MD02G1242700.v1.1

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0019577
Physical Location & Seq
Forward (+)
29298146 .. 29300389
2244 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1242700.v1.1.491

Sequence Viewer

Length: 1263 bp
ATGCGACTATTCGAAAGCTCCAAACTCAGCCTCTTCGAGTTCAAAGCTTCTGTATTATGCTCACAAGTGACCCCTTTTGGCCCCTTCAATTCCTTTGTACAAAAAAGATGGCTAAAGCCTGTAATTTCGGCCCGAACACGCTTAGAAGACCAAACAAGGGACTCGAAGCTAGACAAACTCACAACCCACCTCAAGAAGCTCGATATCATCCTAAAGCTCCATGACCTCATGTCCAGTCGGAAGCGCGGACCCTTTGTGTCCTTGCAACTGATGTCTCGATGGAGGAACCTTGTGGGGCTTAATGTAGGCATTGGCGCCTTTGTTCACAAATACCCACATGTTTTTGAGGTGTTTAAACATCCCGTACGATGCAGTTTGTGTTGCAGGATCAGTAAGAAAATGTGGGGTTTAATAGAGGAAGAGGCAATGGCTATGAAACAATGGGAACTCAAAGTTGTTCATCGTGTAAAGAAGTTGTTGATGATGTCTGTGAGTGGCACTCTTCGTGTCCATGCTTTGAGGTTGGTCAGGAGAGAATTTGGATTGCCCGAGGATTTCAGAGAATCTATCCTTGGTAAATATTCAAAGGATTTTAGGTTGATTGATTTAGAGGTTGTAGAACTGATTAGTAGAGATGAGAATTTGGGTGTTGCTGAAATTGAGAAATGGCGAGAGAAGGAATTTAAAGAGAAGTGGTTGAGTGAGTTTGAGACAAAGTACGCCTTCCCTATAAATTTCCCAACAGGGTATGAGATCCAGGCAGGGTTTAGAGATAAGTTGAAGAATTGGCAAAGGCTTCCTTACGTGAAGCCTTATGACAGGAAAGAGGTTGTCCGCATTCGTACTTGTGGAGGGATAGAGAGTTATGAGAAACGGGCGGTTGGTATTCTTCACGAGTTCTTGAGTTTGACAGTAGAGAAGATGGTTGAGGTTGAAAGATTATCTCATTTTCGGAGAGATTTTTCTGTGGATGTTAATGTGCGGGAGCTTATCTTGAAGCACCCTGGAATATTTTACATATCAACCAGACGTAATAGTCAAACTGTTTTTCTTAGAGAGGCTTATAGTAAGGGGTGCCTGATTGAGTCCAATCCGATATATGATGTTCGGAGGAAAACTTTAGATCTTATTTTCCTAGGGCGTCGAAATACTAGACAAATGCCAGCTCCAAAAGAAATTAAGGAGTTCAAAGTAGATGGGGATCGCAAAATGGATGGTGACTGGGTTATTCCAATGTTAGAGAACTTGGACAATGGAAGTTGA
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

421

Amino Acids

49.53

Weight (kDa)

9.69

Isoelectric Point (pI)

45.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 53 - 380 4e-110 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: OG0019577)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G45790 AT5G45790
malus_domestica MD02G1242700.v1.1 MD07G1073900.v1.1
prunus_persica Prupe.2G091800_v2.0.a1
pyrus_communis pycom02g20950 pycom07g05800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1035
AccB1I GGYRCC 2 cut(s) 314, 1074
AccII CGCG 1 cut(s) 246
AciI CCGC 4 cut(s) 246, 835, 878, 982
AclWI GGATC 3 cut(s) 395, 748, 1209
AcsI RAATTY 4 cut(s) 536, 640, 680, 733
AcyI GRCGYC 2 cut(s) 315, 1141
AfaI GTAC 4 cut(s) 99, 366, 719, 844
AfiI CCNNNNNNNGG 1 cut(s) 157
AflIII ACRYGT 1 cut(s) 337
AgsI TTSAA 7 cut(s) 43, 88, 585, 781, 935, 997, 1189
AhdI GACNNNNNGTC 1 cut(s) 229
AjnI CCWGG 2 cut(s) 756, 1003
AjuI GAANNNNNNNTTGG 2 cut(s) 555, 587
AluBI AGCT 7 cut(s) 18, 47, 169, 199, 217, 988, 1166
AluI AGCT 7 cut(s) 18, 47, 169, 199, 217, 988, 1166
Alw26I GTCTC 2 cut(s) 279, 704
AlwI GGATC 3 cut(s) 395, 748, 1209
Ama87I CYCGRG 1 cut(s) 548
AoxI GGCC 2 cut(s) 79, 129
ApoI RAATTY 4 cut(s) 536, 640, 680, 733
AspA2I CCTAGG 1 cut(s) 1135
AspLEI GCGC 2 cut(s) 246, 317
AspS9I GGNCC 3 cut(s) 80, 130, 248
AsuHPI GGTGA 1 cut(s) 1229
AsuII TTCGAA 1 cut(s) 12
AvaI CYCGRG 1 cut(s) 548
AvaII GGWCC 1 cut(s) 248
AvrII CCTAGG 1 cut(s) 1135
BanI GGYRCC 2 cut(s) 314, 1074
BauI CACGAG 1 cut(s) 893
BbsI GAAGAC 1 cut(s) 153
BccI CCATC 5 cut(s) 102, 273, 916, 1190, 1208
BciT130I CCWGG 2 cut(s) 758, 1005
BcoDI GTCTC 2 cut(s) 279, 704
BfaI CTAG 3 cut(s) 170, 1136, 1152
BfoI RGCGCY 1 cut(s) 318
BglII AGATCT 1 cut(s) 1123
BlnI CCTAGG 1 cut(s) 1135
Bme1390I CCNGG 2 cut(s) 758, 1005
Bme18I GGWCC 1 cut(s) 248
BmeRI GACNNNNNGTC 1 cut(s) 229
BmeT110I CYCGRG 1 cut(s) 548
BmgT120I GGNCC 3 cut(s) 80, 130, 248
BmiI GGNNCC 5 cut(s) 82, 250, 287, 316, 1076
BmrFI CCNGG 2 cut(s) 758, 1005
BmrI ACTGGG 1 cut(s) 1231
BmsI GCATC 1 cut(s) 359
BmuI ACTGGG 1 cut(s) 1231
BpiI GAAGAC 1 cut(s) 153
BplI GAGNNNNNCTC 2 cut(s) 484, 516
Bpu14I TTCGAA 1 cut(s) 12
BpuEI CTTGAG 2 cut(s) 176, 922
BsaAI YACGTR 1 cut(s) 805
BsaBI GATNNNNATC 1 cut(s) 1200
BsaHI GRCGYC 2 cut(s) 315, 1141
BsaJI CCNNGG 4 cut(s) 549, 571, 1003, 1135
Bsc4I CCNNNNNNNGG 1 cut(s) 157
Bse1I ACTGG 2 cut(s) 234, 1226
Bse3DI GCAATG 1 cut(s) 432
Bse8I GATNNNNATC 1 cut(s) 1200
BseBI CCWGG 2 cut(s) 758, 1005
BseDI CCNNGG 4 cut(s) 549, 571, 1003, 1135
BseGI GGATG 4 cut(s) 207, 358, 976, 1219
BseJI GATNNNNATC 1 cut(s) 1200
BseLI CCNNNNNNNGG 1 cut(s) 157
BseMI GCAATG 1 cut(s) 432
BseMII CTCAG 1 cut(s) 40
BseNI ACTGG 2 cut(s) 234, 1226
Bsh1236I CGCG 1 cut(s) 246
BshFI GGCC 2 cut(s) 81, 131
BshNI GGYRCC 2 cut(s) 314, 1074
BsiHKCI CYCGRG 1 cut(s) 548
BsiWI CGTACG 1 cut(s) 364
BslFI GGGAC 1 cut(s) 173
BslI CCNNNNNNNGG 1 cut(s) 157
BsmAI GTCTC 2 cut(s) 279, 704
BsmFI GGGAC 1 cut(s) 173
BsmI GAATGC 1 cut(s) 837
BsnI GGCC 2 cut(s) 81, 131
BsoBI CYCGRG 1 cut(s) 548
Bsp119I TTCGAA 1 cut(s) 12
Bsp1407I TGTACA 1 cut(s) 97
Bsp143I GATC 4 cut(s) 387, 753, 1123, 1201
BspACI CCGC 4 cut(s) 246, 835, 878, 982
BspANI GGCC 2 cut(s) 81, 131
BspCNI CTCAG 1 cut(s) 39
BspFNI CGCG 1 cut(s) 246
BspLI GGNNCC 5 cut(s) 82, 250, 287, 316, 1076
BspPI GGATC 3 cut(s) 395, 748, 1209
BspT104I TTCGAA 1 cut(s) 12
BspT107I GGYRCC 2 cut(s) 314, 1074
BsrDI GCAATG 1 cut(s) 432
BsrGI TGTACA 1 cut(s) 97
BsrI ACTGG 2 cut(s) 234, 1226
BssECI CCNNGG 4 cut(s) 549, 571, 1003, 1135
BssMI GATC 4 cut(s) 387, 753, 1123, 1201
BssNI GRCGYC 2 cut(s) 315, 1141
BssSI CACGAG 1 cut(s) 893
BssT1I CCWWGG 2 cut(s) 571, 1135
Bst2BI CACGAG 1 cut(s) 893
Bst2UI CCWGG 2 cut(s) 758, 1005
Bst4CI ACNGT 2 cut(s) 913, 1045
Bst6I CTCTTC 3 cut(s) 38, 414, 507
BstACI GRCGYC 2 cut(s) 315, 1141
BstAUI TGTACA 1 cut(s) 97
BstBAI YACGTR 1 cut(s) 805
BstBI TTCGAA 1 cut(s) 12
BstC8I GCNNGC 1 cut(s) 1164
BstDEI CTNAG 3 cut(s) 26, 142, 1052
BstF5I GGATG 4 cut(s) 207, 358, 976, 1219
BstFNI CGCG 1 cut(s) 246
BstH2I RGCGCY 1 cut(s) 318
BstHHI GCGC 2 cut(s) 246, 317
BstKTI GATC 4 cut(s) 390, 756, 1126, 1204
BstMAI GTCTC 2 cut(s) 279, 704
BstMBI GATC 4 cut(s) 387, 753, 1123, 1201
BstNI CCWGG 2 cut(s) 758, 1005
BstNSI RCATGY 1 cut(s) 341
BstSCI CCNGG 2 cut(s) 756, 1003
BstUI CGCG 1 cut(s) 246
BstV2I GAAGAC 1 cut(s) 153
BstX2I RGATCY 2 cut(s) 753, 1123
BstYI RGATCY 2 cut(s) 753, 1123
BsuRI GGCC 2 cut(s) 81, 131
BtsCI GGATG 4 cut(s) 207, 358, 976, 1219
Cac8I GCNNGC 1 cut(s) 1164
CfoI GCGC 2 cut(s) 246, 317
Cfr13I GGNCC 3 cut(s) 80, 130, 248
CseI GACGC 1 cut(s) 1130
Csp6I GTAC 4 cut(s) 98, 365, 718, 843
CviAII CATG 4 cut(s) 221, 229, 338, 512
CviQI GTAC 4 cut(s) 98, 365, 718, 843
DdeI CTNAG 3 cut(s) 26, 142, 1052
DinI GGCGCC 1 cut(s) 316
DpnI GATC 4 cut(s) 389, 755, 1125, 1203
DpnII GATC 4 cut(s) 387, 753, 1123, 1201
DraI TTTAAA 2 cut(s) 355, 685
DrdI GACNNNNNNGTC 1 cut(s) 1035
DriI GACNNNNNGTC 1 cut(s) 229
DseDI GACNNNNNNGTC 1 cut(s) 1035
Eam1104I CTCTTC 3 cut(s) 38, 414, 507
Eam1105I GACNNNNNGTC 1 cut(s) 229
EarI CTCTTC 3 cut(s) 38, 414, 507
Eco130I CCWWGG 2 cut(s) 571, 1135
Eco32I GATATC 1 cut(s) 205
Eco47I GGWCC 1 cut(s) 248
Eco88I CYCGRG 1 cut(s) 548
EcoRII CCWGG 2 cut(s) 756, 1003
EcoRV GATATC 1 cut(s) 205
EcoT14I CCWWGG 2 cut(s) 571, 1135
EgeI GGCGCC 1 cut(s) 316
EheI GGCGCC 1 cut(s) 316
ErhI CCWWGG 2 cut(s) 571, 1135
FaeI CATG 4 cut(s) 224, 232, 341, 515
FalI AAGNNNNNCTT 4 cut(s) 707, 739, 784, 816
FaqI GGGAC 1 cut(s) 173
FatI CATG 4 cut(s) 220, 228, 337, 511
FauI CCCGC 1 cut(s) 975
FokI GGATG 4 cut(s) 194, 345, 983, 1226
FspBI CTAG 3 cut(s) 170, 1136, 1152
GlaI GCGC 2 cut(s) 245, 316
HaeII RGCGCY 1 cut(s) 318
HaeIII GGCC 2 cut(s) 81, 131
HgaI GACGC 1 cut(s) 1130
HhaI GCGC 2 cut(s) 246, 317
Hin1I GRCGYC 2 cut(s) 315, 1141
Hin1II CATG 4 cut(s) 224, 232, 341, 515
Hin6I GCGC 2 cut(s) 244, 315
HinP1I GCGC 2 cut(s) 244, 315
HindIII AAGCTT 1 cut(s) 45
HinfI GANTC 3 cut(s) 161, 563, 1085
HphI GGTGA 1 cut(s) 1229
Hpy166II GTNNAC 1 cut(s) 325
Hpy188I TCNGA 5 cut(s) 240, 560, 954, 1095, 1110
Hpy188III TCNNGA 6 cut(s) 193, 276, 529, 893, 901, 994
Hpy8I GTNNAC 1 cut(s) 325
Hpy99I CGWCG 1 cut(s) 1146
HpyAV CCTTC 3 cut(s) 94, 670, 733
HpyCH4III ACNGT 2 cut(s) 913, 1045
HpyCH4IV ACGT 2 cut(s) 804, 1030
HpyCH4V TGCA 3 cut(s) 265, 372, 384
HpyF3I CTNAG 3 cut(s) 26, 142, 1052
HpySE526I ACGT 2 cut(s) 804, 1030
Hsp92I GRCGYC 2 cut(s) 315, 1141
Hsp92II CATG 4 cut(s) 224, 232, 341, 515
HspAI GCGC 2 cut(s) 244, 315
KasI GGCGCC 1 cut(s) 314
Kzo9I GATC 4 cut(s) 387, 753, 1123, 1201
LmnI GCTCC 4 cut(s) 23, 222, 985, 1171
LweI GCATC 1 cut(s) 359
MaeI CTAG 3 cut(s) 170, 1136, 1152
MaeII ACGT 2 cut(s) 804, 1030
MaeIII GTNAC 2 cut(s) 67, 1217
MalI GATC 4 cut(s) 389, 755, 1125, 1203
MboI GATC 4 cut(s) 387, 753, 1123, 1201
MboII GAAGA 7 cut(s) 25, 158, 431, 494, 793, 881, 931
MflI RGATCY 2 cut(s) 753, 1123
MluCI AATT 9 cut(s) 88, 123, 536, 640, 657, 680, 733, 784, 1176
Mly113I GGCGCC 1 cut(s) 315
MlyI GAGTC 2 cut(s) 155, 1094
MmeI TCCRAC 1 cut(s) 218
MseI TTAA 6 cut(s) 300, 354, 410, 684, 975, 1179
MspR9I CCNGG 2 cut(s) 758, 1005
MssI GTTTAAAC 1 cut(s) 355
Mva1269I GAATGC 1 cut(s) 837
MvaI CCWGG 2 cut(s) 758, 1005
MvnI CGCG 1 cut(s) 246
NarI GGCGCC 1 cut(s) 315
NdeII GATC 4 cut(s) 387, 753, 1123, 1201
NlaIII CATG 4 cut(s) 224, 232, 341, 515
NlaIV GGNNCC 5 cut(s) 82, 250, 287, 316, 1076
NmuCI GTSAC 2 cut(s) 67, 1217
NspI RCATGY 1 cut(s) 341
NspV TTCGAA 1 cut(s) 12
PciI ACATGT 1 cut(s) 337
PctI GAATGC 1 cut(s) 837
PfeI GAWTC 1 cut(s) 563
Pfl23II CGTACG 1 cut(s) 364
PleI GAGTC 2 cut(s) 155, 1093
PluTI GGCGCC 1 cut(s) 318
PmeI GTTTAAAC 1 cut(s) 355
PpsI GAGTC 2 cut(s) 155, 1093
Ppu21I YACGTR 1 cut(s) 805
PscI ACATGT 1 cut(s) 337
Psp6I CCWGG 2 cut(s) 756, 1003
PspGI CCWGG 2 cut(s) 756, 1003
PspLI CGTACG 1 cut(s) 364
PspN4I GGNNCC 5 cut(s) 82, 250, 287, 316, 1076
PspPI GGNCC 3 cut(s) 80, 130, 248
PsuI RGATCY 2 cut(s) 753, 1123
RsaI GTAC 4 cut(s) 99, 366, 719, 844
RsaNI GTAC 4 cut(s) 98, 365, 718, 843
SaqAI TTAA 6 cut(s) 300, 354, 410, 684, 975, 1179
Sau3AI GATC 4 cut(s) 387, 753, 1123, 1201
Sau96I GGNCC 3 cut(s) 80, 130, 248
SchI GAGTC 2 cut(s) 155, 1094
ScrFI CCNGG 2 cut(s) 758, 1005
SfaNI GCATC 1 cut(s) 359
SfoI GGCGCC 1 cut(s) 316
SfuI TTCGAA 1 cut(s) 12
SinI GGWCC 1 cut(s) 248
SmlI CTYRAG 2 cut(s) 191, 901
SmoI CTYRAG 2 cut(s) 191, 901
Sse9I AATT 9 cut(s) 88, 123, 536, 640, 657, 680, 733, 784, 1176
SsiI CCGC 4 cut(s) 246, 835, 878, 982
SspDI GGCGCC 1 cut(s) 314
SspI AATATT 2 cut(s) 581, 1011
SspMI CTAG 3 cut(s) 170, 1136, 1152
StyD4I CCNGG 2 cut(s) 756, 1003
StyI CCWWGG 2 cut(s) 571, 1135
TaaI ACNGT 2 cut(s) 913, 1045
TaiI ACGT 2 cut(s) 807, 1033
TaqI TCGA 6 cut(s) 12, 36, 164, 201, 277, 1144
TasI AATT 9 cut(s) 88, 123, 536, 640, 657, 680, 733, 784, 1176
TatI WGTACW 1 cut(s) 97
TfiI GAWTC 1 cut(s) 563
Tru1I TTAA 6 cut(s) 300, 354, 410, 684, 975, 1179
Tru9I TTAA 6 cut(s) 300, 354, 410, 684, 975, 1179
TseFI GTSAC 2 cut(s) 67, 1217
Tsp45I GTSAC 2 cut(s) 67, 1217
TspDTI ATGAA 2 cut(s) 449, 449
VpaK11BI GGWCC 1 cut(s) 248
XapI RAATTY 4 cut(s) 536, 640, 680, 733
XceI RCATGY 1 cut(s) 341
XmaJI CCTAGG 1 cut(s) 1135
XspI CTAG 3 cut(s) 170, 1136, 1152
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.