MD09G1102800.v1.1

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0004787
Physical Location & Seq
Reverse (-)
7518344 .. 7521578
3235 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1102800.v1.1.491

Sequence Viewer

Length: 1644 bp
ATGGAAGTTCATTGTGATCTTGAAGTGGATGTCAATGGGGAAGAGTCTTTCATGGTGGACAAGAGAGCTATTGCCTCCTACTGTGGAAAATTGAGCAAACTACTTGGTAAATCAAAAGCTTCCTCAAGAAATCTTAAAGTGGTATTCCATGATTTTCCCGGAGGAGCAGAGAGTTTCGAGCTGATTGCGAGGTTCTGCTACAACAATGGCAGCATTTACATAACTCCTTCCAACATTTCCCTCCTTTACTGCGCCGCGCAGTTCATGGAAATGAACAATTCTGTCGCCGGTAGACATAATTTGTTACAAAAAGCGGAGAATTCGTTTGAAGAGATCAGGTATTGGTCATGGTCTGAGCTTTTGACGGCCTTGAAGCAGTGCCAGGATTTGCTTCCGGTTGCAAATTCTTTGAGTCTAGTTGAGAAATGCTTGGATACCCTTGTTGCAAGATTGCCTTTGACAAGCGAAGCGAGTCCTTGTCCTTCAACATCATCTCCGGATAGCTCTGGAATTCGGTTTTCGTGCGACACTAGAAGCACCGAGAGTTTGAAAACTACCTTGTCTCGAGCAACCTGGTGGTTCGAGGATCTTCTAGTTTTAGGTCCAAATTTGGTTGAAATGCTGGTCAAGGCCATGGTTTCGCGAAAACTCGATCATGTTATCATTAGTAGGTTCCTCTTTTACTACCAGAAATCGAAGTTTTACACTGTCAAATCTGATACCAAGCGCACCATTGCTGAAATGGTCATTGAGATGCTGTATATGCTTGATCAGAGCTGTGTTTCTTGCAAGAGCTTATTTGGGATTCTTCGAGTTTCGCTGAATTTGAACTTAAACAAAAGTGTTAGGAATAAGTTGGAGAATATGATCGGTTCACAGCTAGATCAAGCAACATTGGACAATTTGCTTGTTCCATCCCCACAAGGAATCAATTATTTGTATGATGTCAATCTTGTTCTACGGTTCTTGAAATCATTTCTGCATGACGGAGGAACCTGTCAAGCTGACAGGCCCCCAATGCGATTAAGGAAAGTTGCTGCCTTGGTTGATTTGTATATAGCAGAAGTAACCCCAGATCCTCGTTTGAAGCCTTCAAAGTTTCTGGCTTTAGCCATCGCGCTGCCGGATTCTGCGAGAGTCTCTTATGATGAGCTTTACCATGCCATAGACATGTATCTACAGGTACACCCAGGATTGTCCGAAGAAGAAAAGATGAAGATATGTTGTGTGTTGAACTATGAGAAGCTCTCAGCAGAGACTTACGTACATCTTTCACAGAACACAAAATTTCCATCAAAATCCGCAGTCCAAGCTCTTGTCTATCAGCAATCCAAGCTCAAAAGCTTACTCCACGCAACCAACAATCCCAAGTCCTACACTGACTCCCCTTATAGCGCCATTACTGAGGCCGAAAGTAGGGGATTGAGGAAAGATGATGCCAATGTACAACTTGTGCTTTATGCCGGGAAAATTGATCTCTCAGATGACAATGACAAGCTCAGAGCACATCTGCAAGGCATGCAGTGCAGGGTCATGGAATTGGAAAAACTTTGCAAGAAAATGCAATCTCAAATGTCAAAGTTTACGAAATCGAAATCACCAAGCCACAACCGTACAAGATCTTTGCCCAAACTTTGTTCATGA
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

548

Amino Acids

61.68

Weight (kDa)

8.61

Isoelectric Point (pI)

43.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 191 - 419 1.1e-64 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)
AccI GTMKAC 1 cut(s) 292
AccII CGCG 3 cut(s) 257, 643, 1118
AccIII TCCGGA 1 cut(s) 496
AciI CCGC 3 cut(s) 255, 314, 1302
AclWI GGATC 2 cut(s) 594, 1070
AcsI RAATTY 6 cut(s) 319, 403, 510, 607, 823, 1286
AfaI GTAC 4 cut(s) 1185, 1266, 1446, 1615
AfiI CCNNNNNNNGG 1 cut(s) 1416
AflIII ACRYGT 1 cut(s) 1170
AjnI CCWGG 3 cut(s) 381, 572, 1189
Alw21I GWGCWC 1 cut(s) 1507
Alw26I GTCTC 3 cut(s) 567, 1144, 1250
AlwI GGATC 2 cut(s) 594, 1070
Ama87I CYCGRG 1 cut(s) 564
Aor13HI TCCGGA 1 cut(s) 496
AoxI GGCC 4 cut(s) 366, 630, 1010, 1407
ApeKI GCWGC 3 cut(s) 210, 1037, 1120
ApoI RAATTY 6 cut(s) 319, 403, 510, 607, 823, 1286
AspLEI GCGC 5 cut(s) 254, 259, 729, 1120, 1397
AspS9I GGNCC 2 cut(s) 602, 1011
AsuC2I CCSGG 2 cut(s) 159, 1465
AsuHPI GGTGA 1 cut(s) 1590
AvaI CYCGRG 1 cut(s) 564
AvaII GGWCC 1 cut(s) 602
BaeI ACNNNNGTAYC 2 cut(s) 426, 459
Bbv12I GWGCWC 1 cut(s) 1507
BbvI GCAGC 3 cut(s) 222, 1024, 1107
BccI CCATC 3 cut(s) 922, 1121, 1300
BceAI ACGGC 1 cut(s) 381
BcgI CGANNNNNNTGC 2 cut(s) 167, 201
BciT130I CCWGG 3 cut(s) 383, 574, 1191
BciVI GTATCC 1 cut(s) 427
BclI TGATCA 1 cut(s) 769
BcnI CCSGG 2 cut(s) 159, 1465
BcoDI GTCTC 3 cut(s) 567, 1144, 1250
BfaI CTAG 4 cut(s) 416, 531, 593, 881
BfmI CTRYAG 1 cut(s) 1178
BfoI RGCGCY 1 cut(s) 1398
BfuI GTATCC 1 cut(s) 427
BglII AGATCT 1 cut(s) 1619
BisI GCNGC 4 cut(s) 211, 255, 1038, 1121
BlsI GCNGC 4 cut(s) 212, 256, 1039, 1122
Bme1390I CCNGG 5 cut(s) 159, 383, 574, 1191, 1465
Bme18I GGWCC 1 cut(s) 602
BmeT110I CYCGRG 1 cut(s) 564
BmgT120I GGNCC 2 cut(s) 602, 1011
BmiI GGNNCC 3 cut(s) 674, 994, 1013
BmrFI CCNGG 5 cut(s) 159, 383, 574, 1191, 1465
BmsI GCATC 2 cut(s) 744, 1426
BplI GAGNNNNNCTC 2 cut(s) 1232, 1264
BpuEI CTTGAG 1 cut(s) 109
BpuMI CCSGG 2 cut(s) 159, 1465
BsaAI YACGTR 1 cut(s) 1264
BsaBI GATNNNNATC 1 cut(s) 948
BsaJI CCNNGG 3 cut(s) 633, 1041, 1189
BsaWI WCCGGW 2 cut(s) 394, 496
BsaXI ACNNNNNCTCC 6 cut(s) 308, 338, 478, 508, 1367, 1397
Bsc4I CCNNNNNNNGG 1 cut(s) 1416
Bse118I RCCGGY 1 cut(s) 287
Bse3DI GCAATG 1 cut(s) 732
Bse8I GATNNNNATC 1 cut(s) 948
BseAI TCCGGA 1 cut(s) 496
BseBI CCWGG 3 cut(s) 383, 574, 1191
BseDI CCNNGG 3 cut(s) 633, 1041, 1189
BseGI GGATG 2 cut(s) 34, 914
BseJI GATNNNNATC 1 cut(s) 948
BseLI CCNNNNNNNGG 1 cut(s) 1416
BseMI GCAATG 1 cut(s) 732
BseMII CTCAG 5 cut(s) 345, 1263, 1395, 1494, 1513
BseRI GAGGAG 1 cut(s) 177
BseXI GCAGC 3 cut(s) 222, 1024, 1107
BsgI GTGCAG 1 cut(s) 1546
Bsh1236I CGCG 3 cut(s) 257, 643, 1118
BshFI GGCC 4 cut(s) 368, 632, 1012, 1409
BsiHKAI GWGCWC 1 cut(s) 1507
BsiHKCI CYCGRG 1 cut(s) 564
BsiSI CCGG 6 cut(s) 159, 288, 395, 497, 1124, 1464
BslI CCNNNNNNNGG 1 cut(s) 1416
BsmAI GTCTC 3 cut(s) 567, 1144, 1250
BsnI GGCC 4 cut(s) 368, 632, 1012, 1409
BsoBI CYCGRG 1 cut(s) 564
Bsp1286I GDGCHC 1 cut(s) 1507
Bsp13I TCCGGA 1 cut(s) 496
Bsp1407I TGTACA 1 cut(s) 1444
Bsp19I CCATGG 1 cut(s) 633
Bsp68I TCGCGA 1 cut(s) 643
BspACI CCGC 3 cut(s) 255, 314, 1302
BspANI GGCC 4 cut(s) 368, 632, 1012, 1409
BspCNI CTCAG 5 cut(s) 346, 1262, 1396, 1493, 1512
BspEI TCCGGA 1 cut(s) 496
BspFNI CGCG 3 cut(s) 257, 643, 1118
BspHI TCATGA 1 cut(s) 1640
BspLI GGNNCC 3 cut(s) 674, 994, 1013
BspPI GGATC 2 cut(s) 594, 1070
BsrDI GCAATG 1 cut(s) 732
BsrFI RCCGGY 1 cut(s) 287
BsrGI TGTACA 1 cut(s) 1444
BssAI RCCGGY 1 cut(s) 287
BssECI CCNNGG 3 cut(s) 633, 1041, 1189
BssT1I CCWWGG 2 cut(s) 633, 1041
Bst2UI CCWGG 3 cut(s) 383, 574, 1191
Bst4CI ACNGT 4 cut(s) 83, 709, 963, 1613
Bst6I CTCTTC 2 cut(s) 36, 324
BstAPI GCANNNNNTGC 2 cut(s) 1519, 1524
BstAUI TGTACA 1 cut(s) 1444
BstBAI YACGTR 1 cut(s) 1264
BstC8I GCNNGC 1 cut(s) 1520
BstDEI CTNAG 5 cut(s) 354, 1249, 1404, 1480, 1499
BstDSI CCRYGG 1 cut(s) 633
BstF5I GGATG 2 cut(s) 34, 914
BstFNI CGCG 3 cut(s) 257, 643, 1118
BstH2I RGCGCY 1 cut(s) 1398
BstHHI GCGC 5 cut(s) 254, 259, 729, 1120, 1397
BstMAI GTCTC 3 cut(s) 567, 1144, 1250
BstMWI GCNNNNNNNGC 6 cut(s) 763, 1018, 1310, 1333, 1519, 1524
BstNI CCWGG 3 cut(s) 383, 574, 1191
BstNSI RCATGY 2 cut(s) 1174, 1522
BstSCI CCNGG 5 cut(s) 157, 381, 572, 1189, 1463
BstSFI CTRYAG 1 cut(s) 1178
BstSNI TACGTA 1 cut(s) 1264
BstUI CGCG 3 cut(s) 257, 643, 1118
BstV1I GCAGC 3 cut(s) 222, 1024, 1107
BstX2I RGATCY 3 cut(s) 586, 1075, 1619
BstYI RGATCY 3 cut(s) 586, 1075, 1619
BsuI GTATCC 1 cut(s) 427
BsuRI GGCC 4 cut(s) 368, 632, 1012, 1409
BtgI CCRYGG 1 cut(s) 633
BtgZI GCGATG 1 cut(s) 1099
BtsCI GGATG 2 cut(s) 34, 914
BtsI GCAGTG 2 cut(s) 383, 1529
BtsIMutI CAGTG 4 cut(s) 383, 705, 1377, 1529
BtuMI TCGCGA 1 cut(s) 643
Cac8I GCNNGC 1 cut(s) 1520
CciI TCATGA 1 cut(s) 1640
CfoI GCGC 5 cut(s) 254, 259, 729, 1120, 1397
Cfr10I RCCGGY 1 cut(s) 287
Cfr13I GGNCC 2 cut(s) 602, 1011
CsiI ACCWGGT 1 cut(s) 572
Csp6I GTAC 4 cut(s) 1184, 1265, 1445, 1614
CviQI GTAC 4 cut(s) 1184, 1265, 1445, 1614
DdeI CTNAG 5 cut(s) 354, 1249, 1404, 1480, 1499
Eam1104I CTCTTC 2 cut(s) 36, 324
EarI CTCTTC 2 cut(s) 36, 324
Eco105I TACGTA 1 cut(s) 1264
Eco130I CCWWGG 2 cut(s) 633, 1041
Eco47I GGWCC 1 cut(s) 602
Eco88I CYCGRG 1 cut(s) 564
EcoO109I RGGNCCY 1 cut(s) 1011
EcoRI GAATTC 2 cut(s) 319, 510
EcoRII CCWGG 3 cut(s) 381, 572, 1189
EcoT14I CCWWGG 2 cut(s) 633, 1041
ErhI CCWWGG 2 cut(s) 633, 1041
FalI AAGNNNNNCTT 2 cut(s) 439, 471
FbaI TGATCA 1 cut(s) 769
FblI GTMKAC 1 cut(s) 292
Fnu4HI GCNGC 4 cut(s) 211, 255, 1038, 1121
FokI GGATG 2 cut(s) 41, 901
Fsp4HI GCNGC 4 cut(s) 211, 255, 1038, 1121
FspBI CTAG 4 cut(s) 416, 531, 593, 881
GlaI GCGC 5 cut(s) 253, 258, 728, 1119, 1396
GluI GCNGC 4 cut(s) 211, 255, 1038, 1121
HaeII RGCGCY 1 cut(s) 1398
HaeIII GGCC 4 cut(s) 368, 632, 1012, 1409
HapII CCGG 6 cut(s) 159, 288, 395, 497, 1124, 1464
HhaI GCGC 5 cut(s) 254, 259, 729, 1120, 1397
Hin6I GCGC 5 cut(s) 252, 257, 727, 1118, 1395
HinP1I GCGC 5 cut(s) 252, 257, 727, 1118, 1395
HindIII AAGCTT 2 cut(s) 117, 1342
HinfI GANTC 8 cut(s) 44, 412, 472, 805, 927, 1127, 1137, 1382
HpaII CCGG 6 cut(s) 159, 288, 395, 497, 1124, 1464
HphI GGTGA 1 cut(s) 1590
Hpy166II GTNNAC 5 cut(s) 58, 293, 875, 1186, 1584
Hpy188I TCNGA 6 cut(s) 355, 718, 774, 1201, 1483, 1502
Hpy188III TCNNGA 8 cut(s) 20, 126, 497, 507, 564, 642, 967, 1641
Hpy8I GTNNAC 5 cut(s) 58, 293, 875, 1186, 1584
HpyAV CCTTC 3 cut(s) 237, 492, 1101
HpyCH4III ACNGT 4 cut(s) 83, 709, 963, 1613
HpyCH4IV ACGT 1 cut(s) 1263
HpyCH4V TGCA 9 cut(s) 401, 446, 789, 982, 1513, 1522, 1527, 1554, 1564
HpyF10VI GCNNNNNNNGC 6 cut(s) 763, 1018, 1310, 1333, 1519, 1524
HpyF3I CTNAG 5 cut(s) 354, 1249, 1404, 1480, 1499
HpySE526I ACGT 1 cut(s) 1263
HspAI GCGC 5 cut(s) 252, 257, 727, 1118, 1395
Kpn2I TCCGGA 1 cut(s) 496
Ksp22I TGATCA 1 cut(s) 769
LmnI GCTCC 1 cut(s) 164
Lsp1109I GCAGC 3 cut(s) 222, 1024, 1107
LweI GCATC 2 cut(s) 744, 1426
MabI ACCWGGT 1 cut(s) 572
MaeI CTAG 4 cut(s) 416, 531, 593, 881
MaeII ACGT 1 cut(s) 1263
MaeIII GTNAC 2 cut(s) 303, 1066
MboII GAAGA 7 cut(s) 53, 341, 581, 800, 1214, 1217, 1228
MflI RGATCY 3 cut(s) 586, 1075, 1619
MhlI GDGCHC 1 cut(s) 1507
MlyI GAGTC 5 cut(s) 53, 421, 481, 1146, 1376
MmeI TCCRAC 2 cut(s) 255, 837
MroI TCCGGA 1 cut(s) 496
MseI TTAA 3 cut(s) 135, 833, 1025
MslI CAYNNNNRTG 3 cut(s) 269, 752, 1169
MspI CCGG 6 cut(s) 159, 288, 395, 497, 1124, 1464
MspR9I CCNGG 5 cut(s) 159, 383, 574, 1191, 1465
MteI GCGCNGCGC 1 cut(s) 255
MvaI CCWGG 3 cut(s) 383, 574, 1191
MvnI CGCG 3 cut(s) 257, 643, 1118
MwoI GCNNNNNNNGC 6 cut(s) 763, 1018, 1310, 1333, 1519, 1524
NciI CCSGG 2 cut(s) 159, 1465
NcoI CCATGG 1 cut(s) 633
NlaIV GGNNCC 3 cut(s) 674, 994, 1013
NruI TCGCGA 1 cut(s) 643
NspI RCATGY 2 cut(s) 1174, 1522
PaeI GCATGC 1 cut(s) 1522
PaeR7I CTCGAG 1 cut(s) 564
PagI TCATGA 1 cut(s) 1640
PciI ACATGT 1 cut(s) 1170
PfeI GAWTC 3 cut(s) 805, 927, 1127
PfoI TCCNGGA 1 cut(s) 157
PkrI GCNGC 4 cut(s) 212, 256, 1039, 1122
PleI GAGTC 5 cut(s) 52, 420, 480, 1145, 1376
PpsI GAGTC 5 cut(s) 52, 420, 480, 1145, 1376
Ppu21I YACGTR 1 cut(s) 1264
PscI ACATGT 1 cut(s) 1170
Psp6I CCWGG 3 cut(s) 381, 572, 1189
PspGI CCWGG 3 cut(s) 381, 572, 1189
PspN4I GGNNCC 3 cut(s) 674, 994, 1013
PspPI GGNCC 2 cut(s) 602, 1011
PsuI RGATCY 3 cut(s) 586, 1075, 1619
RruI TCGCGA 1 cut(s) 643
RsaI GTAC 4 cut(s) 1185, 1266, 1446, 1615
RsaNI GTAC 4 cut(s) 1184, 1265, 1445, 1614
RseI CAYNNNNRTG 3 cut(s) 269, 752, 1169
SaqAI TTAA 3 cut(s) 135, 833, 1025
SatI GCNGC 4 cut(s) 211, 255, 1038, 1121
Sau96I GGNCC 2 cut(s) 602, 1011
SchI GAGTC 5 cut(s) 53, 421, 481, 1146, 1376
ScrFI CCNGG 5 cut(s) 159, 383, 574, 1191, 1465
SduI GDGCHC 1 cut(s) 1507
SexAI ACCWGGT 1 cut(s) 572
SfaNI GCATC 2 cut(s) 744, 1426
SfcI CTRYAG 1 cut(s) 1178
Sfr274I CTCGAG 1 cut(s) 564
SinI GGWCC 1 cut(s) 602
SlaI CTCGAG 1 cut(s) 564
SmiMI CAYNNNNRTG 3 cut(s) 269, 752, 1169
SmlI CTYRAG 2 cut(s) 124, 564
SmoI CTYRAG 2 cut(s) 124, 564
SnaBI TACGTA 1 cut(s) 1264
SphI GCATGC 1 cut(s) 1522
SsiI CCGC 3 cut(s) 255, 314, 1302
SspMI CTAG 4 cut(s) 416, 531, 593, 881
StyD4I CCNGG 5 cut(s) 157, 381, 572, 1189, 1463
StyI CCWWGG 2 cut(s) 633, 1041
TaaI ACNGT 4 cut(s) 83, 709, 963, 1613
TaiI ACGT 1 cut(s) 1266
TaqI TCGA 7 cut(s) 177, 565, 582, 651, 695, 811, 1592
TatI WGTACW 1 cut(s) 1444
TauI GCSGC 1 cut(s) 257
TfiI GAWTC 3 cut(s) 805, 927, 1127
Tru1I TTAA 3 cut(s) 135, 833, 1025
Tru9I TTAA 3 cut(s) 135, 833, 1025
TscAI CASTG 4 cut(s) 383, 712, 1384, 1529
TseI GCWGC 3 cut(s) 210, 1037, 1120
TspDTI ATGAA 5 cut(s) 40, 253, 287, 1229, 1629
TspGWI ACGGA 1 cut(s) 1002
TspRI CASTG 4 cut(s) 383, 712, 1384, 1529
VpaK11BI GGWCC 1 cut(s) 602
XapI RAATTY 6 cut(s) 319, 403, 510, 607, 823, 1286
XceI RCATGY 2 cut(s) 1174, 1522
XcmI CCANNNNNNNNNTGG 1 cut(s) 739
XhoI CTCGAG 1 cut(s) 564
XmiI GTMKAC 1 cut(s) 292
XspI CTAG 4 cut(s) 416, 531, 593, 881
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.