Rw1G001890
ERF Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000697
Physical Location & Seq
Reverse (-)
3344125 .. 3345434
1310 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G001890.1

Sequence Viewer

Length: 996 bp
ATGCTAGCAATGTTCTTAATCATTGTAGGCCACAATGATCGATATGGTAATGTTCGGGAAAGGTTTGGTCGTTCGTATTTTGCCACTAGTCAAAACTTCAACAAAACTTTGAAGGCCTTGAACACTATAGCACCACGTATGATGATCAAACCTGGATCTGCAGTGCCCTCTAAAATAAGGGAAAGCACAAGGTTTTACCCCTACTTTAAGGATTGTATTGGTGCAATTGATGGCACCCATATTCCAGCGATGGTAAAAGGTCGCGAAGTAAGCAGCTATCGTAATCGTCATGGAATTCAGTCTCAAAATGTTTTGGCAGCTTGTGACTTTGATTTACAATTCATATATGTGCTAAGTGGGTGGGAAGGTTCGGCACATGATTCAAAATTGTTAAATGATGCCTTATTAAGGAGAAATGGACTTGAAGTTCCTCAAGGCAAATTTTTTCTAGTGGATTGTGGATTTGCTAATCGACGCCAATTCTTAGCTCCGTTACGAGGTGTTCGATATCATCTCAAAGATTTTGGTGGTCAAGGTCGCCATCCTCGAAATGCAAGGGAGATATTTGGTATCTTTAAATCACGGTTCACAATTTTCAAAACCGCACCTCCATTTCCATATCAAACACAAGCAGAATTGGTGTTAGCTTGTGCTGGACTACACAACTTTCTTCGCAAAGAATGTCGTGAGGATGAATTTCCTGTTGAACCAGAAAATGATTCATCATCTTCATCCTATCTAGATATGGAAGATGAGAATCTTGAACTACTTTCTCAAAGTCAACAACGACAAAGAGCGGAGGCTAATGTTTGGAGGCTTACTATTGCTGAAGCTATGTGGGAAGATAGACCGCGAAATGATGATAATGAAAGTCAAGAGAATAATAATGATACTCAAGACAATGAGAATGAGAATAATGAGGAACATATGGATGACGGGGAACAAGAAGGTTATGATGATAATGAGGTTGGAATGGATGAGTATGCAGCTTTCTAA
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

331

Amino Acids

38.05

Weight (kDa)

5.25

Isoelectric Point (pI)

46.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 2 - 40 3.1e-06 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 70 - 170 3.4e-07 Transposase DDE domain
DDE_Tnp_4 PF13359 76 - 222 1.2e-14 DDE superfamily endonuclease
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)
AccB1I GGYRCC 1 cut(s) 233
AccBSI CCGCTC 1 cut(s) 797
AccII CGCG 2 cut(s) 264, 853
AciI CCGC 3 cut(s) 603, 797, 851
AclWI GGATC 1 cut(s) 163
AcsI RAATTY 3 cut(s) 294, 440, 695
AcuI CTGAAG 1 cut(s) 849
AcyI GRCGYC 1 cut(s) 475
AfiI CCNNNNNNNGG 2 cut(s) 408, 497
AgsI TTSAA 8 cut(s) 100, 112, 121, 384, 425, 598, 707, 764
AhlI ACTAGT 1 cut(s) 86
AjnI CCWGG 1 cut(s) 151
AloI GAACNNNNNNTCC 2 cut(s) 411, 443
AluBI AGCT 6 cut(s) 276, 320, 488, 647, 833, 989
AluI AGCT 6 cut(s) 276, 320, 488, 647, 833, 989
Alw26I GTCTC 1 cut(s) 306
AlwI GGATC 1 cut(s) 163
AoxI GGCC 2 cut(s) 28, 114
ApeKI GCWGC 3 cut(s) 273, 317, 986
ApoI RAATTY 3 cut(s) 294, 440, 695
AsuNHI GCTAGC 1 cut(s) 4
BaeGI GKGCMC 1 cut(s) 168
BanI GGYRCC 1 cut(s) 233
BbvI GCAGC 2 cut(s) 285, 329
BccI CCATC 3 cut(s) 224, 244, 549
BciT130I CCWGG 1 cut(s) 153
BclI TGATCA 1 cut(s) 144
BcoDI GTCTC 1 cut(s) 306
BcuI ACTAGT 1 cut(s) 86
BfaI CTAG 4 cut(s) 5, 87, 449, 740
BfmI CTRYAG 2 cut(s) 126, 159
BisI GCNGC 3 cut(s) 274, 318, 987
BlsI GCNGC 3 cut(s) 275, 319, 988
Bme1390I CCNGG 1 cut(s) 153
BmiI GGNNCC 1 cut(s) 235
BmrFI CCNGG 1 cut(s) 153
BmsI GCATC 1 cut(s) 388
BmtI GCTAGC 1 cut(s) 8
BpuEI CTTGAG 2 cut(s) 417, 879
Bsa29I ATCGAT 1 cut(s) 40
BsaAI YACGTR 1 cut(s) 137
BsaBI GATNNNNATC 1 cut(s) 756
BsaHI GRCGYC 1 cut(s) 475
BsaXI ACNNNNNCTCC 2 cut(s) 592, 622
Bsc4I CCNNNNNNNGG 2 cut(s) 408, 497
Bse3DI GCAATG 1 cut(s) 15
Bse8I GATNNNNATC 1 cut(s) 756
BseBI CCWGG 1 cut(s) 153
BseCI ATCGAT 1 cut(s) 40
BseGI GGATG 5 cut(s) 541, 697, 731, 937, 982
BseJI GATNNNNATC 1 cut(s) 756
BseLI CCNNNNNNNGG 2 cut(s) 408, 497
BseMI GCAATG 1 cut(s) 15
BseSI GKGCMC 1 cut(s) 168
BseXI GCAGC 2 cut(s) 285, 329
Bsh1236I CGCG 2 cut(s) 264, 853
BshFI GGCC 2 cut(s) 30, 116
BshNI GGYRCC 1 cut(s) 233
BshVI ATCGAT 1 cut(s) 40
BslI CCNNNNNNNGG 2 cut(s) 408, 497
BsmAI GTCTC 1 cut(s) 306
BsnI GGCC 2 cut(s) 30, 116
Bsp1286I GDGCHC 1 cut(s) 168
Bsp143I GATC 3 cut(s) 37, 144, 155
Bsp68I TCGCGA 1 cut(s) 264
BspACI CCGC 3 cut(s) 603, 797, 851
BspANI GGCC 2 cut(s) 30, 116
BspDI ATCGAT 1 cut(s) 40
BspFNI CGCG 2 cut(s) 264, 853
BspLI GGNNCC 1 cut(s) 235
BspMAI CTGCAG 1 cut(s) 163
BspOI GCTAGC 1 cut(s) 8
BspPI GGATC 1 cut(s) 163
BspT107I GGYRCC 1 cut(s) 233
BsrBI CCGCTC 1 cut(s) 797
BsrDI GCAATG 1 cut(s) 15
BssMI GATC 3 cut(s) 37, 144, 155
BssNI GRCGYC 1 cut(s) 475
Bst2UI CCWGG 1 cut(s) 153
Bst4CI ACNGT 1 cut(s) 585
BstACI GRCGYC 1 cut(s) 475
BstBAI YACGTR 1 cut(s) 137
BstC8I GCNNGC 1 cut(s) 6
BstDEI CTNAG 2 cut(s) 353, 484
BstENI CCTNNNNNAGG 1 cut(s) 406
BstF5I GGATG 5 cut(s) 541, 697, 731, 937, 982
BstFNI CGCG 2 cut(s) 264, 853
BstKTI GATC 3 cut(s) 40, 147, 158
BstMAI GTCTC 1 cut(s) 306
BstMBI GATC 3 cut(s) 37, 144, 155
BstMWI GCNNNNNNNGC 1 cut(s) 270
BstNI CCWGG 1 cut(s) 153
BstSCI CCNGG 1 cut(s) 151
BstSFI CTRYAG 2 cut(s) 126, 159
BstSLI GKGCMC 1 cut(s) 168
BstUI CGCG 2 cut(s) 264, 853
BstV1I GCAGC 2 cut(s) 285, 329
BstX2I RGATCY 1 cut(s) 155
BstYI RGATCY 1 cut(s) 155
Bsu15I ATCGAT 1 cut(s) 40
BsuRI GGCC 2 cut(s) 30, 116
BsuTUI ATCGAT 1 cut(s) 40
BtgZI GCGATG 1 cut(s) 263
BtsCI GGATG 5 cut(s) 541, 697, 731, 937, 982
BtsI GCAGTG 1 cut(s) 168
BtsIMutI CAGTG 1 cut(s) 168
BtuMI TCGCGA 1 cut(s) 264
Cac8I GCNNGC 1 cut(s) 6
ClaI ATCGAT 1 cut(s) 40
CseI GACGC 1 cut(s) 483
CviAII CATG 2 cut(s) 290, 377
DdeI CTNAG 2 cut(s) 353, 484
DpnI GATC 3 cut(s) 39, 146, 157
DpnII GATC 3 cut(s) 37, 144, 155
DraI TTTAAA 1 cut(s) 577
Eco147I AGGCCT 1 cut(s) 116
Eco32I GATATC 1 cut(s) 509
Eco57I CTGAAG 1 cut(s) 849
EcoNI CCTNNNNNAGG 1 cut(s) 406
EcoRI GAATTC 1 cut(s) 294
EcoRII CCWGG 1 cut(s) 151
EcoRV GATATC 1 cut(s) 509
FaeI CATG 2 cut(s) 293, 380
FatI CATG 2 cut(s) 289, 376
FauNDI CATATG 1 cut(s) 927
FbaI TGATCA 1 cut(s) 144
Fnu4HI GCNGC 3 cut(s) 274, 318, 987
FokI GGATG 5 cut(s) 528, 704, 718, 944, 989
Fsp4HI GCNGC 3 cut(s) 274, 318, 987
FspBI CTAG 4 cut(s) 5, 87, 449, 740
GluI GCNGC 3 cut(s) 274, 318, 987
HaeIII GGCC 2 cut(s) 30, 116
HgaI GACGC 1 cut(s) 483
Hin1I GRCGYC 1 cut(s) 475
Hin1II CATG 2 cut(s) 293, 380
HincII GTYRAC 1 cut(s) 782
HindII GTYRAC 1 cut(s) 782
HinfI GANTC 3 cut(s) 380, 719, 757
Hpy166II GTNNAC 2 cut(s) 588, 782
Hpy188III TCNNGA 7 cut(s) 56, 263, 686, 740, 761, 875, 896
Hpy8I GTNNAC 2 cut(s) 588, 782
Hpy99I CGWCG 1 cut(s) 477
HpyAV CCTTC 3 cut(s) 106, 359, 941
HpyCH4III ACNGT 1 cut(s) 585
HpyCH4IV ACGT 1 cut(s) 136
HpyCH4V TGCA 4 cut(s) 161, 224, 554, 986
HpyF10VI GCNNNNNNNGC 1 cut(s) 270
HpyF3I CTNAG 2 cut(s) 353, 484
HpySE526I ACGT 1 cut(s) 136
Hsp92I GRCGYC 1 cut(s) 475
Hsp92II CATG 2 cut(s) 293, 380
Ksp22I TGATCA 1 cut(s) 144
Kzo9I GATC 3 cut(s) 37, 144, 155
LmnI GCTCC 1 cut(s) 493
LpnPI CCDG 6 cut(s) 138, 165, 258, 639, 714, 723
Lsp1109I GCAGC 2 cut(s) 285, 329
LweI GCATC 1 cut(s) 388
MaeI CTAG 4 cut(s) 5, 87, 449, 740
MaeII ACGT 1 cut(s) 136
MaeIII GTNAC 2 cut(s) 323, 492
MalI GATC 3 cut(s) 39, 146, 157
MbiI CCGCTC 1 cut(s) 797
MboI GATC 3 cut(s) 37, 144, 155
MboII GAAGA 4 cut(s) 662, 720, 761, 854
MfeI CAATTG 1 cut(s) 225
MflI RGATCY 1 cut(s) 155
MhlI GDGCHC 1 cut(s) 168
MluCI AATT 9 cut(s) 225, 294, 338, 386, 440, 479, 591, 635, 695
MmeI TCCRAC 1 cut(s) 949
MseI TTAA 5 cut(s) 17, 207, 392, 407, 576
MslI CAYNNNNRTG 2 cut(s) 347, 930
MspR9I CCNGG 1 cut(s) 153
MunI CAATTG 1 cut(s) 225
MvaI CCWGG 1 cut(s) 153
MvnI CGCG 2 cut(s) 264, 853
MwoI GCNNNNNNNGC 1 cut(s) 270
NdeI CATATG 1 cut(s) 927
NdeII GATC 3 cut(s) 37, 144, 155
NheI GCTAGC 1 cut(s) 4
NlaIII CATG 2 cut(s) 293, 380
NlaIV GGNNCC 1 cut(s) 235
NmuCI GTSAC 1 cut(s) 323
NruI TCGCGA 1 cut(s) 264
PceI AGGCCT 1 cut(s) 116
PcsI WCGNNNNNNNCGW 2 cut(s) 502, 544
PfeI GAWTC 3 cut(s) 380, 719, 757
PkrI GCNGC 3 cut(s) 275, 319, 988
Ppu21I YACGTR 1 cut(s) 137
Psp6I CCWGG 1 cut(s) 151
PspGI CCWGG 1 cut(s) 151
PspN4I GGNNCC 1 cut(s) 235
PstI CTGCAG 1 cut(s) 163
PsuI RGATCY 1 cut(s) 155
RruI TCGCGA 1 cut(s) 264
RseI CAYNNNNRTG 2 cut(s) 347, 930
SaqAI TTAA 5 cut(s) 17, 207, 392, 407, 576
SatI GCNGC 3 cut(s) 274, 318, 987
Sau3AI GATC 3 cut(s) 37, 144, 155
ScrFI CCNGG 1 cut(s) 153
SduI GDGCHC 1 cut(s) 168
SfaNI GCATC 1 cut(s) 388
SfcI CTRYAG 2 cut(s) 126, 159
SmiMI CAYNNNNRTG 2 cut(s) 347, 930
SmlI CTYRAG 2 cut(s) 432, 894
SmoI CTYRAG 2 cut(s) 432, 894
SpeI ACTAGT 1 cut(s) 86
Sse9I AATT 9 cut(s) 225, 294, 338, 386, 440, 479, 591, 635, 695
SseBI AGGCCT 1 cut(s) 116
SsiI CCGC 3 cut(s) 603, 797, 851
SspMI CTAG 4 cut(s) 5, 87, 449, 740
StuI AGGCCT 1 cut(s) 116
StyD4I CCNGG 1 cut(s) 151
TaaI ACNGT 1 cut(s) 585
TaiI ACGT 1 cut(s) 139
TaqI TCGA 4 cut(s) 40, 472, 505, 547
TasI AATT 9 cut(s) 225, 294, 338, 386, 440, 479, 591, 635, 695
TfiI GAWTC 3 cut(s) 380, 719, 757
Tru1I TTAA 5 cut(s) 17, 207, 392, 407, 576
Tru9I TTAA 5 cut(s) 17, 207, 392, 407, 576
TscAI CASTG 1 cut(s) 168
TseFI GTSAC 1 cut(s) 323
TseI GCWGC 3 cut(s) 273, 317, 986
Tsp45I GTSAC 1 cut(s) 323
TspDTI ATGAA 5 cut(s) 331, 708, 711, 720, 882
TspGWI ACGGA 1 cut(s) 480
TspRI CASTG 1 cut(s) 168
XagI CCTNNNNNAGG 1 cut(s) 406
XapI RAATTY 3 cut(s) 294, 440, 695
XbaI TCTAGA 1 cut(s) 739
XspI CTAG 4 cut(s) 5, 87, 449, 740
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.