Rw6G022950
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000469
Physical Location & Seq
Reverse (-)
45173570 .. 45174432
863 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G022950.1

Sequence Viewer

Length: 783 bp
ATGAACAATTCGGGAGTAGATGAAGTTGAGGAGGAGATATTCTTACGAAGTGTACAGCTTAATGCTCTGCTCATCCAACATTATTATATGAACTATGTTCATAAAACTCCTTGCATGGTATCTCCGCAAACAGGTAATAAGTGGATAATGGAAGTATTACGAGGGAATGACAGTCGGTGTTACAATCAATTTAGAATGCAAAAGGATGTATTTTATCGGTTATGTAGCGATTTGGAAGTCAAATTTGGGGTGTTGGGTTCAAACAGGACAAGTCATGTTGAAGTAGTGGGAATGCTATTGTTTTGCCTAGGACAGGGATGTGGAAATAGGTCAGCAGCAGAACGATTTCAACATTCTGGTGAAACTGTTTCTAGATATTTTGGAAAGGCTCTAGATCTTTTGTGTGAACTAGCTAAAGATATTGTCAAGCCGCCGGATCCCCAATTTAATGGGGTTGCACCAGAGATAATGAGGGATAAGAGATACATGCCGCATTTTAAGGATTGTATTGGGGCTATCGATGGAGTGCATATTCCCGCTTCAATAGCTCCTCAAGATCAAATACCGTACATTGGTAGAAAAGGAATACCAACTCAAAACATTATGGCAGCATGTAATTTTGATATGCAATTTACCTTTGTATGTGCGGGTTGGGAAGGGTCTGCTCATGATACAAGAGTGTTTCTATCGGTTCTTCGAAATCCCGATTGGAATTTTCCTAAACCACCACCGGGTAATATATTTAATTATAGTTTTTTTTTTTGTAATTCTTTAATGCTATGA
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 Myb_DNA-bind_3

Protein Analysis

260

Amino Acids

29.56

Weight (kDa)

6.64

Isoelectric Point (pI)

41.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 41 - 135 3.7e-31 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 173 - 228 2.8e-06 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: OG0000469)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G43722 AT3G30525 AT5G28730
fragaria_vesca FvH4_1g10461 FvH4_1g19401 FvH4_2g04530 FvH4_2g04530 FvH4_2g11121 FvH4_2g13361 FvH4_3g21471 FvH4_3g26161 FvH4_3g29911 FvH4_4g20922 FvH4_4g30624 FvH4_5g23912 FvH4_6g30381 FvH4_6g53026 FvH4_7g00061 FvH4_7g19211 FvH4_7g19211
malus_domestica MD06G1090500.v1.1 MD08G1193900.v1.1 MD11G1151600.v1.1 MD16G1281600.v1.1
prunus_persica Prupe.1G096200_v2.0.a1 Prupe.1G189200_v2.0.a1 Prupe.1G198400_v2.0.a1 Prupe.6G167200_v2.0.a1 Prupe.6G192900_v2.0.a1
pyrus_communis pycom02g00900 pycom06g03500 pycom07g13740 pycom11g10040 pycom17g21680 pycom520g00090
rosa_chinensis RchiOBHm_Chr1g0354781 RchiOBHm_Chr2g0085491 RchiOBHm_Chr2g0103971 RchiOBHm_Chr2g0145791 RchiOBHm_Chr4g0414051 RchiOBHm_Chr4g0419691 RchiOBHm_Chr4g0435871 RchiOBHm_Chr6g0292381 RchiOBHm_Chr7g0199291
rosa_laevigata RLG00000035604
rosa_multiflora Rmu_co8287949.1_g000001 Rmu_sc0000079.1_g000057 Rmu_sc0000240.1_g000063 Rmu_sc0000552.1_g000020 Rmu_sc0000950.1_g000002 Rmu_sc0001257.1_g000003 Rmu_sc0001597.1_g000014 Rmu_sc0001939.1_g000006 Rmu_sc0002160.1_g000015 Rmu_sc0003526.1_g000015 Rmu_sc0005712.1_g000025 Rmu_sc0006032.1_g000011 Rmu_sc0006935.1_g000005 Rmu_sc0008636.1_g000002 Rmu_sc0009205.1_g000006 Rmu_sc0009438.1_g000007 Rmu_ssc0000486.1_g000013
rosa_roxburghii Rroxscaffold_1G00003870 Rroxscaffold_1G00014970 Rroxscaffold_3G00218750 Rroxscaffold_5G00367160 Rroxscaffold_7G00186480
rosa_rugosa Rorug05G0192000
rosa_samantha Rh4BG219200
rosa_wichuraiana Rw1G010350 Rw1G014480 Rw1G023690 Rw1G033480 Rw2G050290 Rw3G027480 Rw4G033650 Rw5G005670 Rw5G021010 Rw5G021860 Rw5G041260 Rw5G041760 Rw6G008410 Rw6G021080 Rw6G022950 Rw6G025480 Rw6G028700 Rw7G002710 Rw7G004940 Rw7G031510 Rw7G041110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 5 cut(s) 125, 431, 491, 537, 647
AclWI GGATC 2 cut(s) 431, 444
AcsI RAATTY 2 cut(s) 242, 712
AfaI GTAC 2 cut(s) 54, 569
AfiI CCNNNNNNNGG 4 cut(s) 131, 313, 572, 731
AgsI TTSAA 4 cut(s) 261, 281, 350, 543
AjuI GAANNNNNNNTTGG 4 cut(s) 228, 260, 691, 723
AluBI AGCT 3 cut(s) 58, 413, 548
AluI AGCT 3 cut(s) 58, 413, 548
AlwI GGATC 2 cut(s) 431, 444
ApeKI GCWGC 2 cut(s) 335, 608
ApoI RAATTY 2 cut(s) 242, 712
Asp700I GAANNNNTTC 1 cut(s) 345
AspA2I CCTAGG 1 cut(s) 307
AsuC2I CCSGG 1 cut(s) 732
AsuHPI GGTGA 1 cut(s) 371
AsuII TTCGAA 1 cut(s) 697
AvrII CCTAGG 1 cut(s) 307
BaeI ACNNNNGTAYC 2 cut(s) 663, 696
BamHI GGATCC 1 cut(s) 436
BbvI GCAGC 2 cut(s) 347, 620
BccI CCATC 1 cut(s) 515
BcnI CCSGG 1 cut(s) 732
BfaI CTAG 4 cut(s) 308, 372, 392, 410
BglII AGATCT 1 cut(s) 394
BisI GCNGC 4 cut(s) 336, 431, 491, 609
BlnI CCTAGG 1 cut(s) 307
BlsI GCNGC 4 cut(s) 337, 432, 492, 610
Bme1390I CCNGG 1 cut(s) 732
BmiI GGNNCC 1 cut(s) 438
BmrFI CCNGG 1 cut(s) 732
Bpu14I TTCGAA 1 cut(s) 697
BpuEI CTTGAG 1 cut(s) 537
BpuMI CCSGG 1 cut(s) 732
Bsa29I ATCGAT 1 cut(s) 519
BsaJI CCNNGG 1 cut(s) 307
Bsc4I CCNNNNNNNGG 4 cut(s) 131, 313, 572, 731
BseCI ATCGAT 1 cut(s) 519
BseDI CCNNGG 1 cut(s) 307
BseGI GGATG 3 cut(s) 72, 211, 323
BseLI CCNNNNNNNGG 4 cut(s) 131, 313, 572, 731
BseRI GAGGAG 3 cut(s) 44, 47, 540
BseXI GCAGC 2 cut(s) 347, 620
BshVI ATCGAT 1 cut(s) 519
BsiSI CCGG 2 cut(s) 434, 731
BslI CCNNNNNNNGG 4 cut(s) 131, 313, 572, 731
BsmI GAATGC 2 cut(s) 201, 297
Bsp119I TTCGAA 1 cut(s) 697
Bsp1407I TGTACA 1 cut(s) 52
Bsp143I GATC 3 cut(s) 394, 436, 556
BspACI CCGC 5 cut(s) 125, 431, 491, 537, 647
BspDI ATCGAT 1 cut(s) 519
BspHI TCATGA 1 cut(s) 667
BspLI GGNNCC 1 cut(s) 438
BspPI GGATC 2 cut(s) 431, 444
BspT104I TTCGAA 1 cut(s) 697
BsrGI TGTACA 1 cut(s) 52
BssECI CCNNGG 1 cut(s) 307
BssMI GATC 3 cut(s) 394, 436, 556
BssT1I CCWWGG 1 cut(s) 307
Bst4CI ACNGT 3 cut(s) 173, 367, 567
BstAUI TGTACA 1 cut(s) 52
BstBI TTCGAA 1 cut(s) 697
BstENI CCTNNNNNAGG 1 cut(s) 311
BstF5I GGATG 3 cut(s) 72, 211, 323
BstKTI GATC 3 cut(s) 397, 439, 559
BstMBI GATC 3 cut(s) 394, 436, 556
BstMWI GCNNNNNNNGC 1 cut(s) 545
BstNSI RCATGY 2 cut(s) 490, 615
BstSCI CCNGG 1 cut(s) 730
BstV1I GCAGC 2 cut(s) 347, 620
BstX2I RGATCY 2 cut(s) 394, 436
BstXI CCANNNNNNTGG 1 cut(s) 449
BstYI RGATCY 2 cut(s) 394, 436
Bsu15I ATCGAT 1 cut(s) 519
BsuTUI ATCGAT 1 cut(s) 519
BtsCI GGATG 3 cut(s) 72, 211, 323
CciI TCATGA 1 cut(s) 667
ClaI ATCGAT 1 cut(s) 519
Csp6I GTAC 2 cut(s) 53, 568
CviAII CATG 5 cut(s) 115, 275, 487, 612, 668
CviJI RGCY 6 cut(s) 58, 389, 413, 430, 515, 548
CviKI_1 RGCY 6 cut(s) 58, 389, 413, 430, 515, 548
CviQI GTAC 2 cut(s) 53, 568
DpnI GATC 3 cut(s) 396, 438, 558
DpnII GATC 3 cut(s) 394, 436, 556
Eco130I CCWWGG 1 cut(s) 307
EcoNI CCTNNNNNAGG 1 cut(s) 311
EcoT14I CCWWGG 1 cut(s) 307
ErhI CCWWGG 1 cut(s) 307
FaeI CATG 5 cut(s) 118, 278, 490, 615, 671
FatI CATG 5 cut(s) 114, 274, 486, 611, 667
FauI CCCGC 2 cut(s) 544, 640
Fnu4HI GCNGC 4 cut(s) 336, 431, 491, 609
FokI GGATG 3 cut(s) 59, 218, 330
Fsp4HI GCNGC 4 cut(s) 336, 431, 491, 609
FspBI CTAG 4 cut(s) 308, 372, 392, 410
GluI GCNGC 4 cut(s) 336, 431, 491, 609
HapII CCGG 2 cut(s) 434, 731
Hin1II CATG 5 cut(s) 118, 278, 490, 615, 671
HpaII CCGG 2 cut(s) 434, 731
HphI GGTGA 1 cut(s) 371
Hpy166II GTNNAC 2 cut(s) 53, 407
Hpy188III TCNNGA 6 cut(s) 12, 372, 392, 554, 668, 704
Hpy8I GTNNAC 2 cut(s) 53, 407
HpyAV CCTTC 1 cut(s) 650
HpyCH4III ACNGT 3 cut(s) 173, 367, 567
HpyCH4V TGCA 5 cut(s) 114, 199, 458, 529, 628
HpyF10VI GCNNNNNNNGC 1 cut(s) 545
Hsp92II CATG 5 cut(s) 118, 278, 490, 615, 671
Kzo9I GATC 3 cut(s) 394, 436, 556
LmnI GCTCC 1 cut(s) 553
LpnPI CCDG 7 cut(s) 117, 250, 299, 342, 447, 474, 744
Lsp1109I GCAGC 2 cut(s) 347, 620
MaeI CTAG 4 cut(s) 308, 372, 392, 410
MaeIII GTNAC 1 cut(s) 179
MalI GATC 3 cut(s) 396, 438, 558
MboI GATC 3 cut(s) 394, 436, 556
MboII GAAGA 1 cut(s) 686
MflI RGATCY 2 cut(s) 394, 436
MluCI AATT 9 cut(s) 7, 188, 242, 443, 616, 629, 712, 745, 766
MmeI TCCRAC 1 cut(s) 100
MnlI CCTC 5 cut(s) 22, 25, 155, 465, 561
MroXI GAANNNNTTC 1 cut(s) 345
MseI TTAA 5 cut(s) 60, 447, 498, 744, 773
MslI CAYNNNNRTG 1 cut(s) 357
MspI CCGG 2 cut(s) 434, 731
MspR9I CCNGG 1 cut(s) 732
Mva1269I GAATGC 2 cut(s) 201, 297
MwoI GCNNNNNNNGC 1 cut(s) 545
NciI CCSGG 1 cut(s) 732
NdeII GATC 3 cut(s) 394, 436, 556
NlaIII CATG 5 cut(s) 118, 278, 490, 615, 671
NlaIV GGNNCC 1 cut(s) 438
NspI RCATGY 2 cut(s) 490, 615
NspV TTCGAA 1 cut(s) 697
PagI TCATGA 1 cut(s) 667
PctI GAATGC 2 cut(s) 201, 297
PdmI GAANNNNTTC 1 cut(s) 345
PkrI GCNGC 4 cut(s) 337, 432, 492, 610
PspN4I GGNNCC 1 cut(s) 438
PsuI RGATCY 2 cut(s) 394, 436
RsaI GTAC 2 cut(s) 54, 569
RsaNI GTAC 2 cut(s) 53, 568
RseI CAYNNNNRTG 1 cut(s) 357
SaqAI TTAA 5 cut(s) 60, 447, 498, 744, 773
SatI GCNGC 4 cut(s) 336, 431, 491, 609
Sau3AI GATC 3 cut(s) 394, 436, 556
ScrFI CCNGG 1 cut(s) 732
SetI ASST 6 cut(s) 60, 136, 332, 415, 550, 638
SfuI TTCGAA 1 cut(s) 697
SmiMI CAYNNNNRTG 1 cut(s) 357
SmlI CTYRAG 1 cut(s) 552
SmoI CTYRAG 1 cut(s) 552
Sse9I AATT 9 cut(s) 7, 188, 242, 443, 616, 629, 712, 745, 766
SsiI CCGC 5 cut(s) 125, 431, 491, 537, 647
SspMI CTAG 4 cut(s) 308, 372, 392, 410
StyD4I CCNGG 1 cut(s) 730
StyI CCWWGG 1 cut(s) 307
TaaI ACNGT 3 cut(s) 173, 367, 567
TaqI TCGA 2 cut(s) 519, 697
TasI AATT 9 cut(s) 7, 188, 242, 443, 616, 629, 712, 745, 766
TatI WGTACW 1 cut(s) 52
TauI GCSGC 2 cut(s) 433, 493
Tru1I TTAA 5 cut(s) 60, 447, 498, 744, 773
Tru9I TTAA 5 cut(s) 60, 447, 498, 744, 773
TseI GCWGC 2 cut(s) 335, 608
TspDTI ATGAA 4 cut(s) 17, 36, 89, 104
XagI CCTNNNNNAGG 1 cut(s) 311
XapI RAATTY 2 cut(s) 242, 712
XbaI TCTAGA 2 cut(s) 371, 391
XceI RCATGY 2 cut(s) 490, 615
XmaJI CCTAGG 1 cut(s) 307
XmnI GAANNNNTTC 1 cut(s) 345
XspI CTAG 4 cut(s) 308, 372, 392, 410
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.