGCAG 1 cut(s) 595
BspPI GGATC 2 cut(s) 703, 729
BsrI ACTGG 4 cut(s) 34, 441, 517, 754
BssECI CCNNGG 4 cut(s) 528, 737, 777, 816
BssMI GATC 2 cut(s) 708, 721
BssT1I CCWWGG 3 cut(s) 737, 777, 816
Bst2UI CCWGG 1 cut(s) 529
Bst4CI ACNGT 1 cut(s) 150
Bst6I CTCTTC 1 cut(s) 684
BstAPI GCANNNNNTGC 2 cut(s) 341, 791
BstDEI CTNAG 4 cut(s) 59, 300, 884, 960
BstDSI CCRYGG 1 cut(s) 816
BstF5I GGATG 4 cut(s) 335, 370, 787, 841
BstFNI CGCG 1 cut(s) 726
BstKTI GATC 2 cut(s) 711, 724
BstMAI GTCTC 2 cut(s) 554, 668
BstMBI GATC 2 cut(s) 708, 721
BstMWI GCNNNNNNNGC 4 cut(s) 191, 341, 437, 791
BstNI CCWGG 1 cut(s) 529
BstNSI RCATGY 2 cut(s) 413, 920
BstSCI CCNGG 2 cut(s) 378, 527
BstSFI CTRYAG 2 cut(s) 492, 591
BstUI CGCG 1 cut(s) 726
BstV1I GCAGC 1 cut(s) 808
BstV2I GAAGAC 2 cut(s) 297, 765
BstXI CCANNNNNNTGG 1 cut(s) 832
BsuRI GGCC 2 cut(s) 107, 194
BtgI CCRYGG 1 cut(s) 816
BtrI CACGTC 1 cut(s) 395
BtsCI GGATG 4 cut(s) 335, 370, 787, 841
BtsI GCAGTG 1 cut(s) 8
BtsIMutI CAGTG 1 cut(s) 8
BtuMI TCGCGA 1 cut(s) 726
CciI TCATGA 1 cut(s) 556
Cfr13I GGNCC 2 cut(s) 32, 488
CseI GACGC 1 cut(s) 783
Csp6I GTAC 4 cut(s) 38, 187, 291, 881
CviAII CATG 7 cut(s) 100, 196, 410, 557, 715, 817, 917
CviQI GTAC 4 cut(s) 38, 187, 291, 881
DdeI CTNAG 4 cut(s) 59, 300, 884, 960
DpnI GATC 2 cut(s) 710, 723
DpnII GATC 2 cut(s) 708, 721
EaeI YGGCCR 1 cut(s) 192
Eam1104I CTCTTC 1 cut(s) 684
EarI CTCTTC 1 cut(s) 684
Eco130I CCWWGG 3 cut(s) 737, 777, 816
Eco47I GGWCC 2 cut(s) 32, 488
Eco57I CTGAAG 1 cut(s) 585
EcoRI GAATTC 1 cut(s) 448
EcoRII CCWGG 1 cut(s) 527
EcoT14I CCWWGG 3 cut(s) 737, 777, 816
EcoT22I ATGCAT 1 cut(s) 415
ErhI CCWWGG 3 cut(s) 737, 777, 816
FaeI CATG 7 cut(s) 103, 199, 413, 560, 718, 820, 920
FaqI GGGAC 1 cut(s) 18
FatI CATG 7 cut(s) 99, 195, 409, 556, 714, 816, 916
FblI GTMKAC 1 cut(s) 812
Fnu4HI GCNGC 1 cut(s) 822
FokI GGATG 4 cut(s) 342, 377, 794, 848
Fsp4HI GCNGC 1 cut(s) 822
FspBI CTAG 2 cut(s) 71, 738
GluI GCNGC 1 cut(s) 822
GsuI CTGGAG 1 cut(s) 266
HaeIII GGCC 2 cut(s) 107, 194
HapII CCGG 1 cut(s) 379
HgaI GACGC 1 cut(s) 783
Hin1II CATG 7 cut(s) 103, 199, 413, 560, 718, 820, 920
HincII GTYRAC 1 cut(s) 813
HindII GTYRAC 1 cut(s) 813
HindIII AAGCTT 4 cut(s) 386, 498, 803, 932
HinfI GANTC 2 cut(s) 155, 728
HpaII CCGG 1 cut(s) 379
Hpy166II GTNNAC 2 cut(s) 178, 813
Hpy188I TCNGA 3 cut(s) 88, 203, 580
Hpy188III TCNNGA 4 cut(s) 322, 557, 725, 886
Hpy8I GTNNAC 2 cut(s) 178, 813
Hpy99I CGWCG 1 cut(s) 396
HpyAV CCTTC 2 cut(s) 643, 712
HpyCH4III ACNGT 1 cut(s) 150
HpyCH4IV ACGT 3 cut(s) 124, 211, 394
HpyCH4V TGCA 9 cut(s) 13, 335, 407, 413, 431, 518, 572, 593, 785
HpyF10VI GCNNNNNNNGC 4 cut(s) 191, 341, 437, 791
HpyF3I CTNAG 4 cut(s) 59, 300, 884, 960
HpySE526I ACGT 3 cut(s) 124, 211, 394
Hsp92II CATG 7 cut(s) 103, 199, 413, 560, 718, 820, 920
Kzo9I GATC 2 cut(s) 708, 721
LmnI GCTCC 2 cut(s) 247, 925
Lsp1109I GCAGC 1 cut(s) 808
LweI GCATC 4 cut(s) 355, 394, 422, 772
MaeI CTAG 2 cut(s) 71, 738
MaeII ACGT 3 cut(s) 124, 211, 394
MalI GATC 2 cut(s) 710, 723
MboI GATC 2 cut(s) 708, 721
MboII GAAGA 6 cut(s) 239, 297, 465, 701, 770, 864
MfeI CAATTG 1 cut(s) 251
MhlI GDGCHC 1 cut(s) 301
MluCI AATT 8 cut(s) 251, 358, 443, 448, 601, 702, 890, 948
MlyI GAGTC 1 cut(s) 164
MmeI TCCRAC 3 cut(s) 132, 477, 591
MnlI CCTC 6 cut(s) 97, 234, 262, 685, 875, 917
Mph1103I ATGCAT 1 cut(s) 415
MroXI GAANNNNTTC 2 cut(s) 231, 387
MseI TTAA 3 cut(s) 482, 552, 893
MspI CCGG 1 cut(s) 379
MspR9I CCNGG 2 cut(s) 380, 529
MunI CAATTG 1 cut(s) 251
MvaI CCWGG 1 cut(s) 529
MvnI CGCG 1 cut(s) 726
MwoI GCNNNNNNNGC 4 cut(s) 191, 341, 437, 791
NciI CCSGG 1 cut(s) 380
NcoI CCATGG 1 cut(s) 816
NdeII GATC 2 cut(s) 708, 721
NlaIII CATG 7 cut(s) 103, 199, 413, 560, 718, 820, 920
NlaIV GGNNCC 1 cut(s) 34
NmeAIII GCCGAG 1 cut(s) 170
NruI TCGCGA 1 cut(s) 726
NsiI ATGCAT 1 cut(s) 415
NspI RCATGY 2 cut(s) 413, 920
PagI TCATGA 1 cut(s) 556
PdmI GAANNNNTTC 2 cut(s) 231, 387
PfeI GAWTC 1 cut(s) 728
PfoI TCCNGGA 1 cut(s) 378
PkrI GCNGC 1 cut(s) 823
PleI GAGTC 1 cut(s) 163
PpsI GAGTC 1 cut(s) 163
PsiI TTATAA 1 cut(s) 216
Psp6I CCWGG 1 cut(s) 527
PspGI CCWGG 1 cut(s) 527
PspN4I GGNNCC 1 cut(s) 34
PspPI GGNCC 2 cut(s) 32, 488
PstI CTGCAG 1 cut(s) 595
RruI TCGCGA 1 cut(s) 726
RsaI GTAC 4 cut(s) 39, 188, 292, 882
RsaNI GTAC 4 cut(s) 38, 187, 291, 881
SalI GTCGAC 1 cut(s) 811
SaqAI TTAA 3 cut(s) 482, 552, 893
SatI GCNGC 1 cut(s) 822
Sau3AI GATC 2 cut(s) 708, 721
Sau96I GGNCC 2 cut(s) 32, 488
SchI GAGTC 1 cut(s) 164
ScrFI CCNGG 2 cut(s) 380, 529
SduI GDGCHC 1 cut(s) 301
SfaNI GCATC 4 cut(s) 355, 394, 422, 772
SfcI CTRYAG 2 cut(s) 492, 591
SinI GGWCC 2 cut(s) 32, 488
SmlI CTYRAG 1 cut(s) 314
SmoI CTYRAG 1 cut(s) 314
Sse9I AATT 8 cut(s) 251, 358, 443, 448, 601, 702, 890, 948
SspI AATATT 1 cut(s) 853
SspMI CTAG 2 cut(s) 71, 738
StyD4I CCNGG 2 cut(s) 378, 527
StyI CCWWGG 3 cut(s) 737, 777, 816
TaaI ACNGT 1 cut(s) 150
TaiI ACGT 3 cut(s) 127, 214, 397
TaqI TCGA 5 cut(s) 321, 391, 507, 536, 812
TasI AATT 8 cut(s) 251, 358, 443, 448, 601, 702, 890, 948
TfiI GAWTC 1 cut(s) 728
Tru1I TTAA 3 cut(s) 482, 552, 893
Tru9I TTAA 3 cut(s) 482, 552, 893
TscAI CASTG 1 cut(s) 15
TseI GCWGC 1 cut(s) 821
TspDTI ATGAA 4 cut(s) 135, 270, 650, 731
TspRI CASTG 1 cut(s) 15
VpaK11BI GGWCC 2 cut(s) 32, 488
XapI RAATTY 2 cut(s) 448, 948
XceI RCATGY 2 cut(s) 413, 920
XcmI CCANNNNNNNNNTGG 1 cut(s) 607
XmaJI CCTAGG 1 cut(s) 737
XmiI GTMKAC 1 cut(s) 812
XmnI GAANNNNTTC 2 cut(s) 231, 387
XspI CTAG 2 cut(s) 71, 738
Zsp2I ATGCAT 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.