Rroxscaffold_3G00274720

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000089
Physical Location & Seq
Reverse (-)
66358888 .. 66364366
5479 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00274720.1

Sequence Viewer

Length: 846 bp
ATGTCCAGACTTCAAATAGAGGCAGAGAGGAGACTTTGTATTAGAGGCTTACCACGTGCTGCTGCACAACTTAAACCAGATATTGTAGATTCAATGGAGGAGTGGCAAACTTTCGTTAAATCTAGAAGCACTGAAGAATTCAGAGAAAAGTCAGAAAGATTCAAGTCAATGCGAGAAAAAAAAACTTTATTGCATAGAACAAGTAGAAAAAGCTTTGCCTCCCTTGAGGCAGAGTTGAAGCAACAAAGTGAAACGCCGGATGCAATATCAAGGTCTGATGTTTGGCTTCGTGCTTATGAAACAAAGCAGAAGAATGGGTCAGCTGAGGAAGCTGTCGATTCAGAAATAGTGAAACAAGTGAAAAAGTTCAAGGAAGAAGAAACAGTTTCTGGACCATCTTCTATAAAGAATGATGCTGTTGCAAAAGTACTAGGTCCAGATCCACGAGGACGAGTAAGAGGGTATGGGTTTGGTGCACTACCTTCAAAAGTCGATGCTCAATCACATGTAAGTAATAAAGTCACAATGTTAGAGAATGCTCTTACTGCTCAAACACAAGTGGTAGACAAATTGCAAGAGATGGTGAGAGGCCTTTGTGCTCGGCTAGACCAAAGAGGAAATAACAATGAACACACTAGTGCACAACAGTCTGCTACTGAGATTGGAAATAGAAAACGTAAAGAAAATCCAAGTGTTAGAAATACTGGTAGTCATATAGCACAGAGCAAACAAAAAGATGCAAGTATGAAAAGTTCTTATAATGAGACAGAAAATGGCAGCCCAATGCAGCAAAGTTTTAATGGAAAAAAGCAACTTTCTGGACAAGATAACCCAGAAAAGTTTTAA
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
Transposase_23

Protein Analysis

281

Amino Acids

31.6

Weight (kDa)

9.52

Isoelectric Point (pI)

46.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 33 - 158 6.3e-18 Plant transposase (Ptta/En/Spm family)
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: OG0000089)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42700
fragaria_vesca FvH4_1g29233 FvH4_1g29373 FvH4_2g07142 FvH4_2g08144 FvH4_3g21852 FvH4_3g29221 FvH4_3g32731 FvH4_3g45091 FvH4_4g01311 FvH4_4g03220 FvH4_4g06631 FvH4_4g10040 FvH4_4g10363 FvH4_4g12371 FvH4_4g15323 FvH4_4g15580 FvH4_4g16173 FvH4_5g18843 FvH4_5g23172 FvH4_5g27660 FvH4_5g37213 FvH4_6g17382 FvH4_6g20172 FvH4_6g20173 FvH4_6g21082 FvH4_6g35541
malus_domestica MD02G1251500.v1.1 MD02G1252300.v1.1
pyrus_communis pycom01g02580 pycom01g08340 pycom01g08610 pycom11g01520 pycom12g04790
rosa_chinensis RchiOBHm_Chr0c16g0499821 RchiOBHm_Chr0c16g0499871 RchiOBHm_Chr0c28g0501051 RchiOBHm_Chr1g0313071 RchiOBHm_Chr1g0315701 RchiOBHm_Chr1g0318841 RchiOBHm_Chr1g0326261 RchiOBHm_Chr1g0357501 RchiOBHm_Chr2g0133581 RchiOBHm_Chr2g0134701 RchiOBHm_Chr2g0152521 RchiOBHm_Chr3g0455961 RchiOBHm_Chr3g0458231 RchiOBHm_Chr3g0460621 RchiOBHm_Chr3g0492791 RchiOBHm_Chr3g0492801 RchiOBHm_Chr3g0496631 RchiOBHm_Chr3g0496641 RchiOBHm_Chr4g0386541 RchiOBHm_Chr4g0415851 RchiOBHm_Chr4g0420561 RchiOBHm_Chr4g0422721 RchiOBHm_Chr4g0433611 RchiOBHm_Chr4g0444771 RchiOBHm_Chr5g0033771 RchiOBHm_Chr5g0059371 RchiOBHm_Chr5g0060161 RchiOBHm_Chr5g0064791 RchiOBHm_Chr5g0064801 RchiOBHm_Chr6g0269851 RchiOBHm_Chr6g0280321 RchiOBHm_Chr6g0287111 RchiOBHm_Chr7g0177401 RchiOBHm_Chr7g0200581 RchiOBHm_Chr7g0200591 RchiOBHm_Chr7g0231331
rosa_laevigata RLG00000001052 RLG00000001162 RLG00000002271 RLG00000002679 RLG00000007743 RLG00000009828 RLG00000009891 RLG00000009895 RLG00000009898 RLG00000017129 RLG00000018019 RLG00000018832 RLG00000018849 RLG00000019409 RLG00000019469 RLG00000019633 RLG00000019682 RLG00000020304 RLG00000024132 RLG00000027333 RLG00000028566 RLG00000031685 RLG00000031699 RLG00000034060 RLG00000034663 RLG00000035858 RLG00000036314
rosa_multiflora Rmu_sc0000178.1_g000001 Rmu_sc0000847.1_g000010 Rmu_sc0000861.1_g000033 Rmu_sc0001043.1_g000008 Rmu_sc0001499.1_g000050 Rmu_sc0001572.1_g000045 Rmu_sc0001768.1_g000043 Rmu_sc0001824.1_g000038 Rmu_sc0002037.1_g000022 Rmu_sc0002042.1_g000011 Rmu_sc0002322.1_g000001 Rmu_sc0002401.1_g000002 Rmu_sc0002438.1_g000018 Rmu_sc0002648.1_g000010 Rmu_sc0002784.1_g000047 Rmu_sc0003776.1_g000004 Rmu_sc0003780.1_g000005 Rmu_sc0004140.1_g000039 Rmu_sc0004596.1_g000033 Rmu_sc0004866.1_g000040 Rmu_sc0004964.1_g000011 Rmu_sc0005065.1_g000039 Rmu_sc0005137.1_g000032 Rmu_sc0005294.1_g000031 Rmu_sc0005426.1_g000005 Rmu_sc0005789.1_g000017 Rmu_sc0007891.1_g000008 Rmu_sc0008554.1_g000002 Rmu_sc0011363.1_g000002 Rmu_sc0020081.1_g000001 Rmu_ssc0000079.1_g000015
rosa_roxburghii Rroxscaffold_1G00010060 Rroxscaffold_1G00013840 Rroxscaffold_1G00031540 Rroxscaffold_1G00039640 Rroxscaffold_1G00048530 Rroxscaffold_2G00093720 Rroxscaffold_2G00093730 Rroxscaffold_2G00109830 Rroxscaffold_2G00109890 Rroxscaffold_2G00149920 Rroxscaffold_3G00274720 Rroxscaffold_4G00300310 Rroxscaffold_5G00347510 Rroxscaffold_5G00360920 Rroxscaffold_5G00362090 Rroxscaffold_5G00368170 Rroxscaffold_6G00391580 Rroxscaffold_7G00181720 Rroxscaffold_7G00209870
rosa_rugosa Rorug01G0071800 Rorug01G0071900 Rorug01G0072000 Rorug01G0072100 Rorug01G0084700 Rorug01G0104500 Rorug01G0104500 Rorug01G0134900.1 Rorug01G0135000.1 Rorug01G0183500 Rorug01G0256500 Rorug01G0312300 Rorug01G0312400 Rorug01G0351500 Rorug01G0384100 Rorug02G0039300 Rorug02G0319100 Rorug02G0319200 Rorug02G0319300 Rorug02G0461700 Rorug02G0531700 Rorug02G0617600 Rorug03G0155300 Rorug03G0190400 Rorug03G0248900 Rorug03G0249000 Rorug05G0141900 Rorug05G0325500 Rorug05G0325600 Rorug05G0369600 Rorug05G0490000 Rorug05G0490100.1 Rorug06G0009300 Rorug06G0035500 Rorug06G0082200 Rorug06G0133600 Rorug06G0133700 Rorug06G0149500 Rorug06G0149600 Rorug06G0149700 Rorug06G0351300 Rorug06G0443300 Rorug06G0443400 Rorug06G0443500 Rorug06G0443500 Rorug06G0443500 Rorug06G0480000 Rorug07G0260700 Rorug07G0260800 Rorug07G0289600 Rorug07G0289700 Rorug07G0319200 Rorug07G0319300
rosa_samantha Rh1AG098300 Rh1BG003900 Rh1BG262700 Rh1CG054000 Rh1CG054100 Rh1CG054200 Rh1CG232800 Rh1DG058300 Rh1DG058400 Rh1DG058500 Rh1DG085300 Rh1DG137700 Rh2AG234800 Rh2BG248300 Rh2CG045400 Rh2CG239300 Rh2CG239400 Rh2CG326600 Rh2CG349000 Rh2CG355400 Rh2CG402000 Rh2DG001000 Rh2DG242300 Rh3AG001600 Rh3AG306500 Rh3BG373600 Rh3CG001300 Rh3CG365600 Rh4AG013600 Rh4AG178000 Rh4AG198400 Rh4AG198600 Rh4AG416100 Rh4AG416300 Rh4BG029700 Rh4BG138600 Rh4BG150700 Rh4BG196400 Rh4BG427400 Rh4BG427600 Rh4CG442400 Rh4CG442500 Rh4DG171400 Rh4DG171500 Rh4DG171600 Rh4DG196200 Rh4DG423300 Rh4DG423400 Rh5AG490200 Rh5CG422300 Rh5CG428400 Rh5CG513400 Rh5CG519500 Rh5CG579300 Rh6AG225400 Rh6BG053200 Rh6BG195500 Rh6BG245600 Rh6DG161700 Rh6DG238400 Rh7AG348200 Rh7AG396700 Rh7AG396800 Rh7AG410600 Rh7BG445300 Rh7CG255900 Rh7CG365800 Rh7CG415100 Rh7CG415200 Rh7DG191000 Rh7DG191100 Rh7DG362700
rosa_wichuraiana Rw1G003060 Rw2G017950 Rw2G019900 Rw2G038280 Rw2G048340 Rw3G026970 Rw4G006460 Rw4G009350 Rw4G016820 Rw5G034510 Rw5G049530 Rw6G004160 Rw7G032270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 759
AccI GTMKAC 1 cut(s) 564
AclWI GGATC 1 cut(s) 434
AcsI RAATTY 1 cut(s) 137
AcuI CTGAAG 1 cut(s) 153
AcvI CACGTG 1 cut(s) 56
AfaI GTAC 1 cut(s) 429
AflIII ACRYGT 1 cut(s) 505
AgsI TTSAA 6 cut(s) 14, 93, 163, 238, 370, 486
AhlI ACTAGT 1 cut(s) 635
AleI CACNNNNGTG 1 cut(s) 636
AluBI AGCT 3 cut(s) 213, 323, 332
AluI AGCT 3 cut(s) 213, 323, 332
Alw21I GWGCWC 3 cut(s) 478, 601, 643
Alw26I GTCTC 2 cut(s) 25, 758
Alw44I GTGCAC 2 cut(s) 474, 639
AlwI GGATC 1 cut(s) 434
AlwNI CAGNNNCTG 1 cut(s) 389
AoxI GGCC 1 cut(s) 589
ApaLI GTGCAC 2 cut(s) 474, 639
ApeKI GCWGC 4 cut(s) 59, 62, 777, 787
ApoI RAATTY 1 cut(s) 137
Asp700I GAANNNNTTC 1 cut(s) 365
AspS9I GGNCC 2 cut(s) 392, 434
AsuHPI GGTGA 1 cut(s) 595
AvaII GGWCC 2 cut(s) 392, 434
BaeGI GKGCMC 2 cut(s) 478, 643
BauI CACGAG 1 cut(s) 444
BbrPI CACGTG 1 cut(s) 56
Bbv12I GWGCWC 3 cut(s) 478, 601, 643
BbvCI CCTCAGC 1 cut(s) 324
BbvI GCAGC 4 cut(s) 46, 49, 789, 799
BccI CCATC 2 cut(s) 403, 574
BcoDI GTCTC 2 cut(s) 25, 758
BcuI ACTAGT 1 cut(s) 635
BfaI CTAG 4 cut(s) 123, 431, 605, 636
BisI GCNGC 4 cut(s) 60, 63, 778, 788
BlsI GCNGC 4 cut(s) 61, 64, 779, 789
BmcAI AGTACT 1 cut(s) 429
Bme18I GGWCC 2 cut(s) 392, 434
BmgT120I GGNCC 2 cut(s) 392, 434
BmsI GCATC 4 cut(s) 250, 403, 484, 727
Bpu10I CCTNAGC 1 cut(s) 324
BpuEI CTTGAG 1 cut(s) 245
BsaAI YACGTR 1 cut(s) 56
BsaXI ACNNNNNCTCC 2 cut(s) 22, 52
Bse1I ACTGG 1 cut(s) 709
BseGI GGATG 1 cut(s) 265
BseMII CTCAG 2 cut(s) 315, 648
BseNI ACTGG 1 cut(s) 709
BseRI GAGGAG 2 cut(s) 43, 113
BseSI GKGCMC 2 cut(s) 478, 643
BseXI GCAGC 4 cut(s) 46, 49, 789, 799
BsgI GTGCAG 1 cut(s) 48
BshFI GGCC 1 cut(s) 591
BsiHKAI GWGCWC 3 cut(s) 478, 601, 643
BsiSI CCGG 1 cut(s) 257
BsmAI GTCTC 2 cut(s) 25, 758
BsmI GAATGC 1 cut(s) 541
BsnI GGCC 1 cut(s) 591
Bsp1286I GDGCHC 3 cut(s) 478, 601, 643
Bsp143I GATC 1 cut(s) 439
BspANI GGCC 1 cut(s) 591
BspCNI CTCAG 2 cut(s) 316, 649
BspPI GGATC 1 cut(s) 434
BsrI ACTGG 1 cut(s) 709
BssMI GATC 1 cut(s) 439
BssSI CACGAG 1 cut(s) 444
Bst2BI CACGAG 1 cut(s) 444
Bst4CI ACNGT 2 cut(s) 385, 648
BstBAI YACGTR 1 cut(s) 56
BstDEI CTNAG 2 cut(s) 324, 657
BstF5I GGATG 1 cut(s) 265
BstKTI GATC 1 cut(s) 442
BstMAI GTCTC 2 cut(s) 25, 758
BstMBI GATC 1 cut(s) 439
BstMWI GCNNNNNNNGC 2 cut(s) 329, 545
BstNSI RCATGY 1 cut(s) 509
BstSLI GKGCMC 2 cut(s) 478, 643
BstV1I GCAGC 4 cut(s) 46, 49, 789, 799
BstX2I RGATCY 1 cut(s) 439
BstYI RGATCY 1 cut(s) 439
BsuRI GGCC 1 cut(s) 591
BtsCI GGATG 1 cut(s) 265
BtsIMutI CAGTG 1 cut(s) 129
CaiI CAGNNNCTG 1 cut(s) 389
Cfr13I GGNCC 2 cut(s) 392, 434
Csp6I GTAC 1 cut(s) 428
CviAII CATG 1 cut(s) 506
CviJI RGCY 8 cut(s) 48, 213, 286, 323, 332, 591, 604, 780
CviKI_1 RGCY 8 cut(s) 48, 213, 286, 323, 332, 591, 604, 780
CviQI GTAC 1 cut(s) 428
DdeI CTNAG 2 cut(s) 324, 657
DpnI GATC 1 cut(s) 441
DpnII GATC 1 cut(s) 439
Eco147I AGGCCT 1 cut(s) 591
Eco47I GGWCC 2 cut(s) 392, 434
Eco57I CTGAAG 1 cut(s) 153
Eco72I CACGTG 1 cut(s) 56
EcoRI GAATTC 1 cut(s) 137
FaeI CATG 1 cut(s) 509
FaiI YATR 9 cut(s) 195, 297, 404, 465, 507, 714, 716, 746, 759
FatI CATG 1 cut(s) 505
FblI GTMKAC 1 cut(s) 564
Fnu4HI GCNGC 4 cut(s) 60, 63, 778, 788
FokI GGATG 1 cut(s) 272
Fsp4HI GCNGC 4 cut(s) 60, 63, 778, 788
FspBI CTAG 4 cut(s) 123, 431, 605, 636
GluI GCNGC 4 cut(s) 60, 63, 778, 788
HaeIII GGCC 1 cut(s) 591
HapII CCGG 1 cut(s) 257
Hin1II CATG 1 cut(s) 509
HindIII AAGCTT 1 cut(s) 211
HinfI GANTC 3 cut(s) 89, 159, 338
HpaII CCGG 1 cut(s) 257
HphI GGTGA 1 cut(s) 595
Hpy166II GTNNAC 3 cut(s) 476, 565, 641
Hpy188I TCNGA 4 cut(s) 143, 154, 277, 343
Hpy188III TCNNGA 5 cut(s) 6, 123, 390, 437, 819
Hpy8I GTNNAC 3 cut(s) 476, 565, 641
HpyAV CCTTC 1 cut(s) 492
HpyCH4III ACNGT 2 cut(s) 385, 648
HpyCH4IV ACGT 2 cut(s) 55, 676
HpyCH4V TGCA 9 cut(s) 65, 193, 263, 422, 476, 574, 641, 740, 787
HpyF10VI GCNNNNNNNGC 2 cut(s) 329, 545
HpyF3I CTNAG 2 cut(s) 324, 657
HpySE526I ACGT 2 cut(s) 55, 676
Hsp92II CATG 1 cut(s) 509
Kzo9I GATC 1 cut(s) 439
LpnPI CCDG 7 cut(s) 19, 90, 270, 375, 450, 690, 804
Lsp1109I GCAGC 4 cut(s) 46, 49, 789, 799
LweI GCATC 4 cut(s) 250, 403, 484, 727
MaeI CTAG 4 cut(s) 123, 431, 605, 636
MaeII ACGT 2 cut(s) 55, 676
MaeIII GTNAC 1 cut(s) 520
MalI GATC 1 cut(s) 441
MboI GATC 1 cut(s) 439
MboII GAAGA 5 cut(s) 146, 322, 386, 389, 390
MflI RGATCY 1 cut(s) 439
MhlI GDGCHC 3 cut(s) 478, 601, 643
MluCI AATT 2 cut(s) 137, 569
MroXI GAANNNNTTC 1 cut(s) 365
MseI TTAA 4 cut(s) 72, 117, 798, 844
MslI CAYNNNNRTG 1 cut(s) 636
MspA1I CMGCKG 1 cut(s) 323
MspI CCGG 1 cut(s) 257
Mva1269I GAATGC 1 cut(s) 541
MwoI GCNNNNNNNGC 2 cut(s) 329, 545
NdeII GATC 1 cut(s) 439
NlaIII CATG 1 cut(s) 509
NmeAIII GCCGAG 1 cut(s) 580
NmuCI GTSAC 1 cut(s) 520
NspI RCATGY 1 cut(s) 509
OliI CACNNNNGTG 1 cut(s) 636
PceI AGGCCT 1 cut(s) 591
PciI ACATGT 1 cut(s) 505
PctI GAATGC 1 cut(s) 541
PdmI GAANNNNTTC 1 cut(s) 365
PfeI GAWTC 3 cut(s) 89, 159, 338
PkrI GCNGC 4 cut(s) 61, 64, 779, 789
PmaCI CACGTG 1 cut(s) 56
PmlI CACGTG 1 cut(s) 56
Ppu21I YACGTR 1 cut(s) 56
PscI ACATGT 1 cut(s) 505
PsiI TTATAA 1 cut(s) 759
PspCI CACGTG 1 cut(s) 56
PspPI GGNCC 2 cut(s) 392, 434
PsrI GAACNNNNNNTAC 2 cut(s) 736, 768
PstNI CAGNNNCTG 1 cut(s) 389
PsuI RGATCY 1 cut(s) 439
PvuII CAGCTG 1 cut(s) 323
RsaI GTAC 1 cut(s) 429
RsaNI GTAC 1 cut(s) 428
RseI CAYNNNNRTG 1 cut(s) 636
SaqAI TTAA 4 cut(s) 72, 117, 798, 844
SatI GCNGC 4 cut(s) 60, 63, 778, 788
Sau3AI GATC 1 cut(s) 439
Sau96I GGNCC 2 cut(s) 392, 434
ScaI AGTACT 1 cut(s) 429
SduI GDGCHC 3 cut(s) 478, 601, 643
SetI ASST 8 cut(s) 58, 215, 275, 325, 334, 436, 484, 679
SfaNI GCATC 4 cut(s) 250, 403, 484, 727
SinI GGWCC 2 cut(s) 392, 434
SmiMI CAYNNNNRTG 1 cut(s) 636
SmlI CTYRAG 1 cut(s) 224
SmoI CTYRAG 1 cut(s) 224
SpeI ACTAGT 1 cut(s) 635
Sse9I AATT 2 cut(s) 137, 569
SseBI AGGCCT 1 cut(s) 591
SspMI CTAG 4 cut(s) 123, 431, 605, 636
StuI AGGCCT 1 cut(s) 591
TaaI ACNGT 2 cut(s) 385, 648
TaiI ACGT 2 cut(s) 58, 679
TaqI TCGA 2 cut(s) 336, 492
TasI AATT 2 cut(s) 137, 569
TatI WGTACW 1 cut(s) 427
TfiI GAWTC 3 cut(s) 89, 159, 338
Tru1I TTAA 4 cut(s) 72, 117, 798, 844
Tru9I TTAA 4 cut(s) 72, 117, 798, 844
TscAI CASTG 1 cut(s) 136
TseFI GTSAC 1 cut(s) 520
TseI GCWGC 4 cut(s) 59, 62, 777, 787
Tsp45I GTSAC 1 cut(s) 520
TspDTI ATGAA 3 cut(s) 312, 642, 761
TspRI CASTG 1 cut(s) 136
VneI GTGCAC 2 cut(s) 474, 639
VpaK11BI GGWCC 2 cut(s) 392, 434
XapI RAATTY 1 cut(s) 137
XbaI TCTAGA 1 cut(s) 122
XceI RCATGY 1 cut(s) 509
XmiI GTMKAC 1 cut(s) 564
XmnI GAANNNNTTC 1 cut(s) 365
XspI CTAG 4 cut(s) 123, 431, 605, 636
ZrmI AGTACT 1 cut(s) 429
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.