MD10G1203000.v1.1

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0013520
Physical Location & Seq
Reverse (-)
30085855 .. 30087072
1218 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1203000.v1.1.491

Sequence Viewer

Length: 1218 bp
ATGCATAGGAGAACCACGTTACCGCGCTTTCACCAGCTTCCCAAAACCTCTCATCTGTGCGAAACGGACGCATACGCATCCCCTTCTCCAATCCCATGTCAGAGATTAGGTTCTATGTGGGTCCCGGTGAAGCACAAATCCAGCGGAGGAAGAAGACCCAAGAAGAAGGTATACCACAGAGTCCACGAACTCGACAAAGTCATGGACTTGCAGAAAAAGCCCGCCTTGATTTTACAGCTGAAATCAATTATTCAGTCGCAGAAACACCAGGCTCTCCTTCTCAGGGACCTCGAGAAAGAAGTTGGGTTTGTTCAGAAGTGGAACTTCATGGCCGTCATAGAAAAATACCCTGCAATATTCTCTGTCGGCGGCGGCAACAGAACGCCCCCTTTTGTTGCACTCACTGAGAAAGCTGAGAAAGTTGCTGGTGAAGAAGCTTCAGCCAAGGATCTGCTGGAACCCATGTTGGTTAAAAACTTGAGGAAGTTGTTGATGTTGTCAGTTGATTGCCGCGTTCCACTCGAAAACATTGAATTCATCGAATCCGAAATGGGTTTGCCGAATGATTTCAAGAAATCATTGATTCCGAAGTACCCTGAATTCTTTTCGGTTAAGGATGTCTATGAAAAAGATTTTCTGCATTTAGAGAATTGGGATTCTTCACTAGCAGTCACGGCTCGTGAGGAAACTTTAGCCAATGAAGGAATTTCTGCGGCTTATGGATTGGGGAAGAAGGTTAGGATATCCAAAGATGGTAATTTTCTAGGTCCACATGCGTTTCAAATGAATTTTCCTGCTGGTTTTAGGCCAAACACTAGTTATCTTGAGCAACTTGAAAGGTGGCAGAAAATGGAATTCCCTTCTCCATATTTGAATGCCAGGAGATTTGACATTGCTGATCCCAAATCGAGGAAGCGGGTGGTGGCGGTGCTTCATGAGCTACTCAGCTTGACAATGCAGAAGAGGATGACATCTGCTCAACTGGAAGCATTTCATTCAGAGTATTTCTTACCCTCTAAATTGCTCCTTTGTCTGATAAAGCATCCTGGTATCTTTTACATAACTAATAAAGGTGCAAGGAGCACTGTTTTTCTTAAAGAAGCTTATGATGGATTGAATTTGATAAACAAATGTCCCCTGTTGTCATTTTATGATAAATTCGTCGCGCTTAGCGGTAGGAGAGAGACCAATCCATGTAACGTTATGCATTCTTCATAG
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

46.32

Weight (kDa)

9.48

Isoelectric Point (pI)

49.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 59 - 394 2e-104 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)
AccI GTMKAC 1 cut(s) 171
AccII CGCG 3 cut(s) 25, 513, 1166
AclI AACGTT 1 cut(s) 1200
AclWI GGATC 2 cut(s) 456, 893
AcoI YGGCCR 1 cut(s) 330
AcsI RAATTY 7 cut(s) 533, 599, 705, 787, 854, 1117, 1157
AcuI CTGAAG 1 cut(s) 423
AfaI GTAC 1 cut(s) 593
AfiI CCNNNNNNNGG 2 cut(s) 283, 909
AgsI TTSAA 6 cut(s) 533, 571, 782, 836, 874, 1117
AhlI ACTAGT 1 cut(s) 815
AjnI CCWGG 3 cut(s) 267, 878, 1045
AluBI AGCT 7 cut(s) 37, 238, 413, 437, 940, 948, 1103
AluI AGCT 7 cut(s) 37, 238, 413, 437, 940, 948, 1103
Alw21I GWGCWC 1 cut(s) 1085
Alw26I GTCTC 1 cut(s) 1178
AlwI GGATC 2 cut(s) 456, 893
Ama87I CYCGRG 1 cut(s) 290
AoxI GGCC 2 cut(s) 330, 806
ApoI RAATTY 7 cut(s) 533, 599, 705, 787, 854, 1117, 1157
Asp700I GAANNNNTTC 2 cut(s) 566, 990
AspLEI GCGC 2 cut(s) 27, 1168
AspS9I GGNCC 3 cut(s) 121, 286, 767
AsuC2I CCSGG 1 cut(s) 125
AsuHPI GGTGA 3 cut(s) 23, 139, 440
AvaI CYCGRG 1 cut(s) 290
AvaII GGWCC 3 cut(s) 121, 286, 767
BarI GAAGNNNNNNTAC 2 cut(s) 155, 187
BauI CACGAG 1 cut(s) 678
BbsI GAAGAC 1 cut(s) 160
Bbv12I GWGCWC 1 cut(s) 1085
BccI CCATC 2 cut(s) 746, 1103
BceAI ACGGC 2 cut(s) 317, 690
BciT130I CCWGG 3 cut(s) 269, 880, 1047
BcnI CCSGG 1 cut(s) 125
BcoDI GTCTC 1 cut(s) 1178
BcuI ACTAGT 1 cut(s) 815
BfaI CTAG 3 cut(s) 665, 764, 816
BisI GCNGC 4 cut(s) 370, 373, 511, 714
BlpI GCTNAGC 1 cut(s) 1169
BlsI GCNGC 4 cut(s) 371, 374, 512, 715
Bme1390I CCNGG 4 cut(s) 125, 269, 880, 1047
Bme18I GGWCC 3 cut(s) 121, 286, 767
BmeT110I CYCGRG 1 cut(s) 290
BmgT120I GGNCC 3 cut(s) 121, 286, 767
BmiI GGNNCC 4 cut(s) 122, 123, 287, 459
BmrFI CCNGG 4 cut(s) 125, 269, 880, 1047
BmsI GCATC 2 cut(s) 86, 1051
BpiI GAAGAC 1 cut(s) 160
Bpu1102I GCTNAGC 1 cut(s) 1169
BpuEI CTTGAG 2 cut(s) 499, 845
BpuMI CCSGG 1 cut(s) 125
BsaI GGTCTC 1 cut(s) 1178
BsaJI CCNNGG 1 cut(s) 444
Bsc4I CCNNNNNNNGG 2 cut(s) 283, 909
Bse1I ACTGG 1 cut(s) 987
Bse3DI GCAATG 1 cut(s) 891
BseBI CCWGG 3 cut(s) 269, 880, 1047
BseDI CCNNGG 1 cut(s) 444
BseGI GGATG 4 cut(s) 77, 622, 972, 1042
BseLI CCNNNNNNNGG 2 cut(s) 283, 909
BseMI GCAATG 1 cut(s) 891
BseMII CTCAG 4 cut(s) 295, 396, 405, 958
BseNI ACTGG 1 cut(s) 987
Bsh1236I CGCG 3 cut(s) 25, 513, 1166
BshFI GGCC 2 cut(s) 332, 808
BsiHKAI GWGCWC 1 cut(s) 1085
BsiHKCI CYCGRG 1 cut(s) 290
BsiSI CCGG 1 cut(s) 125
BslFI GGGAC 3 cut(s) 107, 299, 1119
BslI CCNNNNNNNGG 2 cut(s) 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 1 cut(s) 1085
Bsp143I GATC 2 cut(s) 448, 898
Bsp1720I GCTNAGC 1 cut(s) 1169
BspANI GGCC 2 cut(s) 332, 808
BspCNI CTCAG 4 cut(s) 294, 397, 406, 957
BspFNI CGCG 3 cut(s) 25, 513, 1166
BspHI TCATGA 1 cut(s) 934
BspLI GGNNCC 4 cut(s) 122, 123, 287, 459
BspPI GGATC 2 cut(s) 456, 893
BspTNI GGTCTC 1 cut(s) 1178
BsrDI GCAATG 1 cut(s) 891
BsrI ACTGG 1 cut(s) 987
BssECI CCNNGG 1 cut(s) 444
BssMI GATC 2 cut(s) 448, 898
BssNAI GTATAC 1 cut(s) 172
BssSI CACGAG 1 cut(s) 678
BssT1I CCWWGG 1 cut(s) 444
Bst1107I GTATAC 1 cut(s) 172
Bst2BI CACGAG 1 cut(s) 678
Bst2UI CCWGG 3 cut(s) 269, 880, 1047
Bst4CI ACNGT 1 cut(s) 1087
Bst6I CTCTTC 1 cut(s) 956
BstC8I GCNNGC 1 cut(s) 222
BstDEI CTNAG 5 cut(s) 281, 405, 414, 944, 1169
BstF5I GGATG 4 cut(s) 77, 622, 972, 1042
BstFNI CGCG 3 cut(s) 25, 513, 1166
BstHHI GCGC 2 cut(s) 27, 1168
BstKTI GATC 2 cut(s) 451, 901
BstMAI GTCTC 1 cut(s) 1178
BstMBI GATC 2 cut(s) 448, 898
BstMWI GCNNNNNNNGC 3 cut(s) 217, 674, 937
BstNI CCWGG 3 cut(s) 269, 880, 1047
BstNSI RCATGY 1 cut(s) 776
BstSCI CCNGG 4 cut(s) 123, 267, 878, 1045
BstUI CGCG 3 cut(s) 25, 513, 1166
BstV2I GAAGAC 1 cut(s) 160
BstX2I RGATCY 1 cut(s) 448
BstYI RGATCY 1 cut(s) 448
BstZ17I GTATAC 1 cut(s) 172
BsuRI GGCC 2 cut(s) 332, 808
BtsCI GGATG 4 cut(s) 77, 622, 972, 1042
BtsIMutI CAGTG 2 cut(s) 402, 1083
Cac8I GCNNGC 1 cut(s) 222
CciI TCATGA 1 cut(s) 934
CfoI GCGC 2 cut(s) 27, 1168
Cfr13I GGNCC 3 cut(s) 121, 286, 767
CseI GACGC 1 cut(s) 77
Csp6I GTAC 1 cut(s) 592
CviAII CATG 7 cut(s) 96, 202, 328, 463, 773, 935, 1194
CviQI GTAC 1 cut(s) 592
DdeI CTNAG 5 cut(s) 281, 405, 414, 944, 1169
DpnI GATC 2 cut(s) 450, 900
DpnII GATC 2 cut(s) 448, 898
EaeI YGGCCR 1 cut(s) 330
Eam1104I CTCTTC 1 cut(s) 956
EarI CTCTTC 1 cut(s) 956
Eco130I CCWWGG 1 cut(s) 444
Eco31I GGTCTC 1 cut(s) 1178
Eco32I GATATC 1 cut(s) 744
Eco47I GGWCC 3 cut(s) 121, 286, 767
Eco57I CTGAAG 1 cut(s) 423
Eco88I CYCGRG 1 cut(s) 290
EcoO109I RGGNCCY 2 cut(s) 121, 286
EcoRI GAATTC 3 cut(s) 533, 599, 854
EcoRII CCWGG 3 cut(s) 267, 878, 1045
EcoRV GATATC 1 cut(s) 744
EcoT14I CCWWGG 1 cut(s) 444
EcoT22I ATGCAT 2 cut(s) 6, 1209
ErhI CCWWGG 1 cut(s) 444
FaeI CATG 7 cut(s) 99, 205, 331, 466, 776, 938, 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, 462, 772, 934, 1193
FauI CCCGC 2 cut(s) 229, 909
FblI GTMKAC 1 cut(s) 171
Fnu4HI GCNGC 4 cut(s) 370, 373, 511, 714
FokI GGATG 4 cut(s) 64, 629, 979, 1029
Fsp4HI GCNGC 4 cut(s) 370, 373, 511, 714
FspBI CTAG 3 cut(s) 665, 764, 816
GlaI GCGC 2 cut(s) 26, 1167
GluI GCNGC 4 cut(s) 370, 373, 511, 714
HaeIII GGCC 2 cut(s) 332, 808
HapII CCGG 1 cut(s) 125
HgaI GACGC 1 cut(s) 77
HhaI GCGC 2 cut(s) 27, 1168
Hin1II CATG 7 cut(s) 99, 205, 331, 466, 776, 938, 1197
Hin6I GCGC 2 cut(s) 25, 1166
HinP1I GCGC 2 cut(s) 25, 1166
HindIII AAGCTT 2 cut(s) 435, 1101
HinfI GANTC 4 cut(s) 180, 542, 583, 656
HpaII CCGG 1 cut(s) 125
HphI GGTGA 3 cut(s) 23, 139, 440
Hpy166II GTNNAC 3 cut(s) 172, 184, 770
Hpy188I TCNGA 6 cut(s) 102, 315, 547, 588, 1000, 1035
Hpy188III TCNNGA 5 cut(s) 292, 571, 680, 824, 935
Hpy8I GTNNAC 3 cut(s) 172, 184, 770
Hpy99I CGWCG 1 cut(s) 1166
HpyAV CCTTC 6 cut(s) 93, 160, 287, 695, 727, 870
HpyCH4III ACNGT 1 cut(s) 1087
HpyCH4IV ACGT 2 cut(s) 17, 1200
HpyCH4V TGCA 8 cut(s) 4, 211, 353, 398, 640, 958, 1076, 1207
HpyF10VI GCNNNNNNNGC 3 cut(s) 217, 674, 937
HpyF3I CTNAG 5 cut(s) 281, 405, 414, 944, 1169
HpySE526I ACGT 2 cut(s) 17, 1200
Hsp92II CATG 7 cut(s) 99, 205, 331, 466, 776, 938, 1197
HspAI GCGC 2 cut(s) 25, 1166
KflI GGGWCCC 1 cut(s) 121
Kzo9I GATC 2 cut(s) 448, 898
LmnI GCTCC 2 cut(s) 1029, 1080
LweI GCATC 2 cut(s) 86, 1051
MaeI CTAG 3 cut(s) 665, 764, 816
MaeII ACGT 2 cut(s) 17, 1200
MaeIII GTNAC 3 cut(s) 18, 670, 1196
MalI GATC 2 cut(s) 450, 900
MboI GATC 2 cut(s) 448, 898
MboII GAAGA 8 cut(s) 162, 165, 175, 443, 651, 742, 973, 1203
MflI RGATCY 1 cut(s) 448
MhlI GDGCHC 1 cut(s) 1085
MlyI GAGTC 1 cut(s) 189
MnlI CCTC 8 cut(s) 58, 140, 299, 474, 676, 903, 957, 1024
Mph1103I ATGCAT 2 cut(s) 6, 1209
MroXI GAANNNNTTC 2 cut(s) 566, 990
MseI TTAA 3 cut(s) 471, 612, 1095
MspA1I CMGCKG 2 cut(s) 144, 238
MspI CCGG 1 cut(s) 125
MspR9I CCNGG 4 cut(s) 125, 269, 880, 1047
Mva1269I GAATGC 2 cut(s) 880, 1207
MvaI CCWGG 3 cut(s) 269, 880, 1047
MvnI CGCG 3 cut(s) 25, 513, 1166
MwoI GCNNNNNNNGC 3 cut(s) 217, 674, 937
NciI CCSGG 1 cut(s) 125
NdeII GATC 2 cut(s) 448, 898
NlaIII CATG 7 cut(s) 99, 205, 331, 466, 776, 938, 1197
NlaIV GGNNCC 4 cut(s) 122, 123, 287, 459
NmuCI GTSAC 1 cut(s) 670
NsiI ATGCAT 2 cut(s) 6, 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 2 cut(s) 566, 990
PfeI GAWTC 3 cut(s) 542, 583, 656
PflFI GACNNNGTC 1 cut(s) 197
PkrI GCNGC 4 cut(s) 371, 374, 512, 715
PleI GAGTC 1 cut(s) 188
PpsI GAGTC 1 cut(s) 188
PpuMI RGGWCCY 2 cut(s) 121, 286
Psp1406I AACGTT 1 cut(s) 1200
Psp5II RGGWCCY 2 cut(s) 121, 286
Psp6I CCWGG 3 cut(s) 267, 878, 1045
PspGI CCWGG 3 cut(s) 267, 878, 1045
PspN4I GGNNCC 4 cut(s) 122, 123, 287, 459
PspPI GGNCC 3 cut(s) 121, 286, 767
PspPPI RGGWCCY 2 cut(s) 121, 286
PsuI RGATCY 1 cut(s) 448
PsyI GACNNNGTC 1 cut(s) 197
PvuII CAGCTG 1 cut(s) 238
RsaI GTAC 1 cut(s) 593
RsaNI GTAC 1 cut(s) 592
SaqAI TTAA 3 cut(s) 471, 612, 1095
SatI GCNGC 4 cut(s) 370, 373, 511, 714
Sau3AI GATC 2 cut(s) 448, 898
Sau96I GGNCC 3 cut(s) 121, 286, 767
SchI GAGTC 1 cut(s) 189
ScrFI CCNGG 4 cut(s) 125, 269, 880, 1047
SduI GDGCHC 1 cut(s) 1085
SfaNI GCATC 2 cut(s) 86, 1051
Sfr274I CTCGAG 1 cut(s) 290
SinI GGWCC 3 cut(s) 121, 286, 767
SlaI CTCGAG 1 cut(s) 290
SmlI CTYRAG 3 cut(s) 290, 478, 824
SmoI CTYRAG 3 cut(s) 290, 478, 824
SpeI ACTAGT 1 cut(s) 815
SspI AATATT 1 cut(s) 357
SspMI CTAG 3 cut(s) 665, 764, 816
StyD4I CCNGG 4 cut(s) 123, 267, 878, 1045
StyI CCWWGG 1 cut(s) 444
TaaI ACNGT 1 cut(s) 1087
TaiI ACGT 2 cut(s) 20, 1203
TaqI TCGA 5 cut(s) 192, 291, 522, 540, 908
TauI GCSGC 4 cut(s) 372, 375, 513, 716
TfiI GAWTC 3 cut(s) 542, 583, 656
Tru1I TTAA 3 cut(s) 471, 612, 1095
Tru9I TTAA 3 cut(s) 471, 612, 1095
TscAI CASTG 2 cut(s) 409, 1090
TseFI GTSAC 1 cut(s) 670
Tsp45I GTSAC 1 cut(s) 670
TspDTI ATGAA 8 cut(s) 316, 526, 639, 714, 800, 923, 983, 1203
TspGWI ACGGA 1 cut(s) 80
TspRI CASTG 2 cut(s) 409, 1090
Tth111I GACNNNGTC 1 cut(s) 197
VpaK11BI GGWCC 3 cut(s) 121, 286, 767
XapI RAATTY 7 cut(s) 533, 599, 705, 787, 854, 1117, 1157
XceI RCATGY 1 cut(s) 776
XcmI CCANNNNNNNNNTGG 1 cut(s) 451
XhoI CTCGAG 1 cut(s) 290
XmiI GTMKAC 1 cut(s) 171
XmnI GAANNNNTTC 2 cut(s) 566, 990
XspI CTAG 3 cut(s) 665, 764, 816
Zsp2I ATGCAT 2 cut(s) 6, 1209
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.