MD10G1340700.v1.1

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0008724
Physical Location & Seq
Forward (+)
41605573 .. 41608490
2918 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1340700.v1.1.491

Sequence Viewer

Length: 1866 bp
ATGAAGTTTATGAAAATTGGAACCAACCCGGACACCTTCTACACCGAAGAAGCTACCAGGACCGTGATTTCGGATGCACCCAGCGACTTTGTCATACAAATTAACAACATCCATTATCTTCTCCATAAGTTTCCACTTCTTCCAAAATGTGGCCTCTTACAACGGCTTTGCTCTGACTCTGGTGATTTGGAAAAGGTCAGCATAAAGCTTCACGATATTCCAGGAGGTGAAGATGCGTTTGAAATGTGTGCGAAGTTCTGTTACGGAATTACGATTAATCTCAGCGCCTATAATTTTGTACCTGCATTTTGTGCTGCTAAGTTCCTCCGAATGACCGAGTCAGTAGAGAAGGGAAATTTTGTTCCAAAACTCGAGGCTTTCTTCAATTCATGCATTCTTGAAGGTTGGAAAGACTCCATTACTGCACTACAAACTACAGTGAAGTTGCCTGAATGGTCTGAGAATCTTGGGATCATCCGAAAGTGCATTGATTCAATTGTTGAGAAAATCCTTACTCCTCCAGCAAAGGTTGCATGGTCCTACACTTATACCAGACCTGGCTACACCAAAAAGCAACATCATTCTGTCCCAAAGGATTGGTGGACTGAGGATATATCAGATCTTGATGTAGACCTGTTTCGATGTATAATTACTGCTGTTAGAGCCACGCATGTGCTGCCACCACGGCTCATTGGGGAAGCTTTGCACGTCTATGCTTGTCGTTGGCTGCCAGATACCACAAGAACACCTCCACAAACAGATGAGGAACTCATGGAAAACAATCGAAGAATTGTTGATAGCGTTGTGAGTATGATTCCCGGAGATAAGGGAGCAGTTTCTGTTGGTTTCTTGCTAAGGCTTATTGTAATTGCCAATTACTTGAGAGTATCCCCAGCGACAAAGACTGACCTGTTAAGGAGGTCTGGTCTACAACTCGAAGAGGCAATGGTGGATGACCTGATTTTTCCTTCAAACTCGCCCGCTGACCCGGAATTTTACGATATTGACTTGGTTTTGGAAGTGTTAGAAAGTTTCTTGGTGCTATGGAAAAGACAATCCCCTGCAGCTGCTTCTGAATTGGACAGAAGTGCTCAGGTTTTAGGAACAATGAGAAAGGTTGGGAAACTCATTGATTCGTACCTTCAAGTTGTTGCCAGGGATGTCAACATGCCAGTTTCAAAAGTGGTATCTCTGGCTGAAGCTTTGCCAGATATTGCAAGGGAAGACCATGACGGCATCTACAAGGCTATTAACATTTATCTAAAGGAGCATGGTGATCTAAGCAAGGCAGACAAGAAACGCTTGTGCCGCATTTTAGACTGCCAGAAGTTGTCGCCTGAGGTACGCGCTCATGCTGTGAAAAATGAGCGGCTACCATTGAGGACTGTTGTGCAAGTCCTCTTCTTTGAACAAGAGAGGGACAGAGGTTCCAACTCCAGGGCAGCAGCAGCAACTCATGATCGTCATAAACATAAGCCACTGCCAATAACACCCTCCCTGTTCCATGAGCCAGGAAAACAAACAATGCCAAGTAGCAGAGAATCGGATAGTCAAAGTCATAAGCTAAAATTAGGAGCAGCAAATGTTCATGATAAATTCAGTAGTAGTACCACTGGAAAGAAAGATAATCAACTGCTGCAAATGCAAAACAAAAGATCAGGCGGAAAGTTGGCATTGAAAAACGAAAGAAAGGGTGTCAGATTAGAAACGCAACAAGTAGATCATCAAGGACATAATATGGGAAGGGAAATCGTAAGAGGAGGAGCATCTGGATCTGCAGGTGCAGGGAGCAAGTTGGACGCTAAGAAGATGATCCAAAGGGGAAGTAGGCCGGGCCATGGCCACGACAAAGACAAAGATAGATAG
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
BTB NPH3

Protein Analysis

622

Amino Acids

69.58

Weight (kDa)

8.81

Isoelectric Point (pI)

44.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 199 - 447 5.4e-80 NPH3 family
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1769
Acc36I ACCTGC 2 cut(s) 310, 1769
AccB7I CCANNNNNTGG 1 cut(s) 149
AccBSI CCGCTC 1 cut(s) 1369
AccI GTMKAC 2 cut(s) 630, 928
AccII CGCG 1 cut(s) 1347
AciI CCGC 4 cut(s) 981, 1309, 1369, 1662
AclWI GGATC 3 cut(s) 479, 1780, 1807
AcoI YGGCCR 1 cut(s) 1840
AcsI RAATTY 3 cut(s) 355, 992, 1595
AcuI CTGAAG 1 cut(s) 1218
AfaI GTAC 4 cut(s) 300, 1139, 1344, 1609
AfiI CCNNNNNNNGG 3 cut(s) 149, 1437, 1838
AgsI TTSAA 9 cut(s) 242, 385, 401, 495, 972, 1145, 1179, 1409, 1678
AjiI CACGTC 1 cut(s) 709
AjnI CCWGG 6 cut(s) 56, 220, 556, 1154, 1436, 1510
AleI CACNNNNGTG 1 cut(s) 671
AloI GAACNNNNNNTCC 2 cut(s) 345, 377
AluBI AGCT 6 cut(s) 53, 208, 701, 1067, 1202, 1564
AluI AGCT 6 cut(s) 53, 208, 701, 1067, 1202, 1564
Alw21I GWGCWC 1 cut(s) 1093
AlwI GGATC 3 cut(s) 479, 1780, 1807
AlwNI CAGNNNCTG 1 cut(s) 839
Ama87I CYCGRG 1 cut(s) 371
AoxI GGCC 4 cut(s) 151, 1829, 1834, 1840
ApoI RAATTY 3 cut(s) 355, 992, 1595
ArsI GACNNNNNNTTYG 2 cut(s) 52, 84
AseI ATTAAT 1 cut(s) 276
AspLEI GCGC 2 cut(s) 287, 1349
AspS9I GGNCC 3 cut(s) 60, 537, 1834
AsuC2I CCSGG 4 cut(s) 29, 819, 989, 1833
AsuHPI GGTGA 3 cut(s) 194, 239, 1286
AvaI CYCGRG 1 cut(s) 371
AvaII GGWCC 2 cut(s) 60, 537
AxyI CCTNAGG 1 cut(s) 1338
BalI TGGCCA 1 cut(s) 1842
BarI GAAGNNNNNNTAC 2 cut(s) 245, 277
BbsI GAAGAC 1 cut(s) 1230
Bbv12I GWGCWC 1 cut(s) 1093
BceAI ACGGC 3 cut(s) 179, 701, 1249
BciT130I CCWGG 6 cut(s) 58, 222, 558, 1156, 1438, 1512
BciVI GTATCC 1 cut(s) 898
BcnI CCSGG 4 cut(s) 29, 819, 989, 1833
BfmI CTRYAG 3 cut(s) 435, 1062, 1776
BfoI RGCGCY 1 cut(s) 288
BfuAI ACCTGC 2 cut(s) 310, 1769
BfuI GTATCC 1 cut(s) 898
BglI GCCNNNNNGGC 1 cut(s) 685
BglII AGATCT 1 cut(s) 619
Bme18I GGWCC 2 cut(s) 60, 537
BmeT110I CYCGRG 1 cut(s) 371
BmgBI CACGTC 1 cut(s) 709
BmgT120I GGNCC 3 cut(s) 60, 537, 1834
BmiI GGNNCC 2 cut(s) 22, 1429
BmsI GCATC 4 cut(s) 64, 223, 1245, 1775
BpiI GAAGAC 1 cut(s) 1230
BpmI CTGGAG 2 cut(s) 504, 1420
Bpu10I CCTNAGC 2 cut(s) 854, 1092
BpuEI CTTGAG 1 cut(s) 901
BpuMI CCSGG 4 cut(s) 29, 819, 989, 1833
BsaJI CCNNGG 4 cut(s) 683, 1155, 1437, 1837
BsaXI ACNNNNNCTCC 2 cut(s) 910, 940
Bsc4I CCNNNNNNNGG 3 cut(s) 149, 1437, 1838
Bse1I ACTGG 2 cut(s) 1172, 1618
Bse21I CCTNAGG 1 cut(s) 1338
Bse3DI GCAATG 1 cut(s) 951
BseBI CCWGG 6 cut(s) 58, 222, 558, 1156, 1438, 1512
BseDI CCNNGG 4 cut(s) 683, 1155, 1437, 1837
BseGI GGATG 5 cut(s) 79, 108, 474, 958, 1165
BseLI CCNNNNNNNGG 3 cut(s) 149, 1437, 1838
BseMI GCAATG 1 cut(s) 951
BseMII CTCAG 5 cut(s) 295, 450, 597, 1106, 1329
BseNI ACTGG 2 cut(s) 1172, 1618
BseRI GAGGAG 3 cut(s) 507, 1773, 1776
BseYI CCCAGC 2 cut(s) 80, 892
BsgI GTGCAG 2 cut(s) 408, 1803
Bsh1236I CGCG 1 cut(s) 1347
BshFI GGCC 4 cut(s) 153, 1831, 1836, 1842
BsiHKAI GWGCWC 1 cut(s) 1093
BsiHKCI CYCGRG 1 cut(s) 371
BsiSI CCGG 4 cut(s) 29, 819, 989, 1832
BslFI GGGAC 2 cut(s) 572, 1433
BslI CCNNNNNNNGG 3 cut(s) 149, 1437, 1838
BsmFI GGGAC 2 cut(s) 572, 1433
BsmI GAATGC 1 cut(s) 393
BsnI GGCC 4 cut(s) 153, 1831, 1836, 1842
BsoBI CYCGRG 1 cut(s) 371
Bsp1286I GDGCHC 1 cut(s) 1093
Bsp143I GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
Bsp19I CCATGG 1 cut(s) 1837
BspACI CCGC 4 cut(s) 981, 1309, 1369, 1662
BspANI GGCC 4 cut(s) 153, 1831, 1836, 1842
BspCNI CTCAG 5 cut(s) 294, 451, 598, 1105, 1330
BspFNI CGCG 1 cut(s) 1347
BspHI TCATGA 2 cut(s) 1456, 1588
BspLI GGNNCC 2 cut(s) 22, 1429
BspMAI CTGCAG 2 cut(s) 1066, 1780
BspMI ACCTGC 2 cut(s) 310, 1769
BspPI GGATC 3 cut(s) 479, 1780, 1807
BsrBI CCGCTC 1 cut(s) 1369
BsrDI GCAATG 1 cut(s) 951
BsrI ACTGG 2 cut(s) 1172, 1618
BssECI CCNNGG 4 cut(s) 683, 1155, 1437, 1837
BssMI GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
BssT1I CCWWGG 1 cut(s) 1837
Bst2UI CCWGG 6 cut(s) 58, 222, 558, 1156, 1438, 1512
Bst4CI ACNGT 3 cut(s) 64, 439, 1387
Bst6I CTCTTC 2 cut(s) 933, 1406
BstAPI GCANNNNNTGC 3 cut(s) 311, 530, 676
BstC8I GCNNGC 1 cut(s) 981
BstDEI CTNAG 9 cut(s) 281, 318, 459, 606, 854, 1092, 1280, 1338, 1803
BstDSI CCRYGG 2 cut(s) 683, 1837
BstF5I GGATG 5 cut(s) 79, 108, 474, 958, 1165
BstFNI CGCG 1 cut(s) 1347
BstH2I RGCGCY 1 cut(s) 288
BstHHI GCGC 2 cut(s) 287, 1349
BstKTI GATC 8 cut(s) 474, 622, 1279, 1462, 1658, 1723, 1775, 1815
BstMBI GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
BstMWI GCNNNNNNNGC 8 cut(s) 311, 530, 662, 676, 685, 1308, 1448, 1642
BstNI CCWGG 6 cut(s) 58, 222, 558, 1156, 1438, 1512
BstNSI RCATGY 2 cut(s) 674, 1171
BstSFI CTRYAG 3 cut(s) 435, 1062, 1776
BstUI CGCG 1 cut(s) 1347
BstV2I GAAGAC 1 cut(s) 1230
BstX2I RGATCY 2 cut(s) 619, 1772
BstXI CCANNNNNNTGG 1 cut(s) 597
BstYI RGATCY 2 cut(s) 619, 1772
Bsu36I CCTNAGG 1 cut(s) 1338
BsuI GTATCC 1 cut(s) 898
BsuRI GGCC 4 cut(s) 153, 1831, 1836, 1842
BtgI CCRYGG 2 cut(s) 683, 1837
BtrI CACGTC 1 cut(s) 709
BtsCI GGATG 5 cut(s) 79, 108, 474, 958, 1165
BtsI GCAGTG 1 cut(s) 1478
BtsIMutI CAGTG 3 cut(s) 444, 1478, 1611
BveI ACCTGC 2 cut(s) 310, 1769
Cac8I GCNNGC 1 cut(s) 981
CaiI CAGNNNCTG 1 cut(s) 839
CciI TCATGA 2 cut(s) 1456, 1588
CfoI GCGC 2 cut(s) 287, 1349
Cfr13I GGNCC 3 cut(s) 60, 537, 1834
CseI GACGC 1 cut(s) 1808
Csp6I GTAC 4 cut(s) 299, 1138, 1343, 1608
CviQI GTAC 4 cut(s) 299, 1138, 1343, 1608
DdeI CTNAG 9 cut(s) 281, 318, 459, 606, 854, 1092, 1280, 1338, 1803
DpnI GATC 8 cut(s) 473, 621, 1278, 1461, 1657, 1722, 1774, 1814
DpnII GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
EaeI YGGCCR 1 cut(s) 1840
Eam1104I CTCTTC 2 cut(s) 933, 1406
EarI CTCTTC 2 cut(s) 933, 1406
EciI GGCGGA 1 cut(s) 1677
Eco130I CCWWGG 1 cut(s) 1837
Eco47I GGWCC 2 cut(s) 60, 537
Eco57I CTGAAG 1 cut(s) 1218
Eco81I CCTNAGG 1 cut(s) 1338
Eco88I CYCGRG 1 cut(s) 371
EcoRII CCWGG 6 cut(s) 56, 220, 556, 1154, 1436, 1510
EcoT14I CCWWGG 1 cut(s) 1837
EcoT22I ATGCAT 1 cut(s) 395
ErhI CCWWGG 1 cut(s) 1837
FalI AAGNNNNNCTT 2 cut(s) 1286, 1318
FaqI GGGAC 2 cut(s) 572, 1433
FauI CCCGC 1 cut(s) 988
FblI GTMKAC 2 cut(s) 630, 928
FokI GGATG 5 cut(s) 86, 95, 461, 965, 1172
GlaI GCGC 2 cut(s) 286, 1348
GsaI CCCAGC 2 cut(s) 84, 896
GsuI CTGGAG 2 cut(s) 504, 1420
HaeII RGCGCY 1 cut(s) 288
HaeIII GGCC 4 cut(s) 153, 1831, 1836, 1842
HapII CCGG 4 cut(s) 29, 819, 989, 1832
HgaI GACGC 1 cut(s) 1808
HhaI GCGC 2 cut(s) 287, 1349
Hin6I GCGC 2 cut(s) 285, 1347
HinP1I GCGC 2 cut(s) 285, 1347
HincII GTYRAC 1 cut(s) 1165
HindII GTYRAC 1 cut(s) 1165
HindIII AAGCTT 3 cut(s) 206, 699, 1200
HinfI GANTC 8 cut(s) 176, 338, 413, 463, 491, 814, 1133, 1541
HpaII CCGG 4 cut(s) 29, 819, 989, 1832
HphI GGTGA 3 cut(s) 194, 239, 1286
Hpy166II GTNNAC 4 cut(s) 603, 631, 929, 1165
Hpy188I TCNGA 9 cut(s) 73, 175, 329, 460, 479, 619, 1075, 1546, 1700
Hpy188III TCNNGA 6 cut(s) 212, 398, 623, 1457, 1589, 1770
Hpy8I GTNNAC 4 cut(s) 603, 631, 929, 1165
HpyAV CCTTC 6 cut(s) 46, 343, 395, 978, 1151, 1737
HpyCH4III ACNGT 3 cut(s) 64, 439, 1387
HpyCH4IV ACGT 1 cut(s) 708
HpyF10VI GCNNNNNNNGC 8 cut(s) 311, 530, 662, 676, 685, 1308, 1448, 1642
HpyF3I CTNAG 9 cut(s) 281, 318, 459, 606, 854, 1092, 1280, 1338, 1803
HpySE526I ACGT 1 cut(s) 708
HspAI GCGC 2 cut(s) 285, 1347
Kzo9I GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
LmnI GCTCC 5 cut(s) 830, 1267, 1574, 1763, 1788
LweI GCATC 4 cut(s) 64, 223, 1245, 1775
MaeII ACGT 1 cut(s) 708
MaeIII GTNAC 1 cut(s) 260
MalI GATC 8 cut(s) 473, 621, 1278, 1461, 1657, 1722, 1774, 1814
MbiI CCGCTC 1 cut(s) 1369
MboI GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
MfeI CAATTG 1 cut(s) 495
MflI RGATCY 2 cut(s) 619, 1772
MhlI GDGCHC 1 cut(s) 1093
MlsI TGGCCA 1 cut(s) 1842
MluNI TGGCCA 1 cut(s) 1842
MlyI GAGTC 3 cut(s) 170, 347, 407
MmeI TCCRAC 3 cut(s) 386, 1455, 1776
Mox20I TGGCCA 1 cut(s) 1842
Mph1103I ATGCAT 1 cut(s) 395
MscI TGGCCA 1 cut(s) 1842
MseI TTAA 4 cut(s) 102, 276, 914, 1251
MslI CAYNNNNRTG 2 cut(s) 671, 711
Msp20I TGGCCA 1 cut(s) 1842
MspA1I CMGCKG 2 cut(s) 983, 1067
MspI CCGG 4 cut(s) 29, 819, 989, 1832
MunI CAATTG 1 cut(s) 495
Mva1269I GAATGC 1 cut(s) 393
MvaI CCWGG 6 cut(s) 58, 222, 558, 1156, 1438, 1512
MvnI CGCG 1 cut(s) 1347
MwoI GCNNNNNNNGC 8 cut(s) 311, 530, 662, 676, 685, 1308, 1448, 1642
NciI CCSGG 4 cut(s) 29, 819, 989, 1833
NcoI CCATGG 1 cut(s) 1837
NdeII GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
NlaIV GGNNCC 2 cut(s) 22, 1429
NsiI ATGCAT 1 cut(s) 395
NspI RCATGY 2 cut(s) 674, 1171
OliI CACNNNNGTG 1 cut(s) 671
PaeR7I CTCGAG 1 cut(s) 371
PagI TCATGA 2 cut(s) 1456, 1588
PaqCI CACCTGC 1 cut(s) 1769
PctI GAATGC 1 cut(s) 393
PfeI GAWTC 5 cut(s) 463, 491, 814, 1133, 1541
PflFI GACNNNGTC 2 cut(s) 89, 337
PflMI CCANNNNNTGG 1 cut(s) 149
PfoI TCCNGGA 2 cut(s) 220, 817
PleI GAGTC 3 cut(s) 170, 346, 407
PpsI GAGTC 3 cut(s) 170, 346, 407
PshBI ATTAAT 1 cut(s) 276
Psp6I CCWGG 6 cut(s) 56, 220, 556, 1154, 1436, 1510
PspFI CCCAGC 2 cut(s) 80, 892
PspGI CCWGG 6 cut(s) 56, 220, 556, 1154, 1436, 1510
PspN4I GGNNCC 2 cut(s) 22, 1429
PspPI GGNCC 3 cut(s) 60, 537, 1834
PspXI VCTCGAGB 1 cut(s) 371
PstI CTGCAG 2 cut(s) 1066, 1780
PstNI CAGNNNCTG 1 cut(s) 839
PsuI RGATCY 2 cut(s) 619, 1772
PsyI GACNNNGTC 2 cut(s) 89, 337
PvuII CAGCTG 1 cut(s) 1067
RsaI GTAC 4 cut(s) 300, 1139, 1344, 1609
RsaNI GTAC 4 cut(s) 299, 1138, 1343, 1608
RseI CAYNNNNRTG 2 cut(s) 671, 711
SaqAI TTAA 4 cut(s) 102, 276, 914, 1251
Sau3AI GATC 8 cut(s) 471, 619, 1276, 1459, 1655, 1720, 1772, 1812
Sau96I GGNCC 3 cut(s) 60, 537, 1834
SchI GAGTC 3 cut(s) 170, 347, 407
SduI GDGCHC 1 cut(s) 1093
SfaNI GCATC 4 cut(s) 64, 223, 1245, 1775
SfcI CTRYAG 3 cut(s) 435, 1062, 1776
Sfr274I CTCGAG 1 cut(s) 371
SinI GGWCC 2 cut(s) 60, 537
SlaI CTCGAG 1 cut(s) 371
SmiMI CAYNNNNRTG 2 cut(s) 671, 711
SmlI CTYRAG 2 cut(s) 371, 880
SmoI CTYRAG 2 cut(s) 371, 880
SsiI CCGC 4 cut(s) 981, 1309, 1369, 1662
StyI CCWWGG 1 cut(s) 1837
TaaI ACNGT 3 cut(s) 64, 439, 1387
TaiI ACGT 1 cut(s) 711
TaqI TCGA 4 cut(s) 372, 640, 784, 936
TaqII GACCGA 1 cut(s) 350
TauI GCSGC 2 cut(s) 1311, 1372
TfiI GAWTC 5 cut(s) 463, 491, 814, 1133, 1541
Tru1I TTAA 4 cut(s) 102, 276, 914, 1251
Tru9I TTAA 4 cut(s) 102, 276, 914, 1251
TscAI CASTG 3 cut(s) 444, 1485, 1618
TspDTI ATGAA 4 cut(s) 17, 26, 378, 1577
TspGWI ACGGA 1 cut(s) 279
TspRI CASTG 3 cut(s) 444, 1485, 1618
Tth111I GACNNNGTC 2 cut(s) 89, 337
Van91I CCANNNNNTGG 1 cut(s) 149
VpaK11BI GGWCC 2 cut(s) 60, 537
VspI ATTAAT 1 cut(s) 276
XapI RAATTY 3 cut(s) 355, 992, 1595
XceI RCATGY 2 cut(s) 674, 1171
XcmI CCANNNNNNNNNTGG 1 cut(s) 597
XhoI CTCGAG 1 cut(s) 371
XmiI GTMKAC 2 cut(s) 630, 928
Zsp2I ATGCAT 1 cut(s) 395
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.