Rroxscaffold_6G00405610

nuclease activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000697
Physical Location & Seq
Reverse (-)
28068696 .. 28073499
4804 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00405610.1

Sequence Viewer

Length: 567 bp
ATGTCTGAAATGGACATGTATGGAGCTGATGAAAAGGAAGAACAGTTTTACGAGGCTGTTAAGATATTATTAATGGCAATACAAACAGTGGTTTATGTGTTATACGACCTTGTATTCAGCATACGTGGTGAACGTATTAGACGTCCACCGACTCGGCGACCAGTGACATCAAGTGGATACATATATATGCACAAAATATTAGACAGAGACCCTCAAATCTTTAGAGAGGTGTATAGAATATATCCTGACGTTTTTCGAAAATTATGTAGCATCCTAAAAGTGAAAACACCTTTGCGAGATACAAGACACATTTGTGTTGAAGAAATGCTCGCAACCTTTCTACTTGTTGTCGACCAAAACAATCGATACGGTGAAGCTCGGCTGATATTTGAGCGATCTCATTTCACTATTAGCAAAAGTTTCAACAAAGTCTTGAAGGCCTTGAATACAATAGCACCGGAGTTTATGGCTAAACCCGAGTCCGTGCCACCTAACATAAGAGAAAGTACAAGGGACTTCCCAATTTTTCCCAAGTCCCTTTTTCAGGACGAGCGTTGTCAGACGTAA
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

188

Amino Acids

22.25

Weight (kDa)

8.94

Isoelectric Point (pI)

51.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 58 - 148 6.6e-22 Domain of unknown function (DUF8040)
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
AccI GTMKAC 1 cut(s) 351
AcyI GRCGYC 1 cut(s) 142
AfaI GTAC 1 cut(s) 508
AfiI CCNNNNNNNGG 1 cut(s) 544
AflIII ACRYGT 1 cut(s) 15
AgsI TTSAA 4 cut(s) 320, 424, 436, 445
AleI CACNNNNGTG 1 cut(s) 312
AluBI AGCT 2 cut(s) 26, 377
AluI AGCT 2 cut(s) 26, 377
Alw26I GTCTC 1 cut(s) 201
Ama87I CYCGRG 1 cut(s) 476
AoxI GGCC 1 cut(s) 438
AseI ATTAAT 1 cut(s) 71
AsuHPI GGTGA 2 cut(s) 140, 383
AsuII TTCGAA 1 cut(s) 256
AvaI CYCGRG 1 cut(s) 476
BciVI GTATCC 1 cut(s) 170
BcoDI GTCTC 1 cut(s) 201
BfuI GTATCC 1 cut(s) 170
BmeT110I CYCGRG 1 cut(s) 476
BmsI GCATC 1 cut(s) 279
Bpu14I TTCGAA 1 cut(s) 256
Bsa29I ATCGAT 1 cut(s) 364
BsaAI YACGTR 1 cut(s) 125
BsaHI GRCGYC 1 cut(s) 142
BsaI GGTCTC 1 cut(s) 201
BsaWI WCCGGW 1 cut(s) 457
Bsc4I CCNNNNNNNGG 1 cut(s) 544
Bse1I ACTGG 1 cut(s) 161
BseCI ATCGAT 1 cut(s) 364
BseGI GGATG 1 cut(s) 270
BseLI CCNNNNNNNGG 1 cut(s) 544
BseNI ACTGG 1 cut(s) 161
BshFI GGCC 1 cut(s) 440
BshVI ATCGAT 1 cut(s) 364
BsiHKCI CYCGRG 1 cut(s) 476
BsiSI CCGG 1 cut(s) 458
BslFI GGGAC 2 cut(s) 520, 527
BslI CCNNNNNNNGG 1 cut(s) 544
BsmAI GTCTC 1 cut(s) 201
BsmFI GGGAC 2 cut(s) 520, 527
BsnI GGCC 1 cut(s) 440
Bso31I GGTCTC 1 cut(s) 201
BsoBI CYCGRG 1 cut(s) 476
Bsp119I TTCGAA 1 cut(s) 256
Bsp143I GATC 1 cut(s) 395
BspANI GGCC 1 cut(s) 440
BspDI ATCGAT 1 cut(s) 364
BspT104I TTCGAA 1 cut(s) 256
BspTNI GGTCTC 1 cut(s) 201
BsrI ACTGG 1 cut(s) 161
BssMI GATC 1 cut(s) 395
BssNI GRCGYC 1 cut(s) 142
Bst4CI ACNGT 3 cut(s) 45, 88, 371
BstACI GRCGYC 1 cut(s) 142
BstBAI YACGTR 1 cut(s) 125
BstBI TTCGAA 1 cut(s) 256
BstC8I GCNNGC 1 cut(s) 330
BstENI CCTNNNNNAGG 1 cut(s) 542
BstF5I GGATG 1 cut(s) 270
BstKTI GATC 1 cut(s) 398
BstMAI GTCTC 1 cut(s) 201
BstMBI GATC 1 cut(s) 395
BstNSI RCATGY 1 cut(s) 19
Bsu15I ATCGAT 1 cut(s) 364
BsuI GTATCC 1 cut(s) 170
BsuRI GGCC 1 cut(s) 440
BsuTUI ATCGAT 1 cut(s) 364
BtsCI GGATG 1 cut(s) 270
BtsIMutI CAGTG 2 cut(s) 93, 168
Cac8I GCNNGC 1 cut(s) 330
ClaI ATCGAT 1 cut(s) 364
Csp6I GTAC 1 cut(s) 507
CviAII CATG 1 cut(s) 16
CviJI RGCY 6 cut(s) 26, 56, 377, 382, 440, 470
CviKI_1 RGCY 6 cut(s) 26, 56, 377, 382, 440, 470
CviQI GTAC 1 cut(s) 507
DpnI GATC 1 cut(s) 397
DpnII GATC 1 cut(s) 395
Eco147I AGGCCT 1 cut(s) 440
Eco31I GGTCTC 1 cut(s) 201
Eco88I CYCGRG 1 cut(s) 476
EcoNI CCTNNNNNAGG 1 cut(s) 542
FaeI CATG 1 cut(s) 19
FaqI GGGAC 2 cut(s) 520, 527
FatI CATG 1 cut(s) 15
FblI GTMKAC 1 cut(s) 351
FokI GGATG 1 cut(s) 257
HaeIII GGCC 1 cut(s) 440
HapII CCGG 1 cut(s) 458
Hin1I GRCGYC 1 cut(s) 142
Hin1II CATG 1 cut(s) 19
HincII GTYRAC 1 cut(s) 352
HindII GTYRAC 1 cut(s) 352
HinfI GANTC 2 cut(s) 151, 479
HpaII CCGG 1 cut(s) 458
HphI GGTGA 2 cut(s) 140, 383
Hpy166II GTNNAC 3 cut(s) 131, 146, 352
Hpy188I TCNGA 2 cut(s) 7, 561
Hpy188III TCNNGA 3 cut(s) 245, 433, 545
Hpy8I GTNNAC 3 cut(s) 131, 146, 352
HpyAV CCTTC 1 cut(s) 430
HpyCH4III ACNGT 3 cut(s) 45, 88, 371
HpyCH4IV ACGT 5 cut(s) 124, 133, 142, 249, 563
HpyCH4V TGCA 1 cut(s) 190
HpySE526I ACGT 5 cut(s) 124, 133, 142, 249, 563
Hsp92I GRCGYC 1 cut(s) 142
Hsp92II CATG 1 cut(s) 19
Kzo9I GATC 1 cut(s) 395
LmnI GCTCC 1 cut(s) 23
LpnPI CCDG 4 cut(s) 174, 258, 471, 530
LweI GCATC 1 cut(s) 279
MaeII ACGT 5 cut(s) 124, 133, 142, 249, 563
MaeIII GTNAC 1 cut(s) 163
MalI GATC 1 cut(s) 397
MboI GATC 1 cut(s) 395
MboII GAAGA 2 cut(s) 50, 332
MluCI AATT 2 cut(s) 260, 522
MlyI GAGTC 2 cut(s) 145, 488
MnlI CCTC 3 cut(s) 46, 220, 222
MseI TTAA 2 cut(s) 60, 71
MslI CAYNNNNRTG 2 cut(s) 185, 312
MspI CCGG 1 cut(s) 458
NdeII GATC 1 cut(s) 395
NlaIII CATG 1 cut(s) 19
NmeAIII GCCGAG 2 cut(s) 133, 358
NmuCI GTSAC 1 cut(s) 163
NspI RCATGY 1 cut(s) 19
NspV TTCGAA 1 cut(s) 256
OliI CACNNNNGTG 1 cut(s) 312
PceI AGGCCT 1 cut(s) 440
PciI ACATGT 1 cut(s) 15
PcsI WCGNNNNNNNCGW 2 cut(s) 130, 139
PleI GAGTC 2 cut(s) 145, 487
PpsI GAGTC 2 cut(s) 145, 487
Ppu21I YACGTR 1 cut(s) 125
PscI ACATGT 1 cut(s) 15
PshBI ATTAAT 1 cut(s) 71
RsaI GTAC 1 cut(s) 508
RsaNI GTAC 1 cut(s) 507
RseI CAYNNNNRTG 2 cut(s) 185, 312
SalI GTCGAC 1 cut(s) 350
SaqAI TTAA 2 cut(s) 60, 71
Sau3AI GATC 1 cut(s) 395
SchI GAGTC 2 cut(s) 145, 488
SfaNI GCATC 1 cut(s) 279
SfuI TTCGAA 1 cut(s) 256
SmiMI CAYNNNNRTG 2 cut(s) 185, 312
Sse9I AATT 2 cut(s) 260, 522
SseBI AGGCCT 1 cut(s) 440
SspI AATATT 1 cut(s) 198
StuI AGGCCT 1 cut(s) 440
TaaI ACNGT 3 cut(s) 45, 88, 371
TaiI ACGT 5 cut(s) 127, 136, 145, 252, 566
TaqI TCGA 3 cut(s) 256, 351, 364
TasI AATT 2 cut(s) 260, 522
TatI WGTACW 1 cut(s) 506
Tru1I TTAA 2 cut(s) 60, 71
Tru9I TTAA 2 cut(s) 60, 71
TscAI CASTG 2 cut(s) 93, 168
TseFI GTSAC 1 cut(s) 163
Tsp45I GTSAC 1 cut(s) 163
TspDTI ATGAA 1 cut(s) 45
TspGWI ACGGA 1 cut(s) 472
TspRI CASTG 2 cut(s) 93, 168
VspI ATTAAT 1 cut(s) 71
XagI CCTNNNNNAGG 1 cut(s) 542
XceI RCATGY 1 cut(s) 19
XmiI GTMKAC 1 cut(s) 351
ZraI GACGTC 1 cut(s) 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.