Rroxscaffold_1G00054790

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000364
Physical Location & Seq
Reverse (-)
76128643 .. 76130983
2341 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00054790.1

Sequence Viewer

Length: 825 bp
ATGGACTTGAATTCTGATGAGCTTCTCTCTTGCCTTCTAATGGAAGTCCTTGGGTTTGAGAAGCGTATCAAGCACTACACCAACTATCAGAGAATACTCTTGGTCGGAGAAGGAGACTTCTCCTTTGCCGTTTCCTTAGCCAGAGCTTTCGGCTCTTCCACCAAGATGATCGCTACCTCTCTCGACACCAGAGAGTCATTGATGAGAAAGTATTCAAAGGCTATGAGCAATGTGATGGAATTGGAGAACAGGGGATGCGTAGTACTTCATGAAGTGGATGTGCACAGAATGAGCCAACACCCTTTTCTGAGTTGTTTTCGATTTGATCGAATAATCTACAATTTTCCTCATGCCGGCTACTTGCGTGGTCCATTATCATCCGAGTACAATCAGTTTCAAATTTGGTTCCATCAGGATTTGGTGAGGGGATTCTTCAAGAATGCACGTGAAATGCTTACCAAAATAGGAGAAATTCATGTCACACACAAGACAACATATCCTTTCAGTCGATGGGAAATAGTGAAGTTAGCAGGAGAGGTGGGGTTGTATCTGCTTCAGGAAGAAAAGTTCTCAAAATGGGATTATCCAGGTTATGAAAATAAGAGAGGAGATGGGTTATGTGATCAAACTTTTCCTGTTGGAGAATGTAGCACCTTCAAATTTGTGAAGCTATTGTACCATTCTACCCCTTCCAGTTACTATATTGACTTGGTTCGGGCTTACGGTCAGGATTCTCAAACTAACGGTCCTTACATGCACCACTTTTTGGAAGTTGGCATTGGGCATAATGAGGAAGTGGTCGTGGCTGTTAGTTTGAGTAGTTGA
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

274

Amino Acids

31.68

Weight (kDa)

6.46

Isoelectric Point (pI)

41.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 33 - 202 4.7e-54 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)
AccB7I CCANNNNNTGG 1 cut(s) 766
AcsI RAATTY 4 cut(s) 10, 399, 471, 659
AcuI CTGAAG 1 cut(s) 539
AcvI CACGTG 1 cut(s) 446
AfaI GTAC 3 cut(s) 264, 386, 677
AfiI CCNNNNNNNGG 3 cut(s) 40, 353, 766
AgsI TTSAA 5 cut(s) 10, 216, 398, 436, 658
AjnI CCWGG 1 cut(s) 586
AjuI GAANNNNNNNTTGG 4 cut(s) 288, 320, 762, 794
AloI GAACNNNNNNTCC 2 cut(s) 551, 583
AluBI AGCT 3 cut(s) 22, 146, 670
AluI AGCT 3 cut(s) 22, 146, 670
Alw21I GWGCWC 1 cut(s) 285
Alw26I GTCTC 1 cut(s) 108
Alw44I GTGCAC 1 cut(s) 281
ApaLI GTGCAC 1 cut(s) 281
ApoI RAATTY 4 cut(s) 10, 399, 471, 659
ArsI GACNNNNNNTTYG 4 cut(s) 107, 139, 730, 762
Asp700I GAANNNNTTC 1 cut(s) 211
AspS9I GGNCC 2 cut(s) 368, 746
AsuHPI GGTGA 1 cut(s) 433
AvaII GGWCC 2 cut(s) 368, 746
BaeGI GKGCMC 1 cut(s) 285
BarI GAAGNNNNNNTAC 2 cut(s) 659, 691
BbrPI CACGTG 1 cut(s) 446
Bbv12I GWGCWC 1 cut(s) 285
BccI CCATC 4 cut(s) 229, 417, 504, 605
BceAI ACGGC 1 cut(s) 113
BciT130I CCWGG 1 cut(s) 588
BclI TGATCA 1 cut(s) 622
BcoDI GTCTC 1 cut(s) 108
BmcAI AGTACT 1 cut(s) 264
Bme1390I CCNGG 1 cut(s) 588
Bme18I GGWCC 2 cut(s) 368, 746
BmgT120I GGNCC 2 cut(s) 368, 746
BmiI GGNNCC 1 cut(s) 407
BmrFI CCNGG 1 cut(s) 588
BmsI GCATC 1 cut(s) 245
BplI GAGNNNNNCTC 2 cut(s) 11, 43
Bpu10I CCTNAGC 1 cut(s) 136
BsaAI YACGTR 1 cut(s) 446
BsaJI CCNNGG 1 cut(s) 49
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 353, 766
Bse118I RCCGGY 1 cut(s) 353
Bse1I ACTGG 1 cut(s) 693
Bse3DI GCAATG 1 cut(s) 235
BseBI CCWGG 1 cut(s) 588
BseDI CCNNGG 1 cut(s) 49
BseGI GGATG 3 cut(s) 260, 283, 377
BseLI CCNNNNNNNGG 3 cut(s) 40, 353, 766
BseMI GCAATG 1 cut(s) 235
BseMII CTCAG 1 cut(s) 299
BseNI ACTGG 1 cut(s) 693
BseRI GAGGAG 1 cut(s) 621
BseSI GKGCMC 1 cut(s) 285
BsiHKAI GWGCWC 1 cut(s) 285
BsiSI CCGG 1 cut(s) 354
BslI CCNNNNNNNGG 3 cut(s) 40, 353, 766
BsmAI GTCTC 1 cut(s) 108
BsmI GAATGC 1 cut(s) 445
Bsp1286I GDGCHC 1 cut(s) 285
Bsp143I GATC 3 cut(s) 168, 325, 622
BspCNI CTCAG 1 cut(s) 300
BspHI TCATGA 1 cut(s) 268
BspLI GGNNCC 1 cut(s) 407
BspQI GCTCTTC 1 cut(s) 160
BsrDI GCAATG 1 cut(s) 235
BsrFI RCCGGY 1 cut(s) 353
BsrI ACTGG 1 cut(s) 693
BssAI RCCGGY 1 cut(s) 353
BssECI CCNNGG 1 cut(s) 49
BssMI GATC 3 cut(s) 168, 325, 622
BssT1I CCWWGG 1 cut(s) 49
Bst2UI CCWGG 1 cut(s) 588
Bst4CI ACNGT 2 cut(s) 725, 746
Bst6I CTCTTC 1 cut(s) 160
BstBAI YACGTR 1 cut(s) 446
BstC8I GCNNGC 1 cut(s) 355
BstDEI CTNAG 2 cut(s) 136, 308
BstF5I GGATG 3 cut(s) 260, 283, 377
BstKTI GATC 3 cut(s) 171, 328, 625
BstMAI GTCTC 1 cut(s) 108
BstMBI GATC 3 cut(s) 168, 325, 622
BstMWI GCNNNNNNNGC 1 cut(s) 70
BstNI CCWGG 1 cut(s) 588
BstNSI RCATGY 1 cut(s) 757
BstSCI CCNGG 1 cut(s) 586
BstSLI GKGCMC 1 cut(s) 285
BtsCI GGATG 3 cut(s) 260, 283, 377
Cac8I GCNNGC 1 cut(s) 355
CciI TCATGA 1 cut(s) 268
Cfr10I RCCGGY 1 cut(s) 353
Cfr13I GGNCC 2 cut(s) 368, 746
Csp6I GTAC 3 cut(s) 263, 385, 676
CviAII CATG 4 cut(s) 269, 350, 476, 754
CviQI GTAC 3 cut(s) 263, 385, 676
DdeI CTNAG 2 cut(s) 136, 308
DpnI GATC 3 cut(s) 170, 327, 624
DpnII GATC 3 cut(s) 168, 325, 622
Eam1104I CTCTTC 1 cut(s) 160
EarI CTCTTC 1 cut(s) 160
Eco130I CCWWGG 1 cut(s) 49
Eco47I GGWCC 2 cut(s) 368, 746
Eco57I CTGAAG 1 cut(s) 539
Eco72I CACGTG 1 cut(s) 446
EcoRI GAATTC 1 cut(s) 10
EcoRII CCWGG 1 cut(s) 586
EcoT14I CCWWGG 1 cut(s) 49
ErhI CCWWGG 1 cut(s) 49
FaeI CATG 4 cut(s) 272, 353, 479, 757
FatI CATG 4 cut(s) 268, 349, 475, 753
FbaI TGATCA 1 cut(s) 622
FokI GGATG 3 cut(s) 267, 290, 364
HapII CCGG 1 cut(s) 354
Hin1II CATG 4 cut(s) 272, 353, 479, 757
HinfI GANTC 3 cut(s) 194, 429, 731
HpaII CCGG 1 cut(s) 354
HphI GGTGA 1 cut(s) 433
Hpy166II GTNNAC 1 cut(s) 283
Hpy188I TCNGA 5 cut(s) 16, 90, 107, 309, 382
Hpy188III TCNNGA 6 cut(s) 182, 269, 413, 436, 557, 728
Hpy8I GTNNAC 1 cut(s) 283
HpyAV CCTTC 4 cut(s) 44, 104, 664, 699
HpyCH4III ACNGT 2 cut(s) 725, 746
HpyCH4IV ACGT 1 cut(s) 445
HpyCH4V TGCA 3 cut(s) 283, 443, 757
HpyF10VI GCNNNNNNNGC 1 cut(s) 70
HpyF3I CTNAG 2 cut(s) 136, 308
HpySE526I ACGT 1 cut(s) 445
Hsp92II CATG 4 cut(s) 272, 353, 479, 757
KroI GCCGGC 1 cut(s) 353
KroNI GCCGGC 1 cut(s) 355
Ksp22I TGATCA 1 cut(s) 622
Kzo9I GATC 3 cut(s) 168, 325, 622
LguI GCTCTTC 1 cut(s) 160
LweI GCATC 1 cut(s) 245
MaeII ACGT 1 cut(s) 445
MaeIII GTNAC 2 cut(s) 478, 695
MalI GATC 3 cut(s) 170, 327, 624
MboI GATC 3 cut(s) 168, 325, 622
MboII GAAGA 3 cut(s) 147, 424, 572
MhlI GDGCHC 1 cut(s) 285
MluCI AATT 6 cut(s) 10, 239, 340, 399, 471, 659
MlyI GAGTC 1 cut(s) 203
MmeI TCCRAC 2 cut(s) 85, 619
MnlI CCTC 6 cut(s) 187, 357, 417, 529, 599, 784
MroNI GCCGGC 1 cut(s) 353
MroXI GAANNNNTTC 1 cut(s) 211
MslI CAYNNNNRTG 1 cut(s) 164
MspI CCGG 1 cut(s) 354
MspR9I CCNGG 1 cut(s) 588
Mva1269I GAATGC 1 cut(s) 445
MvaI CCWGG 1 cut(s) 588
MwoI GCNNNNNNNGC 1 cut(s) 70
NaeI GCCGGC 1 cut(s) 355
NdeII GATC 3 cut(s) 168, 325, 622
NgoMIV GCCGGC 1 cut(s) 353
NlaIII CATG 4 cut(s) 272, 353, 479, 757
NlaIV GGNNCC 1 cut(s) 407
NmuCI GTSAC 1 cut(s) 478
NspI RCATGY 1 cut(s) 757
PagI TCATGA 1 cut(s) 268
PciSI GCTCTTC 1 cut(s) 160
PcsI WCGNNNNNNNCGW 1 cut(s) 325
PctI GAATGC 1 cut(s) 445
PdiI GCCGGC 1 cut(s) 355
PdmI GAANNNNTTC 1 cut(s) 211
PfeI GAWTC 2 cut(s) 429, 731
PflMI CCANNNNNTGG 1 cut(s) 766
PleI GAGTC 1 cut(s) 202
PmaCI CACGTG 1 cut(s) 446
PmlI CACGTG 1 cut(s) 446
PpsI GAGTC 1 cut(s) 202
Ppu21I YACGTR 1 cut(s) 446
Psp6I CCWGG 1 cut(s) 586
PspCI CACGTG 1 cut(s) 446
PspGI CCWGG 1 cut(s) 586
PspN4I GGNNCC 1 cut(s) 407
PspPI GGNCC 2 cut(s) 368, 746
RsaI GTAC 3 cut(s) 264, 386, 677
RsaNI GTAC 3 cut(s) 263, 385, 676
RseI CAYNNNNRTG 1 cut(s) 164
SapI GCTCTTC 1 cut(s) 160
Sau3AI GATC 3 cut(s) 168, 325, 622
Sau96I GGNCC 2 cut(s) 368, 746
ScaI AGTACT 1 cut(s) 264
SchI GAGTC 1 cut(s) 203
ScrFI CCNGG 1 cut(s) 588
SduI GDGCHC 1 cut(s) 285
SetI ASST 8 cut(s) 24, 148, 179, 448, 540, 592, 656, 672
SfaNI GCATC 1 cut(s) 245
SinI GGWCC 2 cut(s) 368, 746
SmiMI CAYNNNNRTG 1 cut(s) 164
Sse9I AATT 6 cut(s) 10, 239, 340, 399, 471, 659
StyD4I CCNGG 1 cut(s) 586
StyI CCWWGG 1 cut(s) 49
TaaI ACNGT 2 cut(s) 725, 746
TaiI ACGT 1 cut(s) 448
TaqI TCGA 4 cut(s) 183, 319, 328, 508
TasI AATT 6 cut(s) 10, 239, 340, 399, 471, 659
TatI WGTACW 2 cut(s) 262, 384
TfiI GAWTC 2 cut(s) 429, 731
TseFI GTSAC 1 cut(s) 478
Tsp45I GTSAC 1 cut(s) 478
TspDTI ATGAA 4 cut(s) 257, 285, 464, 609
Van91I CCANNNNNTGG 1 cut(s) 766
VneI GTGCAC 1 cut(s) 281
VpaK11BI GGWCC 2 cut(s) 368, 746
XapI RAATTY 4 cut(s) 10, 399, 471, 659
XceI RCATGY 1 cut(s) 757
XmnI GAANNNNTTC 1 cut(s) 211
ZrmI AGTACT 1 cut(s) 264
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.