MD00G1016400.v1.1

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr00
OG0010308
Physical Location & Seq
Forward (+)
2374504 .. 2376063
1560 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1016400.v1.1.491

Sequence Viewer

Length: 1560 bp
ATGGAACTGGAGCTGTTGCTTTCTTCCTCCAAGTCCACTTGTTTACCCTTGTTTCTCTCCTCCTCCTCCTCCTGCAGCAAATCCCCTTTTCTTCTTAAACCCAAGCAATCTCTAAAAAACCCTCATCTCTCGCTCTCGCAAAAATCCCAATTCTGGGGCAATAGTTTAGTTTTACATGGTGCTGCTTTGAGTAACCTCACGAAACCCACCCATGTCCCATTTGGCCCAATATGTGCTGCTGCTGTCAAGAGAAGGAAAGAACTTCCCTTTGACAACGTCATTCAAAAGGATAAGAAGCTGAAGCTGGTTCTCAAGATACGCAAGATTTTAGTCAGCCAACCTGATAGAGTTATGTCGCTTAGAGAGTTAGGTAGGTACAGAAAAGAATTGGGTCTGCAGAAAAAACGCCGTTTCATTGCTCTTCTGAAGAAATTCCCAGCCGTGTTTGAGATTGTTGAAGAAGGGGTTTACTCCTTGGAATTTAAACTGACTCCCGAAGCTGAAAGGCTATATTTTGAGGAGTTGAAGGCTAGGAATGAGATGGAAGACCTGCTCGTGGTCAAGTTGAGGAAATTGTTGATGATGTCCTTGGATAAGTTGATTCTATTGGAGAAGATTGCCCATTTGAGGAATGATTTAGGGCTTCCCCTAGAGTTTCGTGACACTATTTGTCACCGGTACCCACAGTTCTTTAAAGTAGTTGCAACTGCAAGCGGTCCCGCATTAGAATTAACTCGTTGGGACCCTGAACTTGCAGTCTCCGCAGCTGAGTTGTCTGAAGAGGAAAACCGAGTTAGAGAGATTGAAGAGAAGGATTTGATTATAGATAGACCTATCAAGTTCAAAAGATTAAAGCTGCCAAAGGGCCTTAATCTTTCAAAGGGTGAGATGAGGAGGATATGCCTATTTAGAGACATACCTTATATATCCCCTTACTCTGATTTCTCGGGACTGAGATCAGGTACTATTGAGAAAGAGAAACATGCTTGTGCGGTTGCCCATGAGATTTTGAGTCTTACTGTGGAGAAGAGAACCCTTGTGGATCACCTTACTCATTTTCGAGAAGAGTTCAAGTTCTCTCAACAGGTGAGGGGTATGCTGATAAGGCACCCCGATATGTTTTATGTGTCCTTGAAAGGAGATAGAGATTCAGTTTTCCTTAGGGAAGCATATCGTGATTCTCAATTGATAGACAAGGATCGTTTGTTGATCATAAAGGAGAAGCTTCGATCTATTATTTCTGTTCCTCAGTTTCCTAGACGGGGTGCTCCCAGGACTGAGGCAGATGGTGCAAAAGGAAGTGATGAGGCAAAAGATGGAACTCTTGAGGAAGGAGAGGAATGGTCTGGGGATGATCATGAGTTCGATGATGACGAAGATGATGATGAAAATGATTGGAGTGATGAAGATGATGATACACCTCCAAATTTTGACAAAGATGGGAAAACATCAAATATTGGAGTGAGCAAACCAGTCAAACAGGAGGGCAGTTCGAGAGAGAATGATGGAAAGGTGCTTGTTCCAGTGTTGCCTGATGGTCGGCCAAGGGAGCGCTGGTAA

Protein Analysis

520

Amino Acids

59.58

Weight (kDa)

7.62

Isoelectric Point (pI)

46.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 86 - 413 1.5e-105 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 558
Acc65I GGTACC 1 cut(s) 678
AccB1I GGYRCC 2 cut(s) 678, 1107
AciI CCGC 4 cut(s) 714, 720, 762, 992
AclWI GGATC 2 cut(s) 1050, 1206
AcoI YGGCCR 1 cut(s) 1541
AcsI RAATTY 3 cut(s) 431, 479, 1426
AcuI CTGAAG 3 cut(s) 320, 446, 798
AfaI GTAC 3 cut(s) 377, 680, 964
AfeI AGCGCT 1 cut(s) 1553
AfiI CCNNNNNNNGG 5 cut(s) 153, 154, 556, 627, 1262
AgeI ACCGGT 1 cut(s) 675
AgsI TTSAA 8 cut(s) 284, 458, 526, 806, 844, 879, 1072, 1135
AjnI CCWGG 1 cut(s) 1271
AluBI AGCT 7 cut(s) 13, 298, 304, 500, 767, 856, 1225
AluI AGCT 7 cut(s) 13, 298, 304, 500, 767, 856, 1225
Alw21I GWGCWC 1 cut(s) 1270
Alw26I GTCTC 2 cut(s) 763, 906
AlwI GGATC 2 cut(s) 1050, 1206
Ama87I CYCGRG 1 cut(s) 946
Aor51HI AGCGCT 1 cut(s) 1553
AoxI GGCC 3 cut(s) 223, 865, 1541
ApeKI GCWGC 6 cut(s) 75, 182, 236, 239, 764, 856
ApoI RAATTY 3 cut(s) 431, 479, 1426
AsiGI ACCGGT 1 cut(s) 675
Asp700I GAANNNNTTC 1 cut(s) 431
Asp718I GGTACC 1 cut(s) 678
AspLEI GCGC 1 cut(s) 1554
AspS9I GGNCC 4 cut(s) 224, 716, 742, 865
AsuHPI GGTGA 4 cut(s) 665, 896, 1037, 1099
AvaI CYCGRG 1 cut(s) 946
AvaII GGWCC 2 cut(s) 716, 742
AxyI CCTNAGG 1 cut(s) 1160
BanI GGYRCC 2 cut(s) 678, 1107
BauI CACGAG 1 cut(s) 554
BbsI GAAGAC 1 cut(s) 552
Bbv12I GWGCWC 1 cut(s) 1270
BbvI GCAGC 6 cut(s) 87, 169, 223, 226, 776, 843
BccI CCATC 6 cut(s) 535, 1280, 1310, 1433, 1499, 1529
BceAI ACGGC 2 cut(s) 393, 425
BciT130I CCWGG 1 cut(s) 1273
BclI TGATCA 2 cut(s) 1209, 1354
BcoDI GTCTC 2 cut(s) 763, 906
BfaI CTAG 3 cut(s) 531, 650, 1257
BfmI CTRYAG 2 cut(s) 73, 395
BfoI RGCGCY 1 cut(s) 1555
BfuAI ACCTGC 1 cut(s) 558
BisI GCNGC 6 cut(s) 76, 183, 237, 240, 765, 857
BlsI GCNGC 6 cut(s) 77, 184, 238, 241, 766, 858
Bme1390I CCNGG 1 cut(s) 1273
Bme18I GGWCC 2 cut(s) 716, 742
BmeT110I CYCGRG 1 cut(s) 946
BmgT120I GGNCC 4 cut(s) 224, 716, 742, 865
BmiI GGNNCC 5 cut(s) 680, 718, 743, 744, 1109
BmrFI CCNGG 1 cut(s) 1273
BpiI GAAGAC 1 cut(s) 552
BpmI CTGGAG 1 cut(s) 29
BpuEI CTTGAG 2 cut(s) 296, 1346
BsaJI CCNNGG 4 cut(s) 474, 588, 1271, 1544
BsaWI WCCGGW 1 cut(s) 675
BsaXI ACNNNNNCTCC 1 cut(s) 1541
Bsc4I CCNNNNNNNGG 5 cut(s) 153, 154, 556, 627, 1262
Bse118I RCCGGY 1 cut(s) 675
Bse1I ACTGG 3 cut(s) 12, 1472, 1523
Bse21I CCTNAGG 1 cut(s) 1160
Bse3DI GCAATG 1 cut(s) 414
BseBI CCWGG 1 cut(s) 1273
BseDI CCNNGG 4 cut(s) 474, 588, 1271, 1544
BseGI GGATG 1 cut(s) 1357
BseLI CCNNNNNNNGG 5 cut(s) 153, 154, 556, 627, 1262
BseMI GCAATG 1 cut(s) 414
BseMII CTCAG 4 cut(s) 759, 944, 1262, 1269
BseNI ACTGG 3 cut(s) 12, 1472, 1523
BseRI GAGGAG 6 cut(s) 49, 52, 55, 58, 533, 907
BseXI GCAGC 6 cut(s) 87, 169, 223, 226, 776, 843
BseYI CCCAGC 1 cut(s) 436
BshFI GGCC 3 cut(s) 225, 867, 1543
BshNI GGYRCC 2 cut(s) 678, 1107
BshTI ACCGGT 1 cut(s) 675
BsiHKAI GWGCWC 1 cut(s) 1270
BsiHKCI CYCGRG 1 cut(s) 946
BsiSI CCGG 1 cut(s) 676
BslFI GGGAC 4 cut(s) 200, 702, 755, 963
BslI CCNNNNNNNGG 5 cut(s) 153, 154, 556, 627, 1262
BsmAI GTCTC 2 cut(s) 763, 906
BsmFI GGGAC 4 cut(s) 200, 702, 755, 963
BsnI GGCC 3 cut(s) 225, 867, 1543
BsoBI CYCGRG 1 cut(s) 946
Bsp1286I GDGCHC 1 cut(s) 1270
Bsp143I GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
BspACI CCGC 4 cut(s) 714, 720, 762, 992
BspANI GGCC 3 cut(s) 225, 867, 1543
BspCNI CTCAG 4 cut(s) 760, 945, 1261, 1270
BspHI TCATGA 1 cut(s) 1357
BspLI GGNNCC 5 cut(s) 680, 718, 743, 744, 1109
BspMAI CTGCAG 2 cut(s) 77, 399
BspMI ACCTGC 1 cut(s) 558
BspPI GGATC 2 cut(s) 1050, 1206
BspQI GCTCTTC 1 cut(s) 426
BspT107I GGYRCC 2 cut(s) 678, 1107
BsrDI GCAATG 1 cut(s) 414
BsrFI RCCGGY 1 cut(s) 675
BsrI ACTGG 3 cut(s) 12, 1472, 1523
BssAI RCCGGY 1 cut(s) 675
BssECI CCNNGG 4 cut(s) 474, 588, 1271, 1544
BssMI GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
BssSI CACGAG 1 cut(s) 554
BssT1I CCWWGG 3 cut(s) 474, 588, 1544
Bst2BI CACGAG 1 cut(s) 554
Bst2UI CCWGG 1 cut(s) 1273
Bst4CI ACNGT 2 cut(s) 687, 1021
Bst6I CTCTTC 5 cut(s) 426, 774, 801, 1022, 1059
BstAPI GCANNNNNTGC 1 cut(s) 1289
BstC8I GCNNGC 1 cut(s) 712
BstDEI CTNAG 6 cut(s) 359, 768, 953, 1160, 1248, 1278
BstF5I GGATG 1 cut(s) 1357
BstH2I RGCGCY 1 cut(s) 1555
BstHHI GCGC 1 cut(s) 1554
BstKTI GATC 6 cut(s) 959, 1045, 1201, 1212, 1232, 1357
BstMAI GTCTC 2 cut(s) 763, 906
BstMBI GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
BstMWI GCNNNNNNNGC 4 cut(s) 761, 1105, 1289, 1549
BstNI CCWGG 1 cut(s) 1273
BstNSI RCATGY 1 cut(s) 986
BstSCI CCNGG 1 cut(s) 1271
BstSFI CTRYAG 2 cut(s) 73, 395
BstV1I GCAGC 6 cut(s) 87, 169, 223, 226, 776, 843
BstV2I GAAGAC 1 cut(s) 552
Bsu36I CCTNAGG 1 cut(s) 1160
BsuRI GGCC 3 cut(s) 225, 867, 1543
BtsCI GGATG 1 cut(s) 1357
BtsIMutI CAGTG 1 cut(s) 1530
BveI ACCTGC 1 cut(s) 558
Cac8I GCNNGC 1 cut(s) 712
CciI TCATGA 1 cut(s) 1357
CfoI GCGC 1 cut(s) 1554
Cfr10I RCCGGY 1 cut(s) 675
Cfr13I GGNCC 4 cut(s) 224, 716, 742, 865
Csp6I GTAC 3 cut(s) 376, 679, 963
CspAI ACCGGT 1 cut(s) 675
CviAII CATG 5 cut(s) 176, 212, 983, 1001, 1358
CviQI GTAC 3 cut(s) 376, 679, 963
DdeI CTNAG 6 cut(s) 359, 768, 953, 1160, 1248, 1278
DpnI GATC 6 cut(s) 958, 1044, 1200, 1211, 1231, 1356
DpnII GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
DraI TTTAAA 2 cut(s) 484, 694
EaeI YGGCCR 1 cut(s) 1541
Eam1104I CTCTTC 5 cut(s) 426, 774, 801, 1022, 1059
EarI CTCTTC 5 cut(s) 426, 774, 801, 1022, 1059
Eco130I CCWWGG 3 cut(s) 474, 588, 1544
Eco47I GGWCC 2 cut(s) 716, 742
Eco47III AGCGCT 1 cut(s) 1553
Eco57I CTGAAG 3 cut(s) 320, 446, 798
Eco81I CCTNAGG 1 cut(s) 1160
Eco88I CYCGRG 1 cut(s) 946
EcoO109I RGGNCCY 2 cut(s) 742, 865
EcoRII CCWGG 1 cut(s) 1271
EcoT14I CCWWGG 3 cut(s) 474, 588, 1544
ErhI CCWWGG 3 cut(s) 474, 588, 1544
FaeI CATG 5 cut(s) 179, 215, 986, 1004, 1361
FaqI GGGAC 4 cut(s) 200, 702, 755, 963
FatI CATG 5 cut(s) 175, 211, 982, 1000, 1357
FauI CCCGC 1 cut(s) 727
FbaI TGATCA 2 cut(s) 1209, 1354
Fnu4HI GCNGC 6 cut(s) 76, 183, 237, 240, 765, 857
FokI GGATG 1 cut(s) 1364
Fsp4HI GCNGC 6 cut(s) 76, 183, 237, 240, 765, 857
FspBI CTAG 3 cut(s) 531, 650, 1257
GlaI GCGC 1 cut(s) 1553
GluI GCNGC 6 cut(s) 76, 183, 237, 240, 765, 857
GsaI CCCAGC 1 cut(s) 440
GsuI CTGGAG 1 cut(s) 29
HaeII RGCGCY 1 cut(s) 1555
HaeIII GGCC 3 cut(s) 225, 867, 1543
HapII CCGG 1 cut(s) 676
HhaI GCGC 1 cut(s) 1554
Hin1II CATG 5 cut(s) 179, 215, 986, 1004, 1361
Hin6I GCGC 1 cut(s) 1552
HinP1I GCGC 1 cut(s) 1552
HindIII AAGCTT 1 cut(s) 1223
HinfI GANTC 5 cut(s) 490, 601, 1012, 1148, 1178
HpaII CCGG 1 cut(s) 676
HphI GGTGA 4 cut(s) 665, 896, 1037, 1099
Hpy166II GTNNAC 3 cut(s) 36, 44, 469
Hpy188I TCNGA 3 cut(s) 426, 778, 940
Hpy8I GTNNAC 3 cut(s) 36, 44, 469
HpyAV CCTTC 5 cut(s) 246, 455, 520, 805, 1325
HpyCH4III ACNGT 2 cut(s) 687, 1021
HpyCH4IV ACGT 1 cut(s) 276
HpyCH4V TGCA 6 cut(s) 75, 397, 704, 710, 755, 1292
HpyF10VI GCNNNNNNNGC 4 cut(s) 761, 1105, 1289, 1549
HpyF3I CTNAG 6 cut(s) 359, 768, 953, 1160, 1248, 1278
HpySE526I ACGT 1 cut(s) 276
Hsp92II CATG 5 cut(s) 179, 215, 986, 1004, 1361
HspAI GCGC 1 cut(s) 1552
KflI GGGWCCC 1 cut(s) 742
KpnI GGTACC 1 cut(s) 682
Ksp22I TGATCA 2 cut(s) 1209, 1354
Kzo9I GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
LguI GCTCTTC 1 cut(s) 426
LmnI GCTCC 3 cut(s) 10, 1273, 1549
Lsp1109I GCAGC 6 cut(s) 87, 169, 223, 226, 776, 843
MaeI CTAG 3 cut(s) 531, 650, 1257
MaeII ACGT 1 cut(s) 276
MaeIII GTNAC 3 cut(s) 191, 659, 671
MalI GATC 6 cut(s) 958, 1044, 1200, 1211, 1231, 1356
MboI GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
MfeI CAATTG 1 cut(s) 1184
MhlI GDGCHC 1 cut(s) 1270
MluCI AATT 8 cut(s) 149, 386, 431, 479, 572, 728, 1184, 1426
MlyI GAGTC 2 cut(s) 484, 1021
MroXI GAANNNNTTC 1 cut(s) 431
MseI TTAA 6 cut(s) 96, 483, 693, 731, 851, 870
MslI CAYNNNNRTG 1 cut(s) 987
MspA1I CMGCKG 1 cut(s) 767
MspI CCGG 1 cut(s) 676
MspR9I CCNGG 1 cut(s) 1273
MunI CAATTG 1 cut(s) 1184
MvaI CCWGG 1 cut(s) 1273
MwoI GCNNNNNNNGC 4 cut(s) 761, 1105, 1289, 1549
NdeII GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
NlaIII CATG 5 cut(s) 179, 215, 986, 1004, 1361
NlaIV GGNNCC 5 cut(s) 680, 718, 743, 744, 1109
NmuCI GTSAC 2 cut(s) 659, 671
NspI RCATGY 1 cut(s) 986
PagI TCATGA 1 cut(s) 1357
PciSI GCTCTTC 1 cut(s) 426
PcsI WCGNNNNNNNCGW 1 cut(s) 1371
PdmI GAANNNNTTC 1 cut(s) 431
PfeI GAWTC 3 cut(s) 601, 1148, 1178
PflFI GACNNNGTC 1 cut(s) 275
PinAI ACCGGT 1 cut(s) 675
PkrI GCNGC 6 cut(s) 77, 184, 238, 241, 766, 858
PleI GAGTC 2 cut(s) 484, 1020
PpsI GAGTC 2 cut(s) 484, 1020
PpuMI RGGWCCY 1 cut(s) 742
Psp5II RGGWCCY 1 cut(s) 742
Psp6I CCWGG 1 cut(s) 1271
PspFI CCCAGC 1 cut(s) 436
PspGI CCWGG 1 cut(s) 1271
PspN4I GGNNCC 5 cut(s) 680, 718, 743, 744, 1109
PspPI GGNCC 4 cut(s) 224, 716, 742, 865
PspPPI RGGWCCY 1 cut(s) 742
PsrI GAACNNNNNNTAC 2 cut(s) 671, 703
PstI CTGCAG 2 cut(s) 77, 399
PsyI GACNNNGTC 1 cut(s) 275
PvuII CAGCTG 1 cut(s) 767
RsaI GTAC 3 cut(s) 377, 680, 964
RsaNI GTAC 3 cut(s) 376, 679, 963
RseI CAYNNNNRTG 1 cut(s) 987
SapI GCTCTTC 1 cut(s) 426
SaqAI TTAA 6 cut(s) 96, 483, 693, 731, 851, 870
SatI GCNGC 6 cut(s) 76, 183, 237, 240, 765, 857
Sau3AI GATC 6 cut(s) 956, 1042, 1198, 1209, 1229, 1354
Sau96I GGNCC 4 cut(s) 224, 716, 742, 865
SchI GAGTC 2 cut(s) 484, 1021
ScrFI CCNGG 1 cut(s) 1273
SduI GDGCHC 1 cut(s) 1270
SfcI CTRYAG 2 cut(s) 73, 395
SinI GGWCC 2 cut(s) 716, 742
SmiMI CAYNNNNRTG 1 cut(s) 987
SmlI CTYRAG 2 cut(s) 311, 1325
SmoI CTYRAG 2 cut(s) 311, 1325
Sse9I AATT 8 cut(s) 149, 386, 431, 479, 572, 728, 1184, 1426
SsiI CCGC 4 cut(s) 714, 720, 762, 992
SspI AATATT 1 cut(s) 1456
SspMI CTAG 3 cut(s) 531, 650, 1257
StyD4I CCNGG 1 cut(s) 1271
StyI CCWWGG 3 cut(s) 474, 588, 1544
TaaI ACNGT 2 cut(s) 687, 1021
TaiI ACGT 1 cut(s) 279
TaqI TCGA 4 cut(s) 1060, 1228, 1365, 1493
TasI AATT 8 cut(s) 149, 386, 431, 479, 572, 728, 1184, 1426
TfiI GAWTC 3 cut(s) 601, 1148, 1178
Tru1I TTAA 6 cut(s) 96, 483, 693, 731, 851, 870
Tru9I TTAA 6 cut(s) 96, 483, 693, 731, 851, 870
TscAI CASTG 1 cut(s) 1530
TseFI GTSAC 2 cut(s) 659, 671
TseI GCWGC 6 cut(s) 75, 182, 236, 239, 764, 856
Tsp45I GTSAC 2 cut(s) 659, 671
TspDTI ATGAA 3 cut(s) 403, 1401, 1419
TspRI CASTG 1 cut(s) 1530
Tth111I GACNNNGTC 1 cut(s) 275
VpaK11BI GGWCC 2 cut(s) 716, 742
XapI RAATTY 3 cut(s) 431, 479, 1426
XceI RCATGY 1 cut(s) 986
XcmI CCANNNNNNNNNTGG 2 cut(s) 218, 1551
XmnI GAANNNNTTC 1 cut(s) 431
XspI CTAG 3 cut(s) 531, 650, 1257
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.