MD00G1009900.v1.1

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr00
OG0016156
Physical Location & Seq
Reverse (-)
1223401 .. 1224612
1212 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1009900.v1.1.491

Sequence Viewer

Length: 1212 bp
ATGGCGTTTTGGCGCCGCATCCTTTCCAAAACCCAAAACCCAAAACCCTCACCTCACCTCCCAAACCTTAACCACTCTCAGCCCCCACTCCTCCTCCGCCAAACCTCGCCGTTCTCCACCTCCTTCCTCATCACCAAAACGCCCAAAAAATTCAGAAAAAAACGCAAGAAGGACGAAAGCCCTCGGACCAAGCTCGTCCAGACCCAACCCAACCTCATCCCCCACTTCGAACACATCGTCGAGCGCGACGCCTACTTCCGATTCCTCACCAAATCCAAAGACTTCCTCTCCAAGCAGCCCCACGGCGTCCTCCGCCTCGACGACGCCGGCAAGCTCTACCGCGAACTCGGCTTCCCTCGCGGCCGAAAAGTCGCTCGCTCCCTCCAGCGCCACCCCCTCATCTTCCAGACCTACCGCCACGATGACAATAAAATGTGGATCGGCTTCACCGACTTCATGGAAGCTCTGCTCGAAGAGGAGCGAGTCATAATCGACTCAATGGAGTTGGACCGAGTCAACAAGGTTCGTAAATTGCTCATGATGTCCGCCAACAAGCGTATCCCTCTGAGTAAAATCTACCATTGCAGGTCGATTTTCGGAATTCCTGAAGATTTTAGGGACAGGGTTTCGAAATACCCTAATTTTTTCAGGATTGTGGTTGAGGAGGATGGGAAGAGAATGCTTGAACTGGTGAATTGGGATCCGTTGATGGCGGTGAGCGCGTTGGAGAGGGAGTTCATGGTGGATGAGGAGAGAGTTAAGAGGGCTTTTCGGTTTCCAGTGAAGCATGGGAAGGATTTGGGTCTGGAGATAGAGGATGAGAGGAAATTGAACATGTTGAACTCACTTCCGCTGGTTTCGCCATATTCGGATGGATCAAGATTGGACCTTTGGACTCTGGAAGCCGAGAAGTACAGGGTAGGAGTGTTGCATGAGTTTTTGAGCTTGACATTGGAGAAGAGGGCTTCCATACACCATGTTGTGGAGTTCAAGGAGGAGTTTAGCTTGACTAAGCATACTTATCAGATGCTTTTGAAGCAGCCTAGAACGTTTTATCTTGCTGGGACGGAGATGAATTGGGTCGTTTTTCTGAATGATGCTTATGACCGAGATGGGGTTCTGATTGAGAAGGATCCCCAGGTGGTGTTCAATGAGAAGTTGTATAAGCATGCTGATATGAAGGAAATGGGACAGGGCTGTGTTGATCAATGA
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

404

Amino Acids

47.74

Weight (kDa)

9.47

Isoelectric Point (pI)

40.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 74 - 394 1.1e-100 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: OG0016156)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G08940
fragaria_vesca FvH4_2g09730 FvH4_2g09730
malus_domestica MD00G1009900.v1.1
prunus_persica Prupe.1G518700_v2.0.a1
pyrus_communis pycom08g15830 pycom15g33270
rosa_chinensis RchiOBHm_Chr7g0238641
rosa_laevigata RLG00000000822
rosa_multiflora Rmu_sc0000023.1_g000009 Rmu_sc0030975.1_g000001
rosa_roxburghii Rroxscaffold_3G00221660
rosa_rugosa Rorug07G0322500
rosa_samantha Rh7BG448100
rosa_wichuraiana Rw7G039810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 576
AccB1I GGYRCC 1 cut(s) 12
AccB7I CCANNNNNTGG 1 cut(s) 982
AccII CGCG 4 cut(s) 246, 342, 360, 722
AciI CCGC 9 cut(s) 16, 97, 313, 340, 360, 415, 546, 713, 851
AclI AACGTT 1 cut(s) 1049
AclWI GGATC 6 cut(s) 446, 695, 708, 883, 1127, 1140
AcoI YGGCCR 1 cut(s) 361
AcsI RAATTY 2 cut(s) 149, 600
AcuI CTGAAG 1 cut(s) 627
AcyI GRCGYC 4 cut(s) 13, 249, 306, 324
AfaI GTAC 1 cut(s) 914
AfiI CCNNNNNNNGG 2 cut(s) 982, 1114
AflIII ACRYGT 1 cut(s) 834
AgsI TTSAA 6 cut(s) 686, 832, 841, 991, 1036, 1150
AjnI CCWGG 1 cut(s) 1137
AloI GAACNNNNNNTCC 4 cut(s) 336, 368, 719, 751
AluBI AGCT 5 cut(s) 193, 334, 464, 945, 1005
AluI AGCT 5 cut(s) 193, 334, 464, 945, 1005
AlwI GGATC 6 cut(s) 446, 695, 708, 883, 1127, 1140
AoxI GGCC 1 cut(s) 361
ApeKI GCWGC 2 cut(s) 295, 1039
ApoI RAATTY 2 cut(s) 149, 600
ArsI GACNNNNNNTTYG 2 cut(s) 222, 254
AspLEI GCGC 4 cut(s) 15, 246, 390, 722
AspS9I GGNCC 3 cut(s) 186, 508, 886
AsuHPI GGTGA 7 cut(s) 42, 47, 124, 259, 439, 703, 727
AsuII TTCGAA 2 cut(s) 228, 629
AvaII GGWCC 3 cut(s) 186, 508, 886
BaeI ACNNNNGTAYC 2 cut(s) 541, 574
BamHI GGATCC 2 cut(s) 700, 1132
BanI GGYRCC 1 cut(s) 12
BbvI GCAGC 2 cut(s) 307, 1051
BccI CCATC 4 cut(s) 662, 703, 866, 1106
BceAI ACGGC 2 cut(s) 94, 319
BciT130I CCWGG 1 cut(s) 1139
BciVI GTATCC 1 cut(s) 569
BclI TGATCA 1 cut(s) 1204
BfaI CTAG 1 cut(s) 1044
BfoI RGCGCY 2 cut(s) 16, 391
BfuAI ACCTGC 1 cut(s) 576
BfuI GTATCC 1 cut(s) 569
BisI GCNGC 4 cut(s) 16, 296, 361, 1040
BlsI GCNGC 4 cut(s) 17, 297, 362, 1041
Bme1390I CCNGG 1 cut(s) 1139
Bme18I GGWCC 3 cut(s) 186, 508, 886
BmgT120I GGNCC 3 cut(s) 186, 508, 886
BmiI GGNNCC 3 cut(s) 14, 702, 1134
BmrFI CCNGG 1 cut(s) 1139
BmsI GCATC 3 cut(s) 27, 1017, 1087
BpmI CTGGAG 2 cut(s) 368, 827
Bpu14I TTCGAA 2 cut(s) 228, 629
BsaHI GRCGYC 4 cut(s) 13, 249, 306, 324
BsaJI CCNNGG 3 cut(s) 182, 301, 1137
BsaXI ACNNNNNCTCC 8 cut(s) 42, 72, 78, 108, 272, 302, 719, 749
Bsc4I CCNNNNNNNGG 2 cut(s) 982, 1114
Bse118I RCCGGY 1 cut(s) 326
Bse1I ACTGG 2 cut(s) 693, 779
Bse3DI GCAATG 1 cut(s) 580
BseBI CCWGG 1 cut(s) 1139
BseDI CCNNGG 3 cut(s) 182, 301, 1137
BseGI GGATG 6 cut(s) 18, 216, 673, 751, 823, 877
BseLI CCNNNNNNNGG 2 cut(s) 982, 1114
BseMI GCAATG 1 cut(s) 580
BseMII CTCAG 2 cut(s) 92, 557
BseNI ACTGG 2 cut(s) 693, 779
BseRI GAGGAG 6 cut(s) 80, 83, 491, 677, 764, 1010
BseX3I CGGCCG 1 cut(s) 361
BseXI GCAGC 2 cut(s) 307, 1051
BseYI CCCAGC 1 cut(s) 1061
Bsh1236I CGCG 4 cut(s) 246, 342, 360, 722
Bsh1285I CGRYCG 1 cut(s) 364
BshFI GGCC 1 cut(s) 363
BshNI GGYRCC 1 cut(s) 12
BsiEI CGRYCG 1 cut(s) 364
BsiSI CCGG 1 cut(s) 327
BslFI GGGAC 3 cut(s) 632, 1078, 1203
BslI CCNNNNNNNGG 2 cut(s) 982, 1114
BsmFI GGGAC 3 cut(s) 632, 1078, 1203
BsmI GAATGC 1 cut(s) 684
BsnI GGCC 1 cut(s) 363
Bsp119I TTCGAA 2 cut(s) 228, 629
Bsp143I GATC 5 cut(s) 438, 700, 875, 1132, 1204
BspACI CCGC 9 cut(s) 16, 97, 313, 340, 360, 415, 546, 713, 851
BspANI GGCC 1 cut(s) 363
BspCNI CTCAG 2 cut(s) 91, 558
BspFNI CGCG 4 cut(s) 246, 342, 360, 722
BspHI TCATGA 1 cut(s) 537
BspLI GGNNCC 3 cut(s) 14, 702, 1134
BspMI ACCTGC 1 cut(s) 576
BspPI GGATC 6 cut(s) 446, 695, 708, 883, 1127, 1140
BspT104I TTCGAA 2 cut(s) 228, 629
BspT107I GGYRCC 1 cut(s) 12
BsrDI GCAATG 1 cut(s) 580
BsrFI RCCGGY 1 cut(s) 326
BsrI ACTGG 2 cut(s) 693, 779
BssAI RCCGGY 1 cut(s) 326
BssECI CCNNGG 3 cut(s) 182, 301, 1137
BssMI GATC 5 cut(s) 438, 700, 875, 1132, 1204
BssNI GRCGYC 4 cut(s) 13, 249, 306, 324
Bst2UI CCWGG 1 cut(s) 1139
Bst6I CTCTTC 3 cut(s) 468, 668, 953
BstACI GRCGYC 4 cut(s) 13, 249, 306, 324
BstBI TTCGAA 2 cut(s) 228, 629
BstC8I GCNNGC 4 cut(s) 328, 332, 376, 1170
BstDEI CTNAG 3 cut(s) 78, 566, 1011
BstDSI CCRYGG 1 cut(s) 301
BstF5I GGATG 6 cut(s) 18, 216, 673, 751, 823, 877
BstFNI CGCG 4 cut(s) 246, 342, 360, 722
BstH2I RGCGCY 2 cut(s) 16, 391
BstHHI GCGC 4 cut(s) 15, 246, 390, 722
BstKTI GATC 5 cut(s) 441, 703, 878, 1135, 1207
BstMBI GATC 5 cut(s) 438, 700, 875, 1132, 1204
BstMCI CGRYCG 1 cut(s) 364
BstMWI GCNNNNNNNGC 6 cut(s) 312, 348, 357, 719, 859, 1036
BstNI CCWGG 1 cut(s) 1139
BstNSI RCATGY 2 cut(s) 838, 1172
BstSCI CCNGG 1 cut(s) 1137
BstUI CGCG 4 cut(s) 246, 342, 360, 722
BstV1I GCAGC 2 cut(s) 307, 1051
BstX2I RGATCY 2 cut(s) 700, 1132
BstYI RGATCY 2 cut(s) 700, 1132
BstZI CGGCCG 1 cut(s) 361
BsuI GTATCC 1 cut(s) 569
BsuRI GGCC 1 cut(s) 363
BtgI CCRYGG 1 cut(s) 301
BtsCI GGATG 6 cut(s) 18, 216, 673, 751, 823, 877
BtsIMutI CAGTG 1 cut(s) 786
BveI ACCTGC 1 cut(s) 576
Cac8I GCNNGC 4 cut(s) 328, 332, 376, 1170
CciI TCATGA 1 cut(s) 537
CfoI GCGC 4 cut(s) 15, 246, 390, 722
Cfr10I RCCGGY 1 cut(s) 326
Cfr13I GGNCC 3 cut(s) 186, 508, 886
CseI GACGC 3 cut(s) 257, 295, 332
Csp6I GTAC 1 cut(s) 913
CviAII CATG 8 cut(s) 457, 538, 739, 788, 835, 932, 977, 1169
CviQI GTAC 1 cut(s) 913
DdeI CTNAG 3 cut(s) 78, 566, 1011
DinI GGCGCC 1 cut(s) 14
DpnI GATC 5 cut(s) 440, 702, 877, 1134, 1206
DpnII GATC 5 cut(s) 438, 700, 875, 1132, 1204
EaeI YGGCCR 1 cut(s) 361
EagI CGGCCG 1 cut(s) 361
Eam1104I CTCTTC 3 cut(s) 468, 668, 953
EarI CTCTTC 3 cut(s) 468, 668, 953
EciI GGCGGA 3 cut(s) 86, 302, 535
EclXI CGGCCG 1 cut(s) 361
Eco47I GGWCC 3 cut(s) 186, 508, 886
Eco52I CGGCCG 1 cut(s) 361
Eco57I CTGAAG 1 cut(s) 627
EcoRI GAATTC 1 cut(s) 600
EcoRII CCWGG 1 cut(s) 1137
EgeI GGCGCC 1 cut(s) 14
EheI GGCGCC 1 cut(s) 14
FaeI CATG 8 cut(s) 460, 541, 742, 791, 838, 935, 980, 1172
FaqI GGGAC 3 cut(s) 632, 1078, 1203
FatI CATG 8 cut(s) 456, 537, 738, 787, 834, 931, 976, 1168
FbaI TGATCA 1 cut(s) 1204
Fnu4HI GCNGC 4 cut(s) 16, 296, 361, 1040
FokI GGATG 6 cut(s) 5, 203, 680, 758, 830, 884
Fsp4HI GCNGC 4 cut(s) 16, 296, 361, 1040
FspBI CTAG 1 cut(s) 1044
GlaI GCGC 4 cut(s) 14, 245, 389, 721
GluI GCNGC 4 cut(s) 16, 296, 361, 1040
GsaI CCCAGC 1 cut(s) 1065
GsuI CTGGAG 2 cut(s) 368, 827
HaeII RGCGCY 2 cut(s) 16, 391
HaeIII GGCC 1 cut(s) 363
HapII CCGG 1 cut(s) 327
HgaI GACGC 3 cut(s) 257, 295, 332
HhaI GCGC 4 cut(s) 15, 246, 390, 722
Hin1I GRCGYC 4 cut(s) 13, 249, 306, 324
Hin1II CATG 8 cut(s) 460, 541, 742, 791, 838, 935, 980, 1172
Hin6I GCGC 4 cut(s) 13, 244, 388, 720
HinP1I GCGC 4 cut(s) 13, 244, 388, 720
HincII GTYRAC 1 cut(s) 517
HindII GTYRAC 1 cut(s) 517
HinfI GANTC 5 cut(s) 261, 483, 494, 513, 895
HpaII CCGG 1 cut(s) 327
HphI GGTGA 7 cut(s) 42, 47, 124, 259, 439, 703, 727
Hpy166II GTNNAC 1 cut(s) 517
Hpy188I TCNGA 9 cut(s) 155, 186, 260, 567, 599, 871, 1026, 1092, 1122
Hpy188III TCNNGA 8 cut(s) 199, 406, 538, 605, 649, 806, 879, 899
Hpy8I GTNNAC 1 cut(s) 517
Hpy99I CGWCG 4 cut(s) 242, 251, 323, 326
HpyAV CCTTC 5 cut(s) 133, 163, 787, 1123, 1174
HpyCH4IV ACGT 1 cut(s) 1049
HpyCH4V TGCA 2 cut(s) 585, 931
HpyF10VI GCNNNNNNNGC 6 cut(s) 312, 348, 357, 719, 859, 1036
HpyF3I CTNAG 3 cut(s) 78, 566, 1011
HpySE526I ACGT 1 cut(s) 1049
Hsp92I GRCGYC 4 cut(s) 13, 249, 306, 324
Hsp92II CATG 8 cut(s) 460, 541, 742, 791, 838, 935, 980, 1172
HspAI GCGC 4 cut(s) 13, 244, 388, 720
KasI GGCGCC 1 cut(s) 12
KroI GCCGGC 1 cut(s) 326
KroNI GCCGGC 1 cut(s) 328
Ksp22I TGATCA 1 cut(s) 1204
Kzo9I GATC 5 cut(s) 438, 700, 875, 1132, 1204
LmnI GCTCC 2 cut(s) 383, 478
Lsp1109I GCAGC 2 cut(s) 307, 1051
LweI GCATC 3 cut(s) 27, 1017, 1087
MaeI CTAG 1 cut(s) 1044
MaeII ACGT 1 cut(s) 1049
MalI GATC 5 cut(s) 440, 702, 877, 1134, 1206
MboI GATC 5 cut(s) 438, 700, 875, 1132, 1204
MboII GAAGA 5 cut(s) 394, 485, 620, 685, 970
MflI RGATCY 2 cut(s) 700, 1132
MluCI AATT 7 cut(s) 149, 530, 600, 640, 694, 827, 1075
Mly113I GGCGCC 1 cut(s) 13
MlyI GAGTC 4 cut(s) 488, 492, 522, 889
MmeI TCCRAC 2 cut(s) 486, 705
MroNI GCCGGC 1 cut(s) 326
MseI TTAA 2 cut(s) 69, 759
MspA1I CMGCKG 1 cut(s) 853
MspI CCGG 1 cut(s) 327
MspR9I CCNGG 1 cut(s) 1139
Mva1269I GAATGC 1 cut(s) 684
MvaI CCWGG 1 cut(s) 1139
MvnI CGCG 4 cut(s) 246, 342, 360, 722
MwoI GCNNNNNNNGC 6 cut(s) 312, 348, 357, 719, 859, 1036
NaeI GCCGGC 1 cut(s) 328
NarI GGCGCC 1 cut(s) 13
NdeII GATC 5 cut(s) 438, 700, 875, 1132, 1204
NgoMIV GCCGGC 1 cut(s) 326
NlaIII CATG 8 cut(s) 460, 541, 742, 791, 838, 935, 980, 1172
NlaIV GGNNCC 3 cut(s) 14, 702, 1134
NmeAIII GCCGAG 2 cut(s) 327, 931
NspI RCATGY 2 cut(s) 838, 1172
NspV TTCGAA 2 cut(s) 228, 629
PaeI GCATGC 1 cut(s) 1172
PagI TCATGA 1 cut(s) 537
PciI ACATGT 1 cut(s) 834
PcsI WCGNNNNNNNCGW 3 cut(s) 234, 243, 447
PctI GAATGC 1 cut(s) 684
PdiI GCCGGC 1 cut(s) 328
PfeI GAWTC 1 cut(s) 261
PflFI GACNNNGTC 1 cut(s) 512
PflMI CCANNNNNTGG 1 cut(s) 982
PkrI GCNGC 4 cut(s) 17, 297, 362, 1041
PleI GAGTC 4 cut(s) 488, 491, 521, 889
PluTI GGCGCC 1 cut(s) 16
PpsI GAGTC 4 cut(s) 488, 491, 521, 889
PscI ACATGT 1 cut(s) 834
Psp1406I AACGTT 1 cut(s) 1049
Psp6I CCWGG 1 cut(s) 1137
PspFI CCCAGC 1 cut(s) 1061
PspGI CCWGG 1 cut(s) 1137
PspN4I GGNNCC 3 cut(s) 14, 702, 1134
PspPI GGNCC 3 cut(s) 186, 508, 886
PsuI RGATCY 2 cut(s) 700, 1132
PsyI GACNNNGTC 1 cut(s) 512
RsaI GTAC 1 cut(s) 914
RsaNI GTAC 1 cut(s) 913
SaqAI TTAA 2 cut(s) 69, 759
SatI GCNGC 4 cut(s) 16, 296, 361, 1040
Sau3AI GATC 5 cut(s) 438, 700, 875, 1132, 1204
Sau96I GGNCC 3 cut(s) 186, 508, 886
SchI GAGTC 4 cut(s) 488, 492, 522, 889
ScrFI CCNGG 1 cut(s) 1139
SfaNI GCATC 3 cut(s) 27, 1017, 1087
SfoI GGCGCC 1 cut(s) 14
SfuI TTCGAA 2 cut(s) 228, 629
SinI GGWCC 3 cut(s) 186, 508, 886
SphI GCATGC 1 cut(s) 1172
Sse9I AATT 7 cut(s) 149, 530, 600, 640, 694, 827, 1075
SsiI CCGC 9 cut(s) 16, 97, 313, 340, 360, 415, 546, 713, 851
SspDI GGCGCC 1 cut(s) 12
SspMI CTAG 1 cut(s) 1044
StyD4I CCNGG 1 cut(s) 1137
TaiI ACGT 1 cut(s) 1052
TaqI TCGA 7 cut(s) 228, 240, 318, 471, 492, 590, 629
TaqII GACCGA 2 cut(s) 525, 1122
TasI AATT 7 cut(s) 149, 530, 600, 640, 694, 827, 1075
TatI WGTACW 1 cut(s) 912
TauI GCSGC 2 cut(s) 18, 363
TfiI GAWTC 1 cut(s) 261
Tru1I TTAA 2 cut(s) 69, 759
Tru9I TTAA 2 cut(s) 69, 759
TscAI CASTG 1 cut(s) 786
TseI GCWGC 2 cut(s) 295, 1039
TspDTI ATGAA 4 cut(s) 445, 727, 1088, 1193
TspGWI ACGGA 2 cut(s) 693, 1082
TspRI CASTG 1 cut(s) 786
Tth111I GACNNNGTC 1 cut(s) 512
Van91I CCANNNNNTGG 1 cut(s) 982
VpaK11BI GGWCC 3 cut(s) 186, 508, 886
XapI RAATTY 2 cut(s) 149, 600
XceI RCATGY 2 cut(s) 838, 1172
XspI CTAG 1 cut(s) 1044
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.