MD05G1220600.v1.1

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0013520
Physical Location & Seq
Reverse (-)
35332610 .. 35333827
1218 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1220600.v1.1.491

Sequence Viewer

Length: 1218 bp
ATGCATTGGAGAACCACGGTACCGCGCTTTCATCAGCTTTTCAAAACCTCTCATCTGTGCAAAACAGAAGCATACGCATCGTCTTCTCCAATCCCATGTCAGAGATTAGCGTCTATGTGGGTCCCAGTGAAGCACAAATCCAGCGGAGGGAGTAGACCCAAGAAGAAAGTATACCACAGAGTCCACGAACTCGACAAAGTCATGGACTTGCAGAAAAAGCCCGTCTTGATTTTACAGCTGAAATCCATTATCCAGTCGCAGAAACACCAATCTCTCCTTCTCAGGGACCTCGAGAAAGAAGTTGGGTTTGTTCAGAAGTGGAACTTCATGGCCGTCATAGAAAAATACCCTTCAGTATTCTACGTTGGCGGCGGCAACAGAACGCCCCCTTTTGTTACACTCACTGAAAAAGCTGAGAAAGTTGCTGCTGAAGAAGCTTCAGCTAAGGATTTGATGGAACCCAATTTGGTTAAAAACTTGAAGAAGCTGTTGATGTTGTCAGTTGACTGCCGGGTTCCTCTCGAAAACATTGAATTCATCGAATCCGAATTGGGTTTGCCAAATGATTTCAAGAAATCATTGATTCCGAAGTATCCTGAATTCTTTTCGGTTAAAGATGTCAGTGGCAGAGATTATCTGCATTTGGAGAATTGGGATTCTTCACTAGCAGTGACAGCTCGTGAGGAACATTTGGTTGGTGAAGGAATTTCCGCTGCTTGTGGATTCGGGAAGAAGGTTAGGATATCGAAGGATGGTAATTTTCAAGGTCCACATGCATTTCGAGTGAATTTTCCTGCTGGTTTTAGGCCAAACACTAGTTATCTTGAGCAACTTGAAAGGTGGCAGAAAACGGAATTCCCTTCTCCATATTTGAATGCCAGGAGATTTGACATTGCTGATCCCAAAGCGAGGAAGCGAGTGGTGGCGGTGCTTCATGAGCTCCTCAGCTTGACAATGCAGAAGAGGATGACATCTGCTCAACTGGAAGCATTTCATGCAGAGTATTTCTTACCCTCTAAATTGGTCCTTTGTCTGATAAAGCATCCTGGTATCTTTTACATAACTAATAAAGGTGCAAGGAGCACTGTTTTTCTTAAAGAAGCTTATGATGGGTTGAATTTGATGAGCAAATGTCCCCTGTTATCATTTCACGATAAATTTGTAGCGCTTAGCGGTAGAAGAGAGACCAATCCATGTAATGTGATGCATTCTTCATAG
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
PORR

Protein Analysis

406

Amino Acids

46.23

Weight (kDa)

9.54

Isoelectric Point (pI)

46.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 59 - 394 9e-106 Plant organelle RNA recognition 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: OG0013520)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G79120 AT1G79120
fragaria_vesca FvH4_5g24801
malus_domestica MD05G1220600.v1.1 MD10G1203000.v1.1
prunus_persica Prupe.4G139300_v2.0.a1
pyrus_communis pycom05g20410 pycom10g17360
rosa_chinensis RchiOBHm_Chr7g0215141
rosa_laevigata RLG00000002690
rosa_multiflora Rmu_sc0005476.1_g000003
rosa_roxburghii Rroxscaffold_3G00244590
rosa_rugosa Rorug07G0150200
rosa_samantha Rh7BG278800 Rh7CG307000 Rh7DG290600 Rh7DG397500
rosa_wichuraiana Rw7G024490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 19
AccB1I GGYRCC 1 cut(s) 19
AccI GTMKAC 2 cut(s) 154, 171
AccII CGCG 1 cut(s) 25
AciI CCGC 7 cut(s) 23, 144, 369, 372, 711, 926, 1173
AclWI GGATC 1 cut(s) 893
AcoI YGGCCR 1 cut(s) 330
AcsI RAATTY 7 cut(s) 533, 599, 705, 787, 854, 1117, 1157
AcuI CTGAAG 3 cut(s) 336, 423, 450
AfaI GTAC 1 cut(s) 21
AfeI AGCGCT 1 cut(s) 1167
AfiI CCNNNNNNNGG 3 cut(s) 147, 283, 909
AgsI TTSAA 8 cut(s) 43, 481, 533, 571, 764, 836, 874, 1117
AhlI ACTAGT 1 cut(s) 815
AjnI CCWGG 2 cut(s) 878, 1045
AjuI GAANNNNNNNTTGG 4 cut(s) 261, 293, 678, 710
Alw21I GWGCWC 2 cut(s) 942, 1085
Alw26I GTCTC 1 cut(s) 1178
AlwI GGATC 1 cut(s) 893
Ama87I CYCGRG 1 cut(s) 290
Aor51HI AGCGCT 1 cut(s) 1167
AoxI GGCC 2 cut(s) 330, 806
ApeKI GCWGC 2 cut(s) 425, 713
ApoI RAATTY 7 cut(s) 533, 599, 705, 787, 854, 1117, 1157
Asp700I GAANNNNTTC 1 cut(s) 990
Asp718I GGTACC 1 cut(s) 19
AspLEI GCGC 2 cut(s) 27, 1168
AspS9I GGNCC 4 cut(s) 121, 286, 767, 1024
AsuC2I CCSGG 1 cut(s) 512
AsuHPI GGTGA 1 cut(s) 710
AvaI CYCGRG 1 cut(s) 290
AvaII GGWCC 4 cut(s) 121, 286, 767, 1024
BaeI ACNNNNGTAYC 1 cut(s) 36
BanI GGYRCC 1 cut(s) 19
BanII GRGCYC 1 cut(s) 942
BarI GAAGNNNNNNTAC 2 cut(s) 155, 187
BauI CACGAG 1 cut(s) 678
BbsI GAAGAC 1 cut(s) 75
Bbv12I GWGCWC 2 cut(s) 942, 1085
BbvCI CCTCAGC 1 cut(s) 944
BbvI GCAGC 2 cut(s) 412, 700
BccI CCATC 3 cut(s) 448, 746, 1103
BceAI ACGGC 1 cut(s) 317
BcgI CGANNNNNNTGC 2 cut(s) 60, 94
BciT130I CCWGG 2 cut(s) 880, 1047
BciVI GTATCC 1 cut(s) 603
BcnI CCSGG 1 cut(s) 512
BcoDI GTCTC 1 cut(s) 1178
BcuI ACTAGT 1 cut(s) 815
BfaI CTAG 2 cut(s) 665, 816
BfoI RGCGCY 1 cut(s) 1169
BfuI GTATCC 1 cut(s) 603
BisI GCNGC 4 cut(s) 370, 373, 426, 714
BlpI GCTNAGC 1 cut(s) 1169
BlsI GCNGC 4 cut(s) 371, 374, 427, 715
Bme1390I CCNGG 3 cut(s) 512, 880, 1047
Bme18I GGWCC 4 cut(s) 121, 286, 767, 1024
BmeT110I CYCGRG 1 cut(s) 290
BmgT120I GGNCC 4 cut(s) 121, 286, 767, 1024
BmiI GGNNCC 6 cut(s) 21, 122, 123, 287, 459, 516
BmrFI CCNGG 3 cut(s) 512, 880, 1047
BmrI ACTGGG 1 cut(s) 119
BmsI GCATC 3 cut(s) 86, 1051, 1194
BmuI ACTGGG 1 cut(s) 119
BpiI GAAGAC 1 cut(s) 75
Bpu10I CCTNAGC 2 cut(s) 444, 944
Bpu1102I GCTNAGC 1 cut(s) 1169
BpuEI CTTGAG 1 cut(s) 845
BpuMI CCSGG 1 cut(s) 512
BsaI GGTCTC 1 cut(s) 1178
BsaJI CCNNGG 1 cut(s) 15
Bsc4I CCNNNNNNNGG 3 cut(s) 147, 283, 909
Bse1I ACTGG 3 cut(s) 125, 253, 987
Bse3DI GCAATG 1 cut(s) 891
BseBI CCWGG 2 cut(s) 880, 1047
BseDI CCNNGG 1 cut(s) 15
BseGI GGATG 3 cut(s) 757, 972, 1042
BseLI CCNNNNNNNGG 3 cut(s) 147, 283, 909
BseMI GCAATG 1 cut(s) 891
BseMII CTCAG 3 cut(s) 295, 405, 958
BseNI ACTGG 3 cut(s) 125, 253, 987
BseRI GAGGAG 1 cut(s) 932
BseXI GCAGC 2 cut(s) 412, 700
Bsh1236I CGCG 1 cut(s) 25
BshFI GGCC 2 cut(s) 332, 808
BshNI GGYRCC 1 cut(s) 19
BsiHKAI GWGCWC 2 cut(s) 942, 1085
BsiHKCI CYCGRG 1 cut(s) 290
BsiSI CCGG 1 cut(s) 511
BslFI GGGAC 3 cut(s) 107, 299, 1119
BslI CCNNNNNNNGG 3 cut(s) 147, 283, 909
BsmAI GTCTC 1 cut(s) 1178
BsmFI GGGAC 3 cut(s) 107, 299, 1119
BsmI GAATGC 2 cut(s) 880, 1207
BsnI GGCC 2 cut(s) 332, 808
Bso31I GGTCTC 1 cut(s) 1178
BsoBI CYCGRG 1 cut(s) 290
Bsp1286I GDGCHC 2 cut(s) 942, 1085
Bsp143I GATC 1 cut(s) 898
Bsp1720I GCTNAGC 1 cut(s) 1169
BspACI CCGC 7 cut(s) 23, 144, 369, 372, 711, 926, 1173
BspANI GGCC 2 cut(s) 332, 808
BspCNI CTCAG 3 cut(s) 294, 406, 957
BspFNI CGCG 1 cut(s) 25
BspHI TCATGA 1 cut(s) 934
BspLI GGNNCC 6 cut(s) 21, 122, 123, 287, 459, 516
BspPI GGATC 1 cut(s) 893
BspT107I GGYRCC 1 cut(s) 19
BspTNI GGTCTC 1 cut(s) 1178
BsrDI GCAATG 1 cut(s) 891
BsrI ACTGG 3 cut(s) 125, 253, 987
BssECI CCNNGG 1 cut(s) 15
BssMI GATC 1 cut(s) 898
BssNAI GTATAC 1 cut(s) 172
BssSI CACGAG 1 cut(s) 678
Bst1107I GTATAC 1 cut(s) 172
Bst2BI CACGAG 1 cut(s) 678
Bst2UI CCWGG 2 cut(s) 880, 1047
Bst4CI ACNGT 2 cut(s) 19, 1087
Bst6I CTCTTC 2 cut(s) 956, 1174
BstAPI GCANNNNNTGC 1 cut(s) 995
BstDEI CTNAG 5 cut(s) 281, 414, 444, 944, 1169
BstDSI CCRYGG 1 cut(s) 15
BstF5I GGATG 3 cut(s) 757, 972, 1042
BstFNI CGCG 1 cut(s) 25
BstH2I RGCGCY 1 cut(s) 1169
BstHHI GCGC 2 cut(s) 27, 1168
BstKTI GATC 1 cut(s) 901
BstMAI GTCTC 1 cut(s) 1178
BstMBI GATC 1 cut(s) 898
BstMWI GCNNNNNNNGC 5 cut(s) 217, 434, 674, 937, 995
BstNI CCWGG 2 cut(s) 880, 1047
BstNSI RCATGY 1 cut(s) 776
BstSCI CCNGG 3 cut(s) 510, 878, 1045
BstUI CGCG 1 cut(s) 25
BstV1I GCAGC 2 cut(s) 412, 700
BstV2I GAAGAC 1 cut(s) 75
BstZ17I GTATAC 1 cut(s) 172
BsuI GTATCC 1 cut(s) 603
BsuRI GGCC 2 cut(s) 332, 808
BtgI CCRYGG 1 cut(s) 15
BtsCI GGATG 3 cut(s) 757, 972, 1042
BtsI GCAGTG 1 cut(s) 675
BtsIMutI CAGTG 5 cut(s) 132, 402, 628, 675, 1083
CciI TCATGA 1 cut(s) 934
CfoI GCGC 2 cut(s) 27, 1168
Cfr13I GGNCC 4 cut(s) 121, 286, 767, 1024
CseI GACGC 1 cut(s) 99
Csp6I GTAC 1 cut(s) 20
CviAII CATG 7 cut(s) 96, 202, 328, 773, 935, 995, 1194
CviQI GTAC 1 cut(s) 20
DdeI CTNAG 5 cut(s) 281, 414, 444, 944, 1169
DpnI GATC 1 cut(s) 900
DpnII GATC 1 cut(s) 898
EaeI YGGCCR 1 cut(s) 330
Eam1104I CTCTTC 2 cut(s) 956, 1174
EarI CTCTTC 2 cut(s) 956, 1174
Ecl136II GAGCTC 1 cut(s) 940
Eco24I GRGCYC 1 cut(s) 942
Eco31I GGTCTC 1 cut(s) 1178
Eco32I GATATC 1 cut(s) 744
Eco47I GGWCC 4 cut(s) 121, 286, 767, 1024
Eco47III AGCGCT 1 cut(s) 1167
Eco53kI GAGCTC 1 cut(s) 940
Eco57I CTGAAG 3 cut(s) 336, 423, 450
Eco88I CYCGRG 1 cut(s) 290
EcoICRI GAGCTC 1 cut(s) 940
EcoO109I RGGNCCY 2 cut(s) 121, 286
EcoRI GAATTC 3 cut(s) 533, 599, 854
EcoRII CCWGG 2 cut(s) 878, 1045
EcoRV GATATC 1 cut(s) 744
EcoT22I ATGCAT 3 cut(s) 6, 778, 1209
EcoT38I GRGCYC 1 cut(s) 942
FaeI CATG 7 cut(s) 99, 205, 331, 776, 938, 998, 1197
FalI AAGNNNNNCTT 4 cut(s) 209, 241, 308, 340
FaqI GGGAC 3 cut(s) 107, 299, 1119
FatI CATG 7 cut(s) 95, 201, 327, 772, 934, 994, 1193
FblI GTMKAC 2 cut(s) 154, 171
Fnu4HI GCNGC 4 cut(s) 370, 373, 426, 714
FokI GGATG 3 cut(s) 764, 979, 1029
FriOI GRGCYC 1 cut(s) 942
Fsp4HI GCNGC 4 cut(s) 370, 373, 426, 714
FspBI CTAG 2 cut(s) 665, 816
GlaI GCGC 2 cut(s) 26, 1167
GluI GCNGC 4 cut(s) 370, 373, 426, 714
HaeII RGCGCY 1 cut(s) 1169
HaeIII GGCC 2 cut(s) 332, 808
HapII CCGG 1 cut(s) 511
HgaI GACGC 1 cut(s) 99
HhaI GCGC 2 cut(s) 27, 1168
Hin1II CATG 7 cut(s) 99, 205, 331, 776, 938, 998, 1197
Hin6I GCGC 2 cut(s) 25, 1166
HinP1I GCGC 2 cut(s) 25, 1166
HincII GTYRAC 1 cut(s) 505
HindII GTYRAC 1 cut(s) 505
HindIII AAGCTT 2 cut(s) 435, 1101
HinfI GANTC 5 cut(s) 180, 542, 583, 656, 723
HpaII CCGG 1 cut(s) 511
HphI GGTGA 1 cut(s) 710
Hpy166II GTNNAC 5 cut(s) 155, 172, 184, 505, 770
Hpy188I TCNGA 5 cut(s) 102, 315, 547, 588, 1035
Hpy8I GTNNAC 5 cut(s) 155, 172, 184, 505, 770
HpyAV CCTTC 6 cut(s) 287, 360, 695, 727, 742, 870
HpyCH4III ACNGT 2 cut(s) 19, 1087
HpyCH4IV ACGT 1 cut(s) 363
HpyCH4V TGCA 9 cut(s) 4, 60, 211, 640, 776, 958, 998, 1076, 1207
HpyF10VI GCNNNNNNNGC 5 cut(s) 217, 434, 674, 937, 995
HpyF3I CTNAG 5 cut(s) 281, 414, 444, 944, 1169
HpySE526I ACGT 1 cut(s) 363
Hsp92II CATG 7 cut(s) 99, 205, 331, 776, 938, 998, 1197
HspAI GCGC 2 cut(s) 25, 1166
KflI GGGWCCC 1 cut(s) 121
KpnI GGTACC 1 cut(s) 23
Kzo9I GATC 1 cut(s) 898
LmnI GCTCC 2 cut(s) 945, 1080
Lsp1109I GCAGC 2 cut(s) 412, 700
LweI GCATC 3 cut(s) 86, 1051, 1194
MaeI CTAG 2 cut(s) 665, 816
MaeII ACGT 1 cut(s) 363
MaeIII GTNAC 2 cut(s) 394, 670
MalI GATC 1 cut(s) 900
MboI GATC 1 cut(s) 898
MboII GAAGA 9 cut(s) 75, 175, 443, 493, 651, 742, 973, 1191, 1203
MhlI GDGCHC 2 cut(s) 942, 1085
MlyI GAGTC 1 cut(s) 189
MnlI CCTC 9 cut(s) 58, 140, 299, 528, 676, 903, 953, 957, 1024
Mph1103I ATGCAT 3 cut(s) 6, 778, 1209
MroXI GAANNNNTTC 1 cut(s) 990
MseI TTAA 3 cut(s) 471, 612, 1095
MspA1I CMGCKG 3 cut(s) 144, 238, 713
MspI CCGG 1 cut(s) 511
MspR9I CCNGG 3 cut(s) 512, 880, 1047
Mva1269I GAATGC 2 cut(s) 880, 1207
MvaI CCWGG 2 cut(s) 880, 1047
MvnI CGCG 1 cut(s) 25
MwoI GCNNNNNNNGC 5 cut(s) 217, 434, 674, 937, 995
NciI CCSGG 1 cut(s) 512
NdeII GATC 1 cut(s) 898
NlaIII CATG 7 cut(s) 99, 205, 331, 776, 938, 998, 1197
NlaIV GGNNCC 6 cut(s) 21, 122, 123, 287, 459, 516
NmuCI GTSAC 1 cut(s) 670
NsiI ATGCAT 3 cut(s) 6, 778, 1209
NspI RCATGY 1 cut(s) 776
PaeR7I CTCGAG 1 cut(s) 290
PagI TCATGA 1 cut(s) 934
PctI GAATGC 2 cut(s) 880, 1207
PdmI GAANNNNTTC 1 cut(s) 990
PfeI GAWTC 4 cut(s) 542, 583, 656, 723
PflFI GACNNNGTC 1 cut(s) 197
PkrI GCNGC 4 cut(s) 371, 374, 427, 715
PleI GAGTC 1 cut(s) 188
PpsI GAGTC 1 cut(s) 188
PpuMI RGGWCCY 2 cut(s) 121, 286
Psp124BI GAGCTC 1 cut(s) 942
Psp5II RGGWCCY 2 cut(s) 121, 286
Psp6I CCWGG 2 cut(s) 878, 1045
PspGI CCWGG 2 cut(s) 878, 1045
PspN4I GGNNCC 6 cut(s) 21, 122, 123, 287, 459, 516
PspPI GGNCC 4 cut(s) 121, 286, 767, 1024
PspPPI RGGWCCY 2 cut(s) 121, 286
PsyI GACNNNGTC 1 cut(s) 197
PvuII CAGCTG 1 cut(s) 238
RsaI GTAC 1 cut(s) 21
RsaNI GTAC 1 cut(s) 20
SacI GAGCTC 1 cut(s) 942
SaqAI TTAA 3 cut(s) 471, 612, 1095
SatI GCNGC 4 cut(s) 370, 373, 426, 714
Sau3AI GATC 1 cut(s) 898
Sau96I GGNCC 4 cut(s) 121, 286, 767, 1024
SchI GAGTC 1 cut(s) 189
ScrFI CCNGG 3 cut(s) 512, 880, 1047
SduI GDGCHC 2 cut(s) 942, 1085
SfaNI GCATC 3 cut(s) 86, 1051, 1194
Sfr274I CTCGAG 1 cut(s) 290
SinI GGWCC 4 cut(s) 121, 286, 767, 1024
SlaI CTCGAG 1 cut(s) 290
SmlI CTYRAG 2 cut(s) 290, 824
SmoI CTYRAG 2 cut(s) 290, 824
SpeI ACTAGT 1 cut(s) 815
SsiI CCGC 7 cut(s) 23, 144, 369, 372, 711, 926, 1173
SspMI CTAG 2 cut(s) 665, 816
SstI GAGCTC 1 cut(s) 942
StyD4I CCNGG 3 cut(s) 510, 878, 1045
TaaI ACNGT 2 cut(s) 19, 1087
TaiI ACGT 1 cut(s) 366
TaqI TCGA 6 cut(s) 192, 291, 522, 540, 746, 781
TauI GCSGC 2 cut(s) 372, 375
TfiI GAWTC 4 cut(s) 542, 583, 656, 723
Tru1I TTAA 3 cut(s) 471, 612, 1095
Tru9I TTAA 3 cut(s) 471, 612, 1095
TscAI CASTG 5 cut(s) 132, 409, 628, 675, 1090
TseFI GTSAC 1 cut(s) 670
TseI GCWGC 2 cut(s) 425, 713
Tsp45I GTSAC 1 cut(s) 670
TspDTI ATGAA 6 cut(s) 20, 316, 526, 923, 983, 1203
TspGWI ACGGA 1 cut(s) 866
TspRI CASTG 5 cut(s) 132, 409, 628, 675, 1090
Tth111I GACNNNGTC 1 cut(s) 197
VpaK11BI GGWCC 4 cut(s) 121, 286, 767, 1024
XapI RAATTY 7 cut(s) 533, 599, 705, 787, 854, 1117, 1157
XceI RCATGY 1 cut(s) 776
XhoI CTCGAG 1 cut(s) 290
XmiI GTMKAC 2 cut(s) 154, 171
XmnI GAANNNNTTC 1 cut(s) 990
XspI CTAG 2 cut(s) 665, 816
Zsp2I ATGCAT 3 cut(s) 6, 778, 1209
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.