Rh5BG172100

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000364
Physical Location & Seq
Reverse (-)
18041148 .. 18042705
1558 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG172100.1

Sequence Viewer

Length: 795 bp
ATGGACTTGAATTCTGATGAGTTTCTCTCTTGCCTTCTAATGGAAGTCCTTGGGTTTGAGAAGCGTATCAAGCACTACACCAACTATCAAAGAATACTCTTGGTCGGAGAAGGAGACTTCTCCTTTGCCGTTTCCTTAGCCAGAGCTTTCGGCTCTTCCACCAAGATGGTCGCTACTTCTCTCGACACCAGAGTGAACAGGGGATGCAGAGTACTTCATGAAGTGGATGTGCACAGAATGAGCCAACACCCTATTCTGAGTTGTATTCGGTTTGATCGGATAATCTACAATTTTCCTCATGCCGGTTACTTGCACGGTCAATCATCATCCGAGCACAACCAGTTTCAAATTTGGTTCCATCAGGATTTGGTGAGGAGATTCTTCAAGAATGCGCGTGAAATGCTTACCGAAATAGGAGAAATTCATGTGACACACAAGACAACATATCCTTTCAGTAGATGGGAAATAGTGAAGTTAGCAGAAGAGGTTGGGTTGTATTTGCTTCAGGAAGAAAAATTCTCAAAATGGGATTATCCAGGTTATGAAAATAAGAGAGGAGCTGGGTTATGTGATCAAACTTTTCCTGTTGGAGAATGTAGCACCTTCAAATTTGCCAAGCTATTGTACCATTCTACCCCTTCCAGTTACTACATTGACTTGGTTCGGGCTTACGGTCGGGATTCTCGAATTAACGGTCCTTACATGCACCACTGTAAGCTACGAACTTTGACGATTATGTTTCGTCTAAATTTTCTATTGATTTTACTTCAACGAGTTTGCATGGGAATTCTGTGA
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

264

Amino Acids

30.93

Weight (kDa)

8.78

Isoelectric Point (pI)

50.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 33 - 64 3.6e-08 rRNA (uridine-N3-)-methyltransferase BTM5-like
BMT5-like PF10354 66 - 185 2.4e-33 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccII CGCG 1 cut(s) 394
AcsI RAATTY 7 cut(s) 10, 348, 420, 515, 608, 748, 786
AcuI CTGAAG 1 cut(s) 488
AfaI GTAC 2 cut(s) 213, 626
AfiI CCNNNNNNNGG 2 cut(s) 40, 302
AgsI TTSAA 5 cut(s) 10, 347, 385, 607, 770
AjnI CCWGG 1 cut(s) 535
AjuI GAANNNNNNNTTGG 2 cut(s) 237, 269
AleI CACNNNNGTG 1 cut(s) 191
AluBI AGCT 4 cut(s) 146, 560, 619, 718
AluI AGCT 4 cut(s) 146, 560, 619, 718
Alw21I GWGCWC 2 cut(s) 234, 336
Alw26I GTCTC 1 cut(s) 108
Alw44I GTGCAC 1 cut(s) 230
ApaLI GTGCAC 1 cut(s) 230
ApoI RAATTY 7 cut(s) 10, 348, 420, 515, 608, 748, 786
ArsI GACNNNNNNTTYG 4 cut(s) 107, 139, 679, 711
AspLEI GCGC 1 cut(s) 394
AspS9I GGNCC 1 cut(s) 695
AsuHPI GGTGA 1 cut(s) 382
AvaII GGWCC 1 cut(s) 695
BaeGI GKGCMC 1 cut(s) 234
Bbv12I GWGCWC 2 cut(s) 234, 336
BccI CCATC 3 cut(s) 160, 366, 453
BceAI ACGGC 1 cut(s) 113
BciT130I CCWGG 1 cut(s) 537
BclI TGATCA 1 cut(s) 571
BcoDI GTCTC 1 cut(s) 108
BmcAI AGTACT 1 cut(s) 213
Bme1390I CCNGG 1 cut(s) 537
Bme18I GGWCC 1 cut(s) 695
BmgT120I GGNCC 1 cut(s) 695
BmiI GGNNCC 1 cut(s) 356
BmrFI CCNGG 1 cut(s) 537
BmsI GCATC 1 cut(s) 194
BplI GAGNNNNNCTC 2 cut(s) 11, 43
Bpu10I CCTNAGC 1 cut(s) 136
BsaJI CCNNGG 1 cut(s) 49
Bsc4I CCNNNNNNNGG 2 cut(s) 40, 302
Bse118I RCCGGY 1 cut(s) 302
Bse1I ACTGG 2 cut(s) 340, 642
BseBI CCWGG 1 cut(s) 537
BseDI CCNNGG 1 cut(s) 49
BseGI GGATG 3 cut(s) 209, 232, 326
BseLI CCNNNNNNNGG 2 cut(s) 40, 302
BseMII CTCAG 1 cut(s) 248
BseNI ACTGG 2 cut(s) 340, 642
BseRI GAGGAG 2 cut(s) 388, 570
BseSI GKGCMC 1 cut(s) 234
BseYI CCCAGC 1 cut(s) 560
Bsh1236I CGCG 1 cut(s) 394
Bsh1285I CGRYCG 1 cut(s) 676
BsiEI CGRYCG 1 cut(s) 676
BsiHKAI GWGCWC 2 cut(s) 234, 336
BsiSI CCGG 1 cut(s) 303
BslI CCNNNNNNNGG 2 cut(s) 40, 302
BsmAI GTCTC 1 cut(s) 108
BsmI GAATGC 1 cut(s) 394
Bsp1286I GDGCHC 2 cut(s) 234, 336
Bsp143I GATC 2 cut(s) 274, 571
BspCNI CTCAG 1 cut(s) 249
BspFNI CGCG 1 cut(s) 394
BspHI TCATGA 1 cut(s) 217
BspLI GGNNCC 1 cut(s) 356
BspQI GCTCTTC 1 cut(s) 160
BsrFI RCCGGY 1 cut(s) 302
BsrI ACTGG 2 cut(s) 340, 642
BssAI RCCGGY 1 cut(s) 302
BssECI CCNNGG 1 cut(s) 49
BssMI GATC 2 cut(s) 274, 571
BssT1I CCWWGG 1 cut(s) 49
Bst2UI CCWGG 1 cut(s) 537
Bst4CI ACNGT 4 cut(s) 317, 674, 695, 713
Bst6I CTCTTC 2 cut(s) 160, 477
BstDEI CTNAG 2 cut(s) 136, 257
BstF5I GGATG 3 cut(s) 209, 232, 326
BstFNI CGCG 1 cut(s) 394
BstHHI GCGC 1 cut(s) 394
BstKTI GATC 2 cut(s) 277, 574
BstMAI GTCTC 1 cut(s) 108
BstMBI GATC 2 cut(s) 274, 571
BstMCI CGRYCG 1 cut(s) 676
BstMWI GCNNNNNNNGC 2 cut(s) 70, 400
BstNI CCWGG 1 cut(s) 537
BstNSI RCATGY 1 cut(s) 706
BstSCI CCNGG 1 cut(s) 535
BstSLI GKGCMC 1 cut(s) 234
BstUI CGCG 1 cut(s) 394
BstXI CCANNNNNNTGG 1 cut(s) 166
BtsCI GGATG 3 cut(s) 209, 232, 326
BtsIMutI CAGTG 1 cut(s) 709
CciI TCATGA 1 cut(s) 217
CfoI GCGC 1 cut(s) 394
Cfr10I RCCGGY 1 cut(s) 302
Cfr13I GGNCC 1 cut(s) 695
Csp6I GTAC 2 cut(s) 212, 625
CviAII CATG 5 cut(s) 218, 299, 425, 703, 781
CviJI RGCY 8 cut(s) 140, 146, 153, 243, 560, 619, 668, 718
CviKI_1 RGCY 8 cut(s) 140, 146, 153, 243, 560, 619, 668, 718
CviQI GTAC 2 cut(s) 212, 625
DdeI CTNAG 2 cut(s) 136, 257
DpnI GATC 2 cut(s) 276, 573
DpnII GATC 2 cut(s) 274, 571
Eam1104I CTCTTC 2 cut(s) 160, 477
EarI CTCTTC 2 cut(s) 160, 477
Eco130I CCWWGG 1 cut(s) 49
Eco47I GGWCC 1 cut(s) 695
Eco57I CTGAAG 1 cut(s) 488
EcoRI GAATTC 2 cut(s) 10, 786
EcoRII CCWGG 1 cut(s) 535
EcoT14I CCWWGG 1 cut(s) 49
ErhI CCWWGG 1 cut(s) 49
FaeI CATG 5 cut(s) 221, 302, 428, 706, 784
FaiI YATR 9 cut(s) 219, 300, 426, 445, 543, 568, 704, 737, 782
FatI CATG 5 cut(s) 217, 298, 424, 702, 780
FbaI TGATCA 1 cut(s) 571
FokI GGATG 3 cut(s) 216, 239, 313
GlaI GCGC 1 cut(s) 393
GsaI CCCAGC 1 cut(s) 564
HapII CCGG 1 cut(s) 303
HhaI GCGC 1 cut(s) 394
Hin1II CATG 5 cut(s) 221, 302, 428, 706, 784
Hin6I GCGC 1 cut(s) 392
HinP1I GCGC 1 cut(s) 392
HinfI GANTC 2 cut(s) 378, 680
HpaII CCGG 1 cut(s) 303
HphI GGTGA 1 cut(s) 382
Hpy166II GTNNAC 2 cut(s) 196, 232
Hpy188I TCNGA 5 cut(s) 16, 107, 258, 279, 331
Hpy188III TCNNGA 7 cut(s) 182, 218, 362, 385, 506, 677, 684
Hpy8I GTNNAC 2 cut(s) 196, 232
HpyAV CCTTC 4 cut(s) 44, 104, 613, 648
HpyCH4III ACNGT 4 cut(s) 317, 674, 695, 713
HpyCH4V TGCA 5 cut(s) 207, 232, 313, 706, 780
HpyF10VI GCNNNNNNNGC 2 cut(s) 70, 400
HpyF3I CTNAG 2 cut(s) 136, 257
Hsp92II CATG 5 cut(s) 221, 302, 428, 706, 784
HspAI GCGC 1 cut(s) 392
Ksp22I TGATCA 1 cut(s) 571
Kzo9I GATC 2 cut(s) 274, 571
LguI GCTCTTC 1 cut(s) 160
LmnI GCTCC 1 cut(s) 557
LweI GCATC 1 cut(s) 194
MaeIII GTNAC 3 cut(s) 305, 427, 644
MalI GATC 2 cut(s) 276, 573
MboI GATC 2 cut(s) 274, 571
MboII GAAGA 4 cut(s) 147, 373, 494, 521
MhlI GDGCHC 2 cut(s) 234, 336
MluCI AATT 9 cut(s) 10, 289, 348, 420, 515, 608, 687, 748, 786
MmeI TCCRAC 2 cut(s) 85, 568
MnlI CCTC 4 cut(s) 306, 366, 478, 548
MseI TTAA 1 cut(s) 690
MslI CAYNNNNRTG 2 cut(s) 164, 191
MspI CCGG 1 cut(s) 303
MspR9I CCNGG 1 cut(s) 537
Mva1269I GAATGC 1 cut(s) 394
MvaI CCWGG 1 cut(s) 537
MvnI CGCG 1 cut(s) 394
MwoI GCNNNNNNNGC 2 cut(s) 70, 400
NdeII GATC 2 cut(s) 274, 571
NlaIII CATG 5 cut(s) 221, 302, 428, 706, 784
NlaIV GGNNCC 1 cut(s) 356
NmuCI GTSAC 1 cut(s) 427
NspI RCATGY 1 cut(s) 706
OliI CACNNNNGTG 1 cut(s) 191
PagI TCATGA 1 cut(s) 217
PciSI GCTCTTC 1 cut(s) 160
PcsI WCGNNNNNNNCGW 1 cut(s) 682
PctI GAATGC 1 cut(s) 394
PfeI GAWTC 2 cut(s) 378, 680
Psp6I CCWGG 1 cut(s) 535
PspFI CCCAGC 1 cut(s) 560
PspGI CCWGG 1 cut(s) 535
PspN4I GGNNCC 1 cut(s) 356
PspPI GGNCC 1 cut(s) 695
RsaI GTAC 2 cut(s) 213, 626
RsaNI GTAC 2 cut(s) 212, 625
RseI CAYNNNNRTG 2 cut(s) 164, 191
SapI GCTCTTC 1 cut(s) 160
SaqAI TTAA 1 cut(s) 690
Sau3AI GATC 2 cut(s) 274, 571
Sau96I GGNCC 1 cut(s) 695
ScaI AGTACT 1 cut(s) 213
ScrFI CCNGG 1 cut(s) 537
SduI GDGCHC 2 cut(s) 234, 336
SetI ASST 7 cut(s) 148, 489, 541, 562, 605, 621, 720
SfaNI GCATC 1 cut(s) 194
SinI GGWCC 1 cut(s) 695
SmiMI CAYNNNNRTG 2 cut(s) 164, 191
Sse9I AATT 9 cut(s) 10, 289, 348, 420, 515, 608, 687, 748, 786
StyD4I CCNGG 1 cut(s) 535
StyI CCWWGG 1 cut(s) 49
TaaI ACNGT 4 cut(s) 317, 674, 695, 713
TaqI TCGA 2 cut(s) 183, 685
TasI AATT 9 cut(s) 10, 289, 348, 420, 515, 608, 687, 748, 786
TatI WGTACW 1 cut(s) 211
TfiI GAWTC 2 cut(s) 378, 680
Tru1I TTAA 1 cut(s) 690
Tru9I TTAA 1 cut(s) 690
TscAI CASTG 1 cut(s) 716
TseFI GTSAC 1 cut(s) 427
Tsp45I GTSAC 1 cut(s) 427
TspDTI ATGAA 4 cut(s) 206, 234, 413, 558
TspRI CASTG 1 cut(s) 716
VneI GTGCAC 1 cut(s) 230
VpaK11BI GGWCC 1 cut(s) 695
XapI RAATTY 7 cut(s) 10, 348, 420, 515, 608, 748, 786
XceI RCATGY 1 cut(s) 706
ZrmI AGTACT 1 cut(s) 213
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.