RchiOBHm_Chr6g0292381
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000469
Physical Location & Seq
Forward (+)
55285320 .. 55288857
3538 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ26237

Sequence Viewer

Length: 777 bp
ATGAAGCCTTCGGAGAATGAATTTAATGGTGTTGCACCGGAGATAATGAGGGATAACAGATACATGCCTCATTTTAAGGATTGCATCGGCGCTATCGACGGAGTGCATATTCCCACTTCTATAGCTCCTGAAAAACAAATACCGTACATTGGTAGAAAAGGAATACGAACACAAAATGTTATGGCGGCATGTAATTTCGATATGCAATTTATCTATGTATGTGCGGGATGGGAAGAGTCTGCTCATGATACAAGAGTGTTTCTCTCGGTACTTCGAGATCCCGTAATGAATTTTCCTAAACCTCCACCAGGAAAATATTATGTTGTAGATTCCGGATACCCTCAAATGAATGGGTTTTTGGGACCTTACAAAGGTCCAAGACAACATTTTCAACAATACCGTAGGCAAGAACCAAGAAATGAAAAAGAGATATTTAACCAAGCACACTCTTCTCTTAGAAGCGTTATAGAATGCACATTTGGAGTTTGGAAAAAAAAGTGGAAGATTTTAAGGGACATGCAAGGTTATTCATTTGATAAGCAAGTGAAGATTGTCATTGCCACCATGACACTTCATAATTATATACGGAGACATGCACATGGTGATAGACATTTTGTCCGCAGTGAAGAAAGAGAAGGTTATGGGTCAAGTGGTGAGATAGAAATGGATGATGATGTAGAAGAAGAATATCATGGTCACGGTGCACAAGAAATGGAAACAATAAGAAATAGCATTACTCAAAGTTTGATGAATGCGCGTAATAACGTGAACATTTGA
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

258

Amino Acids

29.96

Weight (kDa)

7.18

Isoelectric Point (pI)

52.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_1 PF01609 25 - 193 3.6e-11 Transposase DDE domain
DDE_Tnp_4 PF13359 32 - 193 2e-22 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: 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)
AccII CGCG 1 cut(s) 757
AccIII TCCGGA 1 cut(s) 332
AciI CCGC 3 cut(s) 185, 224, 619
AclWI GGATC 1 cut(s) 272
AcsI RAATTY 2 cut(s) 20, 289
AdeI CACNNNGTG 1 cut(s) 602
AfaI GTAC 2 cut(s) 146, 270
AfiI CCNNNNNNNGG 3 cut(s) 149, 308, 371
AgsI TTSAA 1 cut(s) 392
AhdI GACNNNNNGTC 1 cut(s) 614
AjnI CCWGG 1 cut(s) 307
AjuI GAANNNNNNNTTGG 4 cut(s) 341, 373, 462, 494
AluBI AGCT 1 cut(s) 125
AluI AGCT 1 cut(s) 125
Alw21I GWGCWC 1 cut(s) 706
Alw26I GTCTC 1 cut(s) 583
Alw44I GTGCAC 1 cut(s) 702
AlwI GGATC 1 cut(s) 272
Aor13HI TCCGGA 1 cut(s) 332
ApaLI GTGCAC 1 cut(s) 702
ApoI RAATTY 2 cut(s) 20, 289
AspLEI GCGC 2 cut(s) 92, 757
AspS9I GGNCC 2 cut(s) 362, 374
AsuHPI GGTGA 2 cut(s) 614, 665
AvaII GGWCC 2 cut(s) 362, 374
BaeGI GKGCMC 1 cut(s) 706
BaeI ACNNNNGTAYC 2 cut(s) 240, 273
Bbv12I GWGCWC 1 cut(s) 706
BccI CCATC 1 cut(s) 222
BciT130I CCWGG 1 cut(s) 309
BciVI GTATCC 1 cut(s) 329
BcoDI GTCTC 1 cut(s) 583
BfmI CTRYAG 1 cut(s) 120
BfoI RGCGCY 1 cut(s) 93
BfuI GTATCC 1 cut(s) 329
BisI GCNGC 1 cut(s) 186
BlsI GCNGC 1 cut(s) 187
Bme1390I CCNGG 1 cut(s) 309
Bme18I GGWCC 2 cut(s) 362, 374
BmeRI GACNNNNNGTC 1 cut(s) 614
BmgT120I GGNCC 2 cut(s) 362, 374
BmiI GGNNCC 1 cut(s) 363
BmrFI CCNGG 1 cut(s) 309
BmsI GCATC 1 cut(s) 93
BplI GAGNNNNNCTC 2 cut(s) 246, 278
BsaWI WCCGGW 2 cut(s) 37, 332
Bsc4I CCNNNNNNNGG 3 cut(s) 149, 308, 371
Bse3DI GCAATG 1 cut(s) 555
BseAI TCCGGA 1 cut(s) 332
BseBI CCWGG 1 cut(s) 309
BseGI GGATG 2 cut(s) 233, 673
BseLI CCNNNNNNNGG 3 cut(s) 149, 308, 371
BseMI GCAATG 1 cut(s) 555
BseSI GKGCMC 1 cut(s) 706
Bsh1236I CGCG 1 cut(s) 757
BsiHKAI GWGCWC 1 cut(s) 706
BsiSI CCGG 2 cut(s) 38, 333
BslFI GGGAC 2 cut(s) 375, 527
BslI CCNNNNNNNGG 3 cut(s) 149, 308, 371
BsmAI GTCTC 1 cut(s) 583
BsmFI GGGAC 2 cut(s) 375, 527
BsmI GAATGC 2 cut(s) 476, 757
Bsp1286I GDGCHC 1 cut(s) 706
Bsp13I TCCGGA 1 cut(s) 332
Bsp143I GATC 1 cut(s) 277
BspACI CCGC 3 cut(s) 185, 224, 619
BspEI TCCGGA 1 cut(s) 332
BspFNI CGCG 1 cut(s) 757
BspHI TCATGA 1 cut(s) 244
BspLI GGNNCC 1 cut(s) 363
BspPI GGATC 1 cut(s) 272
BsrDI GCAATG 1 cut(s) 555
BssMI GATC 1 cut(s) 277
Bst2UI CCWGG 1 cut(s) 309
Bst4CI ACNGT 3 cut(s) 144, 401, 701
Bst6I CTCTTC 2 cut(s) 228, 454
BstDEI CTNAG 1 cut(s) 455
BstENI CCTNNNNNAGG 2 cut(s) 306, 369
BstF5I GGATG 2 cut(s) 233, 673
BstFNI CGCG 1 cut(s) 757
BstH2I RGCGCY 1 cut(s) 93
BstHHI GCGC 2 cut(s) 92, 757
BstKTI GATC 1 cut(s) 280
BstMAI GTCTC 1 cut(s) 583
BstMBI GATC 1 cut(s) 277
BstNI CCWGG 1 cut(s) 309
BstNSI RCATGY 4 cut(s) 67, 192, 520, 596
BstSCI CCNGG 1 cut(s) 307
BstSFI CTRYAG 1 cut(s) 120
BstSLI GKGCMC 1 cut(s) 706
BstUI CGCG 1 cut(s) 757
BstX2I RGATCY 1 cut(s) 277
BstYI RGATCY 1 cut(s) 277
BsuI GTATCC 1 cut(s) 329
BtsCI GGATG 2 cut(s) 233, 673
BtsI GCAGTG 1 cut(s) 628
BtsIMutI CAGTG 1 cut(s) 628
CciI TCATGA 1 cut(s) 244
CfoI GCGC 2 cut(s) 92, 757
Cfr13I GGNCC 2 cut(s) 362, 374
Csp6I GTAC 2 cut(s) 145, 269
CviAII CATG 8 cut(s) 64, 189, 245, 517, 565, 593, 599, 692
CviJI RGCY 2 cut(s) 7, 125
CviKI_1 RGCY 2 cut(s) 7, 125
CviQI GTAC 2 cut(s) 145, 269
DdeI CTNAG 1 cut(s) 455
DpnI GATC 1 cut(s) 279
DpnII GATC 1 cut(s) 277
DraIII CACNNNGTG 1 cut(s) 602
DriI GACNNNNNGTC 1 cut(s) 614
Eam1104I CTCTTC 2 cut(s) 228, 454
Eam1105I GACNNNNNGTC 1 cut(s) 614
EarI CTCTTC 2 cut(s) 228, 454
Eco47I GGWCC 2 cut(s) 362, 374
EcoNI CCTNNNNNAGG 2 cut(s) 306, 369
EcoO109I RGGNCCY 1 cut(s) 362
EcoRII CCWGG 1 cut(s) 307
FaeI CATG 8 cut(s) 67, 192, 248, 520, 568, 596, 602, 695
FaqI GGGAC 2 cut(s) 375, 527
FatI CATG 8 cut(s) 63, 188, 244, 516, 564, 592, 598, 691
FauI CCCGC 1 cut(s) 217
Fnu4HI GCNGC 1 cut(s) 186
FokI GGATG 2 cut(s) 240, 680
Fsp4HI GCNGC 1 cut(s) 186
GlaI GCGC 2 cut(s) 91, 756
GluI GCNGC 1 cut(s) 186
HaeII RGCGCY 1 cut(s) 93
HapII CCGG 2 cut(s) 38, 333
HhaI GCGC 2 cut(s) 92, 757
Hin1II CATG 8 cut(s) 67, 192, 248, 520, 568, 596, 602, 695
Hin6I GCGC 2 cut(s) 90, 755
HinP1I GCGC 2 cut(s) 90, 755
HinfI GANTC 2 cut(s) 236, 329
HpaII CCGG 2 cut(s) 38, 333
HphI GGTGA 2 cut(s) 614, 665
Hpy166II GTNNAC 2 cut(s) 704, 769
Hpy188I TCNGA 1 cut(s) 13
Hpy188III TCNNGA 4 cut(s) 128, 245, 275, 333
Hpy8I GTNNAC 2 cut(s) 704, 769
Hpy99I CGWCG 1 cut(s) 101
HpyAV CCTTC 2 cut(s) 18, 629
HpyCH4III ACNGT 3 cut(s) 144, 401, 701
HpyCH4IV ACGT 1 cut(s) 765
HpyCH4V TGCA 8 cut(s) 35, 84, 106, 205, 474, 520, 596, 704
HpyF3I CTNAG 1 cut(s) 455
HpySE526I ACGT 1 cut(s) 765
Hsp92II CATG 8 cut(s) 67, 192, 248, 520, 568, 596, 602, 695
HspAI GCGC 2 cut(s) 90, 755
Kpn2I TCCGGA 1 cut(s) 332
Kzo9I GATC 1 cut(s) 277
LmnI GCTCC 1 cut(s) 130
LpnPI CCDG 5 cut(s) 51, 141, 294, 321, 346
LweI GCATC 1 cut(s) 93
MaeII ACGT 1 cut(s) 765
MaeIII GTNAC 1 cut(s) 695
MalI GATC 1 cut(s) 279
MboI GATC 1 cut(s) 277
MboII GAAGA 7 cut(s) 245, 441, 514, 559, 638, 692, 695
MflI RGATCY 1 cut(s) 277
MhlI GDGCHC 1 cut(s) 706
MluCI AATT 5 cut(s) 20, 193, 206, 289, 577
MlyI GAGTC 1 cut(s) 245
MnlI CCTC 4 cut(s) 42, 78, 312, 351
MroI TCCGGA 1 cut(s) 332
MseI TTAA 4 cut(s) 24, 75, 435, 509
MslI CAYNNNNRTG 1 cut(s) 597
MspI CCGG 2 cut(s) 38, 333
MspR9I CCNGG 1 cut(s) 309
Mva1269I GAATGC 2 cut(s) 476, 757
MvaI CCWGG 1 cut(s) 309
MvnI CGCG 1 cut(s) 757
NdeII GATC 1 cut(s) 277
NlaIII CATG 8 cut(s) 67, 192, 248, 520, 568, 596, 602, 695
NlaIV GGNNCC 1 cut(s) 363
NmuCI GTSAC 1 cut(s) 695
NspI RCATGY 4 cut(s) 67, 192, 520, 596
PagI TCATGA 1 cut(s) 244
PcsI WCGNNNNNNNCGW 1 cut(s) 93
PctI GAATGC 2 cut(s) 476, 757
PfeI GAWTC 1 cut(s) 329
PkrI GCNGC 1 cut(s) 187
PleI GAGTC 1 cut(s) 244
PpsI GAGTC 1 cut(s) 244
PpuMI RGGWCCY 1 cut(s) 362
Psp5II RGGWCCY 1 cut(s) 362
Psp6I CCWGG 1 cut(s) 307
PspGI CCWGG 1 cut(s) 307
PspN4I GGNNCC 1 cut(s) 363
PspPI GGNCC 2 cut(s) 362, 374
PspPPI RGGWCCY 1 cut(s) 362
PsuI RGATCY 1 cut(s) 277
RsaI GTAC 2 cut(s) 146, 270
RsaNI GTAC 2 cut(s) 145, 269
RseI CAYNNNNRTG 1 cut(s) 597
SaqAI TTAA 4 cut(s) 24, 75, 435, 509
SatI GCNGC 1 cut(s) 186
Sau3AI GATC 1 cut(s) 277
Sau96I GGNCC 2 cut(s) 362, 374
SchI GAGTC 1 cut(s) 245
ScrFI CCNGG 1 cut(s) 309
SduI GDGCHC 1 cut(s) 706
SetI ASST 7 cut(s) 127, 304, 367, 376, 526, 640, 768
SfaNI GCATC 1 cut(s) 93
SfcI CTRYAG 1 cut(s) 120
SinI GGWCC 2 cut(s) 362, 374
SmiMI CAYNNNNRTG 1 cut(s) 597
Sse9I AATT 5 cut(s) 20, 193, 206, 289, 577
SsiI CCGC 3 cut(s) 185, 224, 619
SspI AATATT 1 cut(s) 317
StyD4I CCNGG 1 cut(s) 307
TaaI ACNGT 3 cut(s) 144, 401, 701
TaiI ACGT 1 cut(s) 768
TaqI TCGA 3 cut(s) 96, 198, 274
TasI AATT 5 cut(s) 20, 193, 206, 289, 577
TauI GCSGC 1 cut(s) 188
TfiI GAWTC 1 cut(s) 329
Tru1I TTAA 4 cut(s) 24, 75, 435, 509
Tru9I TTAA 4 cut(s) 24, 75, 435, 509
TscAI CASTG 1 cut(s) 628
TseFI GTSAC 1 cut(s) 695
Tsp45I GTSAC 1 cut(s) 695
TspDTI ATGAA 8 cut(s) 17, 33, 302, 362, 435, 519, 563, 764
TspGWI ACGGA 2 cut(s) 114, 601
TspRI CASTG 1 cut(s) 628
VneI GTGCAC 1 cut(s) 702
VpaK11BI GGWCC 2 cut(s) 362, 374
XagI CCTNNNNNAGG 2 cut(s) 306, 369
XapI RAATTY 2 cut(s) 20, 289
XceI RCATGY 4 cut(s) 67, 192, 520, 596
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.