Rroxscaffold_3G00270680

Ninja-family protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0002373
Physical Location & Seq
Forward (+)
63240639 .. 63243341
2703 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00270680.1

Sequence Viewer

Length: 723 bp
ATGGCGGGCGAAGAGGACCAACACGATCTCGGGCTCTCACTTGGGGGACTTTACCAAGGCAACTCGGGTTGGGCCCGCATGGCACGGGCAGTGTCGGTGGGAGTCGATGTGACTGAGGTGGCGGCGGCGCCGCGTCCCAGGGCGGTTTCTCTGCCGTCGGTTAGTGAGCTGGAGATGATGAGGGCCTCTGAGGTTCAGTTTCTGAGCAGGGAGATGGCTGCAAGCCTGAGTTTGACTATTCAGGAGGAAAAGGCTAAGAAAGCTCCGGCAGCGGCTGTCCGGCTGCCTGAAGTGGCTGCTCTGGGAGTGAATGTGACTGGATCTGGACGCTTGGCTGCAACAAGCAGCACAGTCAGTTCTGAGCTTATGTCTGGAGAAGGGAGCTCCAATCAGCCTGTGGTCACCACTTCAATGATGGCTAACACAAAAAAGGTGAAGGCTGATGACCCTGAACAGGACAGTGCAGCAAAGAGGGCTAGAGTTTATCATCGCAATGTTGTGAGGCCAATTAGGCGTGAAGGGATGGTCAGAATGCCTTCTGTGAAAACCACTGGGGCTGATGGGAAGAAAGTGGAAGGTTACCTGTACAAGTATCTTGAAGGAAAAGTGCGGATTGTGTGTGCTTGCCATGGGACTTTCCAGTCCCCAGCGGAGTTCGTCAAGCATGCCGGTGGCAATGAGGTCGCCAATCCTTTGAAGCAAATCACTGTTTCCTTTTATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04062 ko04144 ko04520 ko04530 ko04666 ko04810 ko05100 ko05130 ko05131 ko05132 ko05231 map04062 map04144 map04520 map04530 map04666 map04810 map05100 map05130 map05131 map05132 map05231
Pfam Domains
Protein Families
EAR Jas NINJA_B

Protein Analysis

240

Amino Acids

25.58

Weight (kDa)

9.2

Isoelectric Point (pI)

43.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TDBD PF16135 204 - 236 2.3e-07 Tify domain binding domain
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)
AasI GACNNNNNNGTC 1 cut(s) 640
AccB1I GGYRCC 1 cut(s) 127
AccII CGCG 1 cut(s) 133
AciI CCGC 9 cut(s) 5, 76, 122, 125, 131, 143, 272, 610, 650
AclWI GGATC 1 cut(s) 328
AcuI CTGAAG 1 cut(s) 309
AcyI GRCGYC 1 cut(s) 128
AfaI GTAC 1 cut(s) 587
AfiI CCNNNNNNNGG 1 cut(s) 454
AgsI TTSAA 3 cut(s) 411, 599, 697
AjnI CCWGG 1 cut(s) 137
AluBI AGCT 4 cut(s) 169, 263, 364, 384
AluI AGCT 4 cut(s) 169, 263, 364, 384
Alw21I GWGCWC 1 cut(s) 386
AlwI GGATC 1 cut(s) 328
AlwNI CAGNNNCTG 2 cut(s) 202, 275
Ama87I CYCGRG 2 cut(s) 29, 64
AoxI GGCC 3 cut(s) 72, 183, 503
ApaI GGGCCC 1 cut(s) 76
ApeKI GCWGC 7 cut(s) 218, 269, 283, 296, 335, 345, 464
Asp700I GAANNNNTTC 1 cut(s) 535
AspLEI GCGC 1 cut(s) 130
AspS9I GGNCC 4 cut(s) 16, 72, 73, 183
AsuHPI GGTGA 2 cut(s) 394, 445
AvaI CYCGRG 2 cut(s) 29, 64
AvaII GGWCC 1 cut(s) 16
BaeGI GKGCMC 1 cut(s) 76
BanI GGYRCC 1 cut(s) 127
BanII GRGCYC 3 cut(s) 36, 76, 386
Bbv12I GWGCWC 1 cut(s) 386
BbvI GCAGC 7 cut(s) 205, 270, 281, 283, 322, 357, 476
BccI CCATC 4 cut(s) 208, 409, 517, 554
BceAI ACGGC 1 cut(s) 139
BcgI CGANNNNNNTGC 2 cut(s) 664, 698
BciT130I CCWGG 1 cut(s) 139
BfaI CTAG 1 cut(s) 477
BfoI RGCGCY 1 cut(s) 131
BglI GCCNNNNNGGC 2 cut(s) 80, 511
Bme1390I CCNGG 1 cut(s) 139
Bme18I GGWCC 1 cut(s) 16
BmeT110I CYCGRG 2 cut(s) 29, 64
BmgT120I GGNCC 4 cut(s) 16, 72, 73, 183
BmiI GGNNCC 2 cut(s) 74, 129
BmrFI CCNGG 1 cut(s) 139
BmrI ACTGGG 1 cut(s) 561
BmuI ACTGGG 1 cut(s) 561
BpmI CTGGAG 2 cut(s) 191, 393
BsaHI GRCGYC 1 cut(s) 128
BsaJI CCNNGG 4 cut(s) 55, 137, 138, 628
BsaXI ACNNNNNCTCC 4 cut(s) 93, 123, 297, 327
Bsc4I CCNNNNNNNGG 1 cut(s) 454
Bse118I RCCGGY 1 cut(s) 668
Bse1I ACTGG 3 cut(s) 322, 556, 640
Bse3DI GCAATG 2 cut(s) 499, 682
BseBI CCWGG 1 cut(s) 139
BseDI CCNNGG 4 cut(s) 55, 137, 138, 628
BseGI GGATG 1 cut(s) 528
BseLI CCNNNNNNNGG 1 cut(s) 454
BseMI GCAATG 2 cut(s) 499, 682
BseMII CTCAG 5 cut(s) 105, 180, 194, 218, 351
BseNI ACTGG 3 cut(s) 322, 556, 640
BseSI GKGCMC 1 cut(s) 76
BseXI GCAGC 7 cut(s) 205, 270, 281, 283, 322, 357, 476
BseYI CCCAGC 1 cut(s) 646
BsgI GTGCAG 1 cut(s) 483
Bsh1236I CGCG 1 cut(s) 133
BshFI GGCC 3 cut(s) 74, 185, 505
BshNI GGYRCC 1 cut(s) 127
BsiHKAI GWGCWC 1 cut(s) 386
BsiHKCI CYCGRG 2 cut(s) 29, 64
BsiSI CCGG 3 cut(s) 266, 280, 669
BslFI GGGAC 4 cut(s) 60, 120, 628, 646
BslI CCNNNNNNNGG 1 cut(s) 454
BsmFI GGGAC 4 cut(s) 60, 120, 628, 646
BsmI GAATGC 1 cut(s) 537
BsnI GGCC 3 cut(s) 74, 185, 505
BsoBI CYCGRG 2 cut(s) 29, 64
Bsp120I GGGCCC 1 cut(s) 72
Bsp1286I GDGCHC 3 cut(s) 36, 76, 386
Bsp1407I TGTACA 1 cut(s) 585
Bsp143I GATC 2 cut(s) 25, 320
Bsp19I CCATGG 1 cut(s) 628
BspACI CCGC 9 cut(s) 5, 76, 122, 125, 131, 143, 272, 610, 650
BspANI GGCC 3 cut(s) 74, 185, 505
BspCNI CTCAG 5 cut(s) 106, 181, 195, 219, 352
BspFNI CGCG 1 cut(s) 133
BspLI GGNNCC 2 cut(s) 74, 129
BspPI GGATC 1 cut(s) 328
BspT107I GGYRCC 1 cut(s) 127
BsrDI GCAATG 2 cut(s) 499, 682
BsrFI RCCGGY 1 cut(s) 668
BsrGI TGTACA 1 cut(s) 585
BsrI ACTGG 3 cut(s) 322, 556, 640
BssAI RCCGGY 1 cut(s) 668
BssECI CCNNGG 4 cut(s) 55, 137, 138, 628
BssMI GATC 2 cut(s) 25, 320
BssNI GRCGYC 1 cut(s) 128
BssT1I CCWWGG 2 cut(s) 55, 628
Bst2UI CCWGG 1 cut(s) 139
Bst4CI ACNGT 3 cut(s) 352, 461, 709
Bst6I CTCTTC 1 cut(s) 6
BstACI GRCGYC 1 cut(s) 128
BstAUI TGTACA 1 cut(s) 585
BstC8I GCNNGC 5 cut(s) 7, 76, 223, 625, 666
BstDEI CTNAG 6 cut(s) 114, 189, 203, 227, 255, 360
BstDSI CCRYGG 1 cut(s) 628
BstEII GGTNACC 2 cut(s) 400, 578
BstF5I GGATG 1 cut(s) 528
BstFNI CGCG 1 cut(s) 133
BstH2I RGCGCY 1 cut(s) 131
BstHHI GCGC 1 cut(s) 130
BstKTI GATC 2 cut(s) 28, 323
BstMBI GATC 2 cut(s) 25, 320
BstMWI GCNNNNNNNGC 5 cut(s) 80, 260, 269, 473, 511
BstNI CCWGG 1 cut(s) 139
BstNSI RCATGY 1 cut(s) 668
BstPI GGTNACC 2 cut(s) 400, 578
BstSCI CCNGG 1 cut(s) 137
BstSLI GKGCMC 1 cut(s) 76
BstUI CGCG 1 cut(s) 133
BstV1I GCAGC 7 cut(s) 205, 270, 281, 283, 322, 357, 476
BstX2I RGATCY 1 cut(s) 320
BstYI RGATCY 1 cut(s) 320
BsuRI GGCC 3 cut(s) 74, 185, 505
BtgI CCRYGG 1 cut(s) 628
BtgZI GCGATG 1 cut(s) 473
BtsCI GGATG 1 cut(s) 528
BtsI GCAGTG 1 cut(s) 96
BtsIMutI CAGTG 4 cut(s) 96, 466, 549, 705
Cac8I GCNNGC 5 cut(s) 7, 76, 223, 625, 666
CaiI CAGNNNCTG 2 cut(s) 202, 275
CfoI GCGC 1 cut(s) 130
Cfr10I RCCGGY 1 cut(s) 668
Cfr13I GGNCC 4 cut(s) 16, 72, 73, 183
CseI GACGC 2 cut(s) 122, 336
Csp6I GTAC 1 cut(s) 586
CviAII CATG 3 cut(s) 79, 629, 665
CviQI GTAC 1 cut(s) 586
DdeI CTNAG 6 cut(s) 114, 189, 203, 227, 255, 360
DinI GGCGCC 1 cut(s) 129
DpnI GATC 2 cut(s) 27, 322
DpnII GATC 2 cut(s) 25, 320
DrdI GACNNNNNNGTC 1 cut(s) 640
DseDI GACNNNNNNGTC 1 cut(s) 640
Eam1104I CTCTTC 1 cut(s) 6
EarI CTCTTC 1 cut(s) 6
Ecl136II GAGCTC 1 cut(s) 384
Eco130I CCWWGG 2 cut(s) 55, 628
Eco24I GRGCYC 3 cut(s) 36, 76, 386
Eco47I GGWCC 1 cut(s) 16
Eco53kI GAGCTC 1 cut(s) 384
Eco57I CTGAAG 1 cut(s) 309
Eco88I CYCGRG 2 cut(s) 29, 64
Eco91I GGTNACC 2 cut(s) 400, 578
EcoICRI GAGCTC 1 cut(s) 384
EcoO109I RGGNCCY 1 cut(s) 183
EcoO65I GGTNACC 2 cut(s) 400, 578
EcoRII CCWGG 1 cut(s) 137
EcoT14I CCWWGG 2 cut(s) 55, 628
EcoT38I GRGCYC 3 cut(s) 36, 76, 386
EgeI GGCGCC 1 cut(s) 129
EheI GGCGCC 1 cut(s) 129
ErhI CCWWGG 2 cut(s) 55, 628
FaeI CATG 3 cut(s) 82, 632, 668
FaiI YATR 4 cut(s) 80, 368, 630, 666
FaqI GGGAC 4 cut(s) 60, 120, 628, 646
FatI CATG 3 cut(s) 78, 628, 664
FauI CCCGC 1 cut(s) 83
FokI GGATG 1 cut(s) 535
FriOI GRGCYC 3 cut(s) 36, 76, 386
FspBI CTAG 1 cut(s) 477
GlaI GCGC 1 cut(s) 129
GsaI CCCAGC 1 cut(s) 650
GsuI CTGGAG 2 cut(s) 191, 393
HaeII RGCGCY 1 cut(s) 131
HaeIII GGCC 3 cut(s) 74, 185, 505
HapII CCGG 3 cut(s) 266, 280, 669
HgaI GACGC 2 cut(s) 122, 336
HhaI GCGC 1 cut(s) 130
Hin1I GRCGYC 1 cut(s) 128
Hin1II CATG 3 cut(s) 82, 632, 668
Hin6I GCGC 1 cut(s) 128
HinP1I GCGC 1 cut(s) 128
HinfI GANTC 1 cut(s) 102
HpaII CCGG 3 cut(s) 266, 280, 669
HphI GGTGA 2 cut(s) 394, 445
Hpy188I TCNGA 4 cut(s) 190, 204, 361, 530
Hpy188III TCNNGA 4 cut(s) 242, 324, 372, 596
Hpy99I CGWCG 1 cut(s) 160
HpyAV CCTTC 6 cut(s) 371, 430, 512, 546, 569, 593
HpyCH4III ACNGT 3 cut(s) 352, 461, 709
HpyCH4V TGCA 3 cut(s) 221, 338, 464
HpyF10VI GCNNNNNNNGC 5 cut(s) 80, 260, 269, 473, 511
HpyF3I CTNAG 6 cut(s) 114, 189, 203, 227, 255, 360
Hsp92I GRCGYC 1 cut(s) 128
Hsp92II CATG 3 cut(s) 82, 632, 668
HspAI GCGC 1 cut(s) 128
KasI GGCGCC 1 cut(s) 127
Kzo9I GATC 2 cut(s) 25, 320
LmnI GCTCC 3 cut(s) 268, 381, 389
Lsp1109I GCAGC 7 cut(s) 205, 270, 281, 283, 322, 357, 476
MaeI CTAG 1 cut(s) 477
MaeIII GTNAC 4 cut(s) 109, 313, 400, 578
MalI GATC 2 cut(s) 27, 322
MboI GATC 2 cut(s) 25, 320
MboII GAAGA 2 cut(s) 23, 577
MflI RGATCY 1 cut(s) 320
MhlI GDGCHC 3 cut(s) 36, 76, 386
MluCI AATT 1 cut(s) 507
Mly113I GGCGCC 1 cut(s) 128
MlyI GAGTC 1 cut(s) 111
MnlI CCTC 9 cut(s) 7, 109, 174, 184, 196, 238, 465, 495, 673
MroXI GAANNNNTTC 1 cut(s) 535
MseI TTAA 1 cut(s) 721
MslI CAYNNNNRTG 3 cut(s) 410, 492, 669
MspA1I CMGCKG 2 cut(s) 272, 650
MspI CCGG 3 cut(s) 266, 280, 669
MspR9I CCNGG 1 cut(s) 139
Mva1269I GAATGC 1 cut(s) 537
MvaI CCWGG 1 cut(s) 139
MvnI CGCG 1 cut(s) 133
MwoI GCNNNNNNNGC 5 cut(s) 80, 260, 269, 473, 511
NarI GGCGCC 1 cut(s) 128
NcoI CCATGG 1 cut(s) 628
NdeII GATC 2 cut(s) 25, 320
NlaIII CATG 3 cut(s) 82, 632, 668
NlaIV GGNNCC 2 cut(s) 74, 129
NmuCI GTSAC 3 cut(s) 109, 313, 400
NspI RCATGY 1 cut(s) 668
PaeI GCATGC 1 cut(s) 668
PasI CCCWGGG 1 cut(s) 138
PctI GAATGC 1 cut(s) 537
PdmI GAANNNNTTC 1 cut(s) 535
PleI GAGTC 1 cut(s) 110
PluTI GGCGCC 1 cut(s) 131
PpsI GAGTC 1 cut(s) 110
Psp124BI GAGCTC 1 cut(s) 386
Psp6I CCWGG 1 cut(s) 137
PspEI GGTNACC 2 cut(s) 400, 578
PspFI CCCAGC 1 cut(s) 646
PspGI CCWGG 1 cut(s) 137
PspN4I GGNNCC 2 cut(s) 74, 129
PspOMI GGGCCC 1 cut(s) 72
PspPI GGNCC 4 cut(s) 16, 72, 73, 183
PstNI CAGNNNCTG 2 cut(s) 202, 275
PsuI RGATCY 1 cut(s) 320
RsaI GTAC 1 cut(s) 587
RsaNI GTAC 1 cut(s) 586
RseI CAYNNNNRTG 3 cut(s) 410, 492, 669
SacI GAGCTC 1 cut(s) 386
SaqAI TTAA 1 cut(s) 721
Sau3AI GATC 2 cut(s) 25, 320
Sau96I GGNCC 4 cut(s) 16, 72, 73, 183
SchI GAGTC 1 cut(s) 111
ScrFI CCNGG 1 cut(s) 139
SduI GDGCHC 3 cut(s) 36, 76, 386
SfoI GGCGCC 1 cut(s) 129
SinI GGWCC 1 cut(s) 16
SmiMI CAYNNNNRTG 3 cut(s) 410, 492, 669
SphI GCATGC 1 cut(s) 668
Sse9I AATT 1 cut(s) 507
SsiI CCGC 9 cut(s) 5, 76, 122, 125, 131, 143, 272, 610, 650
SspDI GGCGCC 1 cut(s) 127
SspMI CTAG 1 cut(s) 477
SstI GAGCTC 1 cut(s) 386
StyD4I CCNGG 1 cut(s) 137
StyI CCWWGG 2 cut(s) 55, 628
TaaI ACNGT 3 cut(s) 352, 461, 709
TaqI TCGA 1 cut(s) 105
TasI AATT 1 cut(s) 507
TatI WGTACW 1 cut(s) 585
TauI GCSGC 4 cut(s) 125, 128, 133, 275
Tru1I TTAA 1 cut(s) 721
Tru9I TTAA 1 cut(s) 721
TscAI CASTG 4 cut(s) 96, 466, 556, 712
TseFI GTSAC 3 cut(s) 109, 313, 400
TseI GCWGC 7 cut(s) 218, 269, 283, 296, 335, 345, 464
Tsp45I GTSAC 3 cut(s) 109, 313, 400
TspRI CASTG 4 cut(s) 96, 466, 556, 712
VpaK11BI GGWCC 1 cut(s) 16
XceI RCATGY 1 cut(s) 668
XcmI CCANNNNNNNNNTGG 2 cut(s) 394, 412
XmnI GAANNNNTTC 1 cut(s) 535
XspI CTAG 1 cut(s) 477
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.