Rroxscaffold_1G00054750

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000364
Physical Location & Seq
Reverse (-)
76104367 .. 76112922
8556 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00054750.1

Sequence Viewer

Length: 621 bp
ATGGAAGAGGCTATAGCAGATACTAAAGGAGAGAAAAGGATTATGCATTACAGCAGCAATCAGAAGATACTGTTAGTGGGTGAGGGCAACTTCTCTTTTGCTGCTTGTTTAGCCAAAGAGTTTGGCTCAGCGAAGAACATGGTTGCCACTTCTCTTGACTCCAAAGAGTCAGTAATGATCAGATACTCAAATGCAGCACCAAGCAACTTGAAGGAATTAGAGGACATGGGATGTGTAATCTTGCATGAGGTGGATGTTCACACCATGAGACAGCACCCTCTTCTAGTTAATCAACTGTTTGATCGCGTAGTCTTTAACTTTCCTCATGCTGGCTTCATTTTCATGGAAAATCAGATGAGCCAGATCAAGTTGCATCAGGATTTGGTGAGGGGATTCTTCACCAGTGCATGCGAAATGCTGAAAGAAAGTGGAGAAGTTCATGTGACTCACAAGACATCACATCCGTTCAGTAAGTGGGAGATAGTGAAATTAGCAAAAGAAACTGGGTTATATCTGGTTGAGGAAGCATCGTTTACAAGAGGGGATTATCCTGGTTATTTAAACAAGAGAGGGAGTGGGAAGAAATGCAACCAACGGACAAAGCTACAAAAGTATAACTGA
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

206

Amino Acids

23.4

Weight (kDa)

8.28

Isoelectric Point (pI)

32.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 24 - 190 1.2e-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)
AccII CGCG 1 cut(s) 306
AfiI CCNNNNNNNGG 1 cut(s) 329
AgsI TTSAA 1 cut(s) 211
AjnI CCWGG 1 cut(s) 550
AluBI AGCT 1 cut(s) 604
AluI AGCT 1 cut(s) 604
Alw26I GTCTC 1 cut(s) 262
ApeKI GCWGC 3 cut(s) 54, 101, 194
AsuHPI GGTGA 3 cut(s) 92, 391, 397
BbvI GCAGC 3 cut(s) 66, 88, 206
BciT130I CCWGG 1 cut(s) 552
BclI TGATCA 1 cut(s) 177
BcoDI GTCTC 1 cut(s) 262
BfaI CTAG 1 cut(s) 284
BfmI CTRYAG 1 cut(s) 12
BisI GCNGC 3 cut(s) 55, 102, 195
BlpI GCTNAGC 1 cut(s) 127
BlsI GCNGC 3 cut(s) 56, 103, 196
Bme1390I CCNGG 1 cut(s) 552
BmrFI CCNGG 1 cut(s) 552
BmrI ACTGGG 1 cut(s) 513
BmsI GCATC 2 cut(s) 382, 536
BmuI ACTGGG 1 cut(s) 513
BplI GAGNNNNNCTC 2 cut(s) 110, 142
Bpu1102I GCTNAGC 1 cut(s) 127
Bsc4I CCNNNNNNNGG 1 cut(s) 329
Bse1I ACTGG 2 cut(s) 402, 508
BseBI CCWGG 1 cut(s) 552
BseGI GGATG 3 cut(s) 236, 259, 460
BseLI CCNNNNNNNGG 1 cut(s) 329
BseMII CTCAG 1 cut(s) 141
BseNI ACTGG 2 cut(s) 402, 508
BseXI GCAGC 3 cut(s) 66, 88, 206
Bsh1236I CGCG 1 cut(s) 306
BslI CCNNNNNNNGG 1 cut(s) 329
BsmAI GTCTC 1 cut(s) 262
Bsp143I GATC 3 cut(s) 177, 301, 363
Bsp1720I GCTNAGC 1 cut(s) 127
BspCNI CTCAG 1 cut(s) 140
BspFNI CGCG 1 cut(s) 306
BsrI ACTGG 2 cut(s) 402, 508
BssMI GATC 3 cut(s) 177, 301, 363
Bst2UI CCWGG 1 cut(s) 552
Bst4CI ACNGT 2 cut(s) 72, 297
Bst6I CTCTTC 1 cut(s) 285
BstC8I GCNNGC 2 cut(s) 331, 409
BstDEI CTNAG 1 cut(s) 127
BstF5I GGATG 3 cut(s) 236, 259, 460
BstFNI CGCG 1 cut(s) 306
BstKTI GATC 3 cut(s) 180, 304, 366
BstMAI GTCTC 1 cut(s) 262
BstMBI GATC 3 cut(s) 177, 301, 363
BstMWI GCNNNNNNNGC 1 cut(s) 110
BstNI CCWGG 1 cut(s) 552
BstNSI RCATGY 1 cut(s) 411
BstSCI CCNGG 1 cut(s) 550
BstSFI CTRYAG 1 cut(s) 12
BstUI CGCG 1 cut(s) 306
BstV1I GCAGC 3 cut(s) 66, 88, 206
BtsCI GGATG 3 cut(s) 236, 259, 460
BtsIMutI CAGTG 1 cut(s) 409
Cac8I GCNNGC 2 cut(s) 331, 409
CspCI CAANNNNNGTGG 2 cut(s) 136, 171
CviAII CATG 8 cut(s) 139, 226, 245, 265, 326, 343, 408, 440
CviJI RGCY 6 cut(s) 11, 113, 126, 333, 360, 604
CviKI_1 RGCY 6 cut(s) 11, 113, 126, 333, 360, 604
DdeI CTNAG 1 cut(s) 127
DpnI GATC 3 cut(s) 179, 303, 365
DpnII GATC 3 cut(s) 177, 301, 363
DraI TTTAAA 1 cut(s) 561
Eam1104I CTCTTC 1 cut(s) 285
EarI CTCTTC 1 cut(s) 285
EcoRII CCWGG 1 cut(s) 550
EcoT22I ATGCAT 1 cut(s) 48
FaeI CATG 8 cut(s) 142, 229, 248, 268, 329, 346, 411, 443
FatI CATG 8 cut(s) 138, 225, 244, 264, 325, 342, 407, 439
FbaI TGATCA 1 cut(s) 177
Fnu4HI GCNGC 3 cut(s) 55, 102, 195
FokI GGATG 3 cut(s) 243, 266, 447
Fsp4HI GCNGC 3 cut(s) 55, 102, 195
FspBI CTAG 1 cut(s) 284
GluI GCNGC 3 cut(s) 55, 102, 195
Hin1II CATG 8 cut(s) 142, 229, 248, 268, 329, 346, 411, 443
HinfI GANTC 4 cut(s) 158, 167, 393, 445
HphI GGTGA 3 cut(s) 92, 391, 397
Hpy166II GTNNAC 2 cut(s) 259, 534
Hpy188I TCNGA 3 cut(s) 63, 182, 354
Hpy188III TCNNGA 2 cut(s) 155, 377
Hpy8I GTNNAC 2 cut(s) 259, 534
HpyAV CCTTC 1 cut(s) 205
HpyCH4III ACNGT 2 cut(s) 72, 297
HpyCH4V TGCA 6 cut(s) 46, 194, 244, 373, 407, 588
HpyF10VI GCNNNNNNNGC 1 cut(s) 110
HpyF3I CTNAG 1 cut(s) 127
Hsp92II CATG 8 cut(s) 142, 229, 248, 268, 329, 346, 411, 443
Ksp22I TGATCA 1 cut(s) 177
Kzo9I GATC 3 cut(s) 177, 301, 363
LpnPI CCDG 8 cut(s) 315, 362, 374, 415, 489, 500, 537, 564
Lsp1109I GCAGC 3 cut(s) 66, 88, 206
LweI GCATC 2 cut(s) 382, 536
MaeI CTAG 1 cut(s) 284
MaeIII GTNAC 1 cut(s) 442
MalI GATC 3 cut(s) 179, 303, 365
MboI GATC 3 cut(s) 177, 301, 363
MboII GAAGA 6 cut(s) 17, 76, 145, 272, 388, 592
MluCI AATT 2 cut(s) 215, 488
MlyI GAGTC 3 cut(s) 152, 176, 439
MnlI CCTC 9 cut(s) 76, 214, 241, 288, 333, 381, 514, 533, 563
Mph1103I ATGCAT 1 cut(s) 48
MseI TTAA 3 cut(s) 288, 315, 560
MslI CAYNNNNRTG 1 cut(s) 341
MspR9I CCNGG 1 cut(s) 552
MvaI CCWGG 1 cut(s) 552
MvnI CGCG 1 cut(s) 306
MwoI GCNNNNNNNGC 1 cut(s) 110
NdeII GATC 3 cut(s) 177, 301, 363
NlaIII CATG 8 cut(s) 142, 229, 248, 268, 329, 346, 411, 443
NmuCI GTSAC 1 cut(s) 442
NsiI ATGCAT 1 cut(s) 48
NspI RCATGY 1 cut(s) 411
PaeI GCATGC 1 cut(s) 411
PfeI GAWTC 1 cut(s) 393
PkrI GCNGC 3 cut(s) 56, 103, 196
PleI GAGTC 3 cut(s) 152, 175, 439
PpsI GAGTC 3 cut(s) 152, 175, 439
Psp6I CCWGG 1 cut(s) 550
PspGI CCWGG 1 cut(s) 550
RseI CAYNNNNRTG 1 cut(s) 341
SaqAI TTAA 3 cut(s) 288, 315, 560
SatI GCNGC 3 cut(s) 55, 102, 195
Sau3AI GATC 3 cut(s) 177, 301, 363
SchI GAGTC 3 cut(s) 152, 176, 439
ScrFI CCNGG 1 cut(s) 552
SetI ASST 2 cut(s) 252, 606
SfaNI GCATC 2 cut(s) 382, 536
SfcI CTRYAG 1 cut(s) 12
SmiMI CAYNNNNRTG 1 cut(s) 341
SphI GCATGC 1 cut(s) 411
Sse9I AATT 2 cut(s) 215, 488
SspMI CTAG 1 cut(s) 284
StyD4I CCNGG 1 cut(s) 550
TaaI ACNGT 2 cut(s) 72, 297
TasI AATT 2 cut(s) 215, 488
TfiI GAWTC 1 cut(s) 393
Tru1I TTAA 3 cut(s) 288, 315, 560
Tru9I TTAA 3 cut(s) 288, 315, 560
TscAI CASTG 1 cut(s) 409
TseFI GTSAC 1 cut(s) 442
TseI GCWGC 3 cut(s) 54, 101, 194
Tsp45I GTSAC 1 cut(s) 442
TspDTI ATGAA 3 cut(s) 325, 331, 428
TspGWI ACGGA 2 cut(s) 453, 610
TspRI CASTG 1 cut(s) 409
XceI RCATGY 1 cut(s) 411
XspI CTAG 1 cut(s) 284
Zsp2I ATGCAT 1 cut(s) 48
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.