Rroxscaffold_3G00273770

nuclease activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000697
Physical Location & Seq
Forward (+)
65448939 .. 65452372
3434 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00273770.1

Sequence Viewer

Length: 633 bp
ATGTCCGAAATGGACATGTATGGAGCTGATGAAGAGGAAGAACAGTTTTACGAGGCTGTTAAGATATTATTAATGGCAATACAAGCAGTGGTTTATTTGTTATACGACCTTGTATTCAGCATACGTGGTGAACGTATTAGACGTCCACCGACTCGGCGACCGGTGACATCAAGTGGATACATATATATGCACAAAATATTAGACAGAGACCCTCAAATCTTTAGAGAGATACAAGACACATTTGTGTTGAAGAAATGCTCGCAACCTTTCTACTTGTTGTCGGCCAAAACAATCGATACGGTGAAGCTCGGCTGGCTGATATTTGAGCGATCTCATTTCACCGTTAGCAAAAGTTTCAACAAAGTCTTGAAGGCCTTGAATACAATAGCACCGGAGTTTATGGCTAAACCCGAGTCCGTGCCACCTAACATAAGAGAAAGTACAAGGTTTTATCCTTACTTTAAGATGATGGATCAAGCTGAACAAGTTTGTCCTTCTCTTTGTATTGGCTGGAGATTTTTCCCTTTCAACTTGCATGTTCCAAATGGGACATGTCAAAATCATATTGGTGGGAGCTTCAAAGAAATGAATGACTTCATGAGTCAATCCACCAAACCCTTAATTGAAGATTAA
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
DDE_Tnp_4

Protein Analysis

210

Amino Acids

24.54

Weight (kDa)

6.91

Isoelectric Point (pI)

68.55

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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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Orthologous Genes (Group: OG0000697)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G35695
fragaria_vesca FvH4_4g17331 FvH4_6g20420 FvH4_6g24701 FvH4_6g52063
malus_domestica MD12G1024500.v1.1
prunus_persica Prupe.2G004900_v2.0.a1
pyrus_communis pycom10g09210 pycom111g03680 pycom12g13430 pycom16g19230
rosa_chinensis RchiOBHm_Chr5g0050651 RchiOBHm_Chr5g0054101 RchiOBHm_Chr6g0281391
rosa_multiflora Rmu_sc0000029.1_g000014 Rmu_sc0000147.1_g000039 Rmu_sc0000548.1_g000007 Rmu_sc0000913.1_g000001 Rmu_sc0000932.1_g000010 Rmu_sc0001304.1_g000041 Rmu_sc0001969.1_g000002 Rmu_sc0002357.1_g000042 Rmu_sc0002848.1_g000001 Rmu_sc0003113.1_g000003 Rmu_sc0003553.1_g000010 Rmu_sc0003642.1_g000003 Rmu_sc0004160.1_g000001 Rmu_sc0004511.1_g000001 Rmu_sc0004816.1_g000009 Rmu_sc0005500.1_g000008 Rmu_sc0005782.1_g000004 Rmu_sc0006833.1_g000005 Rmu_sc0007173.1_g000003 Rmu_sc0009973.1_g000001 Rmu_sc0016181.1_g000003 Rmu_sc0017974.1_g000001 Rmu_ssc0000255.1_g000020 Rmu_ssc0000263.1_g000011 Rmu_ssc0000366.1_g000012
rosa_roxburghii Rroxscaffold_1G00010110 Rroxscaffold_1G00023070 Rroxscaffold_1G00042980 Rroxscaffold_3G00273770 Rroxscaffold_4G00318480 Rroxscaffold_4G00323200 Rroxscaffold_5G00335150 Rroxscaffold_5G00340530 Rroxscaffold_5G00349500 Rroxscaffold_6G00401310 Rroxscaffold_6G00405610 Rroxscaffold_6G00409810 Rroxscaffold_7G00190250
rosa_rugosa Rorug04G0114300 Rorug05G0441600 Rorug07G0169600
rosa_wichuraiana Rw0G006340 Rw0G016280 Rw0G021420 Rw1G001890 Rw1G009310 Rw1G011130 Rw1G012600 Rw1G017460 Rw2G022560 Rw3G020960 Rw4G006850 Rw4G009950 Rw4G032810 Rw6G003640 Rw6G018030 Rw6G032240 Rw7G024530 Rw7G036060 Rw7G036830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 145
AclWI GGATC 1 cut(s) 480
AcoI YGGCCR 1 cut(s) 282
AcyI GRCGYC 1 cut(s) 142
AfaI GTAC 1 cut(s) 442
AflIII ACRYGT 2 cut(s) 15, 551
AgeI ACCGGT 1 cut(s) 160
AgsI TTSAA 7 cut(s) 250, 358, 370, 379, 529, 580, 626
AleI CACNNNNGTG 1 cut(s) 242
AluBI AGCT 4 cut(s) 26, 307, 479, 576
AluI AGCT 4 cut(s) 26, 307, 479, 576
Alw26I GTCTC 1 cut(s) 201
AlwI GGATC 1 cut(s) 480
Ama87I CYCGRG 1 cut(s) 410
AoxI GGCC 2 cut(s) 282, 372
AseI ATTAAT 1 cut(s) 71
AsiGI ACCGGT 1 cut(s) 160
Asp700I GAANNNNTTC 1 cut(s) 593
AsuHPI GGTGA 4 cut(s) 140, 175, 313, 331
AvaI CYCGRG 1 cut(s) 410
BccI CCATC 1 cut(s) 463
BciVI GTATCC 1 cut(s) 170
BcoDI GTCTC 1 cut(s) 201
BfuI GTATCC 1 cut(s) 170
BmeT110I CYCGRG 1 cut(s) 410
BpmI CTGGAG 1 cut(s) 532
Bsa29I ATCGAT 1 cut(s) 294
BsaAI YACGTR 1 cut(s) 125
BsaHI GRCGYC 1 cut(s) 142
BsaI GGTCTC 1 cut(s) 201
BsaWI WCCGGW 2 cut(s) 160, 391
Bse118I RCCGGY 1 cut(s) 160
BseCI ATCGAT 1 cut(s) 294
Bsh1285I CGRYCG 1 cut(s) 161
BshFI GGCC 2 cut(s) 284, 374
BshTI ACCGGT 1 cut(s) 160
BshVI ATCGAT 1 cut(s) 294
BsiEI CGRYCG 1 cut(s) 161
BsiHKCI CYCGRG 1 cut(s) 410
BsiSI CCGG 2 cut(s) 161, 392
BslFI GGGAC 1 cut(s) 562
BsmAI GTCTC 1 cut(s) 201
BsmFI GGGAC 1 cut(s) 562
BsnI GGCC 2 cut(s) 284, 374
Bso31I GGTCTC 1 cut(s) 201
BsoBI CYCGRG 1 cut(s) 410
Bsp143I GATC 2 cut(s) 329, 472
BspANI GGCC 2 cut(s) 284, 374
BspDI ATCGAT 1 cut(s) 294
BspHI TCATGA 1 cut(s) 597
BspPI GGATC 1 cut(s) 480
BspTNI GGTCTC 1 cut(s) 201
BsrFI RCCGGY 1 cut(s) 160
BssAI RCCGGY 1 cut(s) 160
BssMI GATC 2 cut(s) 329, 472
BssNI GRCGYC 1 cut(s) 142
Bst4CI ACNGT 3 cut(s) 45, 301, 343
Bst6I CTCTTC 1 cut(s) 27
BstACI GRCGYC 1 cut(s) 142
BstBAI YACGTR 1 cut(s) 125
BstC8I GCNNGC 2 cut(s) 260, 314
BstKTI GATC 2 cut(s) 332, 475
BstMAI GTCTC 1 cut(s) 201
BstMBI GATC 2 cut(s) 329, 472
BstMCI CGRYCG 1 cut(s) 161
BstMWI GCNNNNNNNGC 2 cut(s) 83, 313
BstNSI RCATGY 3 cut(s) 19, 539, 555
Bsu15I ATCGAT 1 cut(s) 294
BsuI GTATCC 1 cut(s) 170
BsuRI GGCC 2 cut(s) 284, 374
BsuTUI ATCGAT 1 cut(s) 294
BtsI GCAGTG 1 cut(s) 93
BtsIMutI CAGTG 1 cut(s) 93
Cac8I GCNNGC 2 cut(s) 260, 314
CciI TCATGA 1 cut(s) 597
Cfr10I RCCGGY 1 cut(s) 160
ClaI ATCGAT 1 cut(s) 294
Csp6I GTAC 1 cut(s) 441
CspAI ACCGGT 1 cut(s) 160
CviAII CATG 4 cut(s) 16, 536, 552, 598
CviQI GTAC 1 cut(s) 441
DpnI GATC 2 cut(s) 331, 474
DpnII GATC 2 cut(s) 329, 472
EaeI YGGCCR 1 cut(s) 282
Eam1104I CTCTTC 1 cut(s) 27
EarI CTCTTC 1 cut(s) 27
Eco147I AGGCCT 1 cut(s) 374
Eco31I GGTCTC 1 cut(s) 201
Eco88I CYCGRG 1 cut(s) 410
FaeI CATG 4 cut(s) 19, 539, 555, 601
FaqI GGGAC 1 cut(s) 562
FatI CATG 4 cut(s) 15, 535, 551, 597
GsuI CTGGAG 1 cut(s) 532
HaeIII GGCC 2 cut(s) 284, 374
HapII CCGG 2 cut(s) 161, 392
Hin1I GRCGYC 1 cut(s) 142
Hin1II CATG 4 cut(s) 19, 539, 555, 601
HinfI GANTC 3 cut(s) 151, 413, 601
HpaII CCGG 2 cut(s) 161, 392
HphI GGTGA 4 cut(s) 140, 175, 313, 331
Hpy166II GTNNAC 2 cut(s) 131, 146
Hpy188I TCNGA 1 cut(s) 7
Hpy188III TCNNGA 2 cut(s) 367, 598
Hpy8I GTNNAC 2 cut(s) 131, 146
HpyAV CCTTC 2 cut(s) 364, 504
HpyCH4III ACNGT 3 cut(s) 45, 301, 343
HpyCH4IV ACGT 3 cut(s) 124, 133, 142
HpyCH4V TGCA 2 cut(s) 190, 535
HpyF10VI GCNNNNNNNGC 2 cut(s) 83, 313
HpySE526I ACGT 3 cut(s) 124, 133, 142
Hsp92I GRCGYC 1 cut(s) 142
Hsp92II CATG 4 cut(s) 19, 539, 555, 601
Kzo9I GATC 2 cut(s) 329, 472
LmnI GCTCC 2 cut(s) 23, 573
LpnPI CCDG 4 cut(s) 174, 298, 405, 496
MaeII ACGT 3 cut(s) 124, 133, 142
MaeIII GTNAC 1 cut(s) 163
MalI GATC 2 cut(s) 331, 474
MboI GATC 2 cut(s) 329, 472
MboII GAAGA 3 cut(s) 44, 50, 262
MluCI AATT 1 cut(s) 621
MlyI GAGTC 3 cut(s) 145, 422, 610
MnlI CCTC 3 cut(s) 28, 46, 222
MroXI GAANNNNTTC 1 cut(s) 593
MseI TTAA 5 cut(s) 60, 71, 462, 620, 631
MslI CAYNNNNRTG 3 cut(s) 185, 242, 567
MspI CCGG 2 cut(s) 161, 392
MwoI GCNNNNNNNGC 2 cut(s) 83, 313
NdeII GATC 2 cut(s) 329, 472
NlaIII CATG 4 cut(s) 19, 539, 555, 601
NmeAIII GCCGAG 2 cut(s) 133, 288
NmuCI GTSAC 1 cut(s) 163
NspI RCATGY 3 cut(s) 19, 539, 555
OliI CACNNNNGTG 1 cut(s) 242
PagI TCATGA 1 cut(s) 597
PceI AGGCCT 1 cut(s) 374
PciI ACATGT 2 cut(s) 15, 551
PcsI WCGNNNNNNNCGW 2 cut(s) 130, 139
PdmI GAANNNNTTC 1 cut(s) 593
PinAI ACCGGT 1 cut(s) 160
PleI GAGTC 3 cut(s) 145, 421, 609
PpsI GAGTC 3 cut(s) 145, 421, 609
Ppu21I YACGTR 1 cut(s) 125
PscI ACATGT 2 cut(s) 15, 551
PshBI ATTAAT 1 cut(s) 71
RsaI GTAC 1 cut(s) 442
RsaNI GTAC 1 cut(s) 441
RseI CAYNNNNRTG 3 cut(s) 185, 242, 567
SaqAI TTAA 5 cut(s) 60, 71, 462, 620, 631
Sau3AI GATC 2 cut(s) 329, 472
SchI GAGTC 3 cut(s) 145, 422, 610
SmiMI CAYNNNNRTG 3 cut(s) 185, 242, 567
Sse9I AATT 1 cut(s) 621
SseBI AGGCCT 1 cut(s) 374
SspI AATATT 1 cut(s) 198
StuI AGGCCT 1 cut(s) 374
TaaI ACNGT 3 cut(s) 45, 301, 343
TaiI ACGT 3 cut(s) 127, 136, 145
TaqI TCGA 1 cut(s) 294
TasI AATT 1 cut(s) 621
TatI WGTACW 1 cut(s) 440
Tru1I TTAA 5 cut(s) 60, 71, 462, 620, 631
Tru9I TTAA 5 cut(s) 60, 71, 462, 620, 631
TscAI CASTG 1 cut(s) 93
TseFI GTSAC 1 cut(s) 163
Tsp45I GTSAC 1 cut(s) 163
TspDTI ATGAA 3 cut(s) 45, 586, 602
TspGWI ACGGA 1 cut(s) 406
TspRI CASTG 1 cut(s) 93
VspI ATTAAT 1 cut(s) 71
XceI RCATGY 3 cut(s) 19, 539, 555
XmnI GAANNNNTTC 1 cut(s) 593
ZraI GACGTC 1 cut(s) 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.