Rh5AG175300

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000364
Physical Location & Seq
Forward (+)
19400195 .. 19402213
2019 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG175300.1

Sequence Viewer

Length: 768 bp
ATGGACGAGGCTATAGCAGATACTAAACGAGAGAAAAGGATTATGCATTACAGCAGCAATCAGAAGATACTGTTAGTGGGTGAGGGCAACTTCTCTTTTGCTGCTTGTTTAGCCAAAGAGTTTGGCTCAGCGAAGAACATGGTTGCCACTTCTCTTGACTCCAAAGCGAAAGTATTTGGCTCTGCTAAGAACATGGTTGCCACTTCCCTCGAATCCAGAGAGTCAGTATTGGCCCAGTATTCAGATGCAGCACCAAGAAACTTGACAGAATTGAAGTACATGGGAGGTGATATACTGCATAAGGTGGATGTACACACCATGAGGCAACACCCTTTCTTAATCCATCAACTGTTTGATCGGATAGTCTTCAACTTTCCTCATGCTGGTTTCGTTTTTATGGAAAGCAAGAAGAAGAAAACCAAGTATTTTATGGAAAACAGCAAGAGGCAAATCAAGTTGCATCAGGATTTGGTGAAGAGATTCTTCGCCAGCGCATGTGAGATGCTGAAAGAAAGTGGAGAAGTTCATGTCACTCACAAGACCGCACATCCATTCAGTGAGTGGGAGATAGTGAAATTAGCAGGAGAGGCTGGGTTATATCTGGTTGAGGAAGCATCGTTTTCAAGAGAGGATTATCCCGGTTATTTAAACAAGAGAGGAAGTGGGAAGAAATGCAACCGCACATTTCCTGTTGGACAATGTAGCACCTACAAATTTGCCAAGCTGCCGCTTCTTGAATTTTCATTCACAACAATAAAAATCATGTAA
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

255

Amino Acids

29.0

Weight (kDa)

9.34

Isoelectric Point (pI)

37.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 24 - 59 1.5e-09 rRNA (uridine-N3-)-methyltransferase BTM5-like
BMT5-like PF10354 57 - 219 1.4e-40 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)
AciI CCGC 3 cut(s) 543, 679, 728
AcsI RAATTY 2 cut(s) 713, 737
AfaI GTAC 2 cut(s) 278, 312
AfiI CCNNNNNNNGG 1 cut(s) 383
AgsI TTSAA 4 cut(s) 274, 370, 624, 737
AluBI AGCT 1 cut(s) 724
AluI AGCT 1 cut(s) 724
AoxI GGCC 1 cut(s) 231
ApeKI GCWGC 4 cut(s) 54, 101, 248, 724
ApoI RAATTY 2 cut(s) 713, 737
Asp700I GAANNNNTTC 1 cut(s) 479
AspLEI GCGC 1 cut(s) 494
AspS9I GGNCC 1 cut(s) 232
AsuC2I CCSGG 1 cut(s) 639
AsuHPI GGTGA 3 cut(s) 92, 299, 484
BbsI GAAGAC 1 cut(s) 358
BbvI GCAGC 4 cut(s) 66, 88, 260, 711
BccI CCATC 1 cut(s) 351
BcnI CCSGG 1 cut(s) 639
BfmI CTRYAG 1 cut(s) 12
BisI GCNGC 5 cut(s) 55, 102, 249, 725, 728
BlpI GCTNAGC 1 cut(s) 127
BlsI GCNGC 5 cut(s) 56, 103, 250, 726, 729
Bme1390I CCNGG 1 cut(s) 639
BmgT120I GGNCC 1 cut(s) 232
BmrFI CCNGG 1 cut(s) 639
BmrI ACTGGG 1 cut(s) 229
BmsI GCATC 4 cut(s) 235, 469, 492, 623
BmuI ACTGGG 1 cut(s) 229
BpiI GAAGAC 1 cut(s) 358
BplI GAGNNNNNCTC 2 cut(s) 110, 142
Bpu1102I GCTNAGC 1 cut(s) 127
BpuMI CCSGG 1 cut(s) 639
Bsc4I CCNNNNNNNGG 1 cut(s) 383
Bse1I ACTGG 1 cut(s) 235
BseGI GGATG 2 cut(s) 313, 547
BseLI CCNNNNNNNGG 1 cut(s) 383
BseMII CTCAG 1 cut(s) 141
BseNI ACTGG 1 cut(s) 235
BseXI GCAGC 4 cut(s) 66, 88, 260, 711
BseYI CCCAGC 1 cut(s) 590
BshFI GGCC 1 cut(s) 233
BsiSI CCGG 1 cut(s) 639
BslI CCNNNNNNNGG 1 cut(s) 383
BsnI GGCC 1 cut(s) 233
Bsp1407I TGTACA 1 cut(s) 310
Bsp143I GATC 1 cut(s) 355
Bsp1720I GCTNAGC 1 cut(s) 127
BspACI CCGC 3 cut(s) 543, 679, 728
BspANI GGCC 1 cut(s) 233
BspCNI CTCAG 1 cut(s) 140
BsrGI TGTACA 1 cut(s) 310
BsrI ACTGG 1 cut(s) 235
BssMI GATC 1 cut(s) 355
Bst4CI ACNGT 2 cut(s) 72, 351
Bst6I CTCTTC 1 cut(s) 470
BstAUI TGTACA 1 cut(s) 310
BstC8I GCNNGC 1 cut(s) 490
BstDEI CTNAG 2 cut(s) 127, 186
BstF5I GGATG 2 cut(s) 313, 547
BstHHI GCGC 1 cut(s) 494
BstKTI GATC 1 cut(s) 358
BstMBI GATC 1 cut(s) 355
BstMWI GCNNNNNNNGC 2 cut(s) 110, 587
BstNSI RCATGY 1 cut(s) 498
BstSCI CCNGG 1 cut(s) 637
BstSFI CTRYAG 1 cut(s) 12
BstV1I GCAGC 4 cut(s) 66, 88, 260, 711
BstV2I GAAGAC 1 cut(s) 358
BsuRI GGCC 1 cut(s) 233
BtsCI GGATG 2 cut(s) 313, 547
BtsIMutI CAGTG 1 cut(s) 562
Cac8I GCNNGC 1 cut(s) 490
CfoI GCGC 1 cut(s) 494
Cfr13I GGNCC 1 cut(s) 232
Csp6I GTAC 2 cut(s) 277, 311
CspCI CAANNNNNGTGG 2 cut(s) 136, 171
CviAII CATG 8 cut(s) 139, 193, 280, 319, 380, 495, 527, 763
CviJI RGCY 7 cut(s) 11, 113, 126, 180, 233, 590, 724
CviKI_1 RGCY 7 cut(s) 11, 113, 126, 180, 233, 590, 724
CviQI GTAC 2 cut(s) 277, 311
DdeI CTNAG 2 cut(s) 127, 186
DpnI GATC 1 cut(s) 357
DpnII GATC 1 cut(s) 355
DraI TTTAAA 1 cut(s) 648
Eam1104I CTCTTC 1 cut(s) 470
EarI CTCTTC 1 cut(s) 470
EcoT22I ATGCAT 1 cut(s) 48
FaeI CATG 8 cut(s) 142, 196, 283, 322, 383, 498, 530, 766
FalI AAGNNNNNCTT 2 cut(s) 467, 499
FatI CATG 8 cut(s) 138, 192, 279, 318, 379, 494, 526, 762
Fnu4HI GCNGC 5 cut(s) 55, 102, 249, 725, 728
FokI GGATG 2 cut(s) 320, 534
Fsp4HI GCNGC 5 cut(s) 55, 102, 249, 725, 728
GlaI GCGC 1 cut(s) 493
GluI GCNGC 5 cut(s) 55, 102, 249, 725, 728
GsaI CCCAGC 1 cut(s) 594
HaeIII GGCC 1 cut(s) 233
HapII CCGG 1 cut(s) 639
HhaI GCGC 1 cut(s) 494
Hin1II CATG 8 cut(s) 142, 196, 283, 322, 383, 498, 530, 766
Hin6I GCGC 1 cut(s) 492
HinP1I GCGC 1 cut(s) 492
HinfI GANTC 4 cut(s) 158, 212, 221, 480
HpaII CCGG 1 cut(s) 639
HphI GGTGA 3 cut(s) 92, 299, 484
Hpy166II GTNNAC 1 cut(s) 313
Hpy188I TCNGA 3 cut(s) 63, 244, 360
Hpy188III TCNNGA 5 cut(s) 155, 216, 464, 624, 734
Hpy8I GTNNAC 1 cut(s) 313
HpyCH4III ACNGT 2 cut(s) 72, 351
HpyCH4V TGCA 5 cut(s) 46, 248, 298, 460, 675
HpyF10VI GCNNNNNNNGC 2 cut(s) 110, 587
HpyF3I CTNAG 2 cut(s) 127, 186
Hsp92II CATG 8 cut(s) 142, 196, 283, 322, 383, 498, 530, 766
HspAI GCGC 1 cut(s) 492
Kzo9I GATC 1 cut(s) 355
Lsp1109I GCAGC 4 cut(s) 66, 88, 260, 711
LweI GCATC 4 cut(s) 235, 469, 492, 623
MaeIII GTNAC 1 cut(s) 529
MalI GATC 1 cut(s) 357
MboI GATC 1 cut(s) 355
MboII GAAGA 8 cut(s) 76, 145, 358, 421, 424, 475, 487, 679
MluCI AATT 4 cut(s) 269, 575, 713, 737
MlyI GAGTC 2 cut(s) 152, 230
MmeI TCCRAC 1 cut(s) 673
Mph1103I ATGCAT 1 cut(s) 48
MroXI GAANNNNTTC 1 cut(s) 479
MseI TTAA 2 cut(s) 338, 647
MspI CCGG 1 cut(s) 639
MspR9I CCNGG 1 cut(s) 639
MwoI GCNNNNNNNGC 2 cut(s) 110, 587
NciI CCSGG 1 cut(s) 639
NdeII GATC 1 cut(s) 355
NlaIII CATG 8 cut(s) 142, 196, 283, 322, 383, 498, 530, 766
NmuCI GTSAC 1 cut(s) 529
NsiI ATGCAT 1 cut(s) 48
NspI RCATGY 1 cut(s) 498
PdmI GAANNNNTTC 1 cut(s) 479
PfeI GAWTC 2 cut(s) 212, 480
PkrI GCNGC 5 cut(s) 56, 103, 250, 726, 729
PleI GAGTC 2 cut(s) 152, 229
PpsI GAGTC 2 cut(s) 152, 229
PspFI CCCAGC 1 cut(s) 590
PspPI GGNCC 1 cut(s) 232
RsaI GTAC 2 cut(s) 278, 312
RsaNI GTAC 2 cut(s) 277, 311
SaqAI TTAA 2 cut(s) 338, 647
SatI GCNGC 5 cut(s) 55, 102, 249, 725, 728
Sau3AI GATC 1 cut(s) 355
Sau96I GGNCC 1 cut(s) 232
SchI GAGTC 2 cut(s) 152, 230
ScrFI CCNGG 1 cut(s) 639
SetI ASST 4 cut(s) 289, 306, 710, 726
SfaNI GCATC 4 cut(s) 235, 469, 492, 623
SfcI CTRYAG 1 cut(s) 12
Sse9I AATT 4 cut(s) 269, 575, 713, 737
SsiI CCGC 3 cut(s) 543, 679, 728
StyD4I CCNGG 1 cut(s) 637
TaaI ACNGT 2 cut(s) 72, 351
TaqI TCGA 1 cut(s) 210
TasI AATT 4 cut(s) 269, 575, 713, 737
TatI WGTACW 2 cut(s) 276, 310
TauI GCSGC 1 cut(s) 730
TfiI GAWTC 2 cut(s) 212, 480
Tru1I TTAA 2 cut(s) 338, 647
Tru9I TTAA 2 cut(s) 338, 647
TscAI CASTG 1 cut(s) 562
TseFI GTSAC 1 cut(s) 529
TseI GCWGC 4 cut(s) 54, 101, 248, 724
Tsp45I GTSAC 1 cut(s) 529
TspDTI ATGAA 2 cut(s) 515, 732
TspRI CASTG 1 cut(s) 562
XapI RAATTY 2 cut(s) 713, 737
XceI RCATGY 1 cut(s) 498
XcmI CCANNNNNNNNNTGG 2 cut(s) 427, 558
XmnI GAANNNNTTC 1 cut(s) 479
Zsp2I ATGCAT 1 cut(s) 48
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.