MD05G1023500.v1.1

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0014573
Physical Location & Seq
Reverse (-)
3900911 .. 3902438
1528 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1023500.v1.1.491

Sequence Viewer

Length: 1224 bp
ATGGCTGCTACAGTGCATCAAAACCCAAGACTTGTTCAAAACTTTGCTCGGAATTTTTCTCTATGGTCAATGAAGAAGGACCCATATCTTGAATCTGCTCTGTCAAAAAATCGCCGATGGATAGTGAATAATCAAATAAAAAACATCATCCTTAGGTGTCCTGATCAGGTAGCAACAGTGACATTCATTCAGAAGAAGTTCAAGACCCTTGATCTTCAAGGAAAGGCTCTCAATTGGCTCAAAAAATACCCATGTTGCTTTCAAGTCTATTTGCAAGGCGATGAGTATTACTGCCAGCTAACTAAACGGATGATTTCTTTGGTAGAAGAAGAAGAATCTGTCAAAGATATGCAGGAACCTGTGTTTGTAGAGAGATTAGCAAAGTTGCTTATGATGAGCTCCAATCAAAGACTAAATGTTGTTAAGCTTAATGTACTGAGGCGGAACTTTGGTTTCCCAGATGACTATTTAATTAGACTTGTGCCAAAGTATTCTGATGTGTTTCGGATTGTTAATTATAGCGGGCGGCGGAGTTCCATGGAGATTGAGCTGGTGTCTTGGAATCCAGATTTGGCAGTTTCTGCTATAGAAGCTTCGGCTCACAAGCAAGGAACTGAGCCATGTTTCACATGCTCATTGCCTTCAACTTGGAGCAAGTCATGGGAAAGATTCCATGAATTTAATGCGACTCCTTATATATCACCTTACTTGGGCTCCACAGGCTTTGTGGAGGGATCAAAGGAGATGGAGAAGAGGACAGTGGCTTTGGTACATGAGTTGTTGTCATTGACTCTATGGAAGAAATCATCCATTATGAAGCTGGCACATTTTCGGAGGGAGTTCAGTTTGCCCGAGAAATTGAATGTTTTGCTGCTTAAGCACCCCGGCATATTCTATGTCTCAAATAAGTACCAGAACTATACTGTCCTTCTTAGAGAAGCTTATAATGGGCAAGAACTGGTTGATAAGGATCCACTTGTTGTTGTGAAGGAGAAATTTGGGGAACTTATGCAGGAGGGGCTTCATGAATATAACCGTAGGCGTCATTTGGTAAATCTAGAAAAGAAGAAGAAGAGAGGCATGGTTTTGGGTAGATCAAATGAAGGCAAGGACGTGAGCTCTGAGATGTCTGACCCCGAGGATCAGGGAGACACAGGAGGGTTGTTTGATCCAGAAGAACGAAAGCGATTCTATAAAGTTCTCTTTGATGACGGTGCCCCATGA
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

408

Amino Acids

47.41

Weight (kDa)

9.16

Isoelectric Point (pI)

47.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 25 - 341 4e-108 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: OG0014573)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G31290 AT2G31290
fragaria_vesca FvH4_2g13920
malus_domestica MD05G1023500.v1.1
prunus_persica Prupe.8G028100_v2.0.a1 Prupe.8G028100_v2.0.a1
rosa_chinensis RchiOBHm_Chr6g0275671
rosa_laevigata RLG00000013448
rosa_multiflora Rmu_sc0016068.1_g000004 Rmu_sc0018708.1_g000008
rosa_roxburghii Rroxscaffold_7G00193040
rosa_rugosa Rorug06G0095500
rosa_samantha Rh6AG207400 Rh6BG210000 Rh6CG213400 Rh6DG203100
rosa_wichuraiana Rw6G018080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 945
AccB1I GGYRCC 1 cut(s) 1214
AciI CCGC 4 cut(s) 442, 522, 526, 529
AclWI GGATC 5 cut(s) 742, 965, 978, 1149, 1163
AcsI RAATTY 3 cut(s) 52, 677, 995
AcyI GRCGYC 1 cut(s) 1042
AfaI GTAC 3 cut(s) 435, 771, 911
AfiI CCNNNNNNNGG 1 cut(s) 710
AflII CTTAAG 1 cut(s) 875
AgsI TTSAA 7 cut(s) 38, 92, 202, 218, 263, 645, 862
AjiI CACGTC 1 cut(s) 1114
AjuI GAANNNNNNNTTGG 2 cut(s) 554, 586
AluBI AGCT 8 cut(s) 298, 399, 427, 550, 593, 820, 941, 1119
AluI AGCT 8 cut(s) 298, 399, 427, 550, 593, 820, 941, 1119
Alw21I GWGCWC 2 cut(s) 401, 1121
Alw26I GTCTC 2 cut(s) 904, 1143
AlwI GGATC 5 cut(s) 742, 965, 978, 1149, 1163
AlwNI CAGNNNCTG 1 cut(s) 581
Ama87I CYCGRG 2 cut(s) 851, 1136
ApeKI GCWGC 2 cut(s) 5, 871
ApoI RAATTY 3 cut(s) 52, 677, 995
ArsI GACNNNNNNTTYG 2 cut(s) 748, 780
Asp700I GAANNNNTTC 1 cut(s) 197
AspS9I GGNCC 1 cut(s) 79
AsuC2I CCSGG 1 cut(s) 885
AsuHPI GGTGA 1 cut(s) 693
AvaI CYCGRG 2 cut(s) 851, 1136
AvaII GGWCC 1 cut(s) 79
AxyI CCTNAGG 1 cut(s) 152
BaeGI GKGCMC 1 cut(s) 1219
BaeI ACNNNNGTAYC 2 cut(s) 761, 794
BamHI GGATCC 1 cut(s) 970
BanI GGYRCC 1 cut(s) 1214
BanII GRGCYC 3 cut(s) 401, 716, 1121
Bbv12I GWGCWC 2 cut(s) 401, 1121
BbvI GCAGC 1 cut(s) 858
BccI CCATC 2 cut(s) 111, 739
BclI TGATCA 1 cut(s) 163
BcnI CCSGG 1 cut(s) 885
BcoDI GTCTC 2 cut(s) 904, 1143
BfaI CTAG 1 cut(s) 1058
BfmI CTRYAG 2 cut(s) 9, 585
BfrI CTTAAG 1 cut(s) 875
BisI GCNGC 3 cut(s) 6, 527, 872
BlsI GCNGC 3 cut(s) 7, 528, 873
Bme1390I CCNGG 1 cut(s) 885
Bme18I GGWCC 1 cut(s) 79
BmeT110I CYCGRG 2 cut(s) 851, 1136
BmgBI CACGTC 1 cut(s) 1114
BmgT120I GGNCC 1 cut(s) 79
BmiI GGNNCC 5 cut(s) 81, 357, 715, 972, 1216
BmrFI CCNGG 1 cut(s) 885
BmsI GCATC 1 cut(s) 25
BpuMI CCSGG 1 cut(s) 885
BsaBI GATNNNNATC 1 cut(s) 969
BsaHI GRCGYC 1 cut(s) 1042
BsaJI CCNNGG 3 cut(s) 537, 883, 1137
BsaXI ACNNNNNCTCC 2 cut(s) 698, 728
Bsc4I CCNNNNNNNGG 1 cut(s) 710
Bse1I ACTGG 1 cut(s) 963
Bse21I CCTNAGG 1 cut(s) 152
Bse3DI GCAATG 1 cut(s) 635
Bse8I GATNNNNATC 1 cut(s) 969
BseDI CCNNGG 3 cut(s) 537, 883, 1137
BseGI GGATG 3 cut(s) 147, 315, 806
BseJI GATNNNNATC 1 cut(s) 969
BseLI CCNNNNNNNGG 1 cut(s) 710
BseMI GCAATG 1 cut(s) 635
BseMII CTCAG 3 cut(s) 428, 606, 1113
BseNI ACTGG 1 cut(s) 963
BseSI GKGCMC 1 cut(s) 1219
BseXI GCAGC 1 cut(s) 858
BshNI GGYRCC 1 cut(s) 1214
BsiHKAI GWGCWC 2 cut(s) 401, 1121
BsiHKCI CYCGRG 2 cut(s) 851, 1136
BsiSI CCGG 1 cut(s) 885
BslI CCNNNNNNNGG 1 cut(s) 710
BsmAI GTCTC 2 cut(s) 904, 1143
BsoBI CYCGRG 2 cut(s) 851, 1136
Bsp1286I GDGCHC 4 cut(s) 401, 716, 1121, 1219
Bsp143I GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
Bsp19I CCATGG 1 cut(s) 537
BspACI CCGC 4 cut(s) 442, 522, 526, 529
BspCNI CTCAG 3 cut(s) 429, 607, 1114
BspHI TCATGA 1 cut(s) 1024
BspLI GGNNCC 5 cut(s) 81, 357, 715, 972, 1216
BspPI GGATC 5 cut(s) 742, 965, 978, 1149, 1163
BspT107I GGYRCC 1 cut(s) 1214
BspTI CTTAAG 1 cut(s) 875
BsrDI GCAATG 1 cut(s) 635
BsrI ACTGG 1 cut(s) 963
BssECI CCNNGG 3 cut(s) 537, 883, 1137
BssMI GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
BssNI GRCGYC 1 cut(s) 1042
BssT1I CCWWGG 1 cut(s) 537
Bst4CI ACNGT 6 cut(s) 13, 178, 760, 925, 1037, 1214
Bst6I CTCTTC 2 cut(s) 746, 1067
BstACI GRCGYC 1 cut(s) 1042
BstAFI CTTAAG 1 cut(s) 875
BstAPI GCANNNNNTGC 1 cut(s) 581
BstC8I GCNNGC 3 cut(s) 296, 524, 822
BstDEI CTNAG 5 cut(s) 152, 437, 615, 932, 1122
BstDSI CCRYGG 1 cut(s) 537
BstF5I GGATG 3 cut(s) 147, 315, 806
BstKTI GATC 7 cut(s) 166, 214, 737, 973, 1097, 1144, 1171
BstMAI GTCTC 2 cut(s) 904, 1143
BstMBI GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
BstMWI GCNNNNNNNGC 5 cut(s) 581, 590, 720, 877, 1018
BstNSI RCATGY 1 cut(s) 633
BstSCI CCNGG 1 cut(s) 883
BstSFI CTRYAG 2 cut(s) 9, 585
BstSLI GKGCMC 1 cut(s) 1219
BstV1I GCAGC 1 cut(s) 858
BstX2I RGATCY 1 cut(s) 970
BstYI RGATCY 1 cut(s) 970
Bsu36I CCTNAGG 1 cut(s) 152
BtgI CCRYGG 1 cut(s) 537
BtgZI GCGATG 1 cut(s) 294
BtrI CACGTC 1 cut(s) 1114
BtsCI GGATG 3 cut(s) 147, 315, 806
BtsIMutI CAGTG 3 cut(s) 18, 183, 765
Cac8I GCNNGC 3 cut(s) 296, 524, 822
CaiI CAGNNNCTG 1 cut(s) 581
CciI TCATGA 1 cut(s) 1024
Cfr13I GGNCC 1 cut(s) 79
CseI GACGC 1 cut(s) 1031
Csp6I GTAC 3 cut(s) 434, 770, 910
CspCI CAANNNNNGTGG 2 cut(s) 706, 741
CviQI GTAC 3 cut(s) 434, 770, 910
DdeI CTNAG 5 cut(s) 152, 437, 615, 932, 1122
DpnI GATC 7 cut(s) 165, 213, 736, 972, 1096, 1143, 1170
DpnII GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
Eam1104I CTCTTC 2 cut(s) 746, 1067
EarI CTCTTC 2 cut(s) 746, 1067
EciI GGCGGA 2 cut(s) 457, 544
Ecl136II GAGCTC 2 cut(s) 399, 1119
Eco130I CCWWGG 1 cut(s) 537
Eco24I GRGCYC 3 cut(s) 401, 716, 1121
Eco47I GGWCC 1 cut(s) 79
Eco53kI GAGCTC 2 cut(s) 399, 1119
Eco81I CCTNAGG 1 cut(s) 152
Eco88I CYCGRG 2 cut(s) 851, 1136
EcoICRI GAGCTC 2 cut(s) 399, 1119
EcoO109I RGGNCCY 1 cut(s) 79
EcoT14I CCWWGG 1 cut(s) 537
EcoT38I GRGCYC 3 cut(s) 401, 716, 1121
ErhI CCWWGG 1 cut(s) 537
FauI CCCGC 1 cut(s) 515
FbaI TGATCA 1 cut(s) 163
Fnu4HI GCNGC 3 cut(s) 6, 527, 872
FokI GGATG 3 cut(s) 134, 322, 793
FriOI GRGCYC 3 cut(s) 401, 716, 1121
Fsp4HI GCNGC 3 cut(s) 6, 527, 872
FspBI CTAG 1 cut(s) 1058
GluI GCNGC 3 cut(s) 6, 527, 872
HapII CCGG 1 cut(s) 885
HgaI GACGC 1 cut(s) 1031
Hin1I GRCGYC 1 cut(s) 1042
HindIII AAGCTT 3 cut(s) 425, 591, 939
HinfI GANTC 7 cut(s) 92, 335, 562, 669, 688, 790, 1188
HpaII CCGG 1 cut(s) 885
HphI GGTGA 1 cut(s) 693
Hpy188I TCNGA 7 cut(s) 51, 192, 496, 507, 834, 1123, 1132
Hpy188III TCNNGA 7 cut(s) 89, 161, 202, 566, 1025, 1058, 1172
HpyAV CCTTC 5 cut(s) 70, 651, 938, 982, 1097
HpyCH4III ACNGT 6 cut(s) 13, 178, 760, 925, 1037, 1214
HpyCH4IV ACGT 1 cut(s) 1113
HpyCH4V TGCA 4 cut(s) 16, 274, 352, 1012
HpyF10VI GCNNNNNNNGC 5 cut(s) 581, 590, 720, 877, 1018
HpyF3I CTNAG 5 cut(s) 152, 437, 615, 932, 1122
HpySE526I ACGT 1 cut(s) 1113
Hsp92I GRCGYC 1 cut(s) 1042
Ksp22I TGATCA 1 cut(s) 163
Kzo9I GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
LmnI GCTCC 3 cut(s) 404, 651, 719
Lsp1109I GCAGC 1 cut(s) 858
LweI GCATC 1 cut(s) 25
MaeI CTAG 1 cut(s) 1058
MaeII ACGT 1 cut(s) 1113
MaeIII GTNAC 1 cut(s) 178
MalI GATC 7 cut(s) 165, 213, 736, 972, 1096, 1143, 1170
MboI GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
MfeI CAATTG 1 cut(s) 232
MflI RGATCY 1 cut(s) 970
MhlI GDGCHC 4 cut(s) 401, 716, 1121, 1219
MluCI AATT 7 cut(s) 52, 232, 471, 514, 677, 857, 995
MlyI GAGTC 2 cut(s) 682, 784
MnlI CCTC 8 cut(s) 432, 724, 747, 828, 1009, 1070, 1132, 1151
MroXI GAANNNNTTC 1 cut(s) 197
MseI TTAA 6 cut(s) 423, 429, 470, 513, 681, 876
MspCI CTTAAG 1 cut(s) 875
MspI CCGG 1 cut(s) 885
MspR9I CCNGG 1 cut(s) 885
MunI CAATTG 1 cut(s) 232
MwoI GCNNNNNNNGC 5 cut(s) 581, 590, 720, 877, 1018
NciI CCSGG 1 cut(s) 885
NcoI CCATGG 1 cut(s) 537
NdeII GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
NlaIV GGNNCC 5 cut(s) 81, 357, 715, 972, 1216
NmuCI GTSAC 1 cut(s) 178
NspI RCATGY 1 cut(s) 633
PagI TCATGA 1 cut(s) 1024
PdmI GAANNNNTTC 1 cut(s) 197
PfeI GAWTC 5 cut(s) 92, 335, 562, 669, 1188
PkrI GCNGC 3 cut(s) 7, 528, 873
PleI GAGTC 2 cut(s) 682, 784
PpsI GAGTC 2 cut(s) 682, 784
PpuMI RGGWCCY 1 cut(s) 79
PsiI TTATAA 1 cut(s) 945
Psp124BI GAGCTC 2 cut(s) 401, 1121
Psp5II RGGWCCY 1 cut(s) 79
PspN4I GGNNCC 5 cut(s) 81, 357, 715, 972, 1216
PspPI GGNCC 1 cut(s) 79
PspPPI RGGWCCY 1 cut(s) 79
PstNI CAGNNNCTG 1 cut(s) 581
PsuI RGATCY 1 cut(s) 970
RsaI GTAC 3 cut(s) 435, 771, 911
RsaNI GTAC 3 cut(s) 434, 770, 910
SacI GAGCTC 2 cut(s) 401, 1121
SaqAI TTAA 6 cut(s) 423, 429, 470, 513, 681, 876
SatI GCNGC 3 cut(s) 6, 527, 872
Sau3AI GATC 7 cut(s) 163, 211, 734, 970, 1094, 1141, 1168
Sau96I GGNCC 1 cut(s) 79
SchI GAGTC 2 cut(s) 682, 784
ScrFI CCNGG 1 cut(s) 885
SduI GDGCHC 4 cut(s) 401, 716, 1121, 1219
SfaNI GCATC 1 cut(s) 25
SfcI CTRYAG 2 cut(s) 9, 585
SinI GGWCC 1 cut(s) 79
SmlI CTYRAG 1 cut(s) 875
SmoI CTYRAG 1 cut(s) 875
Sse9I AATT 7 cut(s) 52, 232, 471, 514, 677, 857, 995
SsiI CCGC 4 cut(s) 442, 522, 526, 529
SspMI CTAG 1 cut(s) 1058
SstI GAGCTC 2 cut(s) 401, 1121
StyD4I CCNGG 1 cut(s) 883
StyI CCWWGG 1 cut(s) 537
TaaI ACNGT 6 cut(s) 13, 178, 760, 925, 1037, 1214
TaiI ACGT 1 cut(s) 1116
TasI AATT 7 cut(s) 52, 232, 471, 514, 677, 857, 995
TatI WGTACW 1 cut(s) 433
TauI GCSGC 1 cut(s) 529
TfiI GAWTC 5 cut(s) 92, 335, 562, 669, 1188
Tru1I TTAA 6 cut(s) 423, 429, 470, 513, 681, 876
Tru9I TTAA 6 cut(s) 423, 429, 470, 513, 681, 876
TscAI CASTG 3 cut(s) 18, 183, 765
TseFI GTSAC 1 cut(s) 178
TseI GCWGC 2 cut(s) 5, 871
Tsp45I GTSAC 1 cut(s) 178
TspDTI ATGAA 7 cut(s) 86, 175, 690, 830, 1013, 1041, 1116
TspGWI ACGGA 1 cut(s) 322
TspRI CASTG 3 cut(s) 18, 183, 765
Vha464I CTTAAG 1 cut(s) 875
VpaK11BI GGWCC 1 cut(s) 79
XapI RAATTY 3 cut(s) 52, 677, 995
XbaI TCTAGA 1 cut(s) 1057
XceI RCATGY 1 cut(s) 633
XcmI CCANNNNNNNNNTGG 2 cut(s) 724, 817
XmnI GAANNNNTTC 1 cut(s) 197
XspI CTAG 1 cut(s) 1058
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.