Rorug01G0305300

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0002522
Physical Location & Seq
Forward (+)
42089916 .. 42182582
92667 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0305300.1

Sequence Viewer

Length: 1755 bp
ATGAATAACCAGGGTAGGGGGGAGCACCACGTTGAGCTAAGCAGCACTAACCCTGTTGAAGTGCAACACAAAAGTCATTCCAATCGGTCTCCACCTGGAGGATCTTCAGAAACAAAACCATTCATGGATGTACGGAATATGATAACAAAAATACTCGAGGAAGTACCGGACATGACATTTCTACTTTTATTTGTCATTGGACTGATGATAGATCCTCTGTTCTTGTACCTACCTTTCATCAATGACAAAAAGAAGTGCATTGGATTTGACGAAAAGATGGGGTTTGCAACTACTTTTTTGCGATCACTTGTTGATCTCACTTCCGTAGTATATTCAGTCTGGCGATTTCGGAAAAAGAATTTATCGAAATCACATCTTATAATTAACATTCTCGCAGTTCTTCCTATTCCACAAGTGCTACTAGCTCTGCAATTCAGAATGGGAAGTTATGGACATCCGTATGATATATATTTTGTAAATTTCTTTCTTGCTGCCCCATATGTACTAAGGTTCTGTCGATTTATCAAACTCTACCGAAAGAGAGACATGTATGGAAGTCTTCTGGGTGTTTTGTCTCTCTACTTCCTTACTAGTCACGTGCTAGGAGCATTTTGGTACTTTTTTTCTATTCAACGAGTAGCATCATGTTGGTACCATGCATGTGCTGCAGGATGTAAAGTTACGTATTATTGCAGTGGCACTACTCCTAATAACATCACAGTGCTTAATCAGTTATGCTCAATAAATCCATCAAATGCTTCAACATTTGATTTTGGAATATTTCATGATGCTTTTCAATCTGGTATCACTGGACCAATGACTCCTAAAAAGTTGTATTACTCTTTTTGGTGGGGCCTTCGAAATCTAAGTAATTTTGGCACGAATCTACAAACAAGTCCTTACCTGTGGGAAATTTACTTTGCAGTCGTCATTTCCATTAGTGGCCTGTTTCTACTAACAATAGTTATTGGAACGATGCAGATAATGCTGCAGTACGACGAAGAGAGGCGGAGGACGCCATTGAGATCCAAGCAAGATTTGGAAGTGTGGATGCACAGAAATGGTGTCCCTGAGAATTTGAGGGAGAAAATTATGAGAAGTATGGTAGAAAAAGTGGAAGGCAAAGACGGTAATACGGAGACTCTAACTGATCTGGGAAATCTATTCTCCATTCTTCCTTCTAAAACCGCCCAAAAAATTCTGAAGCGTTATCTCTGCATGAGTACGCTAACCAAAGTACCACGCCTTAAAGATATGGATGTGAAGGTGTTAGAAATGATGTGCGACTATCTGAAGCCAGTGGTGTTCACTGAAAATAGCTGGGTTGTTAAGATCGACGAACAGCTTGATCGCATGATACTCATCACAGAAGGCACTATGTTGATCTACCCACCTAATACTAGTACTGATGCTACTCTTCGAGCTGCTGGAGGAGCAGATACCGGTTCCTCATCGATGATCCGCAAGCCCTCCCTTAAGAAAGGTGATATTTATGGAGATGAACTTTTAATCATTTGGGCTTCGTCGCCTGACATGCATGTAACTTTTGCGAATCTTCCTATCTCGAAAGAAAATGTCAAATGCCATTCGAAAGTGGAAGGCTTTGCTCTCACAGCCAATGACTTGAAGAAAGTAATCTCGAAATTACACTGGAATCCCTTTAGTTCTGATGCGGGGGAGATGGTGCCACAATTGGGTACGGTGGGTGGTGATCATGAGGAGTCTGATCAAGACAAGGACCAATCAGATGGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0016020
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
BTB NPH3

Protein Analysis

584

Amino Acids

66.32

Weight (kDa)

8.48

Isoelectric Point (pI)

40.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ion_trans PF00520 111 - 337 1e-05 Ion transport protein
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)
AanI TTATAA 1 cut(s) 380
Acc65I GGTACC 1 cut(s) 651
AccB1I GGYRCC 2 cut(s) 651, 1684
AciI CCGC 4 cut(s) 1009, 1188, 1462, 1673
AclWI GGATC 4 cut(s) 109, 206, 1020, 1453
AcsI RAATTY 5 cut(s) 358, 478, 912, 1075, 1197
AcuI CTGAAG 3 cut(s) 90, 1223, 1313
AcvI CACGTG 1 cut(s) 598
AcyI GRCGYC 1 cut(s) 1016
AfiI CCNNNNNNNGG 3 cut(s) 16, 98, 1694
AflII CTTAAG 1 cut(s) 1475
AflIII ACRYGT 1 cut(s) 546
AgeI ACCGGT 1 cut(s) 1442
AgsI TTSAA 5 cut(s) 59, 632, 762, 797, 1627
AhlI ACTAGT 2 cut(s) 590, 1400
AjnI CCWGG 2 cut(s) 9, 94
AluBI AGCT 5 cut(s) 37, 425, 1320, 1345, 1424
AluI AGCT 5 cut(s) 37, 425, 1320, 1345, 1424
Alw21I GWGCWC 1 cut(s) 27
Alw26I GTCTC 4 cut(s) 93, 537, 579, 1133
AlwI GGATC 4 cut(s) 109, 206, 1020, 1453
Ama87I CYCGRG 1 cut(s) 155
AoxI GGCC 2 cut(s) 853, 943
ApeKI GCWGC 5 cut(s) 42, 491, 665, 988, 1424
ApoI RAATTY 5 cut(s) 358, 478, 912, 1075, 1197
AsiGI ACCGGT 1 cut(s) 1442
Asp718I GGTACC 1 cut(s) 651
AspS9I GGNCC 3 cut(s) 812, 853, 1738
AsuHPI GGTGA 2 cut(s) 1496, 1721
AsuII TTCGAA 2 cut(s) 859, 1589
AvaI CYCGRG 1 cut(s) 155
AvaII GGWCC 2 cut(s) 812, 1738
BaeI ACNNNNGTAYC 2 cut(s) 1221, 1254
BanI GGYRCC 2 cut(s) 651, 1684
BbrPI CACGTG 1 cut(s) 598
BbsI GAAGAC 1 cut(s) 551
Bbv12I GWGCWC 1 cut(s) 27
BbvI GCAGC 5 cut(s) 54, 478, 652, 975, 1411
BccI CCATC 4 cut(s) 271, 757, 1675, 1742
BciT130I CCWGG 2 cut(s) 11, 96
BclI TGATCA 2 cut(s) 1711, 1726
BcoDI GTCTC 4 cut(s) 93, 537, 579, 1133
BcuI ACTAGT 2 cut(s) 590, 1400
BfaI CTAG 4 cut(s) 422, 591, 602, 1401
BfmI CTRYAG 2 cut(s) 666, 989
BfrI CTTAAG 1 cut(s) 1475
BisI GCNGC 5 cut(s) 43, 492, 666, 989, 1425
BlpI GCTNAGC 1 cut(s) 38
BlsI GCNGC 5 cut(s) 44, 493, 667, 990, 1426
BmcAI AGTACT 1 cut(s) 1405
Bme1390I CCNGG 2 cut(s) 11, 96
Bme18I GGWCC 2 cut(s) 812, 1738
BmeT110I CYCGRG 1 cut(s) 155
BmgT120I GGNCC 3 cut(s) 812, 853, 1738
BmiI GGNNCC 4 cut(s) 653, 854, 1447, 1686
BmrFI CCNGG 2 cut(s) 11, 96
BmsI GCATC 6 cut(s) 650, 778, 966, 1041, 1399, 1660
BpiI GAAGAC 1 cut(s) 551
BpmI CTGGAG 2 cut(s) 117, 1449
Bpu1102I GCTNAGC 1 cut(s) 38
Bpu14I TTCGAA 2 cut(s) 859, 1589
Bsa29I ATCGAT 1 cut(s) 1454
BsaAI YACGTR 2 cut(s) 598, 684
BsaBI GATNNNNATC 1 cut(s) 1361
BsaHI GRCGYC 1 cut(s) 1016
BsaI GGTCTC 1 cut(s) 93
BsaJI CCNNGG 1 cut(s) 10
BsaWI WCCGGW 2 cut(s) 166, 1442
Bsc4I CCNNNNNNNGG 3 cut(s) 16, 98, 1694
Bse118I RCCGGY 1 cut(s) 1442
Bse1I ACTGG 3 cut(s) 814, 1298, 1655
Bse8I GATNNNNATC 1 cut(s) 1361
BseBI CCWGG 2 cut(s) 11, 96
BseCI ATCGAT 1 cut(s) 1454
BseDI CCNNGG 1 cut(s) 10
BseGI GGATG 5 cut(s) 133, 454, 677, 1056, 1264
BseJI GATNNNNATC 1 cut(s) 1361
BseLI CCNNNNNNNGG 3 cut(s) 16, 98, 1694
BseMII CTCAG 1 cut(s) 1062
BseNI ACTGG 3 cut(s) 814, 1298, 1655
BseRI GAGGAG 2 cut(s) 1446, 1733
BseXI GCAGC 5 cut(s) 54, 478, 652, 975, 1411
BseYI CCCAGC 1 cut(s) 1320
BshFI GGCC 2 cut(s) 855, 945
BshNI GGYRCC 2 cut(s) 651, 1684
BshTI ACCGGT 1 cut(s) 1442
BshVI ATCGAT 1 cut(s) 1454
BsiHKAI GWGCWC 1 cut(s) 27
BsiHKCI CYCGRG 1 cut(s) 155
BsiSI CCGG 2 cut(s) 167, 1443
BslFI GGGAC 1 cut(s) 1052
BslI CCNNNNNNNGG 3 cut(s) 16, 98, 1694
BsmAI GTCTC 4 cut(s) 93, 537, 579, 1133
BsmFI GGGAC 1 cut(s) 1052
BsnI GGCC 2 cut(s) 855, 945
Bso31I GGTCTC 1 cut(s) 93
BsoBI CYCGRG 1 cut(s) 155
Bsp119I TTCGAA 2 cut(s) 859, 1589
Bsp1286I GDGCHC 1 cut(s) 27
Bsp1720I GCTNAGC 1 cut(s) 38
BspACI CCGC 4 cut(s) 1009, 1188, 1462, 1673
BspANI GGCC 2 cut(s) 855, 945
BspCNI CTCAG 1 cut(s) 1063
BspDI ATCGAT 1 cut(s) 1454
BspHI TCATGA 2 cut(s) 784, 1714
BspLI GGNNCC 4 cut(s) 653, 854, 1447, 1686
BspMAI CTGCAG 2 cut(s) 670, 993
BspPI GGATC 4 cut(s) 109, 206, 1020, 1453
BspT104I TTCGAA 2 cut(s) 859, 1589
BspT107I GGYRCC 2 cut(s) 651, 1684
BspTI CTTAAG 1 cut(s) 1475
BspTNI GGTCTC 1 cut(s) 93
BsrFI RCCGGY 1 cut(s) 1442
BsrI ACTGG 3 cut(s) 814, 1298, 1655
BssAI RCCGGY 1 cut(s) 1442
BssECI CCNNGG 1 cut(s) 10
BssNI GRCGYC 1 cut(s) 1016
Bst2UI CCWGG 2 cut(s) 11, 96
Bst4CI ACNGT 3 cut(s) 721, 1130, 1702
Bst6I CTCTTC 2 cut(s) 996, 1422
BstACI GRCGYC 1 cut(s) 1016
BstAFI CTTAAG 1 cut(s) 1475
BstAPI GCANNNNNTGC 2 cut(s) 665, 985
BstBAI YACGTR 2 cut(s) 598, 684
BstBI TTCGAA 2 cut(s) 859, 1589
BstC8I GCNNGC 1 cut(s) 1466
BstDEI CTNAG 4 cut(s) 38, 506, 866, 1071
BstF5I GGATG 5 cut(s) 133, 454, 677, 1056, 1264
BstMAI GTCTC 4 cut(s) 93, 537, 579, 1133
BstMWI GCNNNNNNNGC 6 cut(s) 665, 985, 1015, 1433, 1534, 1613
BstNI CCWGG 2 cut(s) 11, 96
BstNSI RCATGY 4 cut(s) 550, 663, 1537, 1541
BstSCI CCNGG 2 cut(s) 9, 94
BstSFI CTRYAG 2 cut(s) 666, 989
BstSNI TACGTA 1 cut(s) 684
BstV1I GCAGC 5 cut(s) 54, 478, 652, 975, 1411
BstV2I GAAGAC 1 cut(s) 551
BstX2I RGATCY 3 cut(s) 101, 211, 1025
BstXI CCANNNNNNTGG 1 cut(s) 1748
BstYI RGATCY 3 cut(s) 101, 211, 1025
Bsu15I ATCGAT 1 cut(s) 1454
BsuRI GGCC 2 cut(s) 855, 945
BsuTUI ATCGAT 1 cut(s) 1454
BtsCI GGATG 5 cut(s) 133, 454, 677, 1056, 1264
BtsI GCAGTG 1 cut(s) 700
BtsIMutI CAGTG 6 cut(s) 700, 726, 807, 1305, 1308, 1648
Cac8I GCNNGC 1 cut(s) 1466
CciI TCATGA 2 cut(s) 784, 1714
Cfr10I RCCGGY 1 cut(s) 1442
Cfr13I GGNCC 3 cut(s) 812, 853, 1738
ClaI ATCGAT 1 cut(s) 1454
CseI GACGC 1 cut(s) 1024
CspAI ACCGGT 1 cut(s) 1442
DdeI CTNAG 4 cut(s) 38, 506, 866, 1071
Eam1104I CTCTTC 2 cut(s) 996, 1422
EarI CTCTTC 2 cut(s) 996, 1422
EciI GGCGGA 1 cut(s) 1024
Eco105I TACGTA 1 cut(s) 684
Eco31I GGTCTC 1 cut(s) 93
Eco47I GGWCC 2 cut(s) 812, 1738
Eco57I CTGAAG 3 cut(s) 90, 1223, 1313
Eco72I CACGTG 1 cut(s) 598
Eco88I CYCGRG 1 cut(s) 155
EcoO109I RGGNCCY 1 cut(s) 853
EcoRII CCWGG 2 cut(s) 9, 94
EcoT22I ATGCAT 2 cut(s) 661, 1539
FaqI GGGAC 1 cut(s) 1052
FauI CCCGC 1 cut(s) 1666
FauNDI CATATG 1 cut(s) 499
FbaI TGATCA 2 cut(s) 1711, 1726
Fnu4HI GCNGC 5 cut(s) 43, 492, 666, 989, 1425
FokI GGATG 5 cut(s) 140, 441, 684, 1063, 1271
Fsp4HI GCNGC 5 cut(s) 43, 492, 666, 989, 1425
FspBI CTAG 4 cut(s) 422, 591, 602, 1401
GluI GCNGC 5 cut(s) 43, 492, 666, 989, 1425
GsaI CCCAGC 1 cut(s) 1324
GsuI CTGGAG 2 cut(s) 117, 1449
HaeIII GGCC 2 cut(s) 855, 945
HapII CCGG 2 cut(s) 167, 1443
HgaI GACGC 1 cut(s) 1024
Hin1I GRCGYC 1 cut(s) 1016
HinfI GANTC 6 cut(s) 820, 883, 1141, 1552, 1654, 1721
HpaII CCGG 2 cut(s) 167, 1443
HphI GGTGA 2 cut(s) 1496, 1721
Hpy166II GTNNAC 1 cut(s) 1308
Hpy188I TCNGA 8 cut(s) 109, 351, 437, 1203, 1293, 1669, 1726, 1747
Hpy188III TCNNGA 5 cut(s) 785, 1564, 1639, 1715, 1730
Hpy8I GTNNAC 1 cut(s) 1308
Hpy99I CGWCG 3 cut(s) 1001, 1340, 1528
HpyAV CCTTC 6 cut(s) 866, 1112, 1188, 1258, 1364, 1592
HpyCH4III ACNGT 3 cut(s) 721, 1130, 1702
HpyCH4IV ACGT 3 cut(s) 30, 597, 683
HpyF10VI GCNNNNNNNGC 6 cut(s) 665, 985, 1015, 1433, 1534, 1613
HpyF3I CTNAG 4 cut(s) 38, 506, 866, 1071
HpySE526I ACGT 3 cut(s) 30, 597, 683
Hsp92I GRCGYC 1 cut(s) 1016
KpnI GGTACC 1 cut(s) 655
Ksp22I TGATCA 2 cut(s) 1711, 1726
LmnI GCTCC 3 cut(s) 22, 605, 1433
Lsp1109I GCAGC 5 cut(s) 54, 478, 652, 975, 1411
LweI GCATC 6 cut(s) 650, 778, 966, 1041, 1399, 1660
MaeI CTAG 4 cut(s) 422, 591, 602, 1401
MaeII ACGT 3 cut(s) 30, 597, 683
MaeIII GTNAC 3 cut(s) 593, 679, 1540
MboII GAAGA 8 cut(s) 96, 392, 551, 1013, 1166, 1409, 1547, 1639
MfeI CAATTG 1 cut(s) 1691
MflI RGATCY 3 cut(s) 101, 211, 1025
MhlI GDGCHC 1 cut(s) 27
MlyI GAGTC 3 cut(s) 814, 1135, 1730
Mph1103I ATGCAT 2 cut(s) 661, 1539
MseI TTAA 6 cut(s) 384, 726, 1248, 1329, 1476, 1508
MslI CAYNNNNRTG 4 cut(s) 459, 660, 719, 1059
MspCI CTTAAG 1 cut(s) 1475
MspI CCGG 2 cut(s) 167, 1443
MspR9I CCNGG 2 cut(s) 11, 96
MunI CAATTG 1 cut(s) 1691
MvaI CCWGG 2 cut(s) 11, 96
MwoI GCNNNNNNNGC 6 cut(s) 665, 985, 1015, 1433, 1534, 1613
NdeI CATATG 1 cut(s) 499
NlaIV GGNNCC 4 cut(s) 653, 854, 1447, 1686
NmuCI GTSAC 1 cut(s) 593
NsiI ATGCAT 2 cut(s) 661, 1539
NspI RCATGY 4 cut(s) 550, 663, 1537, 1541
NspV TTCGAA 2 cut(s) 859, 1589
PaeR7I CTCGAG 1 cut(s) 155
PagI TCATGA 2 cut(s) 784, 1714
PciI ACATGT 1 cut(s) 546
PfeI GAWTC 3 cut(s) 883, 1552, 1654
PinAI ACCGGT 1 cut(s) 1442
PkrI GCNGC 5 cut(s) 44, 493, 667, 990, 1426
PleI GAGTC 3 cut(s) 814, 1135, 1729
PmaCI CACGTG 1 cut(s) 598
PmlI CACGTG 1 cut(s) 598
PpsI GAGTC 3 cut(s) 814, 1135, 1729
Ppu21I YACGTR 2 cut(s) 598, 684
PscI ACATGT 1 cut(s) 546
PsiI TTATAA 1 cut(s) 380
Psp6I CCWGG 2 cut(s) 9, 94
PspCI CACGTG 1 cut(s) 598
PspFI CCCAGC 1 cut(s) 1320
PspGI CCWGG 2 cut(s) 9, 94
PspN4I GGNNCC 4 cut(s) 653, 854, 1447, 1686
PspPI GGNCC 3 cut(s) 812, 853, 1738
PspXI VCTCGAGB 1 cut(s) 155
PstI CTGCAG 2 cut(s) 670, 993
PsuI RGATCY 3 cut(s) 101, 211, 1025
RseI CAYNNNNRTG 4 cut(s) 459, 660, 719, 1059
SaqAI TTAA 6 cut(s) 384, 726, 1248, 1329, 1476, 1508
SatI GCNGC 5 cut(s) 43, 492, 666, 989, 1425
Sau96I GGNCC 3 cut(s) 812, 853, 1738
ScaI AGTACT 1 cut(s) 1405
SchI GAGTC 3 cut(s) 814, 1135, 1730
ScrFI CCNGG 2 cut(s) 11, 96
SduI GDGCHC 1 cut(s) 27
SfaNI GCATC 6 cut(s) 650, 778, 966, 1041, 1399, 1660
SfcI CTRYAG 2 cut(s) 666, 989
Sfr274I CTCGAG 1 cut(s) 155
SfuI TTCGAA 2 cut(s) 859, 1589
SinI GGWCC 2 cut(s) 812, 1738
SlaI CTCGAG 1 cut(s) 155
SmiMI CAYNNNNRTG 4 cut(s) 459, 660, 719, 1059
SmlI CTYRAG 2 cut(s) 155, 1475
SmoI CTYRAG 2 cut(s) 155, 1475
SnaBI TACGTA 1 cut(s) 684
SpeI ACTAGT 2 cut(s) 590, 1400
SsiI CCGC 4 cut(s) 1009, 1188, 1462, 1673
SspI AATATT 1 cut(s) 780
SspMI CTAG 4 cut(s) 422, 591, 602, 1401
StyD4I CCNGG 2 cut(s) 9, 94
TaaI ACNGT 3 cut(s) 721, 1130, 1702
TaiI ACGT 3 cut(s) 33, 600, 686
TaqII GACCGA 1 cut(s) 75
TatI WGTACW 2 cut(s) 502, 1403
TfiI GAWTC 3 cut(s) 883, 1552, 1654
Tru1I TTAA 6 cut(s) 384, 726, 1248, 1329, 1476, 1508
Tru9I TTAA 6 cut(s) 384, 726, 1248, 1329, 1476, 1508
TscAI CASTG 6 cut(s) 700, 726, 814, 1305, 1315, 1655
TseFI GTSAC 1 cut(s) 593
TseI GCWGC 5 cut(s) 42, 491, 665, 988, 1424
Tsp45I GTSAC 1 cut(s) 593
TspDTI ATGAA 5 cut(s) 17, 112, 226, 773, 1515
TspGWI ACGGA 4 cut(s) 148, 313, 447, 1151
TspRI CASTG 6 cut(s) 700, 726, 814, 1305, 1315, 1655
Vha464I CTTAAG 1 cut(s) 1475
VpaK11BI GGWCC 2 cut(s) 812, 1738
XapI RAATTY 5 cut(s) 358, 478, 912, 1075, 1197
XceI RCATGY 4 cut(s) 550, 663, 1537, 1541
XcmI CCANNNNNNNNNTGG 1 cut(s) 1036
XhoI CTCGAG 1 cut(s) 155
XspI CTAG 4 cut(s) 422, 591, 602, 1401
ZrmI AGTACT 1 cut(s) 1405
Zsp2I ATGCAT 2 cut(s) 661, 1539
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.