Rh2BG211200

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0013082
Physical Location & Seq
Forward (+)
19829828 .. 19832599
2772 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG211200.1

Sequence Viewer

Length: 1074 bp
ATGACGGAGACTAACGACGACGATGACAACAACTTACTCCACTCAACGGATACCTACTTCAGCCAAGTGGTCGCCGTCAACAGAGACTACGCGTCCGTAGTGTTTAGGTCTTGCATGCCGTTACTTCCCGAAGCCGAAACGGTGGCGTTTCTCGTGAGCAGGTGCATTGAGGCGTTGGCTCTATCGGATGACGGCGACAGCCATGTGGATTGGCTACATGAAGTTATAACGGTGTGTCCCGAGGACTTTCAGATAGTCGCCGAGGTCATTCAGCGTCGTTACGGAAGCCACGACGTCGTTTATAAGCTTGTTGATCTTTATATCATGAGATATAATGGCAAAATTACAGAGGAGCAGAAAGCACAGATATGCAGTTCCATAGACTGCAGCAAGCTCTCACCACAAGTCCTTCTAGAAGCGGTGCAAAACCCGATAATGCCGTTACGTTTCGTTGTCCGAGCCATGCTCATCGAGCAGCTCAACACTCGCCGCACCATTCTCACTGCAGCTACTGATCATCACCACTCCCAACTTCCTCTCCTCCAGCATCATTATGACGTCAGCAAATCCGACCCTGCCCCAGTCACTACATTAGGTTCCATCCTCCAACGTGACAATGTGCTCCGCCAATCGGCGCAGCTGAAGGCCACCATGGCCGCGACGAGCTCGAGAATCAAAACCCTAGAAGAAGAGCTGAATGGGATGAAGAAGTTGCTGGAAGAGTGTCATAATGAGAAGAATGATAGGAGTATAATGGCGGGGGCTGGTGGTGACCGCAAGTCTGCCAGCTTTCATTATGGGAGTAGTGATGAAAATAATCACAGTAAGTTGATAACAAAGTCTGCTTCTTCGTCTAGTTTTCGGCTTATTAATTTTAGACGCAAGGAGAAAACGGAGGGGACTAATTGGTCATCTTGTAATGGAACGCCGGGGTTGACGAAGAGTATTAGTCAGAGGCTGATTAGTGGATTGAAGAAAGCATTTCGGGTTTCAGGATCAAAGGATGTCTCGCAGGAAAAAATCGTGAGCTATGGCGATGGTGCCAATAATAAGGATATCATTGTGATTGAATAG
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

357

Amino Acids

39.83

Weight (kDa)

6.19

Isoelectric Point (pI)

50.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NPH3 PF03000 80 - 135 1.1e-06 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: OG0013082)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G49900 AT3G49900
fragaria_vesca FvH4_1g17650 FvH4_1g17650
malus_domestica MD02G1185300.v1.1
prunus_persica Prupe.6G221500_v2.0.a1
pyrus_communis pycom02g15020
rosa_chinensis RchiOBHm_Chr2g0107971
rosa_laevigata RLG00000017630
rosa_multiflora Rmu_co8394919.1_g000001 Rmu_sc0001484.1_g000029
rosa_roxburghii Rroxscaffold_2G00135770
rosa_rugosa Rorug02G0149100
rosa_samantha Rh2AG198400 Rh2BG211200 Rh2CG203000 Rh2DG206000
rosa_wichuraiana Rw2G015740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 227, 303
AarI CACCTGC 1 cut(s) 150
AasI GACNNNNNNGTC 1 cut(s) 907
AatII GACGTC 2 cut(s) 297, 561
Acc36I ACCTGC 1 cut(s) 150
AccB1I GGYRCC 1 cut(s) 1040
AccII CGCG 2 cut(s) 92, 659
AciI CCGC 6 cut(s) 419, 490, 625, 657, 758, 775
AclWI GGATC 1 cut(s) 1003
AcoI YGGCCR 1 cut(s) 654
AcuI CTGAAG 2 cut(s) 43, 662
AcyI GRCGYC 2 cut(s) 294, 558
AfiI CCNNNNNNNGG 2 cut(s) 46, 631
AflIII ACRYGT 1 cut(s) 90
AgsI TTSAA 2 cut(s) 973, 1070
AhdI GACNNNNNGTC 2 cut(s) 91, 778
AluBI AGCT 9 cut(s) 307, 394, 478, 509, 640, 666, 694, 789, 1029
AluI AGCT 9 cut(s) 307, 394, 478, 509, 640, 666, 694, 789, 1029
Alw21I GWGCWC 2 cut(s) 624, 668
Alw26I GTCTC 3 cut(s) 2, 78, 1012
AlwI GGATC 1 cut(s) 1003
AlwNI CAGNNNCTG 2 cut(s) 512, 958
Ama87I CYCGRG 2 cut(s) 239, 667
AoxI GGCC 2 cut(s) 645, 654
ApeKI GCWGC 4 cut(s) 387, 475, 506, 637
AseI ATTAAT 1 cut(s) 870
AspLEI GCGC 1 cut(s) 637
AsuC2I CCSGG 1 cut(s) 930
AsuHPI GGTGA 3 cut(s) 390, 512, 782
AvaI CYCGRG 2 cut(s) 239, 667
BanI GGYRCC 1 cut(s) 1040
BanII GRGCYC 1 cut(s) 668
BauI CACGAG 1 cut(s) 152
Bbv12I GWGCWC 2 cut(s) 624, 668
BbvI GCAGC 4 cut(s) 399, 487, 518, 649
BccI CCATC 2 cut(s) 608, 1031
BceAI ACGGC 4 cut(s) 59, 103, 208, 424
BciVI GTATCC 1 cut(s) 43
BclI TGATCA 1 cut(s) 514
BcnI CCSGG 1 cut(s) 930
BcoDI GTCTC 3 cut(s) 2, 78, 1012
BfaI CTAG 3 cut(s) 413, 683, 855
BfmI CTRYAG 2 cut(s) 385, 504
BfuAI ACCTGC 1 cut(s) 150
BfuI GTATCC 1 cut(s) 43
BglI GCCNNNNNGGC 1 cut(s) 653
BisI GCNGC 6 cut(s) 388, 476, 490, 507, 638, 657
BlsI GCNGC 6 cut(s) 389, 477, 491, 508, 639, 658
Bme1390I CCNGG 1 cut(s) 930
BmeRI GACNNNNNGTC 2 cut(s) 91, 778
BmeT110I CYCGRG 2 cut(s) 239, 667
BmiI GGNNCC 2 cut(s) 598, 1042
BmrFI CCNGG 1 cut(s) 930
BmrI ACTGGG 1 cut(s) 575
BmsI GCATC 1 cut(s) 556
BmuI ACTGGG 1 cut(s) 575
BplI GAGNNNNNCTC 2 cut(s) 450, 482
BpmI CTGGAG 1 cut(s) 527
BpuMI CCSGG 1 cut(s) 930
BsaHI GRCGYC 2 cut(s) 294, 558
BsaJI CCNNGG 4 cut(s) 240, 261, 651, 929
BsaXI ACNNNNNCTCC 2 cut(s) 522, 552
Bsc4I CCNNNNNNNGG 2 cut(s) 46, 631
Bse1I ACTGG 1 cut(s) 581
BseDI CCNNGG 4 cut(s) 240, 261, 651, 929
BseGI GGATG 4 cut(s) 193, 600, 708, 1009
BseLI CCNNNNNNNGG 2 cut(s) 46, 631
BseNI ACTGG 1 cut(s) 581
BseRI GAGGAG 2 cut(s) 365, 530
BseXI GCAGC 4 cut(s) 399, 487, 518, 649
Bsh1236I CGCG 2 cut(s) 92, 659
BshFI GGCC 2 cut(s) 647, 656
BshNI GGYRCC 1 cut(s) 1040
BsiHKAI GWGCWC 2 cut(s) 624, 668
BsiHKCI CYCGRG 2 cut(s) 239, 667
BsiSI CCGG 1 cut(s) 929
BslFI GGGAC 2 cut(s) 222, 913
BslI CCNNNNNNNGG 2 cut(s) 46, 631
BsmAI GTCTC 3 cut(s) 2, 78, 1012
BsmFI GGGAC 2 cut(s) 222, 913
BsnI GGCC 2 cut(s) 647, 656
BsoBI CYCGRG 2 cut(s) 239, 667
Bsp1286I GDGCHC 2 cut(s) 624, 668
Bsp143I GATC 3 cut(s) 313, 514, 995
Bsp19I CCATGG 1 cut(s) 651
BspACI CCGC 6 cut(s) 419, 490, 625, 657, 758, 775
BspANI GGCC 2 cut(s) 647, 656
BspFNI CGCG 2 cut(s) 92, 659
BspHI TCATGA 1 cut(s) 324
BspLI GGNNCC 2 cut(s) 598, 1042
BspMAI CTGCAG 2 cut(s) 389, 508
BspMI ACCTGC 1 cut(s) 150
BspPI GGATC 1 cut(s) 1003
BspQI GCTCTTC 1 cut(s) 684
BspT107I GGYRCC 1 cut(s) 1040
BsrI ACTGG 1 cut(s) 581
BssECI CCNNGG 4 cut(s) 240, 261, 651, 929
BssMI GATC 3 cut(s) 313, 514, 995
BssNI GRCGYC 2 cut(s) 294, 558
BssSI CACGAG 1 cut(s) 152
BssT1I CCWWGG 1 cut(s) 651
Bst2BI CACGAG 1 cut(s) 152
Bst4CI ACNGT 3 cut(s) 142, 232, 824
Bst6I CTCTTC 3 cut(s) 684, 714, 935
BstACI GRCGYC 2 cut(s) 294, 558
BstC8I GCNNGC 3 cut(s) 116, 392, 787
BstDSI CCRYGG 1 cut(s) 651
BstEII GGTNACC 1 cut(s) 770
BstF5I GGATG 4 cut(s) 193, 600, 708, 1009
BstFNI CGCG 2 cut(s) 92, 659
BstHHI GCGC 1 cut(s) 637
BstKTI GATC 3 cut(s) 316, 517, 998
BstMAI GTCTC 3 cut(s) 2, 78, 1012
BstMBI GATC 3 cut(s) 313, 514, 995
BstMWI GCNNNNNNNGC 2 cut(s) 472, 653
BstNSI RCATGY 1 cut(s) 118
BstPI GGTNACC 1 cut(s) 770
BstSCI CCNGG 1 cut(s) 928
BstSFI CTRYAG 2 cut(s) 385, 504
BstUI CGCG 2 cut(s) 92, 659
BstV1I GCAGC 4 cut(s) 399, 487, 518, 649
BsuI GTATCC 1 cut(s) 43
BsuRI GGCC 2 cut(s) 647, 656
BtgI CCRYGG 1 cut(s) 651
BtgZI GCGATG 1 cut(s) 1050
BtsCI GGATG 4 cut(s) 193, 600, 708, 1009
BtsI GCAGTG 1 cut(s) 501
BtsIMutI CAGTG 1 cut(s) 501
BveI ACCTGC 1 cut(s) 150
Cac8I GCNNGC 3 cut(s) 116, 392, 787
CaiI CAGNNNCTG 2 cut(s) 512, 958
CciI TCATGA 1 cut(s) 324
CfoI GCGC 1 cut(s) 637
CseI GACGC 3 cut(s) 81, 263, 888
CviAII CATG 6 cut(s) 115, 203, 218, 325, 463, 652
DpnI GATC 3 cut(s) 315, 516, 997
DpnII GATC 3 cut(s) 313, 514, 995
DrdI GACNNNNNNGTC 1 cut(s) 907
DriI GACNNNNNGTC 2 cut(s) 91, 778
DseDI GACNNNNNNGTC 1 cut(s) 907
EaeI YGGCCR 1 cut(s) 654
Eam1104I CTCTTC 3 cut(s) 684, 714, 935
Eam1105I GACNNNNNGTC 2 cut(s) 91, 778
EarI CTCTTC 3 cut(s) 684, 714, 935
EciI GGCGGA 1 cut(s) 614
Ecl136II GAGCTC 1 cut(s) 666
Eco130I CCWWGG 1 cut(s) 651
Eco24I GRGCYC 1 cut(s) 668
Eco32I GATATC 1 cut(s) 1057
Eco53kI GAGCTC 1 cut(s) 666
Eco57I CTGAAG 2 cut(s) 43, 662
Eco88I CYCGRG 2 cut(s) 239, 667
Eco91I GGTNACC 1 cut(s) 770
EcoICRI GAGCTC 1 cut(s) 666
EcoO65I GGTNACC 1 cut(s) 770
EcoRV GATATC 1 cut(s) 1057
EcoT14I CCWWGG 1 cut(s) 651
EcoT38I GRGCYC 1 cut(s) 668
ErhI CCWWGG 1 cut(s) 651
FaeI CATG 6 cut(s) 118, 206, 221, 328, 466, 655
FaqI GGGAC 2 cut(s) 222, 913
FatI CATG 6 cut(s) 114, 202, 217, 324, 462, 651
FauI CCCGC 1 cut(s) 751
FbaI TGATCA 1 cut(s) 514
Fnu4HI GCNGC 6 cut(s) 388, 476, 490, 507, 638, 657
FokI GGATG 4 cut(s) 200, 587, 715, 1016
FriOI GRGCYC 1 cut(s) 668
Fsp4HI GCNGC 6 cut(s) 388, 476, 490, 507, 638, 657
FspBI CTAG 3 cut(s) 413, 683, 855
GlaI GCGC 1 cut(s) 636
GluI GCNGC 6 cut(s) 388, 476, 490, 507, 638, 657
GsuI CTGGAG 1 cut(s) 527
HaeIII GGCC 2 cut(s) 647, 656
HapII CCGG 1 cut(s) 929
HgaI GACGC 3 cut(s) 81, 263, 888
HhaI GCGC 1 cut(s) 637
Hin1I GRCGYC 2 cut(s) 294, 558
Hin1II CATG 6 cut(s) 118, 206, 221, 328, 466, 655
Hin6I GCGC 1 cut(s) 635
HinP1I GCGC 1 cut(s) 635
HincII GTYRAC 2 cut(s) 79, 936
HindII GTYRAC 2 cut(s) 79, 936
HindIII AAGCTT 1 cut(s) 305
HinfI GANTC 1 cut(s) 672
HpaII CCGG 1 cut(s) 929
HphI GGTGA 3 cut(s) 390, 512, 782
Hpy166II GTNNAC 2 cut(s) 79, 936
Hpy188I TCNGA 5 cut(s) 187, 252, 458, 571, 954
Hpy188III TCNNGA 8 cut(s) 128, 154, 239, 325, 413, 669, 993, 1024
Hpy8I GTNNAC 2 cut(s) 79, 936
Hpy99I CGWCG 6 cut(s) 20, 23, 279, 296, 299, 664
HpyAV CCTTC 2 cut(s) 419, 637
HpyCH4III ACNGT 3 cut(s) 142, 232, 824
HpyCH4IV ACGT 4 cut(s) 294, 445, 558, 610
HpyCH4V TGCA 6 cut(s) 114, 165, 372, 387, 424, 506
HpyF10VI GCNNNNNNNGC 2 cut(s) 472, 653
HpySE526I ACGT 4 cut(s) 294, 445, 558, 610
Hsp92I GRCGYC 2 cut(s) 294, 558
Hsp92II CATG 6 cut(s) 118, 206, 221, 328, 466, 655
HspAI GCGC 1 cut(s) 635
Ksp22I TGATCA 1 cut(s) 514
Kzo9I GATC 3 cut(s) 313, 514, 995
LguI GCTCTTC 1 cut(s) 684
LmnI GCTCC 2 cut(s) 352, 627
Lsp1109I GCAGC 4 cut(s) 399, 487, 518, 649
LweI GCATC 1 cut(s) 556
MaeI CTAG 3 cut(s) 413, 683, 855
MaeII ACGT 4 cut(s) 294, 445, 558, 610
MaeIII GTNAC 6 cut(s) 120, 278, 441, 583, 611, 770
MalI GATC 3 cut(s) 315, 516, 997
MboI GATC 3 cut(s) 313, 514, 995
MboII GAAGA 8 cut(s) 698, 701, 718, 731, 748, 840, 952, 985
MhlI GDGCHC 2 cut(s) 624, 668
MluCI AATT 3 cut(s) 342, 871, 904
MluI ACGCGT 1 cut(s) 90
MmeI TCCRAC 2 cut(s) 594, 631
MnlI CCTC 9 cut(s) 163, 235, 256, 343, 546, 551, 614, 889, 948
MseI TTAA 1 cut(s) 870
MslI CAYNNNNRTG 2 cut(s) 367, 552
MspA1I CMGCKG 1 cut(s) 640
MspI CCGG 1 cut(s) 929
MspR9I CCNGG 1 cut(s) 930
MvnI CGCG 2 cut(s) 92, 659
MwoI GCNNNNNNNGC 2 cut(s) 472, 653
NciI CCSGG 1 cut(s) 930
NcoI CCATGG 1 cut(s) 651
NdeII GATC 3 cut(s) 313, 514, 995
NlaIII CATG 6 cut(s) 118, 206, 221, 328, 466, 655
NlaIV GGNNCC 2 cut(s) 598, 1042
NmeAIII GCCGAG 1 cut(s) 286
NmuCI GTSAC 3 cut(s) 583, 611, 770
NspI RCATGY 1 cut(s) 118
PaeI GCATGC 1 cut(s) 118
PaeR7I CTCGAG 1 cut(s) 667
PagI TCATGA 1 cut(s) 324
PaqCI CACCTGC 1 cut(s) 150
PciSI GCTCTTC 1 cut(s) 684
PcsI WCGNNNNNNNCGW 1 cut(s) 288
PfeI GAWTC 1 cut(s) 672
PkrI GCNGC 6 cut(s) 389, 477, 491, 508, 639, 658
PshBI ATTAAT 1 cut(s) 870
PsiI TTATAA 2 cut(s) 227, 303
Psp124BI GAGCTC 1 cut(s) 668
PspEI GGTNACC 1 cut(s) 770
PspN4I GGNNCC 2 cut(s) 598, 1042
PstI CTGCAG 2 cut(s) 389, 508
PstNI CAGNNNCTG 2 cut(s) 512, 958
PvuII CAGCTG 1 cut(s) 640
RseI CAYNNNNRTG 2 cut(s) 367, 552
SacI GAGCTC 1 cut(s) 668
SapI GCTCTTC 1 cut(s) 684
SaqAI TTAA 1 cut(s) 870
SatI GCNGC 6 cut(s) 388, 476, 490, 507, 638, 657
Sau3AI GATC 3 cut(s) 313, 514, 995
ScrFI CCNGG 1 cut(s) 930
SduI GDGCHC 2 cut(s) 624, 668
SfaNI GCATC 1 cut(s) 556
SfcI CTRYAG 2 cut(s) 385, 504
SfiI GGCCNNNNNGGCC 1 cut(s) 653
Sfr274I CTCGAG 1 cut(s) 667
SlaI CTCGAG 1 cut(s) 667
SmiMI CAYNNNNRTG 2 cut(s) 367, 552
SmlI CTYRAG 1 cut(s) 667
SmoI CTYRAG 1 cut(s) 667
SphI GCATGC 1 cut(s) 118
Sse9I AATT 3 cut(s) 342, 871, 904
SsiI CCGC 6 cut(s) 419, 490, 625, 657, 758, 775
SspMI CTAG 3 cut(s) 413, 683, 855
SstI GAGCTC 1 cut(s) 668
StyD4I CCNGG 1 cut(s) 928
StyI CCWWGG 1 cut(s) 651
TaaI ACNGT 3 cut(s) 142, 232, 824
TaiI ACGT 4 cut(s) 297, 448, 561, 613
TaqI TCGA 2 cut(s) 471, 668
TasI AATT 3 cut(s) 342, 871, 904
TauI GCSGC 2 cut(s) 492, 659
TfiI GAWTC 1 cut(s) 672
Tru1I TTAA 1 cut(s) 870
Tru9I TTAA 1 cut(s) 870
TscAI CASTG 1 cut(s) 508
TseFI GTSAC 3 cut(s) 583, 611, 770
TseI GCWGC 4 cut(s) 387, 475, 506, 637
Tsp45I GTSAC 3 cut(s) 583, 611, 770
TspDTI ATGAA 4 cut(s) 234, 719, 782, 825
TspGWI ACGGA 5 cut(s) 20, 62, 85, 297, 908
TspRI CASTG 1 cut(s) 508
VspI ATTAAT 1 cut(s) 870
XbaI TCTAGA 1 cut(s) 412
XceI RCATGY 1 cut(s) 118
XhoI CTCGAG 1 cut(s) 667
XspI CTAG 3 cut(s) 413, 683, 855
ZraI GACGTC 2 cut(s) 295, 559
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.