Rw3G019530
ERF Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000468
Physical Location & Seq
Reverse (-)
22325099 .. 22326443
1345 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G019530.1

Sequence Viewer

Length: 798 bp
ATGAAAATTATTTTTGGTGCTACTGTATCTGTGATTGCTTTAATAATAGAGTGGTATCATAAGACATTTCTTGTTAAAGAGCCTTCACGTGATTGGGATCAAGAAAGAAGGTCTTACTTAAATCGTTTGTACGATGGAAGAGAGGTAGATTGTATTGAACAATTACGAGTCAGCAAGAGCGCATTTAGGAAGTTATGTGAGATTTTACATGGAATAGGTGGGCTGGTTCGTACAAGAAATGTTCCTATTGAAGAATCAGTAGCTATGTTTCTGGACATACTTGGAAACAACGTGAAGTACAGAAAAATTGGTTTTATATATTATCGTTCTAAGGAAACAGTTAGTCGGCAATTCCATAATTCATCTATCATTGGTAGCGCAGAAAGAGAGAAGTGGAAGTGGTTTGAGAATTGTCTAGGAGCACTTGATGGAACTCACATTCCAGTGACTGTGTCAGCTGAGGAAAGACCAAGATATCGAAATAGAAAGGGTGATATTTCTACTAACGTCCTAGGGGTTTGTGCCCCTGATTTAAAATTTATATATGTATTGCCTGGATGGGAGGGTTCTGCTTCTGATGCTCGTGTTTTACGAGATGCTCTACGTAGAAATAATCGGCTTCATGTTCAACGGGCAGCAGTTGATTTGGAGATATTATATCGTCCAACGTCAGAGAGTAATGCAAATAATTTAAATGATAGGATTACATCAGTTCAAGCAACTGAGCAGTGGACAAATTTTCGTGATACATTTGCATTGAAGATGTTCCAGGATTATCAAGCGCGACATGCCACATAA
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

265

Amino Acids

30.73

Weight (kDa)

9.35

Isoelectric Point (pI)

43.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 36 - 120 1.7e-20 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 142 - 199 2.9e-09 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) 784
AclWI GGATC 1 cut(s) 105
AcsI RAATTY 2 cut(s) 536, 736
AcvI CACGTG 1 cut(s) 89
AfaI GTAC 3 cut(s) 131, 232, 299
AgsI TTSAA 5 cut(s) 158, 251, 629, 716, 760
AjnI CCWGG 2 cut(s) 553, 768
AloI GAACNNNNNNTCC 2 cut(s) 424, 456
AluBI AGCT 2 cut(s) 263, 458
AluI AGCT 2 cut(s) 263, 458
Alw21I GWGCWC 1 cut(s) 424
AlwI GGATC 1 cut(s) 105
AlwNI CAGNNNCTG 1 cut(s) 449
ApeKI GCWGC 1 cut(s) 635
ApoI RAATTY 2 cut(s) 536, 736
Asp700I GAANNNNTTC 1 cut(s) 764
AspA2I CCTAGG 1 cut(s) 511
AspLEI GCGC 3 cut(s) 182, 380, 784
AsuHPI GGTGA 1 cut(s) 503
AvrII CCTAGG 1 cut(s) 511
BaeGI GKGCMC 1 cut(s) 526
BauI CACGAG 1 cut(s) 582
BbrPI CACGTG 1 cut(s) 89
Bbv12I GWGCWC 1 cut(s) 424
BbvCI CCTCAGC 1 cut(s) 459
BbvI GCAGC 1 cut(s) 647
BccI CCATC 3 cut(s) 128, 422, 552
BciT130I CCWGG 2 cut(s) 555, 770
BfaI CTAG 2 cut(s) 416, 512
BisI GCNGC 1 cut(s) 636
BlnI CCTAGG 1 cut(s) 511
BlsI GCNGC 1 cut(s) 637
Bme1390I CCNGG 2 cut(s) 555, 770
BmrFI CCNGG 2 cut(s) 555, 770
BmsI GCATC 2 cut(s) 568, 586
Bpu10I CCTNAGC 1 cut(s) 459
BsaAI YACGTR 2 cut(s) 89, 605
BsaBI GATNNNNATC 1 cut(s) 96
BsaJI CCNNGG 1 cut(s) 511
Bse1I ACTGG 1 cut(s) 443
Bse8I GATNNNNATC 1 cut(s) 96
BseBI CCWGG 2 cut(s) 555, 770
BseDI CCNNGG 1 cut(s) 511
BseGI GGATG 1 cut(s) 563
BseJI GATNNNNATC 1 cut(s) 96
BseMII CTCAG 2 cut(s) 450, 714
BseNI ACTGG 1 cut(s) 443
BseSI GKGCMC 1 cut(s) 526
BseXI GCAGC 1 cut(s) 647
Bsh1236I CGCG 1 cut(s) 784
BsiHKAI GWGCWC 1 cut(s) 424
Bsp1286I GDGCHC 2 cut(s) 424, 526
Bsp143I GATC 1 cut(s) 97
BspCNI CTCAG 2 cut(s) 451, 715
BspFNI CGCG 1 cut(s) 784
BspPI GGATC 1 cut(s) 105
BsrI ACTGG 1 cut(s) 443
BssECI CCNNGG 1 cut(s) 511
BssMI GATC 1 cut(s) 97
BssSI CACGAG 1 cut(s) 582
BssT1I CCWWGG 1 cut(s) 511
Bst2BI CACGAG 1 cut(s) 582
Bst2UI CCWGG 2 cut(s) 555, 770
Bst4CI ACNGT 3 cut(s) 25, 340, 451
Bst6I CTCTTC 1 cut(s) 133
BstBAI YACGTR 2 cut(s) 89, 605
BstDEI CTNAG 3 cut(s) 330, 459, 723
BstF5I GGATG 1 cut(s) 563
BstFNI CGCG 1 cut(s) 784
BstHHI GCGC 3 cut(s) 182, 380, 784
BstKTI GATC 1 cut(s) 100
BstMBI GATC 1 cut(s) 97
BstMWI GCNNNNNNNGC 2 cut(s) 578, 788
BstNI CCWGG 2 cut(s) 555, 770
BstNSI RCATGY 1 cut(s) 791
BstSCI CCNGG 2 cut(s) 553, 768
BstSLI GKGCMC 1 cut(s) 526
BstSNI TACGTA 1 cut(s) 605
BstUI CGCG 1 cut(s) 784
BstV1I GCAGC 1 cut(s) 647
BtsCI GGATG 1 cut(s) 563
BtsI GCAGTG 1 cut(s) 734
BtsIMutI CAGTG 2 cut(s) 450, 734
CaiI CAGNNNCTG 1 cut(s) 449
CfoI GCGC 3 cut(s) 182, 380, 784
Csp6I GTAC 3 cut(s) 130, 231, 298
CviAII CATG 3 cut(s) 209, 623, 788
CviJI RGCY 5 cut(s) 82, 223, 263, 458, 619
CviKI_1 RGCY 5 cut(s) 82, 223, 263, 458, 619
CviQI GTAC 3 cut(s) 130, 231, 298
DdeI CTNAG 3 cut(s) 330, 459, 723
DpnI GATC 1 cut(s) 99
DpnII GATC 1 cut(s) 97
DraI TTTAAA 2 cut(s) 534, 693
Eam1104I CTCTTC 1 cut(s) 133
EarI CTCTTC 1 cut(s) 133
Eco105I TACGTA 1 cut(s) 605
Eco130I CCWWGG 1 cut(s) 511
Eco32I GATATC 1 cut(s) 476
Eco72I CACGTG 1 cut(s) 89
EcoRII CCWGG 2 cut(s) 553, 768
EcoRV GATATC 1 cut(s) 476
EcoT14I CCWWGG 1 cut(s) 511
ErhI CCWWGG 1 cut(s) 511
FaeI CATG 3 cut(s) 212, 626, 791
FalI AAGNNNNNCTT 2 cut(s) 97, 129
FatI CATG 3 cut(s) 208, 622, 787
Fnu4HI GCNGC 1 cut(s) 636
FokI GGATG 1 cut(s) 570
Fsp4HI GCNGC 1 cut(s) 636
FspBI CTAG 2 cut(s) 416, 512
GlaI GCGC 3 cut(s) 181, 379, 783
GluI GCNGC 1 cut(s) 636
HhaI GCGC 3 cut(s) 182, 380, 784
Hin1II CATG 3 cut(s) 212, 626, 791
Hin6I GCGC 3 cut(s) 180, 378, 782
HinP1I GCGC 3 cut(s) 180, 378, 782
HinfI GANTC 2 cut(s) 168, 254
HphI GGTGA 1 cut(s) 503
Hpy166II GTNNAC 1 cut(s) 732
Hpy188I TCNGA 2 cut(s) 577, 673
Hpy188III TCNNGA 3 cut(s) 101, 272, 743
Hpy8I GTNNAC 1 cut(s) 732
HpyAV CCTTC 2 cut(s) 93, 102
HpyCH4III ACNGT 3 cut(s) 25, 340, 451
HpyCH4IV ACGT 5 cut(s) 88, 291, 507, 604, 668
HpyCH4V TGCA 2 cut(s) 683, 755
HpyF10VI GCNNNNNNNGC 2 cut(s) 578, 788
HpyF3I CTNAG 3 cut(s) 330, 459, 723
HpySE526I ACGT 5 cut(s) 88, 291, 507, 604, 668
Hsp92II CATG 3 cut(s) 212, 626, 791
HspAI GCGC 3 cut(s) 180, 378, 782
Kzo9I GATC 1 cut(s) 97
LmnI GCTCC 1 cut(s) 419
LpnPI CCDG 8 cut(s) 209, 257, 456, 540, 540, 567, 755, 782
Lsp1109I GCAGC 1 cut(s) 647
LweI GCATC 2 cut(s) 568, 586
MaeI CTAG 2 cut(s) 416, 512
MaeII ACGT 5 cut(s) 88, 291, 507, 604, 668
MaeIII GTNAC 1 cut(s) 445
MalI GATC 1 cut(s) 99
MboI GATC 1 cut(s) 97
MboII GAAGA 3 cut(s) 150, 263, 772
MhlI GDGCHC 2 cut(s) 424, 526
MluCI AATT 9 cut(s) 6, 161, 306, 350, 358, 409, 536, 688, 736
MlyI GAGTC 1 cut(s) 177
MmeI TCCRAC 1 cut(s) 689
MnlI CCTC 3 cut(s) 136, 454, 556
MroXI GAANNNNTTC 1 cut(s) 764
MseI TTAA 5 cut(s) 41, 75, 119, 533, 692
MslI CAYNNNNRTG 1 cut(s) 443
MspA1I CMGCKG 1 cut(s) 458
MspR9I CCNGG 2 cut(s) 555, 770
MvaI CCWGG 2 cut(s) 555, 770
MvnI CGCG 1 cut(s) 784
MwoI GCNNNNNNNGC 2 cut(s) 578, 788
NdeII GATC 1 cut(s) 97
NlaIII CATG 3 cut(s) 212, 626, 791
NmuCI GTSAC 1 cut(s) 445
NspI RCATGY 1 cut(s) 791
PcsI WCGNNNNNNNCGW 1 cut(s) 589
PdmI GAANNNNTTC 1 cut(s) 764
PfeI GAWTC 1 cut(s) 254
PflFI GACNNNGTC 1 cut(s) 451
PfoI TCCNGGA 1 cut(s) 768
PkrI GCNGC 1 cut(s) 637
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, 605
Psp6I CCWGG 2 cut(s) 553, 768
PspCI CACGTG 1 cut(s) 89
PspGI CCWGG 2 cut(s) 553, 768
PstNI CAGNNNCTG 1 cut(s) 449
PsyI GACNNNGTC 1 cut(s) 451
PvuII CAGCTG 1 cut(s) 458
RsaI GTAC 3 cut(s) 131, 232, 299
RsaNI GTAC 3 cut(s) 130, 231, 298
RseI CAYNNNNRTG 1 cut(s) 443
SaqAI TTAA 5 cut(s) 41, 75, 119, 533, 692
SatI GCNGC 1 cut(s) 636
Sau3AI GATC 1 cut(s) 97
SchI GAGTC 1 cut(s) 177
ScrFI CCNGG 2 cut(s) 555, 770
SduI GDGCHC 2 cut(s) 424, 526
SfaNI GCATC 2 cut(s) 568, 586
SmiI ATTTAAAT 1 cut(s) 693
SmiMI CAYNNNNRTG 1 cut(s) 443
SnaBI TACGTA 1 cut(s) 605
Sse9I AATT 9 cut(s) 6, 161, 306, 350, 358, 409, 536, 688, 736
SspMI CTAG 2 cut(s) 416, 512
StyD4I CCNGG 2 cut(s) 553, 768
StyI CCWWGG 1 cut(s) 511
SwaI ATTTAAAT 1 cut(s) 693
TaaI ACNGT 3 cut(s) 25, 340, 451
TaiI ACGT 5 cut(s) 91, 294, 510, 607, 671
TaqI TCGA 1 cut(s) 478
TasI AATT 9 cut(s) 6, 161, 306, 350, 358, 409, 536, 688, 736
TatI WGTACW 1 cut(s) 297
TfiI GAWTC 1 cut(s) 254
Tru1I TTAA 5 cut(s) 41, 75, 119, 533, 692
Tru9I TTAA 5 cut(s) 41, 75, 119, 533, 692
TscAI CASTG 2 cut(s) 450, 734
TseFI GTSAC 1 cut(s) 445
TseI GCWGC 1 cut(s) 635
Tsp45I GTSAC 1 cut(s) 445
TspDTI ATGAA 3 cut(s) 17, 351, 611
TspRI CASTG 2 cut(s) 450, 734
Tth111I GACNNNGTC 1 cut(s) 451
XapI RAATTY 2 cut(s) 536, 736
XceI RCATGY 1 cut(s) 791
XmaJI CCTAGG 1 cut(s) 511
XmnI GAANNNNTTC 1 cut(s) 764
XspI CTAG 2 cut(s) 416, 512
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.