MD03G1247800.v1.1

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0017626
Physical Location & Seq
Reverse (-)
33502521 .. 33503762
1242 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1247800.v1.1.491

Sequence Viewer

Length: 1242 bp
ATGTCCTCTTCTTCCCATGAAATTGTCCTCATCAGCTCCCCTGACGGCCCGATTATCGCCTACGATGCTTCCTCGGGCACTGCTCTAGCACAGTTCACAGGCAGCAGGTCCCCGCGTCGAGGTCTCACCATTGTTGGGAAGCCTTACATTGCTGCCTCACACGTATCTCCCACCACTGGTTCTGGTTCAATCCACCTTTACAACTGGTGTTCTTCATCTGCCTTGCATAACTTGCAAGTTCCGGAACCCGTTGCCCCCCTCGCCGCCATGTCTGACGGGGCGTACCTCTTTGCCGGCGGCCTGTCAGGGAGTGTTCATACATTGTCCATCCCGTCTGGGGATGTGCTCAAGTCATTGGCTGTGCATAACAAACCCGTGTCCTGCCTCGGGATCAGCGACGACGAGTCGCTCCTGATTTCTGGCAGTGATGATGGAAGCATTGTTGTTGTTCCTATCTTCCAGCTTGTGGCGGCCTCAGGATATGTATTATACGATAATGTGGAAGACCTGGTGTTGCATAGGTTTTCTGCTCATTCGGATTCGGTGACTGCCGTTGTTTCTGGTGTGGGATTGTACACCTCCCAGGTTATTTCGTGCTCATTGGATGGCACATGTAAATTCTGGAGCCTCTTGCGCGCGGCGCTCCTGCTTACGGTTGTGTTTCCGTGCGCTATTTCCGGTATTGCATTAAACCCAAGAGAACCCGAGTTCTATGCTGCAGGATCAGATGGTTCAGTATACAAAGGATTATGGAGAACTGGAAAGAGGCAGCTTGTAATGCAAGGCAAGGACTTGATCACCTGGAGTCCGAAGCACGACGGGGGAGTTGTATCTGTGGTGATGGTGAACGAGGGAAGGAATTTGTTATCGGCTTCGGAAGACGGGAGTGTCTGGGTTTGGCAAGTTGATGCAGGACAGGTGGTTATGGTTCTCGCTAACGAGATGGGGAGCATTAGTGATCTGGTGGCAGCCACGGGCACAAACTACAGCAAAGGGCATGATTTCAGCGCGAGCAACAGGGGTTATCGAAATGGGAGTTGCGAATTTGGGTTAACTGGAAAAGAACTGACGAGTATGCCGATAAAGATGTTAAAAATGGACGAGATGTTGAAGGTGGCAGCAAGGGATAGAAGCAGAGCGATTGACATGCTCGAATCTGCCATCGGAATGTATGAGAGGCTCTTGGAACTCATCCTCAAGGAAGCCAAGAAAAGTAGCAGCAACAACAAACAACGGTCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
WD40

Protein Analysis

414

Amino Acids

43.8

Weight (kDa)

6.06

Isoelectric Point (pI)

38.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR5 PF25175 7 - 149 5.2e-06 WDR5 beta-propeller domain
Beta-prop_THOC3 PF25174 11 - 147 1.7e-06 THOC3 beta-propeller domain
WD40_CDC20-Fz PF24807 56 - 300 1e-08 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_2nd PF25172 58 - 149 5.1e-06 WDR3 second beta-propeller domain
Beta-prop_EML_2 PF23414 62 - 149 1.8e-06 Echinoderm microtubule-associated protein second beta-propeller
WD40_WDHD1_1st PF24817 62 - 212 3.9e-06 WDHD1 first WD40 domain
Beta-prop_WDR3_1st PF25173 81 - 245 3.8e-14 WDR3 first beta-propeller domain
NBCH_WD40 PF20426 87 - 224 8.5e-09 Neurobeachin beta propeller 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: OG0017626)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g17760
malus_domestica MD03G1247800.v1.1
prunus_persica Prupe.4G156700_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0029551
rosa_laevigata RLG00000033178
rosa_multiflora Rmu_sc0000210.1_g000015
rosa_roxburghii Rroxscaffold_1G00050390
rosa_samantha Rh5AG207000 Rh5BG205700 Rh5CG227800 Rh5DG209500
rosa_wichuraiana Rw5G018830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 887
Acc36I ACCTGC 1 cut(s) 96
AccB7I CCANNNNNTGG 1 cut(s) 466
AccI GTMKAC 1 cut(s) 738
AccII CGCG 4 cut(s) 115, 636, 638, 1010
AccIII TCCGGA 1 cut(s) 241
AciI CCGC 5 cut(s) 113, 264, 297, 470, 638
AclWI GGATC 2 cut(s) 398, 730
AcsI RAATTY 3 cut(s) 617, 859, 1043
AfaI GTAC 2 cut(s) 284, 575
AfiI CCNNNNNNNGG 7 cut(s) 119, 135, 176, 337, 387, 466, 652
AflIII ACRYGT 2 cut(s) 160, 611
AgsI TTSAA 2 cut(s) 189, 1111
AhdI GACNNNNNGTC 1 cut(s) 403
AjnI CCWGG 3 cut(s) 507, 582, 800
AluBI AGCT 3 cut(s) 36, 463, 772
AluI AGCT 3 cut(s) 36, 463, 772
Alw21I GWGCWC 2 cut(s) 348, 599
Alw26I GTCTC 1 cut(s) 128
AlwI GGATC 2 cut(s) 398, 730
Ama87I CYCGRG 3 cut(s) 73, 386, 704
Aor13HI TCCGGA 1 cut(s) 241
AoxI GGCC 3 cut(s) 46, 298, 471
ApeKI GCWGC 7 cut(s) 102, 152, 716, 769, 968, 1118, 1218
ApoI RAATTY 3 cut(s) 617, 859, 1043
AspLEI GCGC 5 cut(s) 636, 638, 643, 671, 1010
AspS9I GGNCC 2 cut(s) 47, 108
AsuHPI GGTGA 5 cut(s) 118, 556, 790, 850, 856
AvaI CYCGRG 3 cut(s) 73, 386, 704
AvaII GGWCC 1 cut(s) 108
AxyI CCTNAGG 1 cut(s) 475
BaeGI GKGCMC 2 cut(s) 80, 980
BbsI GAAGAC 2 cut(s) 510, 885
Bbv12I GWGCWC 2 cut(s) 348, 599
BbvI GCAGC 7 cut(s) 114, 139, 703, 781, 980, 1130, 1230
BccI CCATC 7 cut(s) 335, 425, 599, 722, 835, 937, 1169
BceAI ACGGC 2 cut(s) 61, 536
BcgI CGANNNNNNTGC 4 cut(s) 695, 729, 1129, 1163
BciT130I CCWGG 3 cut(s) 509, 584, 802
BclI TGATCA 1 cut(s) 795
BcoDI GTCTC 1 cut(s) 128
BfaI CTAG 1 cut(s) 86
BfmI CTRYAG 2 cut(s) 717, 985
BfoI RGCGCY 1 cut(s) 644
BfuAI ACCTGC 1 cut(s) 96
Bme1390I CCNGG 3 cut(s) 509, 584, 802
Bme18I GGWCC 1 cut(s) 108
BmeRI GACNNNNNGTC 1 cut(s) 403
BmeT110I CYCGRG 3 cut(s) 73, 386, 704
BmgT120I GGNCC 2 cut(s) 47, 108
BmiI GGNNCC 3 cut(s) 110, 246, 626
BmrFI CCNGG 3 cut(s) 509, 584, 802
BmsI GCATC 2 cut(s) 55, 898
BpiI GAAGAC 2 cut(s) 510, 885
BpmI CTGGAG 2 cut(s) 643, 823
BpuEI CTTGAG 2 cut(s) 332, 1181
BsaAI YACGTR 1 cut(s) 163
BsaI GGTCTC 1 cut(s) 128
BsaJI CCNNGG 4 cut(s) 72, 385, 582, 972
BsaWI WCCGGW 2 cut(s) 241, 677
BsaXI ACNNNNNCTCC 2 cut(s) 940, 970
Bsc4I CCNNNNNNNGG 7 cut(s) 119, 135, 176, 337, 387, 466, 652
Bse118I RCCGGY 1 cut(s) 293
Bse1I ACTGG 4 cut(s) 181, 209, 763, 1060
Bse21I CCTNAGG 1 cut(s) 475
Bse3DI GCAATG 1 cut(s) 147
BseAI TCCGGA 1 cut(s) 241
BseBI CCWGG 3 cut(s) 509, 584, 802
BseDI CCNNGG 4 cut(s) 72, 385, 582, 972
BseGI GGATG 4 cut(s) 327, 346, 610, 1191
BseLI CCNNNNNNNGG 7 cut(s) 119, 135, 176, 337, 387, 466, 652
BseMI GCAATG 1 cut(s) 147
BseMII CTCAG 1 cut(s) 489
BseNI ACTGG 4 cut(s) 181, 209, 763, 1060
BsePI GCGCGC 1 cut(s) 634
BseSI GKGCMC 2 cut(s) 80, 980
BseXI GCAGC 7 cut(s) 114, 139, 703, 781, 980, 1130, 1230
Bsh1236I CGCG 4 cut(s) 115, 636, 638, 1010
BshFI GGCC 3 cut(s) 48, 300, 473
BsiHKAI GWGCWC 2 cut(s) 348, 599
BsiHKCI CYCGRG 3 cut(s) 73, 386, 704
BsiSI CCGG 3 cut(s) 242, 294, 678
BslFI GGGAC 1 cut(s) 94
BslI CCNNNNNNNGG 7 cut(s) 119, 135, 176, 337, 387, 466, 652
BsmAI GTCTC 1 cut(s) 128
BsmFI GGGAC 1 cut(s) 94
BsnI GGCC 3 cut(s) 48, 300, 473
Bso31I GGTCTC 1 cut(s) 128
BsoBI CYCGRG 3 cut(s) 73, 386, 704
Bsp1286I GDGCHC 4 cut(s) 80, 348, 599, 980
Bsp13I TCCGGA 1 cut(s) 241
Bsp1407I TGTACA 1 cut(s) 573
Bsp143I GATC 4 cut(s) 390, 722, 795, 958
BspACI CCGC 5 cut(s) 113, 264, 297, 470, 638
BspANI GGCC 3 cut(s) 48, 300, 473
BspCNI CTCAG 1 cut(s) 488
BspEI TCCGGA 1 cut(s) 241
BspFNI CGCG 4 cut(s) 115, 636, 638, 1010
BspHI TCATGA 1 cut(s) 1238
BspLI GGNNCC 3 cut(s) 110, 246, 626
BspMAI CTGCAG 1 cut(s) 721
BspMI ACCTGC 1 cut(s) 96
BspPI GGATC 2 cut(s) 398, 730
BspTNI GGTCTC 1 cut(s) 128
BsrDI GCAATG 1 cut(s) 147
BsrFI RCCGGY 1 cut(s) 293
BsrGI TGTACA 1 cut(s) 573
BsrI ACTGG 4 cut(s) 181, 209, 763, 1060
BssAI RCCGGY 1 cut(s) 293
BssECI CCNNGG 4 cut(s) 72, 385, 582, 972
BssHII GCGCGC 1 cut(s) 634
BssMI GATC 4 cut(s) 390, 722, 795, 958
BssNAI GTATAC 1 cut(s) 739
Bst1107I GTATAC 1 cut(s) 739
Bst2UI CCWGG 3 cut(s) 509, 584, 802
Bst4CI ACNGT 3 cut(s) 93, 655, 1236
Bst6I CTCTTC 1 cut(s) 13
BstAPI GCANNNNNTGC 1 cut(s) 232
BstAUI TGTACA 1 cut(s) 573
BstBAI YACGTR 1 cut(s) 163
BstC8I GCNNGC 3 cut(s) 295, 636, 1012
BstDEI CTNAG 1 cut(s) 475
BstDSI CCRYGG 1 cut(s) 972
BstF5I GGATG 4 cut(s) 327, 346, 610, 1191
BstFNI CGCG 4 cut(s) 115, 636, 638, 1010
BstH2I RGCGCY 1 cut(s) 644
BstHHI GCGC 5 cut(s) 636, 638, 643, 671, 1010
BstKTI GATC 4 cut(s) 393, 725, 798, 961
BstMAI GTCTC 1 cut(s) 128
BstMBI GATC 4 cut(s) 390, 722, 795, 958
BstMWI GCNNNNNNNGC 6 cut(s) 65, 232, 260, 633, 640, 778
BstNI CCWGG 3 cut(s) 509, 584, 802
BstNSI RCATGY 2 cut(s) 615, 1150
BstSCI CCNGG 3 cut(s) 507, 582, 800
BstSFI CTRYAG 2 cut(s) 717, 985
BstSLI GKGCMC 2 cut(s) 80, 980
BstUI CGCG 4 cut(s) 115, 636, 638, 1010
BstV1I GCAGC 7 cut(s) 114, 139, 703, 781, 980, 1130, 1230
BstV2I GAAGAC 2 cut(s) 510, 885
BstZ17I GTATAC 1 cut(s) 739
Bsu36I CCTNAGG 1 cut(s) 475
BsuRI GGCC 3 cut(s) 48, 300, 473
BtgI CCRYGG 1 cut(s) 972
BtsCI GGATG 4 cut(s) 327, 346, 610, 1191
BtsI GCAGTG 2 cut(s) 78, 430
BtsIMutI CAGTG 3 cut(s) 78, 174, 430
BveI ACCTGC 1 cut(s) 96
Cac8I GCNNGC 3 cut(s) 295, 636, 1012
CciI TCATGA 1 cut(s) 1238
CfoI GCGC 5 cut(s) 636, 638, 643, 671, 1010
Cfr10I RCCGGY 1 cut(s) 293
Cfr13I GGNCC 2 cut(s) 47, 108
CseI GACGC 1 cut(s) 104
CsiI ACCWGGT 1 cut(s) 507
Csp6I GTAC 2 cut(s) 283, 574
CviAII CATG 6 cut(s) 17, 268, 612, 998, 1147, 1239
CviQI GTAC 2 cut(s) 283, 574
DdeI CTNAG 1 cut(s) 475
DpnI GATC 4 cut(s) 392, 724, 797, 960
DpnII GATC 4 cut(s) 390, 722, 795, 958
DrdI GACNNNNNNGTC 1 cut(s) 887
DriI GACNNNNNGTC 1 cut(s) 403
DseDI GACNNNNNNGTC 1 cut(s) 887
Eam1104I CTCTTC 1 cut(s) 13
Eam1105I GACNNNNNGTC 1 cut(s) 403
EarI CTCTTC 1 cut(s) 13
Eco31I GGTCTC 1 cut(s) 128
Eco47I GGWCC 1 cut(s) 108
Eco81I CCTNAGG 1 cut(s) 475
Eco88I CYCGRG 3 cut(s) 73, 386, 704
EcoO109I RGGNCCY 1 cut(s) 108
EcoRII CCWGG 3 cut(s) 507, 582, 800
FaeI CATG 6 cut(s) 20, 271, 615, 1001, 1150, 1242
FaqI GGGAC 1 cut(s) 94
FatI CATG 6 cut(s) 16, 267, 611, 997, 1146, 1238
FauI CCCGC 1 cut(s) 120
FbaI TGATCA 1 cut(s) 795
FblI GTMKAC 1 cut(s) 738
FokI GGATG 4 cut(s) 314, 353, 617, 1178
FspBI CTAG 1 cut(s) 86
GlaI GCGC 5 cut(s) 635, 637, 642, 670, 1009
GsuI CTGGAG 2 cut(s) 643, 823
HaeII RGCGCY 1 cut(s) 644
HaeIII GGCC 3 cut(s) 48, 300, 473
HapII CCGG 3 cut(s) 242, 294, 678
HgaI GACGC 1 cut(s) 104
HhaI GCGC 5 cut(s) 636, 638, 643, 671, 1010
Hin1II CATG 6 cut(s) 20, 271, 615, 1001, 1150, 1242
Hin6I GCGC 5 cut(s) 634, 636, 641, 669, 1008
HinP1I GCGC 5 cut(s) 634, 636, 641, 669, 1008
HincII GTYRAC 1 cut(s) 1053
HindII GTYRAC 1 cut(s) 1053
HinfI GANTC 4 cut(s) 404, 539, 805, 1154
HpaI GTTAAC 1 cut(s) 1053
HpaII CCGG 3 cut(s) 242, 294, 678
HphI GGTGA 5 cut(s) 118, 556, 790, 850, 856
Hpy166II GTNNAC 5 cut(s) 96, 576, 739, 847, 1053
Hpy188I TCNGA 6 cut(s) 274, 538, 727, 810, 877, 1166
Hpy188III TCNNGA 6 cut(s) 242, 388, 412, 477, 622, 1239
Hpy8I GTNNAC 5 cut(s) 96, 576, 739, 847, 1053
Hpy99I CGWCG 4 cut(s) 120, 401, 404, 821
HpyAV CCTTC 2 cut(s) 849, 1105
HpyCH4III ACNGT 3 cut(s) 93, 655, 1236
HpyCH4IV ACGT 1 cut(s) 162
HpyCH4V TGCA 8 cut(s) 226, 235, 364, 517, 686, 719, 781, 911
HpyF10VI GCNNNNNNNGC 6 cut(s) 65, 232, 260, 633, 640, 778
HpyF3I CTNAG 1 cut(s) 475
HpySE526I ACGT 1 cut(s) 162
Hsp92II CATG 6 cut(s) 20, 271, 615, 1001, 1150, 1242
HspAI GCGC 5 cut(s) 634, 636, 641, 669, 1008
Kpn2I TCCGGA 1 cut(s) 241
KroI GCCGGC 1 cut(s) 293
KroNI GCCGGC 1 cut(s) 295
Ksp22I TGATCA 1 cut(s) 795
KspAI GTTAAC 1 cut(s) 1053
Kzo9I GATC 4 cut(s) 390, 722, 795, 958
LmnI GCTCC 5 cut(s) 41, 414, 624, 648, 948
Lsp1109I GCAGC 7 cut(s) 114, 139, 703, 781, 980, 1130, 1230
LweI GCATC 2 cut(s) 55, 898
MabI ACCWGGT 1 cut(s) 507
MaeI CTAG 1 cut(s) 86
MaeII ACGT 1 cut(s) 162
MaeIII GTNAC 1 cut(s) 544
MalI GATC 4 cut(s) 392, 724, 797, 960
MboI GATC 4 cut(s) 390, 722, 795, 958
MboII GAAGA 5 cut(s) 3, 204, 448, 515, 890
MhlI GDGCHC 4 cut(s) 80, 348, 599, 980
MluCI AATT 4 cut(s) 21, 617, 859, 1043
MlyI GAGTC 2 cut(s) 413, 814
MroI TCCGGA 1 cut(s) 241
MroNI GCCGGC 1 cut(s) 293
MseI TTAA 3 cut(s) 689, 1052, 1091
MslI CAYNNNNRTG 1 cut(s) 1166
MspI CCGG 3 cut(s) 242, 294, 678
MspR9I CCNGG 3 cut(s) 509, 584, 802
MteI GCGCNGCGC 1 cut(s) 639
MvaI CCWGG 3 cut(s) 509, 584, 802
MvnI CGCG 4 cut(s) 115, 636, 638, 1010
MwoI GCNNNNNNNGC 6 cut(s) 65, 232, 260, 633, 640, 778
NaeI GCCGGC 1 cut(s) 295
NdeII GATC 4 cut(s) 390, 722, 795, 958
NgoMIV GCCGGC 1 cut(s) 293
NlaIII CATG 6 cut(s) 20, 271, 615, 1001, 1150, 1242
NlaIV GGNNCC 3 cut(s) 110, 246, 626
NmuCI GTSAC 1 cut(s) 544
NspI RCATGY 2 cut(s) 615, 1150
PagI TCATGA 1 cut(s) 1238
PauI GCGCGC 1 cut(s) 634
PciI ACATGT 1 cut(s) 611
PcsI WCGNNNNNNNCGW 2 cut(s) 393, 1076
PdiI GCCGGC 1 cut(s) 295
PfeI GAWTC 2 cut(s) 539, 1154
PflMI CCANNNNNTGG 1 cut(s) 466
PleI GAGTC 2 cut(s) 412, 813
PpsI GAGTC 2 cut(s) 412, 813
Ppu21I YACGTR 1 cut(s) 163
PpuMI RGGWCCY 1 cut(s) 108
PscI ACATGT 1 cut(s) 611
Psp5II RGGWCCY 1 cut(s) 108
Psp6I CCWGG 3 cut(s) 507, 582, 800
PspGI CCWGG 3 cut(s) 507, 582, 800
PspN4I GGNNCC 3 cut(s) 110, 246, 626
PspPI GGNCC 2 cut(s) 47, 108
PspPPI RGGWCCY 1 cut(s) 108
PstI CTGCAG 1 cut(s) 721
PteI GCGCGC 1 cut(s) 634
RsaI GTAC 2 cut(s) 284, 575
RsaNI GTAC 2 cut(s) 283, 574
RseI CAYNNNNRTG 1 cut(s) 1166
SaqAI TTAA 3 cut(s) 689, 1052, 1091
Sau3AI GATC 4 cut(s) 390, 722, 795, 958
Sau96I GGNCC 2 cut(s) 47, 108
SchI GAGTC 2 cut(s) 413, 814
ScrFI CCNGG 3 cut(s) 509, 584, 802
SduI GDGCHC 4 cut(s) 80, 348, 599, 980
SexAI ACCWGGT 1 cut(s) 507
SfaNI GCATC 2 cut(s) 55, 898
SfcI CTRYAG 2 cut(s) 717, 985
SinI GGWCC 1 cut(s) 108
SmiMI CAYNNNNRTG 1 cut(s) 1166
SmlI CTYRAG 2 cut(s) 347, 1196
SmoI CTYRAG 2 cut(s) 347, 1196
Sse9I AATT 4 cut(s) 21, 617, 859, 1043
SsiI CCGC 5 cut(s) 113, 264, 297, 470, 638
SspMI CTAG 1 cut(s) 86
StyD4I CCNGG 3 cut(s) 507, 582, 800
TaaI ACNGT 3 cut(s) 93, 655, 1236
TaiI ACGT 1 cut(s) 165
TaqI TCGA 3 cut(s) 118, 1027, 1152
TasI AATT 4 cut(s) 21, 617, 859, 1043
TatI WGTACW 1 cut(s) 573
TauI GCSGC 4 cut(s) 266, 300, 473, 641
TfiI GAWTC 2 cut(s) 539, 1154
Tru1I TTAA 3 cut(s) 689, 1052, 1091
Tru9I TTAA 3 cut(s) 689, 1052, 1091
TscAI CASTG 3 cut(s) 85, 181, 430
TseFI GTSAC 1 cut(s) 544
TseI GCWGC 7 cut(s) 102, 152, 716, 769, 968, 1118, 1218
Tsp45I GTSAC 1 cut(s) 544
TspDTI ATGAA 3 cut(s) 33, 204, 305
TspGWI ACGGA 1 cut(s) 654
TspRI CASTG 3 cut(s) 85, 181, 430
Van91I CCANNNNNTGG 1 cut(s) 466
VpaK11BI GGWCC 1 cut(s) 108
XapI RAATTY 3 cut(s) 617, 859, 1043
XceI RCATGY 2 cut(s) 615, 1150
XmiI GTMKAC 1 cut(s) 738
XspI CTAG 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.