MD05G1335300.v1.1

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0015568
Physical Location & Seq
Reverse (-)
45803569 .. 45806129
2561 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1335300.v1.1.491

Sequence Viewer

Length: 1620 bp
ATGGGAGGTTGCTGCGATCTTCAAGTAGACGTCAATGGCGAAGAAGTTTTCATGGTGGACAAGCAAACATTGGCGTCGTACTCGGGTAGATTTAGAAAATTGTTTGGTAAACGGACTGGAGCATCGAGGTGCCTAAAAGTGATATTCCATGACTTTCCTGGAGGCGCAGAGGGTTTTGAGCTCATGGCAAGGTTTTGTTACAACAATGGAAGAATTGAGATAACTCCCTCGAACATTGTCCTACTATTCTGCGTCGCGCATTTCATGGAGATGGGAGGCGATGGTGATGGCTCTGGAAGACCGAACATATTGTCTCAAACCGAAAAATCTCTTGAAGGGATCAGCTTTTGGACATGGTCTAACCTTGTGGTAGCTCTAAAGCAATGCCAAGATTTACTTCCCGCCTTAAATTTATCGTCAGTATTGCACAAGCTCCTAGACTCCATCATAGCCAAGCTTTTTTCGCCGTACGTTACAAGCACTTATGCTTCTTCGTCAGAAGATTTAAGTTTTCGGTTTTCAAGTGGAAGGAGCAGTTATAGTCTGAAAACTGACTGCTCAAGAAAAACATGGTGGGTGGAAGACCTTATGTTCTTGAACACCGATTTACTCGAGAAGGTGGGAAGAAGGATGATATTCCAGGAGCTCGACCATACTACAATTTTCAAGTTTCTCTTCCATTATCACCAATCTAAGTCTATCGGTGCCACGCGAGGTGAGAAGCGTAAAATCACAGAACTTGTTATCAGTCTGCTTTTTCTGCTAGACCGAAGCTTTCTTTCTGTCAAAGGCTTATTCAAGATATACCAAGCGGCTATGTGCCTGAGAGTTAGCAAGAAGTGTGTAAACAAGTTAGTGAGCATGATAGGTTCTCAGCTGGATCAAGCAACAATTGATTTTCTACTCGTTCCATCTCCGCGCACCAAGAAGTATGTATACGATGTGAGTTTGGTTTTGAAGTTAGTGAAATCATTTCTCCTTGAAGGGGGAGATCGTGTATCTCAAAGTCGCTTAAAAAGTGTCGCGAAGCTGATGGATTCGTACCTTGCAGAAGTAGCACCAGATTCTCACCTGAATCCTTCAAAATTCGAAGCATTAGCCACGATGCTGCCACATTCTGCGCGAGAATCTCACGACGGTCTTTACCAAGCAATTGATGTGTATTTTAAGCGTCGTGCTGTTTTATTCAGGGAGGAGAAGATGAGTATCTGTTGTGCACTGAACTACGAAAAGCTCTCAACGGAAGCTTTGAAACATCTCGCTCATAATTCGAAGTTTCCTCCAAGAAAAGCAGTTGAAGCTTTCGCTACGGAGCAATTAAAACTCCGAAGCTTATTTCATGAAGCTTACAATCTCAAGACTCTAGACTCCTTGTTCATTGACACAGGTAAAGAAATTAGGGACGAGAAAGAGGAGGGTAAGCAGATCATTCCGCTTTCCATGAAGAAACTCGATCTCCCAACAGAGACTCCGAAGCGTAGAGCAGATTTGCAGAACATGCAATGGAAGGCATCGGAGTTGGGCGTTTGTGGCACGATGGAGATGAAGATGACTGGTGCATTGAACTTAAGATTGTCCTTTAGGGGAAGTACTCGATACTTGCCTACACTCTTTCCTTAA
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

540

Amino Acids

61.07

Weight (kDa)

9.14

Isoelectric Point (pI)

39.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 190 - 416 7.9e-58 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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Orthologous Genes (Group: OG0015568)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g03040
malus_domestica MD05G1335300.v1.1
prunus_persica Prupe.4G030100_v2.0.a1 Prupe.4G030100_v2.0.a1 Prupe.4G030100_v2.0.a1 Prupe.4G030100_v2.0.a1
pyrus_communis pycom05g30670
rosa_chinensis RchiOBHm_Chr5g0004691
rosa_laevigata RLG00000031252
rosa_roxburghii Rroxscaffold_1G00070870
rosa_rugosa Rorug04G0413300
rosa_samantha Rh5AG040900 Rh5BG040600 Rh5CG044400 Rh5DG040600
rosa_wichuraiana Rw5G003940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 33
AccB1I GGYRCC 2 cut(s) 129, 704
AccI GTMKAC 2 cut(s) 27, 936
AccII CGCG 5 cut(s) 257, 712, 919, 1025, 1123
AciI CCGC 4 cut(s) 402, 812, 917, 1433
AclWI GGATC 2 cut(s) 347, 888
AcsI RAATTY 2 cut(s) 409, 1085
AcyI GRCGYC 2 cut(s) 30, 74
AfaI GTAC 4 cut(s) 80, 470, 1043, 1591
AfiI CCNNNNNNNGG 1 cut(s) 985
AflII CTTAAG 1 cut(s) 1567
AjnI CCWGG 2 cut(s) 157, 639
AjuI GAANNNNNNNTTGG 2 cut(s) 381, 413
Alw21I GWGCWC 3 cut(s) 183, 648, 1219
Alw26I GTCTC 2 cut(s) 318, 1460
Alw44I GTGCAC 1 cut(s) 1215
AlwI GGATC 2 cut(s) 347, 888
Ama87I CYCGRG 2 cut(s) 82, 611
ApaLI GTGCAC 1 cut(s) 1215
ApeKI GCWGC 2 cut(s) 12, 1108
ApoI RAATTY 2 cut(s) 409, 1085
ArsI GACNNNNNNTTYG 2 cut(s) 296, 328
AspLEI GCGC 4 cut(s) 167, 259, 921, 1123
AsuHPI GGTGA 4 cut(s) 296, 677, 728, 1061
AsuII TTCGAA 2 cut(s) 1089, 1271
AvaI CYCGRG 2 cut(s) 82, 611
BaeGI GKGCMC 1 cut(s) 1219
BanI GGYRCC 2 cut(s) 129, 704
BanII GRGCYC 2 cut(s) 183, 648
BarI GAAGNNNNNNTAC 2 cut(s) 920, 952
BbsI GAAGAC 2 cut(s) 304, 588
Bbv12I GWGCWC 3 cut(s) 183, 648, 1219
BbvI GCAGC 1 cut(s) 1095
BccI CCATC 7 cut(s) 265, 275, 281, 452, 919, 1027, 1531
BceAI ACGGC 1 cut(s) 451
BciT130I CCWGG 2 cut(s) 159, 641
BcoDI GTCTC 2 cut(s) 318, 1460
BfaI CTAG 3 cut(s) 437, 764, 1364
BfrI CTTAAG 1 cut(s) 1567
BisI GCNGC 3 cut(s) 13, 813, 1109
BlsI GCNGC 3 cut(s) 14, 814, 1110
BmcAI AGTACT 1 cut(s) 1591
Bme1390I CCNGG 2 cut(s) 159, 641
BmeT110I CYCGRG 2 cut(s) 82, 611
BmiI GGNNCC 2 cut(s) 131, 706
BmrFI CCNGG 2 cut(s) 159, 641
BmsI GCATC 3 cut(s) 131, 1095, 1520
BpiI GAAGAC 2 cut(s) 304, 588
BpmI CTGGAG 2 cut(s) 138, 180
Bpu14I TTCGAA 2 cut(s) 1089, 1271
BpuEI CTTGAG 2 cut(s) 544, 1340
BsaBI GATNNNNATC 1 cut(s) 1205
BsaHI GRCGYC 2 cut(s) 30, 74
BsaXI ACNNNNNCTCC 6 cut(s) 981, 1011, 1440, 1453, 1470, 1483
Bsc4I CCNNNNNNNGG 1 cut(s) 985
Bse1I ACTGG 2 cut(s) 121, 1558
Bse3DI GCAATG 2 cut(s) 389, 1508
Bse8I GATNNNNATC 1 cut(s) 1205
BseBI CCWGG 2 cut(s) 159, 641
BseGI GGATG 1 cut(s) 636
BseJI GATNNNNATC 1 cut(s) 1205
BseLI CCNNNNNNNGG 1 cut(s) 985
BseMI GCAATG 2 cut(s) 389, 1508
BseMII CTCAG 2 cut(s) 815, 887
BseNI ACTGG 2 cut(s) 121, 1558
BseRI GAGGAG 2 cut(s) 1208, 1427
BseSI GKGCMC 1 cut(s) 1219
BseXI GCAGC 1 cut(s) 1095
Bsh1236I CGCG 5 cut(s) 257, 712, 919, 1025, 1123
BshNI GGYRCC 2 cut(s) 129, 704
BsiHKAI GWGCWC 3 cut(s) 183, 648, 1219
BsiHKCI CYCGRG 2 cut(s) 82, 611
BsiWI CGTACG 1 cut(s) 468
BslFI GGGAC 1 cut(s) 1415
BslI CCNNNNNNNGG 1 cut(s) 985
BsmAI GTCTC 2 cut(s) 318, 1460
BsmFI GGGAC 1 cut(s) 1415
BsoBI CYCGRG 2 cut(s) 82, 611
Bsp119I TTCGAA 2 cut(s) 1089, 1271
Bsp1286I GDGCHC 3 cut(s) 183, 648, 1219
Bsp143I GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
Bsp68I TCGCGA 1 cut(s) 1025
BspACI CCGC 4 cut(s) 402, 812, 917, 1433
BspCNI CTCAG 2 cut(s) 816, 886
BspFNI CGCG 5 cut(s) 257, 712, 919, 1025, 1123
BspHI TCATGA 1 cut(s) 1339
BspLI GGNNCC 2 cut(s) 131, 706
BspPI GGATC 2 cut(s) 347, 888
BspT104I TTCGAA 2 cut(s) 1089, 1271
BspT107I GGYRCC 2 cut(s) 129, 704
BspTI CTTAAG 1 cut(s) 1567
BsrDI GCAATG 2 cut(s) 389, 1508
BsrI ACTGG 2 cut(s) 121, 1558
BssMI GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
BssNAI GTATAC 1 cut(s) 937
BssNI GRCGYC 2 cut(s) 30, 74
Bst1107I GTATAC 1 cut(s) 937
Bst2UI CCWGG 2 cut(s) 159, 641
Bst4CI ACNGT 1 cut(s) 1139
Bst6I CTCTTC 1 cut(s) 680
BstACI GRCGYC 2 cut(s) 30, 74
BstAFI CTTAAG 1 cut(s) 1567
BstAPI GCANNNNNTGC 1 cut(s) 1498
BstBI TTCGAA 2 cut(s) 1089, 1271
BstDEI CTNAG 3 cut(s) 693, 824, 873
BstF5I GGATG 1 cut(s) 636
BstFNI CGCG 5 cut(s) 257, 712, 919, 1025, 1123
BstHHI GCGC 4 cut(s) 167, 259, 921, 1123
BstKTI GATC 6 cut(s) 19, 342, 883, 994, 1428, 1456
BstMAI GTCTC 2 cut(s) 318, 1460
BstMBI GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
BstMWI GCNNNNNNNGC 6 cut(s) 463, 760, 1055, 1298, 1498, 1530
BstNI CCWGG 2 cut(s) 159, 641
BstNSI RCATGY 1 cut(s) 1501
BstSCI CCNGG 2 cut(s) 157, 639
BstSLI GKGCMC 1 cut(s) 1219
BstUI CGCG 5 cut(s) 257, 712, 919, 1025, 1123
BstV1I GCAGC 1 cut(s) 1095
BstV2I GAAGAC 2 cut(s) 304, 588
BstZ17I GTATAC 1 cut(s) 937
BtgZI GCGATG 1 cut(s) 294
BtsCI GGATG 1 cut(s) 636
BtsIMutI CAGTG 1 cut(s) 1217
BtuMI TCGCGA 1 cut(s) 1025
CciI TCATGA 1 cut(s) 1339
CfoI GCGC 4 cut(s) 167, 259, 921, 1123
CseI GACGC 3 cut(s) 63, 241, 1160
Csp6I GTAC 4 cut(s) 79, 469, 1042, 1590
CviQI GTAC 4 cut(s) 79, 469, 1042, 1590
DdeI CTNAG 3 cut(s) 693, 824, 873
DpnI GATC 6 cut(s) 18, 341, 882, 993, 1427, 1455
DpnII GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
Eam1104I CTCTTC 1 cut(s) 680
EarI CTCTTC 1 cut(s) 680
Ecl136II GAGCTC 2 cut(s) 181, 646
Eco24I GRGCYC 2 cut(s) 183, 648
Eco53kI GAGCTC 2 cut(s) 181, 646
Eco88I CYCGRG 2 cut(s) 82, 611
EcoICRI GAGCTC 2 cut(s) 181, 646
EcoRII CCWGG 2 cut(s) 157, 639
EcoT38I GRGCYC 2 cut(s) 183, 648
FalI AAGNNNNNCTT 4 cut(s) 381, 413, 659, 691
FaqI GGGAC 1 cut(s) 1415
FauI CCCGC 1 cut(s) 409
FblI GTMKAC 2 cut(s) 27, 936
Fnu4HI GCNGC 3 cut(s) 13, 813, 1109
FokI GGATG 1 cut(s) 643
FriOI GRGCYC 2 cut(s) 183, 648
Fsp4HI GCNGC 3 cut(s) 13, 813, 1109
FspBI CTAG 3 cut(s) 437, 764, 1364
GlaI GCGC 4 cut(s) 166, 258, 920, 1122
GluI GCNGC 3 cut(s) 13, 813, 1109
GsuI CTGGAG 2 cut(s) 138, 180
HgaI GACGC 3 cut(s) 63, 241, 1160
HhaI GCGC 4 cut(s) 167, 259, 921, 1123
Hin1I GRCGYC 2 cut(s) 30, 74
Hin6I GCGC 4 cut(s) 165, 257, 919, 1121
HinP1I GCGC 4 cut(s) 165, 257, 919, 1121
HindIII AAGCTT 6 cut(s) 455, 772, 1245, 1299, 1330, 1344
HinfI GANTC 8 cut(s) 440, 1037, 1064, 1075, 1127, 1360, 1367, 1468
HphI GGTGA 4 cut(s) 296, 677, 728, 1061
Hpy166II GTNNAC 6 cut(s) 28, 58, 110, 847, 937, 1217
Hpy188I TCNGA 5 cut(s) 499, 546, 1328, 1473, 1516
Hpy8I GTNNAC 6 cut(s) 28, 58, 110, 847, 937, 1217
Hpy99I CGWCG 4 cut(s) 79, 257, 1139, 1176
HpyAV CCTTC 7 cut(s) 329, 522, 610, 621, 977, 1089, 1501
HpyCH4III ACNGT 1 cut(s) 1139
HpyCH4IV ACGT 2 cut(s) 30, 471
HpyCH4V TGCA 6 cut(s) 427, 1049, 1217, 1492, 1501, 1559
HpyF10VI GCNNNNNNNGC 6 cut(s) 463, 760, 1055, 1298, 1498, 1530
HpyF3I CTNAG 3 cut(s) 693, 824, 873
HpySE526I ACGT 2 cut(s) 30, 471
Hsp92I GRCGYC 2 cut(s) 30, 74
HspAI GCGC 4 cut(s) 165, 257, 919, 1121
Kzo9I GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
LmnI GCTCC 5 cut(s) 119, 438, 531, 643, 1312
Lsp1109I GCAGC 1 cut(s) 1095
LweI GCATC 3 cut(s) 131, 1095, 1520
MaeI CTAG 3 cut(s) 437, 764, 1364
MaeII ACGT 2 cut(s) 30, 471
MaeIII GTNAC 2 cut(s) 197, 472
MalI GATC 6 cut(s) 18, 341, 882, 993, 1427, 1455
MboI GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
MfeI CAATTG 2 cut(s) 891, 1152
MhlI GDGCHC 3 cut(s) 183, 648, 1219
MlyI GAGTC 4 cut(s) 434, 1354, 1361, 1462
MseI TTAA 7 cut(s) 407, 506, 1013, 1167, 1319, 1568, 1618
MslI CAYNNNNRTG 2 cut(s) 127, 269
MspA1I CMGCKG 1 cut(s) 877
MspCI CTTAAG 1 cut(s) 1567
MspR9I CCNGG 2 cut(s) 159, 641
MunI CAATTG 2 cut(s) 891, 1152
MvaI CCWGG 2 cut(s) 159, 641
MvnI CGCG 5 cut(s) 257, 712, 919, 1025, 1123
MwoI GCNNNNNNNGC 6 cut(s) 463, 760, 1055, 1298, 1498, 1530
NdeII GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
NlaIV GGNNCC 2 cut(s) 131, 706
NruI TCGCGA 1 cut(s) 1025
NspI RCATGY 1 cut(s) 1501
NspV TTCGAA 2 cut(s) 1089, 1271
PaeR7I CTCGAG 1 cut(s) 611
PagI TCATGA 1 cut(s) 1339
PcsI WCGNNNNNNNCGW 1 cut(s) 36
PfeI GAWTC 4 cut(s) 1037, 1064, 1075, 1127
Pfl23II CGTACG 1 cut(s) 468
PflFI GACNNNGTC 1 cut(s) 355
PfoI TCCNGGA 2 cut(s) 157, 639
PkrI GCNGC 3 cut(s) 14, 814, 1110
PleI GAGTC 4 cut(s) 434, 1354, 1361, 1462
PpsI GAGTC 4 cut(s) 434, 1354, 1361, 1462
Psp124BI GAGCTC 2 cut(s) 183, 648
Psp6I CCWGG 2 cut(s) 157, 639
PspGI CCWGG 2 cut(s) 157, 639
PspLI CGTACG 1 cut(s) 468
PspN4I GGNNCC 2 cut(s) 131, 706
PsyI GACNNNGTC 1 cut(s) 355
PvuII CAGCTG 1 cut(s) 877
RruI TCGCGA 1 cut(s) 1025
RsaI GTAC 4 cut(s) 80, 470, 1043, 1591
RsaNI GTAC 4 cut(s) 79, 469, 1042, 1590
RseI CAYNNNNRTG 2 cut(s) 127, 269
SacI GAGCTC 2 cut(s) 183, 648
SaqAI TTAA 7 cut(s) 407, 506, 1013, 1167, 1319, 1568, 1618
SatI GCNGC 3 cut(s) 13, 813, 1109
Sau3AI GATC 6 cut(s) 16, 339, 880, 991, 1425, 1453
ScaI AGTACT 1 cut(s) 1591
SchI GAGTC 4 cut(s) 434, 1354, 1361, 1462
ScrFI CCNGG 2 cut(s) 159, 641
SduI GDGCHC 3 cut(s) 183, 648, 1219
SfaNI GCATC 3 cut(s) 131, 1095, 1520
Sfr274I CTCGAG 1 cut(s) 611
SfuI TTCGAA 2 cut(s) 1089, 1271
SlaI CTCGAG 1 cut(s) 611
SmiMI CAYNNNNRTG 2 cut(s) 127, 269
SmlI CTYRAG 4 cut(s) 559, 611, 1355, 1567
SmoI CTYRAG 4 cut(s) 559, 611, 1355, 1567
SsiI CCGC 4 cut(s) 402, 812, 917, 1433
SspMI CTAG 3 cut(s) 437, 764, 1364
SstI GAGCTC 2 cut(s) 183, 648
StyD4I CCNGG 2 cut(s) 157, 639
TaaI ACNGT 1 cut(s) 1139
TaiI ACGT 2 cut(s) 33, 474
TaqI TCGA 8 cut(s) 125, 230, 612, 648, 1089, 1271, 1452, 1594
TaqII GACCGA 2 cut(s) 316, 783
TatI WGTACW 1 cut(s) 1589
TauI GCSGC 1 cut(s) 815
TfiI GAWTC 4 cut(s) 1037, 1064, 1075, 1127
Tru1I TTAA 7 cut(s) 407, 506, 1013, 1167, 1319, 1568, 1618
Tru9I TTAA 7 cut(s) 407, 506, 1013, 1167, 1319, 1568, 1618
TscAI CASTG 1 cut(s) 1224
TseI GCWGC 2 cut(s) 12, 1108
TspDTI ATGAA 7 cut(s) 40, 253, 1328, 1356, 1366, 1457, 1559
TspGWI ACGGA 3 cut(s) 127, 1256, 1325
TspRI CASTG 1 cut(s) 1224
Tth111I GACNNNGTC 1 cut(s) 355
Vha464I CTTAAG 1 cut(s) 1567
VneI GTGCAC 1 cut(s) 1215
XapI RAATTY 2 cut(s) 409, 1085
XbaI TCTAGA 1 cut(s) 1363
XceI RCATGY 1 cut(s) 1501
XcmI CCANNNNNNNNNTGG 1 cut(s) 155
XhoI CTCGAG 1 cut(s) 611
XmiI GTMKAC 2 cut(s) 27, 936
XspI CTAG 3 cut(s) 437, 764, 1364
ZraI GACGTC 1 cut(s) 31
ZrmI AGTACT 1 cut(s) 1591
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.