Rroxscaffold_1G00055860

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000364
Physical Location & Seq
Forward (+)
77529008 .. 77530144
1137 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00055860.1

Sequence Viewer

Length: 903 bp
ATGGATTTGTCTATCTTAGAGAGACTAGCTAAGCAGTTTGAGAGAGTGGTTAAACAGTTTGAGAGACTCCCTAAGCAGTTTGGGAGACTGTTTAAACAGTTTGAGAGACTGGCTAAGCAGTTTGGAAGACTGGTTAAACAGTTTGAGAGTCTGGCTACGCAGTTTGATAGAGTGTTTAAACGGTTTGAGAGACTCGCTAAGCAGTTTGAAAGACTGGTTAAACGGTTTGAGAGACTCGTTAAGAGGTTTGAGAGACTGTTTAAACAGTTAGAGGGAGGAAGGATTAATCACTATAGCAGGTCCCAGAAGATACTGTTAGTCGGAGAGGGGGACTTCTCTTTTGCTCTTTGCTTAGCCAGAGCTTTCGGCTCTGCTGACAACATGGTTGCTACTTCTCTCGACTCCAAAGGGTCCTTAATGATGAACTACTCAAAAGCTATGACCAACTTGCTGGAATTAGAAGGCAGGGAATGCAAGATATTTCATGAAGTCGATGCCCGTGTCATGCGTTATCATCCAAACCTTCTCTTCATGAGGTTTGATCGCATAATCTATAATTTTCCACACGCGGGCTACATGAATGGTTCCTCTTCTTCTGAGCGTAACGCAACTCAAATTTGGTTCCATAAGAATTTGGTCAGGAGGTTCTTCATTAGTGCACGTGAAATGCTGACTACAGATGGAGAAATTCATGTGACGCACAAGACAACATATCCTTTTAGTGAGTGGAAATTAGTGAAAATAGCAGAAGATGTTGGGTTGTATCTGGTTGGTGAAGAAAGGTTCTCACTATTTGATTATCCCGGCTATGAAAATAAGAGAGGAGCTGGGATCTGTGATCAAACTTTTCCGGTGGGAATGTCTAGCACCTTCAGATTTGCCAAGAACTACTTGTACTGTTAA
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
DUF2431

Protein Analysis

300

Amino Acids

35.46

Weight (kDa)

9.75

Isoelectric Point (pI)

36.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 105 - 274 1.3e-49 rRNA (uridine-N3-)-methyltransferase BTM5-like
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: OG0000364)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26485
fragaria_vesca FvH4_3g14860 FvH4_3g14860 FvH4_3g14861 FvH4_3g14862 FvH4_3g14862 FvH4_3g14880 FvH4_3g14880 FvH4_3g14890 FvH4_3g14891 FvH4_3g14892 FvH4_3g14901 FvH4_3g14902
malus_domestica MD05G1233500.v1.1 MD05G1233600.v1.1 MD10G1209900.v1.1 MD10G1210000.v1.1 MD10G1210100.v1.1 MD10G1210300.v1.1 MD10G1210400.v1.1
prunus_persica Prupe.4G132900_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133400_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133600_v2.0.a1 Prupe.4G133600_v2.0.a1
pyrus_communis pycom05g21110 pycom05g21120 pycom10g17840
rosa_chinensis RchiOBHm_Chr5g0024361 RchiOBHm_Chr5g0024391 RchiOBHm_Chr5g0024411 RchiOBHm_Chr5g0024431 RchiOBHm_Chr5g0024451 RchiOBHm_Chr5g0024461 RchiOBHm_Chr5g0024471 RchiOBHm_Chr5g0024481 RchiOBHm_Chr5g0024501 RchiOBHm_Chr5g0024511
rosa_laevigata RLG00000032799 RLG00000032800 RLG00000032801 RLG00000032802 RLG00000032803
rosa_multiflora Rmu_sc0000761.1_g000010 Rmu_sc0000761.1_g000014 Rmu_sc0000761.1_g000018 Rmu_sc0000761.1_g000025 Rmu_sc0005861.1_g000002 Rmu_sc0005861.1_g000004 Rmu_sc0005861.1_g000007 Rmu_sc0011809.1_g000001 Rmu_sc0011809.1_g000006
rosa_roxburghii Rroxscaffold_1G00054740 Rroxscaffold_1G00054750 Rroxscaffold_1G00054760 Rroxscaffold_1G00054770 Rroxscaffold_1G00054780 Rroxscaffold_1G00054790 Rroxscaffold_1G00054840 Rroxscaffold_1G00055860 Rroxscaffold_3G00237770 Rroxscaffold_6G00389330
rosa_rugosa Rorug05G0083300 Rorug05G0083400 Rorug05G0083400
rosa_samantha Rh5AG174100 Rh5AG174300 Rh5AG174600 Rh5AG174700 Rh5AG175000 Rh5AG175300 Rh5BG171000 Rh5BG171400 Rh5BG171500 Rh5BG171600 Rh5BG171700 Rh5BG172100 Rh5BG172300 Rh5BG172500 Rh5CG187400 Rh5CG187700 Rh5CG187900 Rh5CG188000 Rh5CG188200 Rh5CG188400 Rh5CG188500 Rh5CG188600 Rh5DG173200 Rh5DG173400 Rh5DG173500 Rh5DG173700 Rh5DG173900 Rh5DG174000 Rh5DG174100
rosa_wichuraiana Rw5G015700 Rw5G015730 Rw5G015740 Rw5G015770 Rw5G015790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 288
AccII CGCG 1 cut(s) 569
AciI CCGC 1 cut(s) 569
AclWI GGATC 1 cut(s) 839
AcsI RAATTY 3 cut(s) 615, 631, 687
AcuI CTGAAG 1 cut(s) 856
AcvI CACGTG 1 cut(s) 662
AfaI GTAC 1 cut(s) 896
AfiI CCNNNNNNNGG 1 cut(s) 569
AgsI TTSAA 1 cut(s) 209
AluBI AGCT 4 cut(s) 29, 362, 437, 827
AluI AGCT 4 cut(s) 29, 362, 437, 827
Alw21I GWGCWC 1 cut(s) 661
Alw26I GTCTC 7 cut(s) 16, 58, 79, 100, 184, 226, 247
Alw44I GTGCAC 1 cut(s) 657
AlwI GGATC 1 cut(s) 839
ApaLI GTGCAC 1 cut(s) 657
ApoI RAATTY 3 cut(s) 615, 631, 687
ArsI GACNNNNNNTTYG 2 cut(s) 323, 355
AseI ATTAAT 1 cut(s) 285
AspS9I GGNCC 2 cut(s) 300, 411
AsuC2I CCSGG 1 cut(s) 804
AsuHPI GGTGA 1 cut(s) 785
AvaII GGWCC 2 cut(s) 300, 411
BaeGI GKGCMC 1 cut(s) 661
BbrPI CACGTG 1 cut(s) 662
BbsI GAAGAC 1 cut(s) 133
Bbv12I GWGCWC 1 cut(s) 661
BccI CCATC 1 cut(s) 674
BclI TGATCA 1 cut(s) 838
BcnI CCSGG 1 cut(s) 804
BcoDI GTCTC 7 cut(s) 16, 58, 79, 100, 184, 226, 247
BfaI CTAG 2 cut(s) 26, 864
BfmI CTRYAG 2 cut(s) 292, 675
BfuAI ACCTGC 1 cut(s) 288
BlpI GCTNAGC 4 cut(s) 30, 114, 198, 352
Bme1390I CCNGG 1 cut(s) 804
Bme18I GGWCC 2 cut(s) 300, 411
BmgT120I GGNCC 2 cut(s) 300, 411
BmiI GGNNCC 4 cut(s) 302, 412, 586, 623
BmrFI CCNGG 1 cut(s) 804
BmsI GCATC 1 cut(s) 484
BpiI GAAGAC 1 cut(s) 133
Bpu10I CCTNAGC 1 cut(s) 72
Bpu1102I GCTNAGC 4 cut(s) 30, 114, 198, 352
BpuMI CCSGG 1 cut(s) 804
BsaAI YACGTR 1 cut(s) 662
BsaWI WCCGGW 1 cut(s) 850
Bsc4I CCNNNNNNNGG 1 cut(s) 569
Bse1I ACTGG 3 cut(s) 114, 135, 219
BseGI GGATG 1 cut(s) 514
BseLI CCNNNNNNNGG 1 cut(s) 569
BseMII CTCAG 1 cut(s) 588
BseNI ACTGG 3 cut(s) 114, 135, 219
BseRI GAGGAG 1 cut(s) 837
BseSI GKGCMC 1 cut(s) 661
BseYI CCCAGC 1 cut(s) 827
Bsh1236I CGCG 1 cut(s) 569
BsiHKAI GWGCWC 1 cut(s) 661
BsiSI CCGG 2 cut(s) 804, 851
BslFI GGGAC 2 cut(s) 286, 344
BslI CCNNNNNNNGG 1 cut(s) 569
BsmAI GTCTC 7 cut(s) 16, 58, 79, 100, 184, 226, 247
BsmFI GGGAC 2 cut(s) 286, 344
BsmI GAATGC 1 cut(s) 476
Bsp1286I GDGCHC 1 cut(s) 661
Bsp143I GATC 3 cut(s) 541, 831, 838
Bsp1720I GCTNAGC 4 cut(s) 30, 114, 198, 352
BspACI CCGC 1 cut(s) 569
BspCNI CTCAG 1 cut(s) 589
BspFNI CGCG 1 cut(s) 569
BspHI TCATGA 2 cut(s) 484, 531
BspLI GGNNCC 4 cut(s) 302, 412, 586, 623
BspMI ACCTGC 1 cut(s) 288
BspPI GGATC 1 cut(s) 839
BsrI ACTGG 3 cut(s) 114, 135, 219
BssMI GATC 3 cut(s) 541, 831, 838
Bst6I CTCTTC 2 cut(s) 533, 595
BstAPI GCANNNNNTGC 1 cut(s) 471
BstBAI YACGTR 1 cut(s) 662
BstC8I GCNNGC 1 cut(s) 571
BstDEI CTNAG 7 cut(s) 16, 30, 72, 114, 198, 352, 597
BstF5I GGATG 1 cut(s) 514
BstFNI CGCG 1 cut(s) 569
BstKTI GATC 3 cut(s) 544, 834, 841
BstMAI GTCTC 7 cut(s) 16, 58, 79, 100, 184, 226, 247
BstMBI GATC 3 cut(s) 541, 831, 838
BstMWI GCNNNNNNNGC 1 cut(s) 471
BstSCI CCNGG 1 cut(s) 802
BstSFI CTRYAG 2 cut(s) 292, 675
BstSLI GKGCMC 1 cut(s) 661
BstUI CGCG 1 cut(s) 569
BstV2I GAAGAC 1 cut(s) 133
BstX2I RGATCY 1 cut(s) 831
BstXI CCANNNNNNTGG 1 cut(s) 451
BstYI RGATCY 1 cut(s) 831
BtsCI GGATG 1 cut(s) 514
BveI ACCTGC 1 cut(s) 288
Cac8I GCNNGC 1 cut(s) 571
CciI TCATGA 2 cut(s) 484, 531
Cfr13I GGNCC 2 cut(s) 300, 411
CseI GACGC 1 cut(s) 706
Csp6I GTAC 1 cut(s) 895
CviAII CATG 6 cut(s) 382, 485, 505, 532, 577, 692
CviQI GTAC 1 cut(s) 895
DdeI CTNAG 7 cut(s) 16, 30, 72, 114, 198, 352, 597
DpnI GATC 3 cut(s) 543, 833, 840
DpnII GATC 3 cut(s) 541, 831, 838
DraI TTTAAA 3 cut(s) 94, 178, 262
Eam1104I CTCTTC 2 cut(s) 533, 595
EarI CTCTTC 2 cut(s) 533, 595
Eco47I GGWCC 2 cut(s) 300, 411
Eco57I CTGAAG 1 cut(s) 856
Eco72I CACGTG 1 cut(s) 662
EcoO109I RGGNCCY 2 cut(s) 300, 411
FaeI CATG 6 cut(s) 385, 488, 508, 535, 580, 695
FalI AAGNNNNNCTT 1 cut(s) 875
FaqI GGGAC 2 cut(s) 286, 344
FatI CATG 6 cut(s) 381, 484, 504, 531, 576, 691
FauI CCCGC 1 cut(s) 562
FbaI TGATCA 1 cut(s) 838
FokI GGATG 1 cut(s) 501
FspBI CTAG 2 cut(s) 26, 864
GsaI CCCAGC 1 cut(s) 831
HapII CCGG 2 cut(s) 804, 851
HgaI GACGC 1 cut(s) 706
Hin1II CATG 6 cut(s) 385, 488, 508, 535, 580, 695
HinfI GANTC 5 cut(s) 66, 148, 192, 234, 401
HpaII CCGG 2 cut(s) 804, 851
HphI GGTGA 1 cut(s) 785
Hpy166II GTNNAC 1 cut(s) 659
Hpy188I TCNGA 3 cut(s) 323, 598, 875
Hpy188III TCNNGA 4 cut(s) 398, 485, 532, 640
Hpy8I GTNNAC 1 cut(s) 659
HpyAV CCTTC 4 cut(s) 273, 455, 533, 880
HpyCH4IV ACGT 1 cut(s) 661
HpyCH4V TGCA 2 cut(s) 474, 659
HpyF10VI GCNNNNNNNGC 1 cut(s) 471
HpyF3I CTNAG 7 cut(s) 16, 30, 72, 114, 198, 352, 597
HpySE526I ACGT 1 cut(s) 661
Hsp92II CATG 6 cut(s) 385, 488, 508, 535, 580, 695
Ksp22I TGATCA 1 cut(s) 838
Kzo9I GATC 3 cut(s) 541, 831, 838
LmnI GCTCC 1 cut(s) 824
LweI GCATC 1 cut(s) 484
MaeI CTAG 2 cut(s) 26, 864
MaeII ACGT 1 cut(s) 661
MaeIII GTNAC 2 cut(s) 602, 694
MalI GATC 3 cut(s) 543, 833, 840
MboI GATC 3 cut(s) 541, 831, 838
MboII GAAGA 8 cut(s) 138, 319, 520, 582, 585, 640, 761, 788
MflI RGATCY 1 cut(s) 831
MhlI GDGCHC 1 cut(s) 661
MluCI AATT 6 cut(s) 455, 556, 615, 631, 687, 731
MlyI GAGTC 5 cut(s) 60, 157, 186, 228, 395
MmeI TCCRAC 1 cut(s) 301
MnlI CCTC 8 cut(s) 237, 265, 269, 319, 528, 598, 636, 815
MspI CCGG 2 cut(s) 804, 851
MspR9I CCNGG 1 cut(s) 804
MssI GTTTAAAC 3 cut(s) 94, 178, 262
Mva1269I GAATGC 1 cut(s) 476
MvnI CGCG 1 cut(s) 569
MwoI GCNNNNNNNGC 1 cut(s) 471
NciI CCSGG 1 cut(s) 804
NdeII GATC 3 cut(s) 541, 831, 838
NlaIII CATG 6 cut(s) 385, 488, 508, 535, 580, 695
NlaIV GGNNCC 4 cut(s) 302, 412, 586, 623
NmuCI GTSAC 1 cut(s) 694
PagI TCATGA 2 cut(s) 484, 531
PctI GAATGC 1 cut(s) 476
PleI GAGTC 5 cut(s) 60, 156, 186, 228, 395
PmaCI CACGTG 1 cut(s) 662
PmeI GTTTAAAC 3 cut(s) 94, 178, 262
PmlI CACGTG 1 cut(s) 662
PpsI GAGTC 5 cut(s) 60, 156, 186, 228, 395
Ppu21I YACGTR 1 cut(s) 662
PpuMI RGGWCCY 2 cut(s) 300, 411
PshBI ATTAAT 1 cut(s) 285
Psp5II RGGWCCY 2 cut(s) 300, 411
PspCI CACGTG 1 cut(s) 662
PspFI CCCAGC 1 cut(s) 827
PspN4I GGNNCC 4 cut(s) 302, 412, 586, 623
PspPI GGNCC 2 cut(s) 300, 411
PspPPI RGGWCCY 2 cut(s) 300, 411
PsrI GAACNNNNNNTAC 1 cut(s) 878
PsuI RGATCY 1 cut(s) 831
RsaI GTAC 1 cut(s) 896
RsaNI GTAC 1 cut(s) 895
Sau3AI GATC 3 cut(s) 541, 831, 838
Sau96I GGNCC 2 cut(s) 300, 411
SchI GAGTC 5 cut(s) 60, 157, 186, 228, 395
ScrFI CCNGG 1 cut(s) 804
SduI GDGCHC 1 cut(s) 661
SfaNI GCATC 1 cut(s) 484
SfcI CTRYAG 2 cut(s) 292, 675
SinI GGWCC 2 cut(s) 300, 411
Sse9I AATT 6 cut(s) 455, 556, 615, 631, 687, 731
SsiI CCGC 1 cut(s) 569
SspMI CTAG 2 cut(s) 26, 864
StyD4I CCNGG 1 cut(s) 802
TaiI ACGT 1 cut(s) 664
TaqI TCGA 2 cut(s) 399, 492
TasI AATT 6 cut(s) 455, 556, 615, 631, 687, 731
TatI WGTACW 1 cut(s) 894
TseFI GTSAC 1 cut(s) 694
Tsp45I GTSAC 1 cut(s) 694
TspDTI ATGAA 8 cut(s) 437, 473, 501, 520, 593, 640, 680, 825
VneI GTGCAC 1 cut(s) 657
VpaK11BI GGWCC 2 cut(s) 300, 411
VspI ATTAAT 1 cut(s) 285
XapI RAATTY 3 cut(s) 615, 631, 687
XspI CTAG 2 cut(s) 26, 864
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.