FvH4_3g03040

NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0015568
Physical Location & Seq
Forward (+)
1604517 .. 1607349
2833 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g03040.t1

Sequence Viewer

Length: 1569 bp
ATGGCAATGTGCTGTGATCTCCAGGTCGACGTCAATGGCGAAGAAGTCTTCATGGTGAACAAGGAAACTTTGGCATCATTCTCTTGTAGATTCAGCAAATTGTTTGGTAAATTGATGGGTAGTGCGAGCCTCAAAGTGATATTCCATGACTTTCCTGGAGGTGCAGAGGGTTTTGAGCTCATGACAAGGTTTTGTTACAATAATGGAAGAACTGAGATAACCCCTTCCAACTTAGTCCTTGTGTACTGCATCGCGGATTTCATGGAGATGGATGGTGATATACTATTGCAAGCTCAAAACACCCTCAGAGGTATCAGCTCTTGGACGTGGTCCGAGCTTCTAGTGGCTCTGAAGCAGTGCCAAGATTTACTTCCCCCTTCAAATACTTCATTGATATTGCGAATAGTCATGGACTGCATCATAGAGAAGCTTTCTTGTCCATTTGCTACAACACTCTATGATACTAGTTCGACAGAGAATGTGAGTAGTTTCCAGTTTTCTAGTCGTACGATGACCATTTATAATCTGAAAACCAATTGCTCTATGAAAACATGGTGGTTTGAGGACTTGATGTTCTTAAACACCAAATTGGTCGAAATGGTTATAAGAGGCCTGATATCCAAGGAGATTGAACAGTCTACCGTTTTCAATTTTCTCCTTTGTTATCATCAATCAAAGTGGTCTGGTGCCAAACCAGAAGAGAAGTACAAGATCACAGAAGTTGTTATTGGTTTACTTTCTCTGCTTGATAAAAGCTCCCTTTCTGTCAAGGGATTATTCAATTTATATCAAGCGGCTTTGAACATGAAAGTAAGCAAGAAATACAAAAACAAGTTGGAGATTATGATAGGTTCACAGCTGCATCAGGCAACAATTGATTATTTACTTGTTCCACCTCCTCGTGGGAAGAAGTATGCTTATGATGTGAATTTGATTTTGAGGTTAGGAAAATCATTTCTTCTTCAAGACGGTGGTCATTTATCCCAGGAGAGTCGCCTTACAAAGGTAGCTGAGTTGATGGATTTATACCTTGCAGAAGTGGCTCCAGACTTTCATTTGAGACCTTCAAAGTTTGCAGCATTAGTTAAGATGTTGCCAGAGTCTGCGCGCGAATCGCATGACAGACTTTATGAAGCCATTGCGGTATATTTTAAGTGCCACACTGGTCTATACGAACAAGAGCAGCTGAACATCTGTTGTGCACTGAACTATAAGAAGCTCTCAGCAAGACATTTGAAACAAGCCTATCGCACAAAGTTCCCATCGAGAAGAGCAGTTGGAGCTTTCAAAAGACAGCAATCCAACCTCAGAAGCTTACTCCAGGAAGTCTGCTACATGAGAACCAAGGACAAGAAAGAGGAGATTGAATCAATCCTACATGACACATATAGTATTGATCTCCCAACAGAGGCTCAGAAGCTCAGAGAAGATTCACAAAGCATGCCCTCAAAGACATTGGAATTGAGGAAGGCTTTCGAGACAGCACACATACAAGTGACAAATGGAATAAAATCGAGGTTGCCCTTTTGGGCGAACAATACTCGATACTTGCCAAAACTCTTTCCATGA
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
NPH3

Protein Analysis

523

Amino Acids

59.8

Weight (kDa)

8.8

Isoelectric Point (pI)

45.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 184 - 409 1.3e-54 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)
AanI TTATAA 2 cut(s) 522, 605
AatII GACGTC 1 cut(s) 33
AccB1I GGYRCC 1 cut(s) 686
AccI GTMKAC 2 cut(s) 27, 638
AccII CGCG 3 cut(s) 254, 1108, 1110
AciI CCGC 3 cut(s) 254, 794, 1142
AcsI RAATTY 1 cut(s) 928
AcuI CTGAAG 1 cut(s) 371
AcyI GRCGYC 1 cut(s) 30
AfaI GTAC 3 cut(s) 245, 508, 707
AfiI CCNNNNNNNGG 3 cut(s) 902, 1003, 1408
AhlI ACTAGT 1 cut(s) 464
AjiI CACGTC 1 cut(s) 327
AjnI CCWGG 4 cut(s) 21, 154, 984, 1320
AjuI GAANNNNNNNTTGG 4 cut(s) 354, 386, 711, 743
AloI GAACNNNNNNTCC 2 cut(s) 557, 589
Alw21I GWGCWC 2 cut(s) 180, 1204
Alw26I GTCTC 2 cut(s) 1054, 1472
Alw44I GTGCAC 1 cut(s) 1200
AlwNI CAGNNNCTG 1 cut(s) 1103
AoxI GGCC 1 cut(s) 610
ApaLI GTGCAC 1 cut(s) 1200
ApeKI GCWGC 3 cut(s) 859, 1076, 1183
ApoI RAATTY 1 cut(s) 928
Asp700I GAANNNNTTC 1 cut(s) 1472
AspLEI GCGC 2 cut(s) 1108, 1110
AspS9I GGNCC 1 cut(s) 330
AsuHPI GGTGA 2 cut(s) 67, 287
AvaII GGWCC 1 cut(s) 330
BaeGI GKGCMC 1 cut(s) 1204
BanI GGYRCC 1 cut(s) 686
BanII GRGCYC 1 cut(s) 180
BauI CACGAG 1 cut(s) 900
BbsI GAAGAC 1 cut(s) 40
Bbv12I GWGCWC 2 cut(s) 180, 1204
BbvI GCAGC 3 cut(s) 846, 1088, 1195
BccI CCATC 5 cut(s) 109, 262, 266, 1012, 1270
BciT130I CCWGG 4 cut(s) 23, 156, 986, 1322
BcoDI GTCTC 2 cut(s) 1054, 1472
BcuI ACTAGT 1 cut(s) 464
BfaI CTAG 3 cut(s) 341, 465, 501
BisI GCNGC 4 cut(s) 795, 860, 1077, 1184
BlsI GCNGC 4 cut(s) 796, 861, 1078, 1185
Bme1390I CCNGG 4 cut(s) 23, 156, 986, 1322
Bme18I GGWCC 1 cut(s) 330
BmgBI CACGTC 1 cut(s) 327
BmgT120I GGNCC 1 cut(s) 330
BmiI GGNNCC 2 cut(s) 688, 1044
BmrFI CCNGG 4 cut(s) 23, 156, 986, 1322
BmsI GCATC 4 cut(s) 83, 258, 426, 871
BoxI GACNNNNGTC 1 cut(s) 972
BpiI GAAGAC 1 cut(s) 40
BpmI CTGGAG 4 cut(s) 5, 177, 1029, 1304
BsaHI GRCGYC 1 cut(s) 30
BsaI GGTCTC 1 cut(s) 1054
BsaJI CCNNGG 3 cut(s) 621, 984, 1344
Bsc4I CCNNNNNNNGG 3 cut(s) 902, 1003, 1408
Bse1I ACTGG 2 cut(s) 493, 1168
Bse3DI GCAATG 2 cut(s) 12, 1137
BseBI CCWGG 4 cut(s) 23, 156, 986, 1322
BseDI CCNNGG 3 cut(s) 621, 984, 1344
BseGI GGATG 1 cut(s) 277
BseLI CCNNNNNNNGG 3 cut(s) 902, 1003, 1408
BseMI GCAATG 2 cut(s) 12, 1137
BseMII CTCAG 7 cut(s) 204, 319, 1002, 1236, 1321, 1427, 1435
BseNI ACTGG 2 cut(s) 493, 1168
BsePI GCGCGC 1 cut(s) 1106
BseRI GAGGAG 2 cut(s) 888, 1373
BseSI GKGCMC 1 cut(s) 1204
BseXI GCAGC 3 cut(s) 846, 1088, 1195
BsgI GTGCAG 1 cut(s) 183
Bsh1236I CGCG 3 cut(s) 254, 1108, 1110
BshFI GGCC 1 cut(s) 612
BshNI GGYRCC 1 cut(s) 686
BsiHKAI GWGCWC 2 cut(s) 180, 1204
BsiWI CGTACG 1 cut(s) 506
BslI CCNNNNNNNGG 3 cut(s) 902, 1003, 1408
BsmAI GTCTC 2 cut(s) 1054, 1472
BsnI GGCC 1 cut(s) 612
Bso31I GGTCTC 1 cut(s) 1054
Bsp1286I GDGCHC 2 cut(s) 180, 1204
Bsp143I GATC 3 cut(s) 16, 711, 1396
BspACI CCGC 3 cut(s) 254, 794, 1142
BspANI GGCC 1 cut(s) 612
BspCNI CTCAG 7 cut(s) 205, 318, 1003, 1235, 1320, 1426, 1434
BspFNI CGCG 3 cut(s) 254, 1108, 1110
BspHI TCATGA 1 cut(s) 180
BspLI GGNNCC 2 cut(s) 688, 1044
BspQI GCTCTTC 1 cut(s) 1264
BspT107I GGYRCC 1 cut(s) 686
BspTNI GGTCTC 1 cut(s) 1054
BsrDI GCAATG 2 cut(s) 12, 1137
BsrI ACTGG 2 cut(s) 493, 1168
BssECI CCNNGG 3 cut(s) 621, 984, 1344
BssHII GCGCGC 1 cut(s) 1106
BssMI GATC 3 cut(s) 16, 711, 1396
BssNI GRCGYC 1 cut(s) 30
BssSI CACGAG 1 cut(s) 900
BssT1I CCWWGG 2 cut(s) 621, 1344
Bst2BI CACGAG 1 cut(s) 900
Bst2UI CCWGG 4 cut(s) 23, 156, 986, 1322
Bst4CI ACNGT 3 cut(s) 636, 643, 971
Bst6I CTCTTC 2 cut(s) 693, 1264
BstACI GRCGYC 1 cut(s) 30
BstC8I GCNNGC 4 cut(s) 127, 291, 1108, 1442
BstDEI CTNAG 8 cut(s) 213, 232, 305, 1011, 1222, 1307, 1413, 1421
BstENI CCTNNNNNAGG 1 cut(s) 1001
BstF5I GGATG 1 cut(s) 277
BstFNI CGCG 3 cut(s) 254, 1108, 1110
BstHHI GCGC 2 cut(s) 1108, 1110
BstKTI GATC 3 cut(s) 19, 714, 1399
BstMAI GTCTC 2 cut(s) 1054, 1472
BstMBI GATC 3 cut(s) 16, 711, 1396
BstMWI GCNNNNNNNGC 3 cut(s) 1040, 1114, 1280
BstNI CCWGG 4 cut(s) 23, 156, 986, 1322
BstNSI RCATGY 1 cut(s) 1444
BstPAI GACNNNNGTC 1 cut(s) 972
BstSCI CCNGG 4 cut(s) 21, 154, 984, 1320
BstSLI GKGCMC 1 cut(s) 1204
BstUI CGCG 3 cut(s) 254, 1108, 1110
BstV1I GCAGC 3 cut(s) 846, 1088, 1195
BstV2I GAAGAC 1 cut(s) 40
BsuRI GGCC 1 cut(s) 612
BtgZI GCGATG 1 cut(s) 235
BtrI CACGTC 1 cut(s) 327
BtsCI GGATG 1 cut(s) 277
BtsI GCAGTG 1 cut(s) 362
BtsIMutI CAGTG 3 cut(s) 362, 1161, 1202
Cac8I GCNNGC 4 cut(s) 127, 291, 1108, 1442
CaiI CAGNNNCTG 1 cut(s) 1103
CciI TCATGA 1 cut(s) 180
CfoI GCGC 2 cut(s) 1108, 1110
Cfr13I GGNCC 1 cut(s) 330
Csp6I GTAC 3 cut(s) 244, 507, 706
CspCI CAANNNNNGTGG 2 cut(s) 659, 694
CviQI GTAC 3 cut(s) 244, 507, 706
DdeI CTNAG 8 cut(s) 213, 232, 305, 1011, 1222, 1307, 1413, 1421
DpnI GATC 3 cut(s) 18, 713, 1398
DpnII GATC 3 cut(s) 16, 711, 1396
Eam1104I CTCTTC 2 cut(s) 693, 1264
EarI CTCTTC 2 cut(s) 693, 1264
Ecl136II GAGCTC 1 cut(s) 178
Eco130I CCWWGG 2 cut(s) 621, 1344
Eco147I AGGCCT 1 cut(s) 612
Eco24I GRGCYC 1 cut(s) 180
Eco31I GGTCTC 1 cut(s) 1054
Eco32I GATATC 1 cut(s) 618
Eco47I GGWCC 1 cut(s) 330
Eco53kI GAGCTC 1 cut(s) 178
Eco57I CTGAAG 1 cut(s) 371
EcoICRI GAGCTC 1 cut(s) 178
EcoNI CCTNNNNNAGG 1 cut(s) 1001
EcoRII CCWGG 4 cut(s) 21, 154, 984, 1320
EcoRV GATATC 1 cut(s) 618
EcoT14I CCWWGG 2 cut(s) 621, 1344
EcoT38I GRGCYC 1 cut(s) 180
ErhI CCWWGG 2 cut(s) 621, 1344
FalI AAGNNNNNCTT 2 cut(s) 354, 386
FblI GTMKAC 2 cut(s) 27, 638
Fnu4HI GCNGC 4 cut(s) 795, 860, 1077, 1184
FokI GGATG 1 cut(s) 284
FriOI GRGCYC 1 cut(s) 180
Fsp4HI GCNGC 4 cut(s) 795, 860, 1077, 1184
FspBI CTAG 3 cut(s) 341, 465, 501
GlaI GCGC 2 cut(s) 1107, 1109
GluI GCNGC 4 cut(s) 795, 860, 1077, 1184
GsuI CTGGAG 4 cut(s) 5, 177, 1029, 1304
HaeIII GGCC 1 cut(s) 612
HhaI GCGC 2 cut(s) 1108, 1110
Hin1I GRCGYC 1 cut(s) 30
Hin6I GCGC 2 cut(s) 1106, 1108
HinP1I GCGC 2 cut(s) 1106, 1108
HincII GTYRAC 1 cut(s) 28
HindII GTYRAC 1 cut(s) 28
HindIII AAGCTT 2 cut(s) 428, 1312
HinfI GANTC 6 cut(s) 90, 991, 1100, 1112, 1367, 1430
HphI GGTGA 2 cut(s) 67, 287
Hpy166II GTNNAC 7 cut(s) 28, 58, 244, 639, 734, 854, 1202
Hpy188I TCNGA 7 cut(s) 308, 334, 351, 528, 1310, 1416, 1424
Hpy188III TCNNGA 5 cut(s) 181, 965, 1046, 1266, 1477
Hpy8I GTNNAC 7 cut(s) 28, 58, 244, 639, 734, 854, 1202
Hpy99I CGWCG 1 cut(s) 32
HpyAV CCTTC 4 cut(s) 234, 387, 1074, 1462
HpyCH4III ACNGT 3 cut(s) 636, 643, 971
HpyCH4IV ACGT 2 cut(s) 30, 326
HpyCH4V TGCA 8 cut(s) 164, 249, 289, 417, 862, 1034, 1076, 1202
HpyF10VI GCNNNNNNNGC 3 cut(s) 1040, 1114, 1280
HpyF3I CTNAG 8 cut(s) 213, 232, 305, 1011, 1222, 1307, 1413, 1421
HpySE526I ACGT 2 cut(s) 30, 326
Hsp92I GRCGYC 1 cut(s) 30
HspAI GCGC 2 cut(s) 1106, 1108
Kzo9I GATC 3 cut(s) 16, 711, 1396
LguI GCTCTTC 1 cut(s) 1264
LmnI GCTCC 3 cut(s) 761, 1048, 1280
Lsp1109I GCAGC 3 cut(s) 846, 1088, 1195
LweI GCATC 4 cut(s) 83, 258, 426, 871
MaeI CTAG 3 cut(s) 341, 465, 501
MaeII ACGT 2 cut(s) 30, 326
MaeIII GTNAC 2 cut(s) 194, 1495
MalI GATC 3 cut(s) 18, 713, 1398
MboI GATC 3 cut(s) 16, 711, 1396
MboII GAAGA 9 cut(s) 40, 53, 219, 710, 919, 950, 953, 1281, 1439
MfeI CAATTG 2 cut(s) 535, 873
MhlI GDGCHC 2 cut(s) 180, 1204
MluCI AATT 9 cut(s) 98, 110, 535, 587, 649, 781, 873, 928, 1460
MlyI GAGTC 2 cut(s) 1000, 1109
MmeI TCCRAC 4 cut(s) 252, 816, 1258, 1326
MroXI GAANNNNTTC 1 cut(s) 1472
MseI TTAA 3 cut(s) 578, 1086, 1152
MslI CAYNNNNRTG 2 cut(s) 266, 1493
MspA1I CMGCKG 2 cut(s) 859, 1186
MspR9I CCNGG 4 cut(s) 23, 156, 986, 1322
MunI CAATTG 2 cut(s) 535, 873
MvaI CCWGG 4 cut(s) 23, 156, 986, 1322
MvnI CGCG 3 cut(s) 254, 1108, 1110
MwoI GCNNNNNNNGC 3 cut(s) 1040, 1114, 1280
NdeII GATC 3 cut(s) 16, 711, 1396
NlaIV GGNNCC 2 cut(s) 688, 1044
NmuCI GTSAC 1 cut(s) 1495
NspI RCATGY 1 cut(s) 1444
PaeI GCATGC 1 cut(s) 1444
PagI TCATGA 1 cut(s) 180
PauI GCGCGC 1 cut(s) 1106
PceI AGGCCT 1 cut(s) 612
PciSI GCTCTTC 1 cut(s) 1264
PcsI WCGNNNNNNNCGW 1 cut(s) 36
PdmI GAANNNNTTC 1 cut(s) 1472
PfeI GAWTC 4 cut(s) 90, 1112, 1367, 1430
Pfl23II CGTACG 1 cut(s) 506
PflFI GACNNNGTC 1 cut(s) 328
PfoI TCCNGGA 2 cut(s) 154, 1320
PkrI GCNGC 4 cut(s) 796, 861, 1078, 1185
PleI GAGTC 2 cut(s) 999, 1108
PpsI GAGTC 2 cut(s) 999, 1108
PshAI GACNNNNGTC 1 cut(s) 972
PsiI TTATAA 2 cut(s) 522, 605
Psp124BI GAGCTC 1 cut(s) 180
Psp6I CCWGG 4 cut(s) 21, 154, 984, 1320
PspGI CCWGG 4 cut(s) 21, 154, 984, 1320
PspLI CGTACG 1 cut(s) 506
PspN4I GGNNCC 2 cut(s) 688, 1044
PspPI GGNCC 1 cut(s) 330
PstNI CAGNNNCTG 1 cut(s) 1103
PsyI GACNNNGTC 1 cut(s) 328
PteI GCGCGC 1 cut(s) 1106
PvuII CAGCTG 2 cut(s) 859, 1186
RsaI GTAC 3 cut(s) 245, 508, 707
RsaNI GTAC 3 cut(s) 244, 507, 706
RseI CAYNNNNRTG 2 cut(s) 266, 1493
SacI GAGCTC 1 cut(s) 180
SalI GTCGAC 1 cut(s) 26
SapI GCTCTTC 1 cut(s) 1264
SaqAI TTAA 3 cut(s) 578, 1086, 1152
SatI GCNGC 4 cut(s) 795, 860, 1077, 1184
Sau3AI GATC 3 cut(s) 16, 711, 1396
Sau96I GGNCC 1 cut(s) 330
SchI GAGTC 2 cut(s) 1000, 1109
ScrFI CCNGG 4 cut(s) 23, 156, 986, 1322
SduI GDGCHC 2 cut(s) 180, 1204
SfaNI GCATC 4 cut(s) 83, 258, 426, 871
SinI GGWCC 1 cut(s) 330
SmiMI CAYNNNNRTG 2 cut(s) 266, 1493
SpeI ACTAGT 1 cut(s) 464
SphI GCATGC 1 cut(s) 1444
Sse9I AATT 9 cut(s) 98, 110, 535, 587, 649, 781, 873, 928, 1460
SseBI AGGCCT 1 cut(s) 612
SsiI CCGC 3 cut(s) 254, 794, 1142
SspMI CTAG 3 cut(s) 341, 465, 501
SstI GAGCTC 1 cut(s) 180
StuI AGGCCT 1 cut(s) 612
StyD4I CCNGG 4 cut(s) 21, 154, 984, 1320
StyI CCWWGG 2 cut(s) 621, 1344
TaaI ACNGT 3 cut(s) 636, 643, 971
TaiI ACGT 2 cut(s) 33, 329
TaqI TCGA 7 cut(s) 27, 470, 594, 1265, 1476, 1514, 1543
TasI AATT 9 cut(s) 98, 110, 535, 587, 649, 781, 873, 928, 1460
TatI WGTACW 2 cut(s) 243, 705
TauI GCSGC 1 cut(s) 797
TfiI GAWTC 4 cut(s) 90, 1112, 1367, 1430
Tru1I TTAA 3 cut(s) 578, 1086, 1152
Tru9I TTAA 3 cut(s) 578, 1086, 1152
TscAI CASTG 3 cut(s) 362, 1168, 1209
TseFI GTSAC 1 cut(s) 1495
TseI GCWGC 3 cut(s) 859, 1076, 1183
Tsp45I GTSAC 1 cut(s) 1495
TspDTI ATGAA 7 cut(s) 40, 250, 378, 560, 821, 1043, 1146
TspRI CASTG 3 cut(s) 362, 1168, 1209
Tth111I GACNNNGTC 1 cut(s) 328
VneI GTGCAC 1 cut(s) 1200
VpaK11BI GGWCC 1 cut(s) 330
XagI CCTNNNNNAGG 1 cut(s) 1001
XapI RAATTY 1 cut(s) 928
XceI RCATGY 1 cut(s) 1444
XcmI CCANNNNNNNNNTGG 1 cut(s) 152
XmiI GTMKAC 2 cut(s) 27, 638
XmnI GAANNNNTTC 1 cut(s) 1472
XspI CTAG 3 cut(s) 341, 465, 501
ZraI GACGTC 1 cut(s) 31
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.