Rroxscaffold_4G00323200

nuclease activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000697
Physical Location & Seq
Reverse (-)
53809440 .. 53810586
1147 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00323200.1

Sequence Viewer

Length: 660 bp
ATGGAGAAAAGAGAATCAAGGGATACGGAATGTTGGAATGCTATTAAGGACACTCCAGGCTTGAATGATGAAGCACGTTACTTGGCTCTTGAGTTGCTCAATACTAAAGCATTGAAGGATGTTTTTCCGGAAATGACCCGGAGGAGCGATTTAAGTGGATTGGATTCAAGACAATGCAATAAATCTTATACAAATGAAGATATGGATGTCATGAATGAAGATGATATGGATGATGAAGAATTTTTTGAAGCTATAAAGGGTATCTTGATGGCAATACAAGCAATTATCCATACGGTACATGAGTTTATGTCCATCCAAAATCATAGACGTATTGAACGTCCACTAACTCGAAGACCAGTTACTACAGATGGATACATATATATAAACAAGATTTTAGATGAAGACCCTAGAGTGTTTAGACGTGTGTACAGAATGTTTCCTGATGTGTTTCGAAAACTATGCAGTATTATCGGACAGAAAACACTTCTTCGAGACACAAGACATATTTGCATCGAAGAAATGCTTGCAATTTTTCTACTCACTATCGGGCAAAATAATCAATATTCGCAGGCTATCTTGACATTTCATCGCTCTCATTACACTTGTAGCAGAAGCTTCAATAAAATTCTTAAAGCATTGAATACGTTAGCTCCGAGCTAA
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

219

Amino Acids

25.75

Weight (kDa)

6.32

Isoelectric Point (pI)

59.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
At2g29880_C PF24769 11 - 46 2.6e-12 At2g29880 C-terminal domain
DUF8040 PF26138 123 - 213 4.3e-23 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)
AccIII TCCGGA 1 cut(s) 127
AcsI RAATTY 2 cut(s) 239, 624
AfaI GTAC 2 cut(s) 297, 428
AflIII ACRYGT 1 cut(s) 421
AgsI TTSAA 7 cut(s) 64, 115, 168, 248, 335, 619, 640
AjiI CACGTC 1 cut(s) 422
AjnI CCWGG 1 cut(s) 55
AluBI AGCT 4 cut(s) 251, 615, 650, 657
AluI AGCT 4 cut(s) 251, 615, 650, 657
Alw26I GTCTC 1 cut(s) 486
Aor13HI TCCGGA 1 cut(s) 127
ApoI RAATTY 2 cut(s) 239, 624
AsuC2I CCSGG 1 cut(s) 139
AsuII TTCGAA 1 cut(s) 451
BaeI ACNNNNGTAYC 2 cut(s) 287, 320
BarI GAAGNNNNNNTAC 2 cut(s) 343, 375
BbsI GAAGAC 2 cut(s) 358, 408
BccI CCATC 3 cut(s) 262, 320, 362
BcgI CGANNNNNNTGC 4 cut(s) 441, 451, 475, 485
BciT130I CCWGG 1 cut(s) 57
BciVI GTATCC 2 cut(s) 16, 365
BcnI CCSGG 1 cut(s) 139
BcoDI GTCTC 1 cut(s) 486
BfaI CTAG 1 cut(s) 408
BfmI CTRYAG 1 cut(s) 363
BfuI GTATCC 2 cut(s) 16, 365
Bme1390I CCNGG 2 cut(s) 57, 139
BmgBI CACGTC 1 cut(s) 422
BmrFI CCNGG 2 cut(s) 57, 139
BmsI GCATC 1 cut(s) 519
BpiI GAAGAC 2 cut(s) 358, 408
BpmI CTGGAG 1 cut(s) 39
Bpu14I TTCGAA 1 cut(s) 451
BpuEI CTTGAG 1 cut(s) 110
BpuMI CCSGG 1 cut(s) 139
BsaWI WCCGGW 1 cut(s) 127
BsaXI ACNNNNNCTCC 1 cut(s) 634
Bse1I ACTGG 1 cut(s) 356
BseAI TCCGGA 1 cut(s) 127
BseBI CCWGG 1 cut(s) 57
BseGI GGATG 4 cut(s) 124, 211, 235, 312
BseNI ACTGG 1 cut(s) 356
BseRI GAGGAG 1 cut(s) 157
BsiSI CCGG 2 cut(s) 128, 139
BsmAI GTCTC 1 cut(s) 486
BsmI GAATGC 1 cut(s) 43
Bsp119I TTCGAA 1 cut(s) 451
Bsp13I TCCGGA 1 cut(s) 127
Bsp1407I TGTACA 1 cut(s) 426
BspEI TCCGGA 1 cut(s) 127
BspHI TCATGA 1 cut(s) 210
BspT104I TTCGAA 1 cut(s) 451
BsrGI TGTACA 1 cut(s) 426
BsrI ACTGG 1 cut(s) 356
Bst2UI CCWGG 1 cut(s) 57
Bst4CI ACNGT 1 cut(s) 295
BstAUI TGTACA 1 cut(s) 426
BstBI TTCGAA 1 cut(s) 451
BstC8I GCNNGC 2 cut(s) 525, 570
BstF5I GGATG 4 cut(s) 124, 211, 235, 312
BstMAI GTCTC 1 cut(s) 486
BstMWI GCNNNNNNNGC 1 cut(s) 278
BstNI CCWGG 1 cut(s) 57
BstSCI CCNGG 2 cut(s) 55, 137
BstSFI CTRYAG 1 cut(s) 363
BstV2I GAAGAC 2 cut(s) 358, 408
BsuI GTATCC 2 cut(s) 16, 365
BtgZI GCGATG 1 cut(s) 572
BtrI CACGTC 1 cut(s) 422
BtsCI GGATG 4 cut(s) 124, 211, 235, 312
Cac8I GCNNGC 2 cut(s) 525, 570
CciI TCATGA 1 cut(s) 210
Csp6I GTAC 2 cut(s) 296, 427
CviAII CATG 2 cut(s) 211, 299
CviJI RGCY 7 cut(s) 60, 86, 251, 572, 615, 650, 657
CviKI_1 RGCY 7 cut(s) 60, 86, 251, 572, 615, 650, 657
CviQI GTAC 2 cut(s) 296, 427
EcoRII CCWGG 1 cut(s) 55
FaeI CATG 2 cut(s) 214, 302
FalI AAGNNNNNCTT 4 cut(s) 248, 280, 507, 539
FatI CATG 2 cut(s) 210, 298
FokI GGATG 4 cut(s) 131, 218, 242, 299
FspBI CTAG 1 cut(s) 408
GsuI CTGGAG 1 cut(s) 39
HapII CCGG 2 cut(s) 128, 139
Hin1II CATG 2 cut(s) 214, 302
HindIII AAGCTT 1 cut(s) 613
HinfI GANTC 2 cut(s) 14, 164
HpaII CCGG 2 cut(s) 128, 139
Hpy166II GTNNAC 2 cut(s) 341, 427
Hpy188I TCNGA 2 cut(s) 473, 654
Hpy188III TCNNGA 8 cut(s) 89, 128, 168, 211, 265, 440, 491, 577
Hpy8I GTNNAC 2 cut(s) 341, 427
HpyAV CCTTC 1 cut(s) 109
HpyCH4III ACNGT 1 cut(s) 295
HpyCH4IV ACGT 5 cut(s) 76, 328, 337, 421, 644
HpyCH4V TGCA 4 cut(s) 177, 462, 510, 527
HpyF10VI GCNNNNNNNGC 1 cut(s) 278
HpySE526I ACGT 5 cut(s) 76, 328, 337, 421, 644
Hsp92II CATG 2 cut(s) 214, 302
Kpn2I TCCGGA 1 cut(s) 127
LmnI GCTCC 2 cut(s) 144, 655
LpnPI CCDG 7 cut(s) 42, 69, 141, 152, 369, 453, 554
LweI GCATC 1 cut(s) 519
MaeI CTAG 1 cut(s) 408
MaeII ACGT 5 cut(s) 76, 328, 337, 421, 644
MaeIII GTNAC 2 cut(s) 77, 358
MboII GAAGA 7 cut(s) 209, 230, 248, 363, 413, 479, 527
MluCI AATT 4 cut(s) 239, 282, 528, 624
MmeI TCCRAC 1 cut(s) 14
MnlI CCTC 1 cut(s) 135
MroI TCCGGA 1 cut(s) 127
MseI TTAA 3 cut(s) 45, 152, 630
MspI CCGG 2 cut(s) 128, 139
MspR9I CCNGG 2 cut(s) 57, 139
Mva1269I GAATGC 1 cut(s) 43
MvaI CCWGG 1 cut(s) 57
MwoI GCNNNNNNNGC 1 cut(s) 278
NciI CCSGG 1 cut(s) 139
NlaIII CATG 2 cut(s) 214, 302
NspV TTCGAA 1 cut(s) 451
PagI TCATGA 1 cut(s) 210
PcsI WCGNNNNNNNCGW 2 cut(s) 334, 650
PctI GAATGC 1 cut(s) 43
PfeI GAWTC 2 cut(s) 14, 164
Psp6I CCWGG 1 cut(s) 55
PspGI CCWGG 1 cut(s) 55
RsaI GTAC 2 cut(s) 297, 428
RsaNI GTAC 2 cut(s) 296, 427
SaqAI TTAA 3 cut(s) 45, 152, 630
ScrFI CCNGG 2 cut(s) 57, 139
SetI ASST 9 cut(s) 79, 253, 331, 340, 424, 617, 647, 652, 659
SfaNI GCATC 1 cut(s) 519
SfcI CTRYAG 1 cut(s) 363
SfuI TTCGAA 1 cut(s) 451
SmlI CTYRAG 1 cut(s) 89
SmoI CTYRAG 1 cut(s) 89
Sse9I AATT 4 cut(s) 239, 282, 528, 624
SspI AATATT 1 cut(s) 563
SspMI CTAG 1 cut(s) 408
StyD4I CCNGG 2 cut(s) 55, 137
TaaI ACNGT 1 cut(s) 295
TaiI ACGT 5 cut(s) 79, 331, 340, 424, 647
TaqI TCGA 4 cut(s) 349, 451, 490, 513
TasI AATT 4 cut(s) 239, 282, 528, 624
TatI WGTACW 1 cut(s) 426
TfiI GAWTC 2 cut(s) 14, 164
Tru1I TTAA 3 cut(s) 45, 152, 630
Tru9I TTAA 3 cut(s) 45, 152, 630
TspDTI ATGAA 7 cut(s) 84, 210, 227, 231, 249, 414, 575
TspGWI ACGGA 1 cut(s) 41
XapI RAATTY 2 cut(s) 239, 624
XspI CTAG 1 cut(s) 408
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.