Rh5DG173200

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000364
Physical Location & Seq
Forward (+)
18596912 .. 18597668
757 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG173200.1

Sequence Viewer

Length: 522 bp
ATGGTTGCTACTTCTCTCGACTCCAAAGGGTCCTTAATGACGAACTACTCAAAAGCTATGACCAACTTGCTGGAATTAGAAGGCAGGGAATGCAAGATATTTCATAAAGTCGATGCCCGTGTCATGCGTTATCATCCTTACCTTCTCTTCATGAGGTTTGATCGCATAATCTATAATTTTCCACACGCGGGCTACATGAATGGTTCCTCTTCTTCTGAGCGTAACGCAACTCAAATTTGGTTCCATAAGAATTTGGTCAGGAGGTTCTTCATTAGTGCACGTGAAATGCTGACTACAGATGGAGAAATTCATGTGACGCACAAGACAACATATCCTTTTAGTGAGTGGAAATTAGTGAAAATAGCAGAAGATGTTGGGTTGTATCTGGTTGGTGAAGAAAGGTTCTCACTATTTGATTATCCCGGCTATGAAAATAAGAGAGGAGCTGGGATCTGTGATCAAACTTTTCCGGTGGGAATGTCTAGCACCTTCAGATTCGCCAAGAACTACTTGTACTGTTAA
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

173

Amino Acids

20.21

Weight (kDa)

8.93

Isoelectric Point (pI)

35.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 1 - 147 1.1e-37 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) 188
AciI CCGC 1 cut(s) 188
AclWI GGATC 1 cut(s) 458
AcsI RAATTY 3 cut(s) 234, 250, 306
AcuI CTGAAG 1 cut(s) 475
AcvI CACGTG 1 cut(s) 281
AfaI GTAC 1 cut(s) 515
AfiI CCNNNNNNNGG 1 cut(s) 188
AluBI AGCT 2 cut(s) 56, 446
AluI AGCT 2 cut(s) 56, 446
Alw21I GWGCWC 1 cut(s) 280
Alw44I GTGCAC 1 cut(s) 276
AlwI GGATC 1 cut(s) 458
ApaLI GTGCAC 1 cut(s) 276
ApoI RAATTY 3 cut(s) 234, 250, 306
AspS9I GGNCC 1 cut(s) 30
AsuC2I CCSGG 1 cut(s) 423
AsuHPI GGTGA 1 cut(s) 404
AvaII GGWCC 1 cut(s) 30
BaeGI GKGCMC 1 cut(s) 280
BbrPI CACGTG 1 cut(s) 281
Bbv12I GWGCWC 1 cut(s) 280
BccI CCATC 1 cut(s) 293
BclI TGATCA 1 cut(s) 457
BcnI CCSGG 1 cut(s) 423
BfaI CTAG 1 cut(s) 483
BfmI CTRYAG 1 cut(s) 294
Bme1390I CCNGG 1 cut(s) 423
Bme18I GGWCC 1 cut(s) 30
BmgT120I GGNCC 1 cut(s) 30
BmiI GGNNCC 3 cut(s) 31, 205, 242
BmrFI CCNGG 1 cut(s) 423
BmsI GCATC 1 cut(s) 103
BpuMI CCSGG 1 cut(s) 423
BsaAI YACGTR 1 cut(s) 281
BsaWI WCCGGW 1 cut(s) 469
Bsc4I CCNNNNNNNGG 1 cut(s) 188
BseGI GGATG 1 cut(s) 133
BseLI CCNNNNNNNGG 1 cut(s) 188
BseMII CTCAG 1 cut(s) 207
BseRI GAGGAG 1 cut(s) 456
BseSI GKGCMC 1 cut(s) 280
BseYI CCCAGC 1 cut(s) 446
Bsh1236I CGCG 1 cut(s) 188
BsiHKAI GWGCWC 1 cut(s) 280
BsiSI CCGG 2 cut(s) 423, 470
BslI CCNNNNNNNGG 1 cut(s) 188
BsmI GAATGC 1 cut(s) 95
Bsp1286I GDGCHC 1 cut(s) 280
Bsp143I GATC 3 cut(s) 160, 450, 457
BspACI CCGC 1 cut(s) 188
BspCNI CTCAG 1 cut(s) 208
BspFNI CGCG 1 cut(s) 188
BspHI TCATGA 1 cut(s) 150
BspLI GGNNCC 3 cut(s) 31, 205, 242
BspPI GGATC 1 cut(s) 458
BssMI GATC 3 cut(s) 160, 450, 457
Bst4CI ACNGT 1 cut(s) 518
Bst6I CTCTTC 2 cut(s) 152, 214
BstAPI GCANNNNNTGC 1 cut(s) 90
BstBAI YACGTR 1 cut(s) 281
BstC8I GCNNGC 1 cut(s) 190
BstDEI CTNAG 1 cut(s) 216
BstF5I GGATG 1 cut(s) 133
BstFNI CGCG 1 cut(s) 188
BstKTI GATC 3 cut(s) 163, 453, 460
BstMBI GATC 3 cut(s) 160, 450, 457
BstMWI GCNNNNNNNGC 1 cut(s) 90
BstSCI CCNGG 1 cut(s) 421
BstSFI CTRYAG 1 cut(s) 294
BstSLI GKGCMC 1 cut(s) 280
BstUI CGCG 1 cut(s) 188
BstX2I RGATCY 1 cut(s) 450
BstXI CCANNNNNNTGG 1 cut(s) 70
BstYI RGATCY 1 cut(s) 450
BtsCI GGATG 1 cut(s) 133
Cac8I GCNNGC 1 cut(s) 190
CciI TCATGA 1 cut(s) 150
Cfr13I GGNCC 1 cut(s) 30
CseI GACGC 1 cut(s) 325
Csp6I GTAC 1 cut(s) 514
CviAII CATG 4 cut(s) 124, 151, 196, 311
CviJI RGCY 4 cut(s) 56, 192, 426, 446
CviKI_1 RGCY 4 cut(s) 56, 192, 426, 446
CviQI GTAC 1 cut(s) 514
DdeI CTNAG 1 cut(s) 216
DpnI GATC 3 cut(s) 162, 452, 459
DpnII GATC 3 cut(s) 160, 450, 457
Eam1104I CTCTTC 2 cut(s) 152, 214
EarI CTCTTC 2 cut(s) 152, 214
Eco47I GGWCC 1 cut(s) 30
Eco57I CTGAAG 1 cut(s) 475
Eco72I CACGTG 1 cut(s) 281
EcoO109I RGGNCCY 1 cut(s) 30
FaeI CATG 4 cut(s) 127, 154, 199, 314
FalI AAGNNNNNCTT 1 cut(s) 494
FatI CATG 4 cut(s) 123, 150, 195, 310
FauI CCCGC 1 cut(s) 181
FbaI TGATCA 1 cut(s) 457
FokI GGATG 1 cut(s) 120
FspBI CTAG 1 cut(s) 483
GsaI CCCAGC 1 cut(s) 450
HapII CCGG 2 cut(s) 423, 470
HgaI GACGC 1 cut(s) 325
Hin1II CATG 4 cut(s) 127, 154, 199, 314
HinfI GANTC 2 cut(s) 20, 495
HpaII CCGG 2 cut(s) 423, 470
HphI GGTGA 1 cut(s) 404
Hpy166II GTNNAC 1 cut(s) 278
Hpy188I TCNGA 2 cut(s) 217, 494
Hpy188III TCNNGA 3 cut(s) 17, 151, 259
Hpy8I GTNNAC 1 cut(s) 278
HpyAV CCTTC 3 cut(s) 74, 152, 499
HpyCH4III ACNGT 1 cut(s) 518
HpyCH4IV ACGT 1 cut(s) 280
HpyCH4V TGCA 2 cut(s) 93, 278
HpyF10VI GCNNNNNNNGC 1 cut(s) 90
HpyF3I CTNAG 1 cut(s) 216
HpySE526I ACGT 1 cut(s) 280
Hsp92II CATG 4 cut(s) 127, 154, 199, 314
Ksp22I TGATCA 1 cut(s) 457
Kzo9I GATC 3 cut(s) 160, 450, 457
LmnI GCTCC 1 cut(s) 443
LpnPI CCDG 7 cut(s) 56, 70, 244, 371, 432, 436, 483
LweI GCATC 1 cut(s) 103
MaeI CTAG 1 cut(s) 483
MaeII ACGT 1 cut(s) 280
MaeIII GTNAC 2 cut(s) 221, 313
MalI GATC 3 cut(s) 162, 452, 459
MboI GATC 3 cut(s) 160, 450, 457
MboII GAAGA 6 cut(s) 139, 201, 204, 259, 380, 407
MflI RGATCY 1 cut(s) 450
MhlI GDGCHC 1 cut(s) 280
MluCI AATT 6 cut(s) 74, 175, 234, 250, 306, 350
MlyI GAGTC 1 cut(s) 14
MnlI CCTC 4 cut(s) 147, 217, 255, 434
MseI TTAA 2 cut(s) 35, 520
MspI CCGG 2 cut(s) 423, 470
MspR9I CCNGG 1 cut(s) 423
Mva1269I GAATGC 1 cut(s) 95
MvnI CGCG 1 cut(s) 188
MwoI GCNNNNNNNGC 1 cut(s) 90
NciI CCSGG 1 cut(s) 423
NdeII GATC 3 cut(s) 160, 450, 457
NlaIII CATG 4 cut(s) 127, 154, 199, 314
NlaIV GGNNCC 3 cut(s) 31, 205, 242
NmuCI GTSAC 1 cut(s) 313
PagI TCATGA 1 cut(s) 150
PctI GAATGC 1 cut(s) 95
PfeI GAWTC 1 cut(s) 495
PleI GAGTC 1 cut(s) 14
PmaCI CACGTG 1 cut(s) 281
PmlI CACGTG 1 cut(s) 281
PpsI GAGTC 1 cut(s) 14
Ppu21I YACGTR 1 cut(s) 281
PpuMI RGGWCCY 1 cut(s) 30
Psp5II RGGWCCY 1 cut(s) 30
PspCI CACGTG 1 cut(s) 281
PspFI CCCAGC 1 cut(s) 446
PspN4I GGNNCC 3 cut(s) 31, 205, 242
PspPI GGNCC 1 cut(s) 30
PspPPI RGGWCCY 1 cut(s) 30
PsrI GAACNNNNNNTAC 1 cut(s) 497
PsuI RGATCY 1 cut(s) 450
RsaI GTAC 1 cut(s) 515
RsaNI GTAC 1 cut(s) 514
SaqAI TTAA 2 cut(s) 35, 520
Sau3AI GATC 3 cut(s) 160, 450, 457
Sau96I GGNCC 1 cut(s) 30
SchI GAGTC 1 cut(s) 14
ScrFI CCNGG 1 cut(s) 423
SduI GDGCHC 1 cut(s) 280
SetI ASST 8 cut(s) 58, 144, 158, 266, 283, 404, 448, 491
SfaNI GCATC 1 cut(s) 103
SfcI CTRYAG 1 cut(s) 294
SinI GGWCC 1 cut(s) 30
Sse9I AATT 6 cut(s) 74, 175, 234, 250, 306, 350
SsiI CCGC 1 cut(s) 188
SspMI CTAG 1 cut(s) 483
StyD4I CCNGG 1 cut(s) 421
TaaI ACNGT 1 cut(s) 518
TaiI ACGT 1 cut(s) 283
TaqI TCGA 2 cut(s) 18, 111
TasI AATT 6 cut(s) 74, 175, 234, 250, 306, 350
TatI WGTACW 1 cut(s) 513
TfiI GAWTC 1 cut(s) 495
Tru1I TTAA 2 cut(s) 35, 520
Tru9I TTAA 2 cut(s) 35, 520
TseFI GTSAC 1 cut(s) 313
Tsp45I GTSAC 1 cut(s) 313
TspDTI ATGAA 6 cut(s) 92, 139, 212, 259, 299, 444
VneI GTGCAC 1 cut(s) 276
VpaK11BI GGWCC 1 cut(s) 30
XapI RAATTY 3 cut(s) 234, 250, 306
XspI CTAG 1 cut(s) 483
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.