Rw3G012210

DDT domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000638
Physical Location & Seq
Reverse (-)
12010290 .. 12012986
2697 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G012210.1

Sequence Viewer

Length: 675 bp
ATGGAGTTCGTCGGGAGAAGTGTGAGGAAAGAGTTCAAAGGCCTCGGAATCGTCAAAACCTACTCTGCCTCATGTGGCTTCTTCCACGTTATTTATGAAGACGGAAATGATGAGGAATTGGACTTGGCTGAGCTGTCTCTACTCCTCGTTCAGGTCCAGATCGTGCCTCTGCATCCCTTTGATGGTGAGCTGGTTCAGATCCATGGCATTCTTGATCTGGATCCCGCGCCTGGCCTCGAGTTTCTTGGCGACCTTGGCCATGTTGGTGCCGAGGACGGTGACCCTAGGATTTTGGAAGAAGGCCTTGACGACCTTGGGCGCGTCATCGTAGGGAAGCTCATCGGACCACCATGGGCAGTATTCGGGGCCAGGGAGCTCTTACATGAGGCAGTGGGAGCCGACGCAGAGGGTGAGGAAGTCGAAGGTCTGGTCGGTTTCGTCGTAGGGGCGGGAGCAGTAGAAGGGGGAGTGTTGCTCGGCGACGAGGCCGACGAAGATGGAGTCGGGGCTGAAGGTGGTGGGGGTGCCGGGGAGAGGAGGCTTGGTGTTGGAGGCTTTGGAGAGGAGGACCTCCTTGAGCTACTTGGAGGCGACGGCTTCGTTGTCGGTGAGGACGGTGAGGATGCGCTTGGAGTCCACGTGGACGGGAAAGTGCGCGAGTCGATGAGGATTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000122 GO:0000228 GO:0000785 GO:0000790 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005737 GO:0006139 GO:0006325 GO:0006338 GO:0006351 GO:0006355 GO:0006357 GO:0006725 GO:0006807 GO:0006996 GO:0007275 GO:0007399 GO:0007417 GO:0007420 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010629 GO:0016043 GO:0016070 GO:0016589 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031010 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0045892 GO:0045893 GO:0045934 GO:0045935 GO:0046483 GO:0048513 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051173 GO:0051252 GO:0051253 GO:0051254 GO:0051276 GO:0060255 GO:0060322 GO:0065007 GO:0070013 GO:0070603 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1902679 GO:1902680 GO:1903506 GO:1903507 GO:1903508 GO:1904949 GO:2000112 GO:2000113 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DDT PHD WHIM1

Protein Analysis

224

Amino Acids

23.32

Weight (kDa)

4.14

Isoelectric Point (pI)

20.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PTM_DIR17_Tudor PF21743 5 - 47 1.1e-10 PTM/DIR17-like, Tudor domain
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: OG0000638)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g19301 FvH4_6g12520 FvH4_6g12520 FvH4_6g12550 FvH4_6g12560 FvH4_6g12580
malus_domestica MD04G1140700.v1.1 MD04G1141300.v1.1 MD04G1141400.v1.1 MD04G1141500.v1.1 MD12G1156200.v1.1
prunus_persica Prupe.6G265900_v2.0.a1 Prupe.6G266600_v2.0.a1 Prupe.6G266700_v2.0.a1 Prupe.6G266900_v2.0.a1 Prupe.6G267000_v2.0.a1
pyrus_communis pycom04g12860
rosa_chinensis RchiOBHm_Chr2g0160211 RchiOBHm_Chr3g0464331 RchiOBHm_Chr3g0464341 RchiOBHm_Chr3g0464361 RchiOBHm_Chr3g0464371 RchiOBHm_Chr3g0464421 RchiOBHm_Chr3g0464441
rosa_laevigata RLG00000001199 RLG00000007070 RLG00000015964 RLG00000020699 RLG00000024697 RLG00000024699 RLG00000024701 RLG00000024702 RLG00000024703 RLG00000024705 RLG00000027329 RLG00000034971 RLG00000035066
rosa_multiflora Rmu_sc0003074.1_g000014 Rmu_sc0003074.1_g000020 Rmu_sc0003074.1_g000024 Rmu_sc0003074.1_g000025 Rmu_sc0003074.1_g000027 Rmu_sc0003074.1_g000029 Rmu_sc0039307.1_g000001
rosa_roxburghii Rroxscaffold_1G00025190 Rroxscaffold_2G00078980 Rroxscaffold_6G00415680 Rroxscaffold_6G00415710 Rroxscaffold_6G00415740 Rroxscaffold_6G00415770 Rroxscaffold_6G00415800
rosa_rugosa Rorug03G0071500 Rorug03G0071700 Rorug03G0071800 Rorug03G0072300
rosa_samantha Rh3BG133600 Rh3BG133700 Rh3BG133800 Rh3BG133900 Rh3BG134100 Rh3BG134200 Rh3CG135900 Rh3CG136100 Rh3CG136200 Rh3CG136300 Rh3CG136600 Rh3DG135100 Rh3DG135200 Rh3DG135300 Rh3DG135400 Rh3DG135600 Rh4BG384400 Rh5CG268300
rosa_wichuraiana Rw3G010950 Rw3G010960 Rw3G010970 Rw3G010980 Rw3G012210

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 266, 524
AccII CGCG 3 cut(s) 227, 321, 657
AciI CCGC 2 cut(s) 225, 449
AclWI GGATC 3 cut(s) 193, 215, 228
AcoI YGGCCR 1 cut(s) 256
AcuI CTGAAG 1 cut(s) 531
AcvI CACGTG 1 cut(s) 640
AfiI CCNNNNNNNGG 4 cut(s) 151, 182, 230, 534
AgsI TTSAA 1 cut(s) 37
AjnI CCWGG 2 cut(s) 229, 368
AluBI AGCT 5 cut(s) 133, 190, 337, 376, 580
AluI AGCT 5 cut(s) 133, 190, 337, 376, 580
Alw21I GWGCWC 1 cut(s) 378
Alw26I GTCTC 1 cut(s) 141
AlwI GGATC 3 cut(s) 193, 215, 228
Ama87I CYCGRG 1 cut(s) 236
AoxI GGCC 6 cut(s) 40, 232, 256, 301, 366, 486
ArsI GACNNNNNNTTYG 4 cut(s) 414, 446, 486, 518
Asp700I GAANNNNTTC 1 cut(s) 32
AspA2I CCTAGG 1 cut(s) 284
AspLEI GCGC 4 cut(s) 229, 321, 628, 657
AspS9I GGNCC 4 cut(s) 154, 344, 366, 568
AsuC2I CCSGG 1 cut(s) 529
AsuHPI GGTGA 5 cut(s) 197, 290, 422, 620, 629
AvaI CYCGRG 1 cut(s) 236
AvaII GGWCC 3 cut(s) 154, 344, 568
AvrII CCTAGG 1 cut(s) 284
BalI TGGCCA 1 cut(s) 258
BamHI GGATCC 1 cut(s) 220
BanI GGYRCC 2 cut(s) 266, 524
BanII GRGCYC 1 cut(s) 378
BbrPI CACGTG 1 cut(s) 640
BbsI GAAGAC 1 cut(s) 105
Bbv12I GWGCWC 1 cut(s) 378
BccI CCATC 2 cut(s) 176, 491
BceAI ACGGC 1 cut(s) 610
BciT130I CCWGG 2 cut(s) 231, 370
BcnI CCSGG 1 cut(s) 529
BcoDI GTCTC 1 cut(s) 141
BfaI CTAG 1 cut(s) 285
BlnI CCTAGG 1 cut(s) 284
BlpI GCTNAGC 1 cut(s) 129
Bme1390I CCNGG 3 cut(s) 231, 370, 529
Bme18I GGWCC 3 cut(s) 154, 344, 568
BmeT110I CYCGRG 1 cut(s) 236
BmgT120I GGNCC 4 cut(s) 154, 344, 366, 568
BmiI GGNNCC 5 cut(s) 222, 268, 367, 397, 526
BmrFI CCNGG 3 cut(s) 231, 370, 529
BmsI GCATC 2 cut(s) 181, 613
BpiI GAAGAC 1 cut(s) 105
BplI GAGNNNNNCTC 2 cut(s) 459, 491
Bpu1102I GCTNAGC 1 cut(s) 129
BpuEI CTTGAG 1 cut(s) 596
BpuMI CCSGG 1 cut(s) 529
BsaAI YACGTR 1 cut(s) 640
BsaBI GATNNNNATC 1 cut(s) 219
BsaJI CCNNGG 9 cut(s) 43, 202, 253, 270, 284, 313, 350, 369, 528
BsaXI ACNNNNNCTCC 4 cut(s) 529, 559, 624, 654
Bsc4I CCNNNNNNNGG 4 cut(s) 151, 182, 230, 534
Bse8I GATNNNNATC 1 cut(s) 219
BseBI CCWGG 2 cut(s) 231, 370
BseDI CCNNGG 9 cut(s) 43, 202, 253, 270, 284, 313, 350, 369, 528
BseGI GGATG 2 cut(s) 172, 628
BseJI GATNNNNATC 1 cut(s) 219
BseLI CCNNNNNNNGG 4 cut(s) 151, 182, 230, 534
BseMII CTCAG 1 cut(s) 120
BseRI GAGGAG 3 cut(s) 134, 550, 578
Bsh1236I CGCG 3 cut(s) 227, 321, 657
BshFI GGCC 6 cut(s) 42, 234, 258, 303, 368, 488
BshNI GGYRCC 2 cut(s) 266, 524
BsiHKAI GWGCWC 1 cut(s) 378
BsiHKCI CYCGRG 1 cut(s) 236
BsiSI CCGG 1 cut(s) 528
BslI CCNNNNNNNGG 4 cut(s) 151, 182, 230, 534
BsmAI GTCTC 1 cut(s) 141
BsmI GAATGC 1 cut(s) 207
BsnI GGCC 6 cut(s) 42, 234, 258, 303, 368, 488
BsoBI CYCGRG 1 cut(s) 236
Bsp1286I GDGCHC 1 cut(s) 378
Bsp143I GATC 4 cut(s) 159, 198, 214, 220
Bsp1720I GCTNAGC 1 cut(s) 129
Bsp19I CCATGG 2 cut(s) 202, 350
BspACI CCGC 2 cut(s) 225, 449
BspANI GGCC 6 cut(s) 42, 234, 258, 303, 368, 488
BspCNI CTCAG 1 cut(s) 121
BspFNI CGCG 3 cut(s) 227, 321, 657
BspLI GGNNCC 5 cut(s) 222, 268, 367, 397, 526
BspPI GGATC 3 cut(s) 193, 215, 228
BspT107I GGYRCC 2 cut(s) 266, 524
BssECI CCNNGG 9 cut(s) 43, 202, 253, 270, 284, 313, 350, 369, 528
BssMI GATC 4 cut(s) 159, 198, 214, 220
BssT1I CCWWGG 5 cut(s) 202, 253, 284, 313, 350
Bst2UI CCWGG 2 cut(s) 231, 370
Bst4CI ACNGT 2 cut(s) 278, 617
BstBAI YACGTR 1 cut(s) 640
BstDEI CTNAG 1 cut(s) 129
BstDSI CCRYGG 2 cut(s) 202, 350
BstEII GGTNACC 1 cut(s) 278
BstENI CCTNNNNNAGG 1 cut(s) 149
BstF5I GGATG 2 cut(s) 172, 628
BstFNI CGCG 3 cut(s) 227, 321, 657
BstHHI GCGC 4 cut(s) 229, 321, 628, 657
BstKTI GATC 4 cut(s) 162, 201, 217, 223
BstMAI GTCTC 1 cut(s) 141
BstMBI GATC 4 cut(s) 159, 198, 214, 220
BstMWI GCNNNNNNNGC 2 cut(s) 255, 395
BstNI CCWGG 2 cut(s) 231, 370
BstPI GGTNACC 1 cut(s) 278
BstSCI CCNGG 3 cut(s) 229, 368, 527
BstUI CGCG 3 cut(s) 227, 321, 657
BstV2I GAAGAC 1 cut(s) 105
BstX2I RGATCY 2 cut(s) 198, 220
BstYI RGATCY 2 cut(s) 198, 220
BsuRI GGCC 6 cut(s) 42, 234, 258, 303, 368, 488
BtgI CCRYGG 2 cut(s) 202, 350
BtsCI GGATG 2 cut(s) 172, 628
BtsI GCAGTG 1 cut(s) 396
BtsIMutI CAGTG 1 cut(s) 396
CfoI GCGC 4 cut(s) 229, 321, 628, 657
Cfr13I GGNCC 4 cut(s) 154, 344, 366, 568
CseI GACGC 2 cut(s) 310, 410
CviAII CATG 5 cut(s) 72, 203, 260, 351, 383
DdeI CTNAG 1 cut(s) 129
DpnI GATC 4 cut(s) 161, 200, 216, 222
DpnII GATC 4 cut(s) 159, 198, 214, 220
EaeI YGGCCR 1 cut(s) 256
Ecl136II GAGCTC 1 cut(s) 376
Eco130I CCWWGG 5 cut(s) 202, 253, 284, 313, 350
Eco147I AGGCCT 2 cut(s) 42, 303
Eco24I GRGCYC 1 cut(s) 378
Eco47I GGWCC 3 cut(s) 154, 344, 568
Eco53kI GAGCTC 1 cut(s) 376
Eco57I CTGAAG 1 cut(s) 531
Eco72I CACGTG 1 cut(s) 640
Eco88I CYCGRG 1 cut(s) 236
Eco91I GGTNACC 1 cut(s) 278
EcoICRI GAGCTC 1 cut(s) 376
EcoNI CCTNNNNNAGG 1 cut(s) 149
EcoO109I RGGNCCY 1 cut(s) 568
EcoO65I GGTNACC 1 cut(s) 278
EcoRII CCWGG 2 cut(s) 229, 368
EcoT14I CCWWGG 5 cut(s) 202, 253, 284, 313, 350
EcoT38I GRGCYC 1 cut(s) 378
ErhI CCWWGG 5 cut(s) 202, 253, 284, 313, 350
FaeI CATG 5 cut(s) 75, 206, 263, 354, 386
FaiI YATR 6 cut(s) 73, 96, 204, 261, 352, 384
FalI AAGNNNNNCTT 2 cut(s) 288, 320
FatI CATG 5 cut(s) 71, 202, 259, 350, 382
FauI CCCGC 2 cut(s) 232, 442
FokI GGATG 2 cut(s) 159, 635
FriOI GRGCYC 1 cut(s) 378
FspBI CTAG 1 cut(s) 285
GlaI GCGC 4 cut(s) 228, 320, 627, 656
HaeIII GGCC 6 cut(s) 42, 234, 258, 303, 368, 488
HapII CCGG 1 cut(s) 528
HgaI GACGC 2 cut(s) 310, 410
HhaI GCGC 4 cut(s) 229, 321, 628, 657
Hin1II CATG 5 cut(s) 75, 206, 263, 354, 386
Hin6I GCGC 4 cut(s) 227, 319, 626, 655
HinP1I GCGC 4 cut(s) 227, 319, 626, 655
HinfI GANTC 4 cut(s) 48, 501, 633, 659
HpaII CCGG 1 cut(s) 528
HphI GGTGA 5 cut(s) 197, 290, 422, 620, 629
Hpy166II GTNNAC 2 cut(s) 637, 643
Hpy188I TCNGA 3 cut(s) 47, 198, 344
Hpy188III TCNNGA 4 cut(s) 13, 157, 212, 218
Hpy8I GTNNAC 2 cut(s) 637, 643
Hpy99I CGWCG 6 cut(s) 14, 404, 443, 485, 494, 596
HpyAV CCTTC 4 cut(s) 293, 416, 455, 506
HpyCH4III ACNGT 2 cut(s) 278, 617
HpyCH4IV ACGT 2 cut(s) 87, 639
HpyCH4V TGCA 1 cut(s) 172
HpyF10VI GCNNNNNNNGC 2 cut(s) 255, 395
HpyF3I CTNAG 1 cut(s) 129
HpySE526I ACGT 2 cut(s) 87, 639
Hsp92II CATG 5 cut(s) 75, 206, 263, 354, 386
HspAI GCGC 4 cut(s) 227, 319, 626, 655
Kzo9I GATC 4 cut(s) 159, 198, 214, 220
LmnI GCTCC 3 cut(s) 373, 395, 452
LweI GCATC 2 cut(s) 181, 613
MaeI CTAG 1 cut(s) 285
MaeII ACGT 2 cut(s) 87, 639
MaeIII GTNAC 1 cut(s) 278
MalI GATC 4 cut(s) 161, 200, 216, 222
MboI GATC 4 cut(s) 159, 198, 214, 220
MboII GAAGA 4 cut(s) 73, 110, 308, 506
MflI RGATCY 2 cut(s) 198, 220
MhlI GDGCHC 1 cut(s) 378
MlsI TGGCCA 1 cut(s) 258
MluCI AATT 1 cut(s) 116
MluNI TGGCCA 1 cut(s) 258
MlyI GAGTC 3 cut(s) 510, 642, 668
MmeI TCCRAC 1 cut(s) 529
Mox20I TGGCCA 1 cut(s) 258
MroXI GAANNNNTTC 1 cut(s) 32
MscI TGGCCA 1 cut(s) 258
MslI CAYNNNNRTG 1 cut(s) 264
Msp20I TGGCCA 1 cut(s) 258
MspI CCGG 1 cut(s) 528
MspR9I CCNGG 3 cut(s) 231, 370, 529
Mva1269I GAATGC 1 cut(s) 207
MvaI CCWGG 2 cut(s) 231, 370
MvnI CGCG 3 cut(s) 227, 321, 657
MwoI GCNNNNNNNGC 2 cut(s) 255, 395
NciI CCSGG 1 cut(s) 529
NcoI CCATGG 2 cut(s) 202, 350
NdeII GATC 4 cut(s) 159, 198, 214, 220
NlaIII CATG 5 cut(s) 75, 206, 263, 354, 386
NlaIV GGNNCC 5 cut(s) 222, 268, 367, 397, 526
NmeAIII GCCGAG 2 cut(s) 295, 456
NmuCI GTSAC 1 cut(s) 278
PaeR7I CTCGAG 1 cut(s) 236
PceI AGGCCT 2 cut(s) 42, 303
PcsI WCGNNNNNNNCGW 2 cut(s) 438, 489
PctI GAATGC 1 cut(s) 207
PdmI GAANNNNTTC 1 cut(s) 32
PfeI GAWTC 1 cut(s) 48
PleI GAGTC 3 cut(s) 509, 641, 667
PmaCI CACGTG 1 cut(s) 640
PmlI CACGTG 1 cut(s) 640
PpsI GAGTC 3 cut(s) 509, 641, 667
Ppu21I YACGTR 1 cut(s) 640
PpuMI RGGWCCY 1 cut(s) 568
Psp124BI GAGCTC 1 cut(s) 378
Psp5II RGGWCCY 1 cut(s) 568
Psp6I CCWGG 2 cut(s) 229, 368
PspCI CACGTG 1 cut(s) 640
PspEI GGTNACC 1 cut(s) 278
PspGI CCWGG 2 cut(s) 229, 368
PspN4I GGNNCC 5 cut(s) 222, 268, 367, 397, 526
PspPI GGNCC 4 cut(s) 154, 344, 366, 568
PspPPI RGGWCCY 1 cut(s) 568
PspXI VCTCGAGB 1 cut(s) 236
PsuI RGATCY 2 cut(s) 198, 220
RseI CAYNNNNRTG 1 cut(s) 264
SacI GAGCTC 1 cut(s) 378
Sau3AI GATC 4 cut(s) 159, 198, 214, 220
Sau96I GGNCC 4 cut(s) 154, 344, 366, 568
SchI GAGTC 3 cut(s) 510, 642, 668
ScrFI CCNGG 3 cut(s) 231, 370, 529
SduI GDGCHC 1 cut(s) 378
SfaNI GCATC 2 cut(s) 181, 613
Sfr274I CTCGAG 1 cut(s) 236
SinI GGWCC 3 cut(s) 154, 344, 568
SlaI CTCGAG 1 cut(s) 236
SmiMI CAYNNNNRTG 1 cut(s) 264
SmlI CTYRAG 2 cut(s) 236, 575
SmoI CTYRAG 2 cut(s) 236, 575
Sse9I AATT 1 cut(s) 116
SseBI AGGCCT 2 cut(s) 42, 303
SsiI CCGC 2 cut(s) 225, 449
SspMI CTAG 1 cut(s) 285
SstI GAGCTC 1 cut(s) 378
StuI AGGCCT 2 cut(s) 42, 303
StyD4I CCNGG 3 cut(s) 229, 368, 527
StyI CCWWGG 5 cut(s) 202, 253, 284, 313, 350
TaaI ACNGT 2 cut(s) 278, 617
TaiI ACGT 2 cut(s) 90, 642
TaqI TCGA 3 cut(s) 237, 420, 662
TasI AATT 1 cut(s) 116
TfiI GAWTC 1 cut(s) 48
TscAI CASTG 1 cut(s) 396
TseFI GTSAC 1 cut(s) 278
Tsp45I GTSAC 1 cut(s) 278
TspDTI ATGAA 1 cut(s) 111
TspGWI ACGGA 1 cut(s) 117
TspRI CASTG 1 cut(s) 396
VpaK11BI GGWCC 3 cut(s) 154, 344, 568
XagI CCTNNNNNAGG 1 cut(s) 149
XhoI CTCGAG 1 cut(s) 236
XmaJI CCTAGG 1 cut(s) 284
XmnI GAANNNNTTC 1 cut(s) 32
XspI CTAG 1 cut(s) 285
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.