Rroxscaffold_2G00090420

Histone H3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000501
Physical Location & Seq
Forward (+)
12162019 .. 12162429
411 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00090420.1

Sequence Viewer

Length: 411 bp
ATGGCTCGCACCAAGCAGACTGCTCGGAAATCCACCGGAGGCAAGGCACCGAGGAAGCAGCTGGCGACCAAGGCTGCCCGGAAGTCGGCTCCGGCGACCGGAGGAGTGAAGAAGCCCCACCGCTTCAGGCCGGGAACCGTGGCGCTGAGGGAGATCAGGAAGTATCAGAAGAGCACGGAGCTTCTGATCCGCAAGCTGCCGTTCCAGAGGCTTGTGAGGGAGATTGCTCAGGATTTCAAGACGGATCTCCGGTTCCAGAGCAGCGCCGTGGCGGCGCTTCAGGAGGCGGCGGAGGCTTACTTGGTGGGTCTGTTTGAGGACACCAACCTCTGCGCTATTCACGCCAAGAGGGTCACCATTATGCCCAAGGATATTCAGCTTGCAAGGAGAATCAGAGGGGAGAGGGCTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko05034 ko05202 ko05322 map05034 map05202 map05322
Pfam Domains
Protein Families
Histone

Protein Analysis

136

Amino Acids

15.27

Weight (kDa)

11.29

Isoelectric Point (pI)

43.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 44 - 131 8.7e-39 Core histone H2A/H2B/H3/H4 domain
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: OG0000501)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G09200 AT3G27360 AT5G10390 AT5G10400 AT5G65360
fragaria_vesca FvH4_3g08401 FvH4_3g35371 FvH4_3g39201 FvH4_3g43404 FvH4_5g38881 FvH4_6g43231 FvH4_6g43231
malus_domestica MD00G1200300.v1.1 MD03G1020400.v1.1 MD03G1023100.v1.1 MD05G1308500.v1.1 MD10G1287500.v1.1 MD11G1026900.v1.1
prunus_persica Prupe.4G054300_v2.0.a1 Prupe.6G016200_v2.0.a1 Prupe.6G021100_v2.0.a1 Prupe.6G021700_v2.0.a1
pyrus_communis pycom10g24050 pycom11g01750
rosa_chinensis RchiOBHm_Chr2g0159531 RchiOBHm_Chr5g0009481 RchiOBHm_Chr5g0063481 RchiOBHm_Chr5g0070661 RchiOBHm_Chr5g0077691 RchiOBHm_Chr5g0077731 RchiOBHm_Chr5g0077781 RchiOBHm_Chr5g0077851
rosa_laevigata RLG00000021163 RLG00000031665 RLG00000035639 RLG00000036148 RLG00000036709
rosa_multiflora Rmu_sc0002711.1_g000014 Rmu_sc0002944.1_g000060 Rmu_sc0004168.1_g000003 Rmu_sc0004168.1_g000010 Rmu_sc0004277.1_g000010 Rmu_sc0004277.1_g000017 Rmu_sc0004277.1_g000019 Rmu_sc0005197.1_g000016 Rmu_sc0007856.1_g000002 Rmu_sc0012414.1_g000011 Rmu_sc0016394.1_g000002 Rmu_ssc0000309.1_g000059
rosa_roxburghii Rroxscaffold_1G00004350 Rroxscaffold_1G00010570 Rroxscaffold_1G00017230 Rroxscaffold_2G00090420
rosa_rugosa Rorug02G0476400 Rorug04G0443400 Rorug05G0357600 Rorug05G0407400 Rorug05G0456200 Rorug05G0456600
rosa_samantha Rh2BG556100 Rh2BG556600 Rh2CG526800 Rh2DG565600 Rh5AG510400 Rh5AG510600 Rh5AG510800 Rh5BG070300 Rh5BG431900 Rh5BG481100 Rh5BG532700 Rh5BG532900 Rh5BG533400 Rh5BG533500 Rh5CG082700 Rh5CG455200 Rh5CG505300 Rh5CG556400 Rh5CG556600 Rh5CG556900 Rh5CG557000
rosa_wichuraiana Rw2G044950 Rw5G006900 Rw5G039150 Rw5G043100 Rw5G047360 Rw5G047380 Rw5G047410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 46
AciI CCGC 5 cut(s) 121, 190, 272, 287, 290
AclWI GGATC 2 cut(s) 181, 252
AcuI CTGAAG 2 cut(s) 109, 263
AfiI CCNNNNNNNGG 2 cut(s) 85, 98
AgsI TTSAA 1 cut(s) 238
AloI GAACNNNNNNTCC 2 cut(s) 236, 268
AluBI AGCT 4 cut(s) 61, 181, 196, 379
AluI AGCT 4 cut(s) 61, 181, 196, 379
Alw21I GWGCWC 1 cut(s) 176
AlwI GGATC 2 cut(s) 181, 252
AoxI GGCC 1 cut(s) 128
ApeKI GCWGC 4 cut(s) 58, 74, 196, 261
AspLEI GCGC 4 cut(s) 145, 266, 277, 335
AsuC2I CCSGG 2 cut(s) 79, 132
AsuHPI GGTGA 1 cut(s) 346
BanI GGYRCC 1 cut(s) 46
Bbv12I GWGCWC 1 cut(s) 176
BbvCI CCTCAGC 1 cut(s) 146
BbvI GCAGC 4 cut(s) 61, 70, 183, 273
BceAI ACGGC 2 cut(s) 184, 251
BcgI CGANNNNNNTGC 2 cut(s) 5, 39
BcnI CCSGG 2 cut(s) 79, 132
BfoI RGCGCY 3 cut(s) 146, 267, 278
BglI GCCNNNNNGGC 1 cut(s) 272
BisI GCNGC 6 cut(s) 59, 75, 197, 262, 273, 288
BlsI GCNGC 6 cut(s) 60, 76, 198, 263, 274, 289
Bme1390I CCNGG 2 cut(s) 79, 132
BmiI GGNNCC 4 cut(s) 48, 90, 136, 254
BmrFI CCNGG 2 cut(s) 79, 132
Bpu10I CCTNAGC 2 cut(s) 146, 228
BpuMI CCSGG 2 cut(s) 79, 132
BsaJI CCNNGG 5 cut(s) 50, 69, 138, 267, 366
BsaWI WCCGGW 3 cut(s) 35, 98, 249
Bsc4I CCNNNNNNNGG 2 cut(s) 85, 98
BseDI CCNNGG 5 cut(s) 50, 69, 138, 267, 366
BseLI CCNNNNNNNGG 2 cut(s) 85, 98
BseMII CTCAG 2 cut(s) 137, 242
BseRI GAGGAG 1 cut(s) 117
BseXI GCAGC 4 cut(s) 61, 70, 183, 273
Bsh1285I CGRYCG 1 cut(s) 99
BshFI GGCC 1 cut(s) 130
BshNI GGYRCC 1 cut(s) 46
BsiEI CGRYCG 1 cut(s) 99
BsiHKAI GWGCWC 1 cut(s) 176
BsiSI CCGG 6 cut(s) 36, 79, 92, 99, 131, 250
BslI CCNNNNNNNGG 2 cut(s) 85, 98
BsnI GGCC 1 cut(s) 130
Bsp1286I GDGCHC 1 cut(s) 176
Bsp143I GATC 3 cut(s) 153, 186, 244
BspACI CCGC 5 cut(s) 121, 190, 272, 287, 290
BspANI GGCC 1 cut(s) 130
BspCNI CTCAG 2 cut(s) 138, 241
BspLI GGNNCC 4 cut(s) 48, 90, 136, 254
BspPI GGATC 2 cut(s) 181, 252
BspQI GCTCTTC 1 cut(s) 164
BspT107I GGYRCC 1 cut(s) 46
BssECI CCNNGG 5 cut(s) 50, 69, 138, 267, 366
BssMI GATC 3 cut(s) 153, 186, 244
BssT1I CCWWGG 2 cut(s) 69, 366
Bst4CI ACNGT 1 cut(s) 139
Bst6I CTCTTC 1 cut(s) 164
BstC8I GCNNGC 4 cut(s) 7, 63, 194, 381
BstDEI CTNAG 3 cut(s) 146, 228, 408
BstDSI CCRYGG 2 cut(s) 138, 267
BstEII GGTNACC 1 cut(s) 352
BstH2I RGCGCY 3 cut(s) 146, 267, 278
BstHHI GCGC 4 cut(s) 145, 266, 277, 335
BstKTI GATC 3 cut(s) 156, 189, 247
BstMBI GATC 3 cut(s) 153, 186, 244
BstMCI CGRYCG 1 cut(s) 99
BstMWI GCNNNNNNNGC 4 cut(s) 71, 272, 293, 341
BstPI GGTNACC 1 cut(s) 352
BstSCI CCNGG 2 cut(s) 77, 130
BstV1I GCAGC 4 cut(s) 61, 70, 183, 273
BstX2I RGATCY 1 cut(s) 244
BstYI RGATCY 1 cut(s) 244
BsuRI GGCC 1 cut(s) 130
BtgI CCRYGG 2 cut(s) 138, 267
Cac8I GCNNGC 4 cut(s) 7, 63, 194, 381
CfoI GCGC 4 cut(s) 145, 266, 277, 335
DdeI CTNAG 3 cut(s) 146, 228, 408
DpnI GATC 3 cut(s) 155, 188, 246
DpnII GATC 3 cut(s) 153, 186, 244
Eam1104I CTCTTC 1 cut(s) 164
EarI CTCTTC 1 cut(s) 164
EciI GGCGGA 1 cut(s) 305
Eco130I CCWWGG 2 cut(s) 69, 366
Eco57I CTGAAG 2 cut(s) 109, 263
Eco91I GGTNACC 1 cut(s) 352
EcoO65I GGTNACC 1 cut(s) 352
EcoT14I CCWWGG 2 cut(s) 69, 366
ErhI CCWWGG 2 cut(s) 69, 366
FaiI YATR 1 cut(s) 362
Fnu4HI GCNGC 6 cut(s) 59, 75, 197, 262, 273, 288
Fsp4HI GCNGC 6 cut(s) 59, 75, 197, 262, 273, 288
GlaI GCGC 4 cut(s) 144, 265, 276, 334
GluI GCNGC 6 cut(s) 59, 75, 197, 262, 273, 288
HaeII RGCGCY 3 cut(s) 146, 267, 278
HaeIII GGCC 1 cut(s) 130
HapII CCGG 6 cut(s) 36, 79, 92, 99, 131, 250
HhaI GCGC 4 cut(s) 145, 266, 277, 335
Hin6I GCGC 4 cut(s) 143, 264, 275, 333
HinP1I GCGC 4 cut(s) 143, 264, 275, 333
HinfI GANTC 1 cut(s) 390
HpaII CCGG 6 cut(s) 36, 79, 92, 99, 131, 250
HphI GGTGA 1 cut(s) 346
Hpy188I TCNGA 4 cut(s) 27, 168, 186, 395
Hpy188III TCNNGA 6 cut(s) 157, 205, 230, 238, 256, 281
HpyCH4III ACNGT 1 cut(s) 139
HpyCH4V TGCA 1 cut(s) 383
HpyF10VI GCNNNNNNNGC 4 cut(s) 71, 272, 293, 341
HpyF3I CTNAG 3 cut(s) 146, 228, 408
HspAI GCGC 4 cut(s) 143, 264, 275, 333
Kzo9I GATC 3 cut(s) 153, 186, 244
LguI GCTCTTC 1 cut(s) 164
LmnI GCTCC 2 cut(s) 94, 178
Lsp1109I GCAGC 4 cut(s) 61, 70, 183, 273
MaeIII GTNAC 1 cut(s) 352
MalI GATC 3 cut(s) 155, 188, 246
MboI GATC 3 cut(s) 153, 186, 244
MboII GAAGA 2 cut(s) 121, 181
MflI RGATCY 1 cut(s) 244
MhlI GDGCHC 1 cut(s) 176
MslI CAYNNNNRTG 1 cut(s) 359
MspA1I CMGCKG 1 cut(s) 61
MspI CCGG 6 cut(s) 36, 79, 92, 99, 131, 250
MspR9I CCNGG 2 cut(s) 79, 132
MwoI GCNNNNNNNGC 4 cut(s) 71, 272, 293, 341
NciI CCSGG 2 cut(s) 79, 132
NdeII GATC 3 cut(s) 153, 186, 244
NlaIV GGNNCC 4 cut(s) 48, 90, 136, 254
NmuCI GTSAC 1 cut(s) 352
PciSI GCTCTTC 1 cut(s) 164
PcsI WCGNNNNNNNCGW 1 cut(s) 92
PfeI GAWTC 1 cut(s) 390
PkrI GCNGC 6 cut(s) 60, 76, 198, 263, 274, 289
PspEI GGTNACC 1 cut(s) 352
PspN4I GGNNCC 4 cut(s) 48, 90, 136, 254
PsuI RGATCY 1 cut(s) 244
PvuII CAGCTG 1 cut(s) 61
RseI CAYNNNNRTG 1 cut(s) 359
SapI GCTCTTC 1 cut(s) 164
SatI GCNGC 6 cut(s) 59, 75, 197, 262, 273, 288
Sau3AI GATC 3 cut(s) 153, 186, 244
ScrFI CCNGG 2 cut(s) 79, 132
SduI GDGCHC 1 cut(s) 176
SetI ASST 5 cut(s) 63, 183, 198, 330, 381
SmiMI CAYNNNNRTG 1 cut(s) 359
SsiI CCGC 5 cut(s) 121, 190, 272, 287, 290
StyD4I CCNGG 2 cut(s) 77, 130
StyI CCWWGG 2 cut(s) 69, 366
TaaI ACNGT 1 cut(s) 139
TauI GCSGC 2 cut(s) 275, 290
TfiI GAWTC 1 cut(s) 390
TseFI GTSAC 1 cut(s) 352
TseI GCWGC 4 cut(s) 58, 74, 196, 261
Tsp45I GTSAC 1 cut(s) 352
TspGWI ACGGA 2 cut(s) 191, 257
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.