Rw5G023340
ERF Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000468
Physical Location & Seq
Forward (+)
32878373 .. 32879717
1345 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G023340.1

Sequence Viewer

Length: 846 bp
ATGAAAATTATTTTTGGTGCTACCGTATCTGTGATTGCTTTAATAATAGAGTGGTATCATAAGACATTTCTTGTTAAAGAGCCTTCACGTGATTGGGATCAAGAAAGACGGTCTTACTTAAACCGTTTGTACCATGGAAGAGAGGTAGATTGTATTAAACAACTACGAGTCAACAAGAGCGCATTCAGGAAGTTATGTGAGATTTTACATGGAATAGGTGGGTTAGTTCGTACAAGAAATGTTCCTATTGAAGAATCAGTAGCTATGTTTCTGGACATACTTGGTAACAACGTGAAGTACAGAAAAATTGGTTTTATATATTATCGTTCTAAGGAAACAGTTAGTCGGCAATTCCATAATGTGTTATATGCAATGATGAGAATAAGCAAGGAATACTTGAAATTACAGTCATCTATCATTGGTAGCGCAGAAAGAGAGAAATGGAAGTGGTTTGAGAATTGTCTAGGAGCACTTGATGGAACTCACATTCCAGTAACTGTGTCAGCTGAGGAAAGACCAAGATATCGAAATAGAAAGGGTGATATTTCTACTAACGTCCTAGGGGTTTGTGCCCCTGATTTAAAATTTATTTATGTATTGCCTGGATGGGAGGGTTCTGCTTCTGATGCTCTTGTTTTACGAGATGCACTACGTAGAAATAATCGGCTTCATGTTCAACGGGCAACGGTTGATTTGGAGATATTAAATCGTCCAACGTCAGAGAGTAATGCAAATAATTTAAATGATAGGATTACATCAGTTCAAGCAACTGAGCAGTGGACAAATTTTCGTGATACATTTGCATTGAAGATGTTCCAGGATTATCAAGCGCGACATGCCACATAA
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

281

Amino Acids

32.69

Weight (kDa)

9.6

Isoelectric Point (pI)

43.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 36 - 126 3.5e-23 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 158 - 215 1.8e-08 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000468)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04030 FvH4_2g09411 FvH4_3g15551 FvH4_3g36421 FvH4_4g11701 FvH4_5g36381 FvH4_6g09143 FvH4_6g09144 FvH4_6g21972
malus_domestica MD00G1096500.v1.1 MD00G1122500.v1.1 MD02G1090600.v1.1 MD02G1173300.v1.1 MD05G1202800.v1.1 MD14G1123600.v1.1
prunus_persica Prupe.1G083600_v2.0.a1 Prupe.1G245300_v2.0.a1 Prupe.5G002100_v2.0.a1 Prupe.6G061200_v2.0.a1
pyrus_communis pycom01g07060 pycom02g13920 pycom04g11780 pycom04g13480 pycom04g21940 pycom06g07950 pycom07g03740 pycom07g03980 pycom09g02010 pycom09g02020 pycom09g11510 pycom09g14260 pycom10g02500 pycom10g15690 pycom12g08730 pycom12g08740 pycom14g19840 pycom15g16780 pycom15g24940 pycom15g25660 pycom16g21630 pycom16g26320
rosa_chinensis RchiOBHm_Chr1g0330371 RchiOBHm_Chr1g0331991 RchiOBHm_Chr6g0300321
rosa_laevigata RLG00000013795
rosa_multiflora Rmu_sc0000060.1_g000010 Rmu_sc0000288.1_g000044 Rmu_sc0002219.1_g000002 Rmu_sc0003995.1_g000003
rosa_roxburghii Rroxscaffold_1G00059020 Rroxscaffold_2G00108450 Rroxscaffold_2G00112460 Rroxscaffold_5G00375700 Rroxscaffold_5G00381640 Rroxscaffold_7G00158590
rosa_rugosa Rorug01G0237300 Rorug01G0237400 Rorug01G0237500 Rorug02G0051900 Rorug03G0260600 Rorug03G0285800 Rorug04G0076800 Rorug04G0162600 Rorug07G0264500 Rorug07G0264500
rosa_samantha Rh2DG003500 Rh3CG244800 Rh4CG334200 Rh5AG318300 Rh5BG549000 Rh7AG126400 Rh7CG118500 Rh7CG154500 Rh7DG025400
rosa_wichuraiana Rw1G026390 Rw2G005400 Rw2G034490 Rw3G019530 Rw3G028000 Rw4G010490 Rw5G010830 Rw5G023340 Rw5G026580 Rw5G041150 Rw6G003010 Rw6G003290 Rw6G010630 Rw6G021220 Rw6G035650 Rw7G014310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 832
AclWI GGATC 1 cut(s) 105
AcsI RAATTY 2 cut(s) 584, 784
AcvI CACGTG 1 cut(s) 89
AfaI GTAC 3 cut(s) 131, 232, 299
AgsI TTSAA 5 cut(s) 251, 400, 677, 764, 808
AjnI CCWGG 2 cut(s) 601, 816
AloI GAACNNNNNNTCC 2 cut(s) 472, 504
AluBI AGCT 2 cut(s) 263, 506
AluI AGCT 2 cut(s) 263, 506
Alw21I GWGCWC 1 cut(s) 472
AlwI GGATC 1 cut(s) 105
AlwNI CAGNNNCTG 1 cut(s) 497
ApoI RAATTY 2 cut(s) 584, 784
Asp700I GAANNNNTTC 1 cut(s) 812
AspA2I CCTAGG 1 cut(s) 559
AspLEI GCGC 3 cut(s) 182, 428, 832
AsuHPI GGTGA 1 cut(s) 551
AvrII CCTAGG 1 cut(s) 559
BaeGI GKGCMC 1 cut(s) 574
BbrPI CACGTG 1 cut(s) 89
Bbv12I GWGCWC 1 cut(s) 472
BbvCI CCTCAGC 1 cut(s) 507
BccI CCATC 2 cut(s) 470, 600
BciT130I CCWGG 2 cut(s) 603, 818
BfaI CTAG 2 cut(s) 464, 560
BlnI CCTAGG 1 cut(s) 559
Bme1390I CCNGG 2 cut(s) 603, 818
BmrFI CCNGG 2 cut(s) 603, 818
BmsI GCATC 2 cut(s) 616, 634
Bpu10I CCTNAGC 1 cut(s) 507
BsaAI YACGTR 2 cut(s) 89, 653
BsaBI GATNNNNATC 1 cut(s) 96
BsaJI CCNNGG 2 cut(s) 133, 559
Bse1I ACTGG 1 cut(s) 491
Bse3DI GCAATG 1 cut(s) 378
Bse8I GATNNNNATC 1 cut(s) 96
BseBI CCWGG 2 cut(s) 603, 818
BseDI CCNNGG 2 cut(s) 133, 559
BseGI GGATG 1 cut(s) 611
BseJI GATNNNNATC 1 cut(s) 96
BseMI GCAATG 1 cut(s) 378
BseMII CTCAG 2 cut(s) 498, 762
BseNI ACTGG 1 cut(s) 491
BseSI GKGCMC 1 cut(s) 574
Bsh1236I CGCG 1 cut(s) 832
BsiHKAI GWGCWC 1 cut(s) 472
BsmI GAATGC 1 cut(s) 182
Bsp1286I GDGCHC 2 cut(s) 472, 574
Bsp143I GATC 1 cut(s) 97
Bsp19I CCATGG 1 cut(s) 133
BspCNI CTCAG 2 cut(s) 499, 763
BspFNI CGCG 1 cut(s) 832
BspPI GGATC 1 cut(s) 105
BsrDI GCAATG 1 cut(s) 378
BsrI ACTGG 1 cut(s) 491
BssECI CCNNGG 2 cut(s) 133, 559
BssMI GATC 1 cut(s) 97
BssT1I CCWWGG 2 cut(s) 133, 559
Bst2UI CCWGG 2 cut(s) 603, 818
Bst4CI ACNGT 7 cut(s) 25, 111, 125, 340, 408, 499, 688
Bst6I CTCTTC 1 cut(s) 133
BstBAI YACGTR 2 cut(s) 89, 653
BstDEI CTNAG 3 cut(s) 330, 507, 771
BstDSI CCRYGG 1 cut(s) 133
BstF5I GGATG 1 cut(s) 611
BstFNI CGCG 1 cut(s) 832
BstHHI GCGC 3 cut(s) 182, 428, 832
BstKTI GATC 1 cut(s) 100
BstMBI GATC 1 cut(s) 97
BstMWI GCNNNNNNNGC 2 cut(s) 626, 836
BstNI CCWGG 2 cut(s) 603, 818
BstNSI RCATGY 1 cut(s) 839
BstSCI CCNGG 2 cut(s) 601, 816
BstSLI GKGCMC 1 cut(s) 574
BstSNI TACGTA 1 cut(s) 653
BstUI CGCG 1 cut(s) 832
BtgI CCRYGG 1 cut(s) 133
BtsCI GGATG 1 cut(s) 611
BtsI GCAGTG 1 cut(s) 782
BtsIMutI CAGTG 1 cut(s) 782
CaiI CAGNNNCTG 1 cut(s) 497
CfoI GCGC 3 cut(s) 182, 428, 832
Csp6I GTAC 3 cut(s) 130, 231, 298
CviAII CATG 4 cut(s) 134, 209, 671, 836
CviJI RGCY 4 cut(s) 82, 263, 506, 667
CviKI_1 RGCY 4 cut(s) 82, 263, 506, 667
CviQI GTAC 3 cut(s) 130, 231, 298
DdeI CTNAG 3 cut(s) 330, 507, 771
DpnI GATC 1 cut(s) 99
DpnII GATC 1 cut(s) 97
DraI TTTAAA 2 cut(s) 582, 741
Eam1104I CTCTTC 1 cut(s) 133
EarI CTCTTC 1 cut(s) 133
Eco105I TACGTA 1 cut(s) 653
Eco130I CCWWGG 2 cut(s) 133, 559
Eco32I GATATC 1 cut(s) 524
Eco72I CACGTG 1 cut(s) 89
EcoRII CCWGG 2 cut(s) 601, 816
EcoRV GATATC 1 cut(s) 524
EcoT14I CCWWGG 2 cut(s) 133, 559
ErhI CCWWGG 2 cut(s) 133, 559
FaeI CATG 4 cut(s) 137, 212, 674, 839
FalI AAGNNNNNCTT 4 cut(s) 97, 129, 380, 412
FatI CATG 4 cut(s) 133, 208, 670, 835
FokI GGATG 1 cut(s) 618
FspBI CTAG 2 cut(s) 464, 560
GlaI GCGC 3 cut(s) 181, 427, 831
HhaI GCGC 3 cut(s) 182, 428, 832
Hin1II CATG 4 cut(s) 137, 212, 674, 839
Hin6I GCGC 3 cut(s) 180, 426, 830
HinP1I GCGC 3 cut(s) 180, 426, 830
HincII GTYRAC 1 cut(s) 172
HindII GTYRAC 1 cut(s) 172
HinfI GANTC 2 cut(s) 168, 254
HphI GGTGA 1 cut(s) 551
Hpy166II GTNNAC 2 cut(s) 172, 780
Hpy188I TCNGA 2 cut(s) 625, 721
Hpy188III TCNNGA 4 cut(s) 101, 187, 272, 791
Hpy8I GTNNAC 2 cut(s) 172, 780
HpyAV CCTTC 1 cut(s) 93
HpyCH4III ACNGT 7 cut(s) 25, 111, 125, 340, 408, 499, 688
HpyCH4IV ACGT 5 cut(s) 88, 291, 555, 652, 716
HpyCH4V TGCA 4 cut(s) 371, 647, 731, 803
HpyF10VI GCNNNNNNNGC 2 cut(s) 626, 836
HpyF3I CTNAG 3 cut(s) 330, 507, 771
HpySE526I ACGT 5 cut(s) 88, 291, 555, 652, 716
Hsp92II CATG 4 cut(s) 137, 212, 674, 839
HspAI GCGC 3 cut(s) 180, 426, 830
Kzo9I GATC 1 cut(s) 97
LmnI GCTCC 1 cut(s) 467
LpnPI CCDG 8 cut(s) 172, 257, 504, 588, 588, 615, 803, 830
LweI GCATC 2 cut(s) 616, 634
MaeI CTAG 2 cut(s) 464, 560
MaeII ACGT 5 cut(s) 88, 291, 555, 652, 716
MaeIII GTNAC 2 cut(s) 284, 493
MalI GATC 1 cut(s) 99
MboI GATC 1 cut(s) 97
MboII GAAGA 3 cut(s) 150, 263, 820
MhlI GDGCHC 2 cut(s) 472, 574
MluCI AATT 8 cut(s) 6, 306, 350, 401, 457, 584, 736, 784
MlyI GAGTC 1 cut(s) 177
MmeI TCCRAC 1 cut(s) 737
MnlI CCTC 3 cut(s) 136, 502, 604
MroXI GAANNNNTTC 1 cut(s) 812
MseI TTAA 7 cut(s) 41, 75, 119, 156, 581, 704, 740
MspA1I CMGCKG 1 cut(s) 506
MspR9I CCNGG 2 cut(s) 603, 818
Mva1269I GAATGC 1 cut(s) 182
MvaI CCWGG 2 cut(s) 603, 818
MvnI CGCG 1 cut(s) 832
MwoI GCNNNNNNNGC 2 cut(s) 626, 836
NcoI CCATGG 1 cut(s) 133
NdeII GATC 1 cut(s) 97
NlaIII CATG 4 cut(s) 137, 212, 674, 839
NspI RCATGY 1 cut(s) 839
PctI GAATGC 1 cut(s) 182
PdmI GAANNNNTTC 1 cut(s) 812
PfeI GAWTC 1 cut(s) 254
PfoI TCCNGGA 1 cut(s) 816
PleI GAGTC 1 cut(s) 176
PmaCI CACGTG 1 cut(s) 89
PmlI CACGTG 1 cut(s) 89
PpsI GAGTC 1 cut(s) 176
Ppu21I YACGTR 2 cut(s) 89, 653
Psp6I CCWGG 2 cut(s) 601, 816
PspCI CACGTG 1 cut(s) 89
PspGI CCWGG 2 cut(s) 601, 816
PstNI CAGNNNCTG 1 cut(s) 497
PvuII CAGCTG 1 cut(s) 506
RsaI GTAC 3 cut(s) 131, 232, 299
RsaNI GTAC 3 cut(s) 130, 231, 298
SaqAI TTAA 7 cut(s) 41, 75, 119, 156, 581, 704, 740
Sau3AI GATC 1 cut(s) 97
SchI GAGTC 1 cut(s) 177
ScrFI CCNGG 2 cut(s) 603, 818
SduI GDGCHC 2 cut(s) 472, 574
SetI ASST 9 cut(s) 91, 147, 220, 265, 294, 508, 558, 655, 719
SfaNI GCATC 2 cut(s) 616, 634
SmiI ATTTAAAT 1 cut(s) 741
SnaBI TACGTA 1 cut(s) 653
Sse9I AATT 8 cut(s) 6, 306, 350, 401, 457, 584, 736, 784
SspMI CTAG 2 cut(s) 464, 560
StyD4I CCNGG 2 cut(s) 601, 816
StyI CCWWGG 2 cut(s) 133, 559
SwaI ATTTAAAT 1 cut(s) 741
TaaI ACNGT 7 cut(s) 25, 111, 125, 340, 408, 499, 688
TaiI ACGT 5 cut(s) 91, 294, 558, 655, 719
TaqI TCGA 1 cut(s) 526
TasI AATT 8 cut(s) 6, 306, 350, 401, 457, 584, 736, 784
TatI WGTACW 1 cut(s) 297
TfiI GAWTC 1 cut(s) 254
Tru1I TTAA 7 cut(s) 41, 75, 119, 156, 581, 704, 740
Tru9I TTAA 7 cut(s) 41, 75, 119, 156, 581, 704, 740
TscAI CASTG 1 cut(s) 782
TspDTI ATGAA 2 cut(s) 17, 659
TspRI CASTG 1 cut(s) 782
XapI RAATTY 2 cut(s) 584, 784
XceI RCATGY 1 cut(s) 839
XmaJI CCTAGG 1 cut(s) 559
XmnI GAANNNNTTC 1 cut(s) 812
XspI CTAG 2 cut(s) 464, 560
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.