MD11G1301000.v1.1

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0005712
Physical Location & Seq
Reverse (-)
41697997 .. 41700558
2562 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1301000.v1.1.491

Sequence Viewer

Length: 1866 bp
ATGGAAAATACAGAAGTTCCTTGCAGGGTTTTTGATATGTTGGCACATATGAGAATGCCAATCTCCGATGTTTCTAGCGATCTTACCGTGGAGATAGGAGCATCAAGCCTCGCACTTCACAAGTTCCCTCTAGTTTCTCGGAGTGGAAGGATTCGGAAGCTGTTGCTTGAAGCAAAAGATTCAAAAGTTTCACGCATAATTCTTGCTTCTGTTCCGGGTGGACCAGAGGGATTTGAACTAGCTGCGAAATTCTGTTACGGAGTTAATGTTGAGATTACGCAGTCAAATGTTGCCACACTTCGTTGCGTAGCGCACTTTCTGGAAATGACGGAAGAGTATGCTGAGAAAAACATGGAAACCAGAACTGAAGCTTATCTGAAGGAGACGGTTTTCCCAAACATAGCAAAGTCGATATCAGTTCTTCATCGCTGCGAAATCCTCTTGCCTGCAGCAGAAGAAACCAACTTGGTAAGCAGGCTTATCAACGCAATCGCAAACAATGTGTGCAAAGAGCAGCTCACCTCTGGCTTATTGAAACTTGACCACAACTTTCCTGAGAAAGCGGCTTCAAATATGCAACCTGAAACGCCTGCAGACTGGTGGGGAAAAGCGCTTACAGTGCTTAGTCTCGACTTCTTCAAACGTGTTATATCCACGTTGAAAACCAAGGGTCTTAAACAGGATCTGATCTGCAAAATTTTGATCAATTATGCTCATAATTCTCTTCAAGGACTTGTCATCCGAGACAACCAATTGGTAAAAGGAAGCCTTTTGGATTTAGAACTGCAAAACAAACAAAGTGTCATTGTTGAAGCTATAGTCAGTTTGCTTCCAACACAATCAAGGAAGAGTCTAGTTCCAATGGCATTTCTTTCGAGCTTGTTGAAAACTGCGATTGCAGCATCGTCGTCTGCTTCCTGCAGATCCGATTTAGAGAGACGGATTGGTCTGCAGCTGGATCAGGCAATTCTCGAAGACATCCTGATTCCGGCAAATTCACACGGAAACAACCACAGCACAATCTATGACACAGATGCTGTATTGACGATCTTTTCGATATTTCTGAACTTGGATGAGGATGATGATGATGAAGAGAATCACTTGAGGGACGAAAGAGAAATGGTTTATGATTTCGACAGCCCTGGATCTCCTAAGCAAAGTTCGATCCTGAAAGTATCAAAGTTGCTAGACAATTATCTTGCAGAAGTTGCACTGGACTCGAACTTGATGCCGTCAAGGTTCATAGCTCTAGCAGAACTACTTCCAGACCATGCTCGAATAATAAGCGATGGACTCTACCGAGCTGTGGATATCTTCCTCAAAGTCCATCCGAATCTCAAGGACTCTGAACGCTACCGCCTCTGCAAAACCATCGACTGCCAGAAACTATCCCAAGAAGCATGCAGTCATGCGGCACAGAATGAAAGGCTACCGGTACAAACGGCAGTGCAAGTGCTCTACTTCGAGCAAATCAGGCTCAGAAACGCAATGAACGGTGGCCACAACCAGTACTTCTTCGGGGCAATTAACGCCACACAAATCCCTCAAAGATCAGGCAGTGGTGCAGGCAGCGGAGCCATTTCACCGAGAGACAACTACGCGTCAGTCAGAAGAGAGAACCGCGAGCTGAAGCTTGAAGTTGCGAGAATGCGAATGAGGCTGACAGACTTGGAAAAAGATCATGTTTCTATGAAACAAGACCTTGTAAAGTCACATCCTGCAACCAAGCTGTTCAAATCTTTCACCAAAAAGTTGGGGAAGCTCGGTGCATTGTTCAAGATCAATAGTATCAACCCTCTTGGGGGGAAGGCGCGTTCGGAGTCCAGATTTCTGTTCCAGAAACGAAGGCGCCATTCGGTTTCTTGA

Protein Analysis

622

Amino Acids

69.45

Weight (kDa)

8.51

Isoelectric Point (pI)

43.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 199 - 468 8.6e-88 NPH3 family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 945
AccB1I GGYRCC 1 cut(s) 1848
AccII CGCG 3 cut(s) 1601, 1623, 1813
AciI CCGC 5 cut(s) 563, 1357, 1412, 1572, 1621
AclWI GGATC 5 cut(s) 690, 918, 966, 1153, 1159
AcoI YGGCCR 1 cut(s) 1498
AcsI RAATTY 3 cut(s) 248, 696, 994
AcuI CTGAAG 3 cut(s) 387, 398, 1649
AcyI GRCGYC 1 cut(s) 1849
AfaI GTAC 2 cut(s) 1437, 1511
AfeI AGCGCT 1 cut(s) 612
AfiI CCNNNNNNNGG 4 cut(s) 988, 1306, 1801, 1802
AflIII ACRYGT 2 cut(s) 643, 1599
AgeI ACCGGT 1 cut(s) 1432
AjnI CCWGG 1 cut(s) 1141
AloI GAACNNNNNNTCC 2 cut(s) 1798, 1830
Alw21I GWGCWC 1 cut(s) 1458
Alw26I GTCTC 5 cut(s) 377, 632, 738, 931, 1584
AlwI GGATC 5 cut(s) 690, 918, 966, 1153, 1159
AlwNI CAGNNNCTG 2 cut(s) 685, 1037
Aor51HI AGCGCT 1 cut(s) 612
AoxI GGCC 1 cut(s) 1498
ApeKI GCWGC 7 cut(s) 242, 429, 449, 514, 899, 952, 1569
ApoI RAATTY 3 cut(s) 248, 696, 994
ArsI GACNNNNNNTTYG 4 cut(s) 786, 818, 1036, 1068
AsiGI ACCGGT 1 cut(s) 1432
Asp700I GAANNNNTTC 1 cut(s) 1260
AspLEI GCGC 4 cut(s) 313, 613, 1813, 1851
AspS9I GGNCC 1 cut(s) 221
AsuC2I CCSGG 1 cut(s) 216
AsuHPI GGTGA 3 cut(s) 511, 1575, 1735
AvaII GGWCC 1 cut(s) 221
BalI TGGCCA 1 cut(s) 1500
BanI GGYRCC 1 cut(s) 1848
BbsI GAAGAC 1 cut(s) 981
Bbv12I GWGCWC 1 cut(s) 1458
BbvI GCAGC 7 cut(s) 229, 416, 461, 526, 911, 964, 1581
BccI CCATC 3 cut(s) 1283, 1335, 1379
BceAI ACGGC 2 cut(s) 1216, 1458
BciT130I CCWGG 1 cut(s) 1143
BclI TGATCA 1 cut(s) 702
BcnI CCSGG 1 cut(s) 216
BcoDI GTCTC 5 cut(s) 377, 632, 738, 931, 1584
BfaI CTAG 6 cut(s) 75, 131, 239, 854, 1187, 1250
BfmI CTRYAG 5 cut(s) 447, 591, 816, 919, 950
BfoI RGCGCY 2 cut(s) 614, 1852
BisI GCNGC 9 cut(s) 243, 430, 450, 515, 564, 900, 953, 1413, 1570
BlsI GCNGC 9 cut(s) 244, 431, 451, 516, 565, 901, 954, 1414, 1571
BmcAI AGTACT 1 cut(s) 1511
Bme1390I CCNGG 2 cut(s) 216, 1143
Bme18I GGWCC 1 cut(s) 221
BmgT120I GGNCC 1 cut(s) 221
BmiI GGNNCC 2 cut(s) 1576, 1850
BmrFI CCNGG 2 cut(s) 216, 1143
BmsI GCATC 4 cut(s) 110, 911, 1024, 1218
BpiI GAAGAC 1 cut(s) 981
Bpu10I CCTNAGC 1 cut(s) 1152
BpuEI CTTGAG 2 cut(s) 1123, 1322
BpuMI CCSGG 1 cut(s) 216
BsaHI GRCGYC 1 cut(s) 1849
BsaJI CCNNGG 3 cut(s) 87, 666, 1141
BsaWI WCCGGW 1 cut(s) 1432
BsaXI ACNNNNNCTCC 2 cut(s) 252, 282
Bsc4I CCNNNNNNNGG 4 cut(s) 988, 1306, 1801, 1802
Bse118I RCCGGY 1 cut(s) 1432
Bse1I ACTGG 3 cut(s) 602, 1218, 1507
Bse3DI GCAATG 1 cut(s) 1494
BseBI CCWGG 1 cut(s) 1143
BseDI CCNNGG 3 cut(s) 87, 666, 1141
BseGI GGATG 6 cut(s) 738, 978, 1078, 1084, 1327, 1714
BseLI CCNNNNNNNGG 4 cut(s) 988, 1306, 1801, 1802
BseMI GCAATG 1 cut(s) 1494
BseMII CTCAG 3 cut(s) 333, 546, 1492
BseNI ACTGG 3 cut(s) 602, 1218, 1507
BseXI GCAGC 7 cut(s) 229, 416, 461, 526, 911, 964, 1581
BsgI GTGCAG 1 cut(s) 1584
Bsh1236I CGCG 3 cut(s) 1601, 1623, 1813
BshFI GGCC 1 cut(s) 1500
BshNI GGYRCC 1 cut(s) 1848
BshTI ACCGGT 1 cut(s) 1432
BsiHKAI GWGCWC 1 cut(s) 1458
BsiSI CCGG 3 cut(s) 215, 989, 1433
BslFI GGGAC 1 cut(s) 1121
BslI CCNNNNNNNGG 4 cut(s) 988, 1306, 1801, 1802
BsmAI GTCTC 5 cut(s) 377, 632, 738, 931, 1584
BsmBI CGTCTC 2 cut(s) 377, 931
BsmFI GGGAC 1 cut(s) 1121
BsmI GAATGC 2 cut(s) 60, 1653
BsnI GGCC 1 cut(s) 1500
Bsp1286I GDGCHC 1 cut(s) 1458
BspACI CCGC 5 cut(s) 563, 1357, 1412, 1572, 1621
BspANI GGCC 1 cut(s) 1500
BspCNI CTCAG 3 cut(s) 334, 547, 1491
BspFNI CGCG 3 cut(s) 1601, 1623, 1813
BspLI GGNNCC 2 cut(s) 1576, 1850
BspMAI CTGCAG 4 cut(s) 451, 595, 923, 954
BspPI GGATC 5 cut(s) 690, 918, 966, 1153, 1159
BspT107I GGYRCC 1 cut(s) 1848
BsrDI GCAATG 1 cut(s) 1494
BsrFI RCCGGY 1 cut(s) 1432
BsrI ACTGG 3 cut(s) 602, 1218, 1507
BssAI RCCGGY 1 cut(s) 1432
BssECI CCNNGG 3 cut(s) 87, 666, 1141
BssNI GRCGYC 1 cut(s) 1849
BssT1I CCWWGG 1 cut(s) 666
Bst2UI CCWGG 1 cut(s) 1143
Bst4CI ACNGT 4 cut(s) 88, 388, 619, 1496
Bst6I CTCTTC 5 cut(s) 327, 729, 842, 1086, 1606
BstACI GRCGYC 1 cut(s) 1849
BstAPI GCANNNNNTGC 1 cut(s) 1208
BstC8I GCNNGC 6 cut(s) 447, 476, 591, 1402, 1567, 1625
BstDEI CTNAG 5 cut(s) 342, 555, 623, 1152, 1478
BstDSI CCRYGG 1 cut(s) 87
BstF5I GGATG 6 cut(s) 738, 978, 1078, 1084, 1327, 1714
BstFNI CGCG 3 cut(s) 1601, 1623, 1813
BstH2I RGCGCY 2 cut(s) 614, 1852
BstHHI GCGC 4 cut(s) 313, 613, 1813, 1851
BstMAI GTCTC 5 cut(s) 377, 632, 738, 931, 1584
BstMWI GCNNNNNNNGC 6 cut(s) 619, 899, 1208, 1474, 1529, 1657
BstNI CCWGG 1 cut(s) 1143
BstNSI RCATGY 1 cut(s) 1404
BstSCI CCNGG 2 cut(s) 214, 1141
BstSFI CTRYAG 5 cut(s) 447, 591, 816, 919, 950
BstUI CGCG 3 cut(s) 1601, 1623, 1813
BstV1I GCAGC 7 cut(s) 229, 416, 461, 526, 911, 964, 1581
BstV2I GAAGAC 1 cut(s) 981
BstX2I RGATCY 3 cut(s) 682, 923, 1145
BstXI CCANNNNNNTGG 1 cut(s) 1753
BstYI RGATCY 3 cut(s) 682, 923, 1145
BsuRI GGCC 1 cut(s) 1500
BtgI CCRYGG 1 cut(s) 87
BtgZI GCGATG 2 cut(s) 410, 1302
BtsCI GGATG 6 cut(s) 738, 978, 1078, 1084, 1327, 1714
BtsI GCAGTG 2 cut(s) 1452, 1564
BtsIMutI CAGTG 4 cut(s) 624, 1211, 1452, 1564
Cac8I GCNNGC 6 cut(s) 447, 476, 591, 1402, 1567, 1625
CaiI CAGNNNCTG 2 cut(s) 685, 1037
CfoI GCGC 4 cut(s) 313, 613, 1813, 1851
Cfr10I RCCGGY 1 cut(s) 1432
Cfr13I GGNCC 1 cut(s) 221
CseI GACGC 1 cut(s) 1590
Csp6I GTAC 2 cut(s) 1436, 1510
CspAI ACCGGT 1 cut(s) 1432
CviAII CATG 5 cut(s) 352, 1271, 1401, 1409, 1682
CviQI GTAC 2 cut(s) 1436, 1510
DdeI CTNAG 5 cut(s) 342, 555, 623, 1152, 1478
DinI GGCGCC 1 cut(s) 1850
DrdI GACNNNNNNGTC 1 cut(s) 945
DseDI GACNNNNNNGTC 1 cut(s) 945
EaeI YGGCCR 1 cut(s) 1498
Eam1104I CTCTTC 5 cut(s) 327, 729, 842, 1086, 1606
EarI CTCTTC 5 cut(s) 327, 729, 842, 1086, 1606
Eco130I CCWWGG 1 cut(s) 666
Eco32I GATATC 2 cut(s) 414, 1312
Eco47I GGWCC 1 cut(s) 221
Eco47III AGCGCT 1 cut(s) 612
Eco57I CTGAAG 3 cut(s) 387, 398, 1649
EcoRII CCWGG 1 cut(s) 1141
EcoRV GATATC 2 cut(s) 414, 1312
EcoT14I CCWWGG 1 cut(s) 666
EgeI GGCGCC 1 cut(s) 1850
EheI GGCGCC 1 cut(s) 1850
ErhI CCWWGG 1 cut(s) 666
Esp3I CGTCTC 2 cut(s) 377, 931
FaeI CATG 5 cut(s) 355, 1274, 1404, 1412, 1685
FalI AAGNNNNNCTT 2 cut(s) 753, 785
FaqI GGGAC 1 cut(s) 1121
FatI CATG 5 cut(s) 351, 1270, 1400, 1408, 1681
FauNDI CATATG 1 cut(s) 48
FbaI TGATCA 1 cut(s) 702
Fnu4HI GCNGC 9 cut(s) 243, 430, 450, 515, 564, 900, 953, 1413, 1570
FokI GGATG 6 cut(s) 725, 965, 1085, 1091, 1314, 1701
Fsp4HI GCNGC 9 cut(s) 243, 430, 450, 515, 564, 900, 953, 1413, 1570
FspBI CTAG 6 cut(s) 75, 131, 239, 854, 1187, 1250
GlaI GCGC 4 cut(s) 312, 612, 1812, 1850
GluI GCNGC 9 cut(s) 243, 430, 450, 515, 564, 900, 953, 1413, 1570
HaeII RGCGCY 2 cut(s) 614, 1852
HaeIII GGCC 1 cut(s) 1500
HapII CCGG 3 cut(s) 215, 989, 1433
HgaI GACGC 1 cut(s) 1590
HhaI GCGC 4 cut(s) 313, 613, 1813, 1851
Hin1I GRCGYC 1 cut(s) 1849
Hin1II CATG 5 cut(s) 355, 1274, 1404, 1412, 1685
Hin6I GCGC 4 cut(s) 311, 611, 1811, 1849
HinP1I GCGC 4 cut(s) 311, 611, 1811, 1849
HindIII AAGCTT 2 cut(s) 369, 1631
HpaII CCGG 3 cut(s) 215, 989, 1433
HphI GGTGA 3 cut(s) 511, 1575, 1735
Hpy166II GTNNAC 1 cut(s) 221
Hpy8I GTNNAC 1 cut(s) 221
Hpy99I CGWCG 1 cut(s) 910
HpyAV CCTTC 4 cut(s) 141, 373, 1801, 1839
HpyCH4III ACNGT 4 cut(s) 88, 388, 619, 1496
HpyCH4IV ACGT 2 cut(s) 643, 656
HpyF10VI GCNNNNNNNGC 6 cut(s) 619, 899, 1208, 1474, 1529, 1657
HpyF3I CTNAG 5 cut(s) 342, 555, 623, 1152, 1478
HpySE526I ACGT 2 cut(s) 643, 656
Hsp92I GRCGYC 1 cut(s) 1849
Hsp92II CATG 5 cut(s) 355, 1274, 1404, 1412, 1685
HspAI GCGC 4 cut(s) 311, 611, 1811, 1849
KasI GGCGCC 1 cut(s) 1848
Ksp22I TGATCA 1 cut(s) 702
LmnI GCTCC 2 cut(s) 98, 1574
Lsp1109I GCAGC 7 cut(s) 229, 416, 461, 526, 911, 964, 1581
LweI GCATC 4 cut(s) 110, 911, 1024, 1218
MaeI CTAG 6 cut(s) 75, 131, 239, 854, 1187, 1250
MaeII ACGT 2 cut(s) 643, 656
MaeIII GTNAC 2 cut(s) 254, 1710
MfeI CAATTG 1 cut(s) 752
MflI RGATCY 3 cut(s) 682, 923, 1145
MhlI GDGCHC 1 cut(s) 1458
MlsI TGGCCA 1 cut(s) 1500
MluI ACGCGT 1 cut(s) 1599
MluNI TGGCCA 1 cut(s) 1500
Mly113I GGCGCC 1 cut(s) 1849
MlyI GAGTC 5 cut(s) 859, 1211, 1287, 1337, 1829
MmeI TCCRAC 1 cut(s) 857
Mox20I TGGCCA 1 cut(s) 1500
MroXI GAANNNNTTC 1 cut(s) 1260
MscI TGGCCA 1 cut(s) 1500
MseI TTAA 3 cut(s) 264, 675, 1527
Msp20I TGGCCA 1 cut(s) 1500
MspA1I CMGCKG 2 cut(s) 955, 1572
MspI CCGG 3 cut(s) 215, 989, 1433
MspR9I CCNGG 2 cut(s) 216, 1143
MunI CAATTG 1 cut(s) 752
Mva1269I GAATGC 2 cut(s) 60, 1653
MvaI CCWGG 1 cut(s) 1143
MvnI CGCG 3 cut(s) 1601, 1623, 1813
MwoI GCNNNNNNNGC 6 cut(s) 619, 899, 1208, 1474, 1529, 1657
NarI GGCGCC 1 cut(s) 1849
NciI CCSGG 1 cut(s) 216
NdeI CATATG 1 cut(s) 48
NlaIII CATG 5 cut(s) 355, 1274, 1404, 1412, 1685
NlaIV GGNNCC 2 cut(s) 1576, 1850
NmuCI GTSAC 1 cut(s) 1710
NspI RCATGY 1 cut(s) 1404
PaeI GCATGC 1 cut(s) 1404
PcsI WCGNNNNNNNCGW 1 cut(s) 1052
PctI GAATGC 2 cut(s) 60, 1653
PdmI GAANNNNTTC 1 cut(s) 1260
PfeI GAWTC 5 cut(s) 151, 179, 985, 1096, 1333
PinAI ACCGGT 1 cut(s) 1432
PkrI GCNGC 9 cut(s) 244, 431, 451, 516, 565, 901, 954, 1414, 1571
PleI GAGTC 5 cut(s) 858, 1211, 1287, 1337, 1828
PluTI GGCGCC 1 cut(s) 1852
PpsI GAGTC 5 cut(s) 858, 1211, 1287, 1337, 1828
Psp6I CCWGG 1 cut(s) 1141
PspGI CCWGG 1 cut(s) 1141
PspN4I GGNNCC 2 cut(s) 1576, 1850
PspPI GGNCC 1 cut(s) 221
PstI CTGCAG 4 cut(s) 451, 595, 923, 954
PstNI CAGNNNCTG 2 cut(s) 685, 1037
PsuI RGATCY 3 cut(s) 682, 923, 1145
PvuII CAGCTG 1 cut(s) 955
RsaI GTAC 2 cut(s) 1437, 1511
RsaNI GTAC 2 cut(s) 1436, 1510
SaqAI TTAA 3 cut(s) 264, 675, 1527
SatI GCNGC 9 cut(s) 243, 430, 450, 515, 564, 900, 953, 1413, 1570
Sau96I GGNCC 1 cut(s) 221
ScaI AGTACT 1 cut(s) 1511
SchI GAGTC 5 cut(s) 859, 1211, 1287, 1337, 1829
ScrFI CCNGG 2 cut(s) 216, 1143
SduI GDGCHC 1 cut(s) 1458
SfaNI GCATC 4 cut(s) 110, 911, 1024, 1218
SfcI CTRYAG 5 cut(s) 447, 591, 816, 919, 950
SfoI GGCGCC 1 cut(s) 1850
SinI GGWCC 1 cut(s) 221
SmlI CTYRAG 2 cut(s) 1102, 1337
SmoI CTYRAG 2 cut(s) 1102, 1337
SphI GCATGC 1 cut(s) 1404
SsiI CCGC 5 cut(s) 563, 1357, 1412, 1572, 1621
SspDI GGCGCC 1 cut(s) 1848
SspMI CTAG 6 cut(s) 75, 131, 239, 854, 1187, 1250
StyD4I CCNGG 2 cut(s) 214, 1141
StyI CCWWGG 1 cut(s) 666
TaaI ACNGT 4 cut(s) 88, 388, 619, 1496
TaiI ACGT 2 cut(s) 646, 659
TatI WGTACW 1 cut(s) 1509
TauI GCSGC 2 cut(s) 566, 1415
TfiI GAWTC 5 cut(s) 151, 179, 985, 1096, 1333
Tru1I TTAA 3 cut(s) 264, 675, 1527
Tru9I TTAA 3 cut(s) 264, 675, 1527
TscAI CASTG 4 cut(s) 624, 1218, 1452, 1564
TseFI GTSAC 1 cut(s) 1710
TseI GCWGC 7 cut(s) 242, 429, 449, 514, 899, 952, 1569
Tsp45I GTSAC 1 cut(s) 1710
TspDTI ATGAA 6 cut(s) 413, 1104, 1231, 1437, 1505, 1706
TspGWI ACGGA 4 cut(s) 273, 344, 955, 1017
TspRI CASTG 4 cut(s) 624, 1218, 1452, 1564
VpaK11BI GGWCC 1 cut(s) 221
XapI RAATTY 3 cut(s) 248, 696, 994
XceI RCATGY 1 cut(s) 1404
XmnI GAANNNNTTC 1 cut(s) 1260
XspI CTAG 6 cut(s) 75, 131, 239, 854, 1187, 1250
ZrmI AGTACT 1 cut(s) 1511
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.