Rroxscaffold_2G00147550

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0015894
Physical Location & Seq
Reverse (-)
85346123 .. 85346494
372 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00147550.1

Sequence Viewer

Length: 372 bp
ATGGATTGGGTTTTGGTTCCCTACACCCGCCAGAATTTGACATGGACACAACACGCCTTCAATGAAAAGATTGGGGACATTCAAGGAGTTGCTAAAGATGCATTTGCTAGGCTCAAAGGGAGGTGGTCTTGTTTACAGAAGAGGACTGAGGTGAAGCTCCAGGACCTGCCTGTGGTGCTTGGGGCTTGCTGTGTTCTCCACAACATTTGCACCATGAGGAACGATGAGCTTGATCCCGAGCTCAAATACGATCTCTTTGATGATGAGATGGTTTCTGAAAATGGTCTGAGGTCTGCTGGTGCAGTTCAAGCTAGGGATCACATTGCTCATAACTTGCTTCACCATGGCCTTGCAGGCACTGGATTTCATTAG
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

123

Amino Acids

13.92

Weight (kDa)

6.13

Isoelectric Point (pI)

50.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 2 - 68 3.8e-15 DDE superfamily endonuclease
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0015894)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G29780
fragaria_vesca FvH4_1g07981
malus_domestica MD15G1211600.v1.1
prunus_persica Prupe.7G205200_v2.0.a1
pyrus_communis pycom02g06720
rosa_chinensis RchiOBHm_Chr2g0094021
rosa_laevigata RLG00000016446
rosa_multiflora Rmu_co8489597.1_g000001 Rmu_ssc0000369.1_g000007
rosa_roxburghii Rroxscaffold_2G00147550
rosa_rugosa Rorug02G0040400
rosa_samantha Rh2AG087800 Rh2BG088000 Rh2CG090300 Rh2DG087000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 174
AciI CCGC 1 cut(s) 28
AclWI GGATC 2 cut(s) 227, 324
AcsI RAATTY 1 cut(s) 34
AfiI CCNNNNNNNGG 1 cut(s) 172
AgsI TTSAA 3 cut(s) 61, 83, 308
AjnI CCWGG 1 cut(s) 159
AluBI AGCT 4 cut(s) 157, 229, 241, 311
AluI AGCT 4 cut(s) 157, 229, 241, 311
Alw21I GWGCWC 1 cut(s) 243
AlwI GGATC 2 cut(s) 227, 324
AlwNI CAGNNNCTG 2 cut(s) 166, 359
Ama87I CYCGRG 1 cut(s) 236
AoxI GGCC 1 cut(s) 346
ApoI RAATTY 1 cut(s) 34
AspS9I GGNCC 1 cut(s) 163
AsuHPI GGTGA 2 cut(s) 163, 332
AvaI CYCGRG 1 cut(s) 236
AvaII GGWCC 1 cut(s) 163
BanII GRGCYC 1 cut(s) 243
Bbv12I GWGCWC 1 cut(s) 243
BccI CCATC 1 cut(s) 262
BciT130I CCWGG 1 cut(s) 161
BfaI CTAG 2 cut(s) 108, 312
BfuAI ACCTGC 1 cut(s) 174
BglI GCCNNNNNGGC 1 cut(s) 354
Bme1390I CCNGG 1 cut(s) 161
Bme18I GGWCC 1 cut(s) 163
BmeT110I CYCGRG 1 cut(s) 236
BmgT120I GGNCC 1 cut(s) 163
BmiI GGNNCC 1 cut(s) 18
BmrFI CCNGG 1 cut(s) 161
BmsI GCATC 1 cut(s) 88
BpmI CTGGAG 1 cut(s) 143
BsaJI CCNNGG 1 cut(s) 343
Bsc4I CCNNNNNNNGG 1 cut(s) 172
Bse1I ACTGG 1 cut(s) 364
Bse3DI GCAATG 1 cut(s) 321
BseBI CCWGG 1 cut(s) 161
BseDI CCNNGG 1 cut(s) 343
BseLI CCNNNNNNNGG 1 cut(s) 172
BseMI GCAATG 1 cut(s) 321
BseMII CTCAG 2 cut(s) 138, 278
BseNI ACTGG 1 cut(s) 364
BsgI GTGCAG 1 cut(s) 321
BshFI GGCC 1 cut(s) 348
BsiHKAI GWGCWC 1 cut(s) 243
BsiHKCI CYCGRG 1 cut(s) 236
BslFI GGGAC 1 cut(s) 89
BslI CCNNNNNNNGG 1 cut(s) 172
BsmFI GGGAC 1 cut(s) 89
BsnI GGCC 1 cut(s) 348
BsoBI CYCGRG 1 cut(s) 236
Bsp1286I GDGCHC 1 cut(s) 243
Bsp143I GATC 3 cut(s) 232, 250, 316
Bsp19I CCATGG 1 cut(s) 343
BspACI CCGC 1 cut(s) 28
BspANI GGCC 1 cut(s) 348
BspCNI CTCAG 2 cut(s) 139, 279
BspLI GGNNCC 1 cut(s) 18
BspMI ACCTGC 1 cut(s) 174
BspPI GGATC 2 cut(s) 227, 324
BsrDI GCAATG 1 cut(s) 321
BsrI ACTGG 1 cut(s) 364
BssECI CCNNGG 1 cut(s) 343
BssMI GATC 3 cut(s) 232, 250, 316
BssT1I CCWWGG 1 cut(s) 343
Bst2UI CCWGG 1 cut(s) 161
Bst6I CTCTTC 1 cut(s) 134
BstC8I GCNNGC 2 cut(s) 187, 355
BstDEI CTNAG 2 cut(s) 147, 287
BstDSI CCRYGG 1 cut(s) 343
BstKTI GATC 3 cut(s) 235, 253, 319
BstMBI GATC 3 cut(s) 232, 250, 316
BstMWI GCNNNNNNNGC 4 cut(s) 98, 175, 308, 354
BstNI CCWGG 1 cut(s) 161
BstSCI CCNGG 1 cut(s) 159
BsuRI GGCC 1 cut(s) 348
BtgI CCRYGG 1 cut(s) 343
BtsIMutI CAGTG 1 cut(s) 357
BveI ACCTGC 1 cut(s) 174
Cac8I GCNNGC 2 cut(s) 187, 355
CaiI CAGNNNCTG 2 cut(s) 166, 359
Cfr13I GGNCC 1 cut(s) 163
CspCI CAANNNNNGTGG 2 cut(s) 188, 223
CviAII CATG 3 cut(s) 42, 214, 344
CviJI RGCY 7 cut(s) 112, 157, 185, 229, 241, 311, 348
CviKI_1 RGCY 7 cut(s) 112, 157, 185, 229, 241, 311, 348
DdeI CTNAG 2 cut(s) 147, 287
DpnI GATC 3 cut(s) 234, 252, 318
DpnII GATC 3 cut(s) 232, 250, 316
Eam1104I CTCTTC 1 cut(s) 134
EarI CTCTTC 1 cut(s) 134
Ecl136II GAGCTC 1 cut(s) 241
Eco130I CCWWGG 1 cut(s) 343
Eco24I GRGCYC 1 cut(s) 243
Eco47I GGWCC 1 cut(s) 163
Eco53kI GAGCTC 1 cut(s) 241
Eco88I CYCGRG 1 cut(s) 236
EcoICRI GAGCTC 1 cut(s) 241
EcoO109I RGGNCCY 1 cut(s) 163
EcoRII CCWGG 1 cut(s) 159
EcoT14I CCWWGG 1 cut(s) 343
EcoT22I ATGCAT 1 cut(s) 103
EcoT38I GRGCYC 1 cut(s) 243
ErhI CCWWGG 1 cut(s) 343
FaeI CATG 3 cut(s) 45, 217, 347
FaiI YATR 4 cut(s) 43, 215, 330, 345
FaqI GGGAC 1 cut(s) 89
FatI CATG 3 cut(s) 41, 213, 343
FauI CCCGC 1 cut(s) 35
FriOI GRGCYC 1 cut(s) 243
FspBI CTAG 2 cut(s) 108, 312
GsuI CTGGAG 1 cut(s) 143
HaeIII GGCC 1 cut(s) 348
Hin1II CATG 3 cut(s) 45, 217, 347
HphI GGTGA 2 cut(s) 163, 332
Hpy166II GTNNAC 1 cut(s) 134
Hpy188I TCNGA 2 cut(s) 277, 288
Hpy188III TCNNGA 1 cut(s) 236
Hpy8I GTNNAC 1 cut(s) 134
HpyAV CCTTC 1 cut(s) 67
HpyCH4V TGCA 4 cut(s) 101, 210, 302, 353
HpyF10VI GCNNNNNNNGC 4 cut(s) 98, 175, 308, 354
HpyF3I CTNAG 2 cut(s) 147, 287
Hsp92II CATG 3 cut(s) 45, 217, 347
Kzo9I GATC 3 cut(s) 232, 250, 316
LmnI GCTCC 1 cut(s) 162
LpnPI CCDG 8 cut(s) 44, 146, 173, 179, 183, 282, 339, 345
LweI GCATC 1 cut(s) 88
MaeI CTAG 2 cut(s) 108, 312
MalI GATC 3 cut(s) 234, 252, 318
MboI GATC 3 cut(s) 232, 250, 316
MboII GAAGA 1 cut(s) 151
MhlI GDGCHC 1 cut(s) 243
MluCI AATT 1 cut(s) 34
MnlI CCTC 5 cut(s) 114, 135, 142, 210, 282
Mph1103I ATGCAT 1 cut(s) 103
MspR9I CCNGG 1 cut(s) 161
MvaI CCWGG 1 cut(s) 161
MwoI GCNNNNNNNGC 4 cut(s) 98, 175, 308, 354
NcoI CCATGG 1 cut(s) 343
NdeII GATC 3 cut(s) 232, 250, 316
NlaIII CATG 3 cut(s) 45, 217, 347
NlaIV GGNNCC 1 cut(s) 18
NsiI ATGCAT 1 cut(s) 103
PfoI TCCNGGA 1 cut(s) 159
PpuMI RGGWCCY 1 cut(s) 163
Psp124BI GAGCTC 1 cut(s) 243
Psp5II RGGWCCY 1 cut(s) 163
Psp6I CCWGG 1 cut(s) 159
PspGI CCWGG 1 cut(s) 159
PspN4I GGNNCC 1 cut(s) 18
PspPI GGNCC 1 cut(s) 163
PspPPI RGGWCCY 1 cut(s) 163
PstNI CAGNNNCTG 2 cut(s) 166, 359
SacI GAGCTC 1 cut(s) 243
Sau3AI GATC 3 cut(s) 232, 250, 316
Sau96I GGNCC 1 cut(s) 163
ScrFI CCNGG 1 cut(s) 161
SduI GDGCHC 1 cut(s) 243
SetI ASST 8 cut(s) 125, 153, 159, 168, 231, 243, 293, 313
SfaNI GCATC 1 cut(s) 88
SinI GGWCC 1 cut(s) 163
Sse9I AATT 1 cut(s) 34
SsiI CCGC 1 cut(s) 28
SspMI CTAG 2 cut(s) 108, 312
SstI GAGCTC 1 cut(s) 243
StyD4I CCNGG 1 cut(s) 159
StyI CCWWGG 1 cut(s) 343
TasI AATT 1 cut(s) 34
TscAI CASTG 1 cut(s) 364
TspDTI ATGAA 2 cut(s) 78, 356
TspRI CASTG 1 cut(s) 364
VpaK11BI GGWCC 1 cut(s) 163
XapI RAATTY 1 cut(s) 34
XspI CTAG 2 cut(s) 108, 312
Zsp2I ATGCAT 1 cut(s) 103
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.