Rroxscaffold_6G00412290

source UniProtKB

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000698
Physical Location & Seq
Reverse (-)
34893078 .. 34893998
921 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00412290.1

Sequence Viewer

Length: 687 bp
ATGGGCTTTGTGTATGGAGAACCACTTAGAGCCAAAGAGGAGATTAAAATGGCATTCAAAGATCAAGAAGCTCACTATCGTCCAATCCTTGACATTGTCGATGGAAAAGCCAGTGATCGACTCGATAGTCCATTGCATTTAGCGGGCTACCTCTTGAACTCTTACTACACATATGCCAATCCAAGCATTGAGAATGATAATGTGGTCATGGATGGGTTCTTCACTTGTGTTGAGACATTCTTTCCCGATGACATTCAAACTCAAAGTTTGGTGACAAATGTAGAATTGCACAAGTATTTGAAGAAAGAGGGTGGATTTGGAAGTGTTTTGGCTAAGGCGGGATGTGCACAAAATGATGACAATTATAATCCGGTTTTGTGGTGGAATATTTATGGAAATCTTGTACCAAAATTGCAAAGTATGGCTAAAAGGATACTTTCATTGACTACAAGCTCATCCGGATGTGAGAGGAATTGGAGTGCTTTTGAGGGGATTCATACAAAGAAAAGGAATAGACTAGATACAACGAGGTTAAACAATTTAGTCTATGTCCAAGTCAATGCCAAGATCATCAACAAGAAGAGAAGAATGTGGATGTATTGCTTGCTAGTGAAGCTACTATGGCCCAAGGATGGATTGTGGATGGTGATGATGAAGATGTTGATTCCGATCTTACTAGTGAAGTAG
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
DUF659 Dimer_Tnp_hAT

Protein Analysis

228

Amino Acids

26.28

Weight (kDa)

9.03

Isoelectric Point (pI)

48.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Dimer_Tnp_hAT PF05699 115 - 185 3e-12 hAT family C-terminal dimerisation region
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: OG0000698)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G43260 AT5G31412
fragaria_vesca FvH4_2g24751 FvH4_3g29751 FvH4_3g29752 FvH4_3g32705 FvH4_4g20841 FvH4_5g39742 FvH4_6g06672 FvH4_6g28272 FvH4_6g28273 FvH4_7g00215
malus_domestica MD07G1147000.v1.1
prunus_persica Prupe.4G255800_v2.0.a1
pyrus_communis pycom09g15950 pycom10g13140
rosa_chinensis RchiOBHm_Chr1g0314441 RchiOBHm_Chr1g0314451 RchiOBHm_Chr4g0430441 RchiOBHm_Chr4g0430831 RchiOBHm_Chr5g0003001 RchiOBHm_Chr5g0033441 RchiOBHm_Chr6g0251571 RchiOBHm_Chr6g0288501
rosa_multiflora Rmu_co8007098.1_g000001 Rmu_co8211970.1_g000002 Rmu_sc0000146.1_g000031 Rmu_sc0000555.1_g000022 Rmu_sc0000968.1_g000005 Rmu_sc0001017.1_g000028 Rmu_sc0001208.1_g000044 Rmu_sc0001526.1_g000038 Rmu_sc0002226.1_g000026 Rmu_sc0002284.1_g000006 Rmu_sc0002776.1_g000004 Rmu_sc0003369.1_g000011 Rmu_sc0003632.1_g000005 Rmu_sc0004180.1_g000007 Rmu_sc0004180.1_g000008 Rmu_sc0005014.1_g000005 Rmu_sc0005023.1_g000011 Rmu_sc0007296.1_g000009 Rmu_sc0011153.1_g000002 Rmu_sc0011153.1_g000003 Rmu_sc0018472.1_g000003 Rmu_sc0020646.1_g000001 Rmu_sc0022773.1_g000001 Rmu_sc0022773.1_g000002 Rmu_sc0023555.1_g000001 Rmu_sc0023788.1_g000001 Rmu_ssc0000409.1_g000026 Rmu_ssc0000421.1_g000039
rosa_roxburghii Rroxscaffold_2G00091530 Rroxscaffold_5G00355490 Rroxscaffold_6G00405690 Rroxscaffold_6G00412290 Rroxscaffold_7G00195870
rosa_rugosa Rorug05G0244000
rosa_samantha Rh3DG075100
rosa_wichuraiana Rw0G014340 Rw1G023020 Rw2G020120 Rw2G033790 Rw2G035670 Rw3G022290 Rw3G023070 Rw3G023080 Rw4G003460 Rw4G017840 Rw4G032430 Rw5G024280 Rw5G044440 Rw6G027410 Rw7G020330

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 366
AasI GACNNNNNNGTC 1 cut(s) 126
AccIII TCCGGA 1 cut(s) 458
AciI CCGC 2 cut(s) 143, 338
AfaI GTAC 1 cut(s) 405
AfiI CCNNNNNNNGG 1 cut(s) 632
AgsI TTSAA 4 cut(s) 58, 157, 257, 301
AhlI ACTAGT 1 cut(s) 676
AluBI AGCT 3 cut(s) 71, 453, 616
AluI AGCT 3 cut(s) 71, 453, 616
Alw21I GWGCWC 1 cut(s) 349
Alw26I GTCTC 1 cut(s) 227
Alw44I GTGCAC 1 cut(s) 345
Aor13HI TCCGGA 1 cut(s) 458
AoxI GGCC 1 cut(s) 623
ApaLI GTGCAC 1 cut(s) 345
AspS9I GGNCC 1 cut(s) 624
AsuHPI GGTGA 2 cut(s) 283, 658
BaeGI GKGCMC 1 cut(s) 349
Bbv12I GWGCWC 1 cut(s) 349
BccI CCATC 4 cut(s) 95, 206, 626, 637
BciVI GTATCC 1 cut(s) 426
BcoDI GTCTC 1 cut(s) 227
BcuI ACTAGT 1 cut(s) 676
BfaI CTAG 3 cut(s) 518, 608, 677
BfuI GTATCC 1 cut(s) 426
BmgT120I GGNCC 1 cut(s) 624
Bpu10I CCTNAGC 1 cut(s) 333
BsaBI GATNNNNATC 1 cut(s) 668
BsaJI CCNNGG 1 cut(s) 627
BsaWI WCCGGW 2 cut(s) 370, 458
Bsc4I CCNNNNNNNGG 1 cut(s) 632
Bse1I ACTGG 1 cut(s) 111
Bse3DI GCAATG 1 cut(s) 131
Bse8I GATNNNNATC 1 cut(s) 668
BseAI TCCGGA 1 cut(s) 458
BseDI CCNNGG 1 cut(s) 627
BseGI GGATG 7 cut(s) 217, 347, 455, 467, 600, 637, 648
BseJI GATNNNNATC 1 cut(s) 668
BseLI CCNNNNNNNGG 1 cut(s) 632
BseMI GCAATG 1 cut(s) 131
BseNI ACTGG 1 cut(s) 111
BseRI GAGGAG 1 cut(s) 53
BseSI GKGCMC 1 cut(s) 349
BshFI GGCC 1 cut(s) 625
BsiHKAI GWGCWC 1 cut(s) 349
BsiSI CCGG 2 cut(s) 371, 459
BslI CCNNNNNNNGG 1 cut(s) 632
BsmAI GTCTC 1 cut(s) 227
BsmI GAATGC 1 cut(s) 53
BsnI GGCC 1 cut(s) 625
Bsp1286I GDGCHC 1 cut(s) 349
Bsp13I TCCGGA 1 cut(s) 458
Bsp143I GATC 4 cut(s) 61, 115, 567, 669
BspACI CCGC 2 cut(s) 143, 338
BspANI GGCC 1 cut(s) 625
BspEI TCCGGA 1 cut(s) 458
BsrDI GCAATG 1 cut(s) 131
BsrI ACTGG 1 cut(s) 111
BssECI CCNNGG 1 cut(s) 627
BssMI GATC 4 cut(s) 61, 115, 567, 669
BssT1I CCWWGG 1 cut(s) 627
Bst6I CTCTTC 1 cut(s) 575
BstC8I GCNNGC 2 cut(s) 145, 605
BstDEI CTNAG 2 cut(s) 26, 333
BstF5I GGATG 7 cut(s) 217, 347, 455, 467, 600, 637, 648
BstKTI GATC 4 cut(s) 64, 118, 570, 672
BstMAI GTCTC 1 cut(s) 227
BstMBI GATC 4 cut(s) 61, 115, 567, 669
BstMWI GCNNNNNNNGC 3 cut(s) 344, 613, 622
BstSLI GKGCMC 1 cut(s) 349
BsuI GTATCC 1 cut(s) 426
BsuRI GGCC 1 cut(s) 625
BtsCI GGATG 7 cut(s) 217, 347, 455, 467, 600, 637, 648
BtsIMutI CAGTG 1 cut(s) 118
Cac8I GCNNGC 2 cut(s) 145, 605
Cfr13I GGNCC 1 cut(s) 624
Csp6I GTAC 1 cut(s) 404
CviAII CATG 1 cut(s) 208
CviQI GTAC 1 cut(s) 404
DdeI CTNAG 2 cut(s) 26, 333
DpnI GATC 4 cut(s) 63, 117, 569, 671
DpnII GATC 4 cut(s) 61, 115, 567, 669
DrdI GACNNNNNNGTC 1 cut(s) 126
DseDI GACNNNNNNGTC 1 cut(s) 126
Eam1104I CTCTTC 1 cut(s) 575
EarI CTCTTC 1 cut(s) 575
Eco130I CCWWGG 1 cut(s) 627
EcoT14I CCWWGG 1 cut(s) 627
ErhI CCWWGG 1 cut(s) 627
FaeI CATG 1 cut(s) 211
FatI CATG 1 cut(s) 207
FauI CCCGC 2 cut(s) 136, 331
FauNDI CATATG 1 cut(s) 172
FokI GGATG 7 cut(s) 224, 354, 442, 474, 607, 644, 655
FspBI CTAG 3 cut(s) 518, 608, 677
HaeIII GGCC 1 cut(s) 625
HapII CCGG 2 cut(s) 371, 459
Hin1II CATG 1 cut(s) 211
HinfI GANTC 3 cut(s) 120, 493, 664
HpaII CCGG 2 cut(s) 371, 459
HphI GGTGA 2 cut(s) 283, 658
Hpy166II GTNNAC 1 cut(s) 347
Hpy188I TCNGA 1 cut(s) 669
Hpy188III TCNNGA 4 cut(s) 65, 154, 245, 459
Hpy8I GTNNAC 1 cut(s) 347
HpyCH4V TGCA 4 cut(s) 136, 289, 347, 415
HpyF10VI GCNNNNNNNGC 3 cut(s) 344, 613, 622
HpyF3I CTNAG 2 cut(s) 26, 333
Hsp92II CATG 1 cut(s) 211
Kpn2I TCCGGA 1 cut(s) 458
Kzo9I GATC 4 cut(s) 61, 115, 567, 669
LpnPI CCDG 3 cut(s) 124, 384, 472
MaeI CTAG 3 cut(s) 518, 608, 677
MaeIII GTNAC 1 cut(s) 271
MalI GATC 4 cut(s) 63, 117, 569, 671
MboI GATC 4 cut(s) 61, 115, 567, 669
MboII GAAGA 5 cut(s) 211, 313, 592, 597, 667
MhlI GDGCHC 1 cut(s) 349
MluCI AATT 5 cut(s) 284, 361, 410, 472, 538
MlyI GAGTC 1 cut(s) 114
MnlI CCTC 6 cut(s) 31, 161, 301, 462, 481, 522
MroI TCCGGA 1 cut(s) 458
MseI TTAA 2 cut(s) 45, 533
MslI CAYNNNNRTG 1 cut(s) 460
MspI CCGG 2 cut(s) 371, 459
Mva1269I GAATGC 1 cut(s) 53
MwoI GCNNNNNNNGC 3 cut(s) 344, 613, 622
NdeI CATATG 1 cut(s) 172
NdeII GATC 4 cut(s) 61, 115, 567, 669
NlaIII CATG 1 cut(s) 211
NmuCI GTSAC 1 cut(s) 271
PctI GAATGC 1 cut(s) 53
PfeI GAWTC 2 cut(s) 493, 664
PflFI GACNNNGTC 1 cut(s) 95
PleI GAGTC 1 cut(s) 114
PpsI GAGTC 1 cut(s) 114
PsiI TTATAA 1 cut(s) 366
PspPI GGNCC 1 cut(s) 624
PsrI GAACNNNNNNTAC 2 cut(s) 149, 181
PsyI GACNNNGTC 1 cut(s) 95
RsaI GTAC 1 cut(s) 405
RsaNI GTAC 1 cut(s) 404
RseI CAYNNNNRTG 1 cut(s) 460
SaqAI TTAA 2 cut(s) 45, 533
Sau3AI GATC 4 cut(s) 61, 115, 567, 669
Sau96I GGNCC 1 cut(s) 624
SchI GAGTC 1 cut(s) 114
SduI GDGCHC 1 cut(s) 349
SetI ASST 5 cut(s) 73, 153, 455, 533, 618
SmiMI CAYNNNNRTG 1 cut(s) 460
SpeI ACTAGT 1 cut(s) 676
Sse9I AATT 5 cut(s) 284, 361, 410, 472, 538
SsiI CCGC 2 cut(s) 143, 338
SspI AATATT 1 cut(s) 388
SspMI CTAG 3 cut(s) 518, 608, 677
StyI CCWWGG 1 cut(s) 627
TaqI TCGA 3 cut(s) 99, 118, 123
TasI AATT 5 cut(s) 284, 361, 410, 472, 538
TfiI GAWTC 2 cut(s) 493, 664
Tru1I TTAA 2 cut(s) 45, 533
Tru9I TTAA 2 cut(s) 45, 533
TscAI CASTG 1 cut(s) 118
TseFI GTSAC 1 cut(s) 271
Tsp45I GTSAC 1 cut(s) 271
TspDTI ATGAA 3 cut(s) 429, 485, 668
TspRI CASTG 1 cut(s) 118
Tth111I GACNNNGTC 1 cut(s) 95
VneI GTGCAC 1 cut(s) 345
XspI CTAG 3 cut(s) 518, 608, 677
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.