Rroxscaffold_1G00010570

Histone H3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000501
Physical Location & Seq
Reverse (-)
13344329 .. 13345001
673 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00010570.1

Sequence Viewer

Length: 408 bp
ATGAACCCTATTGGTCCTTATAGAAAGCACGCGGATCACTATCCTCACACTTCCACAAACCTTCCACCAGCGAATCTCCACCTCGGCTCCGGCGACCGGGGAGTAAAGAAGCCCCACCGCTTCAGGCCAGGAACCGTGGCGCTGAGGGAGATCAGGAAGTACCAGAAGAGCACGGAGCTTCTGATCCGCAAGCTTCCCTTCCAGAGGCTGGTGAGGGAGATTGCTCAGGATTTCAAGACTGATCTTCGCTTCCAGAGTAGCGCTGTGGCGGCGCTTCAGGAGGCGGCGGAGGCTTACTTGGTGGGTTTGTTTGAGGATACTAATCTGTGTGCGATTCATGCCAAGAGGGTTACCATTATGCCCAAGGATATTCAGCTTGCGAGGAGGATTAGGGGTGAGAGAGCTTAG
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

135

Amino Acids

15.41

Weight (kDa)

10.31

Isoelectric Point (pI)

38.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 43 - 130 8.5e-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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB7I CCANNNNNTGG 1 cut(s) 208
AccII CGCG 1 cut(s) 32
AciI CCGC 6 cut(s) 32, 118, 187, 269, 284, 287
AclWI GGATC 2 cut(s) 42, 178
AcuI CTGAAG 2 cut(s) 106, 260
AfaI GTAC 1 cut(s) 161
AfeI AGCGCT 1 cut(s) 262
AfiI CCNNNNNNNGG 3 cut(s) 96, 204, 208
AgsI TTSAA 1 cut(s) 235
AjnI CCWGG 1 cut(s) 127
AluBI AGCT 4 cut(s) 178, 193, 376, 404
AluI AGCT 4 cut(s) 178, 193, 376, 404
Alw21I GWGCWC 1 cut(s) 173
AlwI GGATC 2 cut(s) 42, 178
AlwNI CAGNNNCTG 1 cut(s) 208
Aor51HI AGCGCT 1 cut(s) 262
AoxI GGCC 1 cut(s) 125
AspLEI GCGC 3 cut(s) 142, 263, 274
AspS9I GGNCC 1 cut(s) 14
AsuC2I CCSGG 1 cut(s) 98
AsuHPI GGTGA 2 cut(s) 223, 407
AvaII GGWCC 1 cut(s) 14
Bbv12I GWGCWC 1 cut(s) 173
BbvCI CCTCAGC 1 cut(s) 143
BciT130I CCWGG 1 cut(s) 129
BciVI GTATCC 1 cut(s) 310
BcnI CCSGG 1 cut(s) 98
BfoI RGCGCY 3 cut(s) 143, 264, 275
BfuI GTATCC 1 cut(s) 310
BisI GCNGC 2 cut(s) 270, 285
BlsI GCNGC 2 cut(s) 271, 286
Bme1390I CCNGG 2 cut(s) 98, 129
Bme18I GGWCC 1 cut(s) 14
BmgT120I GGNCC 1 cut(s) 14
BmiI GGNNCC 2 cut(s) 88, 133
BmrFI CCNGG 2 cut(s) 98, 129
Bpu10I CCTNAGC 2 cut(s) 143, 225
BpuMI CCSGG 1 cut(s) 98
BsaBI GATNNNNATC 2 cut(s) 39, 321
BsaJI CCNNGG 4 cut(s) 82, 97, 135, 363
BsaXI ACNNNNNCTCC 2 cut(s) 71, 101
Bsc4I CCNNNNNNNGG 3 cut(s) 96, 204, 208
Bse8I GATNNNNATC 2 cut(s) 39, 321
BseBI CCWGG 1 cut(s) 129
BseDI CCNNGG 4 cut(s) 82, 97, 135, 363
BseJI GATNNNNATC 2 cut(s) 39, 321
BseLI CCNNNNNNNGG 3 cut(s) 96, 204, 208
BseMII CTCAG 2 cut(s) 134, 239
BseRI GAGGAG 1 cut(s) 397
Bsh1236I CGCG 1 cut(s) 32
Bsh1285I CGRYCG 1 cut(s) 97
BshFI GGCC 1 cut(s) 127
BsiEI CGRYCG 1 cut(s) 97
BsiHKAI GWGCWC 1 cut(s) 173
BsiSI CCGG 2 cut(s) 90, 97
BslI CCNNNNNNNGG 3 cut(s) 96, 204, 208
BsnI GGCC 1 cut(s) 127
Bsp1286I GDGCHC 1 cut(s) 173
Bsp143I GATC 4 cut(s) 34, 150, 183, 241
BspACI CCGC 6 cut(s) 32, 118, 187, 269, 284, 287
BspANI GGCC 1 cut(s) 127
BspCNI CTCAG 2 cut(s) 135, 238
BspFNI CGCG 1 cut(s) 32
BspLI GGNNCC 2 cut(s) 88, 133
BspPI GGATC 2 cut(s) 42, 178
BspQI GCTCTTC 1 cut(s) 161
BssECI CCNNGG 4 cut(s) 82, 97, 135, 363
BssMI GATC 4 cut(s) 34, 150, 183, 241
BssT1I CCWWGG 1 cut(s) 363
Bst2UI CCWGG 1 cut(s) 129
Bst4CI ACNGT 1 cut(s) 136
Bst6I CTCTTC 1 cut(s) 161
BstC8I GCNNGC 3 cut(s) 30, 191, 378
BstDEI CTNAG 3 cut(s) 143, 225, 405
BstDSI CCRYGG 1 cut(s) 135
BstEII GGTNACC 1 cut(s) 349
BstENI CCTNNNNNAGG 1 cut(s) 202
BstFNI CGCG 1 cut(s) 32
BstH2I RGCGCY 3 cut(s) 143, 264, 275
BstHHI GCGC 3 cut(s) 142, 263, 274
BstKTI GATC 4 cut(s) 37, 153, 186, 244
BstMBI GATC 4 cut(s) 34, 150, 183, 241
BstMCI CGRYCG 1 cut(s) 97
BstMWI GCNNNNNNNGC 3 cut(s) 269, 290, 338
BstNI CCWGG 1 cut(s) 129
BstPI GGTNACC 1 cut(s) 349
BstSCI CCNGG 2 cut(s) 96, 127
BstUI CGCG 1 cut(s) 32
BsuI GTATCC 1 cut(s) 310
BsuRI GGCC 1 cut(s) 127
BtgI CCRYGG 1 cut(s) 135
Cac8I GCNNGC 3 cut(s) 30, 191, 378
CaiI CAGNNNCTG 1 cut(s) 208
CfoI GCGC 3 cut(s) 142, 263, 274
Cfr13I GGNCC 1 cut(s) 14
Csp6I GTAC 1 cut(s) 160
CviAII CATG 1 cut(s) 338
CviJI RGCY 9 cut(s) 87, 112, 127, 178, 193, 208, 293, 376, 404
CviKI_1 RGCY 9 cut(s) 87, 112, 127, 178, 193, 208, 293, 376, 404
CviQI GTAC 1 cut(s) 160
DdeI CTNAG 3 cut(s) 143, 225, 405
DpnI GATC 4 cut(s) 36, 152, 185, 243
DpnII GATC 4 cut(s) 34, 150, 183, 241
Eam1104I CTCTTC 1 cut(s) 161
EarI CTCTTC 1 cut(s) 161
EciI GGCGGA 1 cut(s) 302
Eco130I CCWWGG 1 cut(s) 363
Eco47I GGWCC 1 cut(s) 14
Eco47III AGCGCT 1 cut(s) 262
Eco57I CTGAAG 2 cut(s) 106, 260
Eco91I GGTNACC 1 cut(s) 349
EcoNI CCTNNNNNAGG 1 cut(s) 202
EcoO65I GGTNACC 1 cut(s) 349
EcoRII CCWGG 1 cut(s) 127
EcoT14I CCWWGG 1 cut(s) 363
ErhI CCWWGG 1 cut(s) 363
FaeI CATG 1 cut(s) 341
FaiI YATR 3 cut(s) 21, 339, 359
FalI AAGNNNNNCTT 2 cut(s) 182, 214
FatI CATG 1 cut(s) 337
Fnu4HI GCNGC 2 cut(s) 270, 285
Fsp4HI GCNGC 2 cut(s) 270, 285
GlaI GCGC 3 cut(s) 141, 262, 273
GluI GCNGC 2 cut(s) 270, 285
HaeII RGCGCY 3 cut(s) 143, 264, 275
HaeIII GGCC 1 cut(s) 127
HapII CCGG 2 cut(s) 90, 97
HhaI GCGC 3 cut(s) 142, 263, 274
Hin1II CATG 1 cut(s) 341
Hin6I GCGC 3 cut(s) 140, 261, 272
HinP1I GCGC 3 cut(s) 140, 261, 272
HindIII AAGCTT 1 cut(s) 191
HinfI GANTC 2 cut(s) 73, 334
HpaII CCGG 2 cut(s) 90, 97
HphI GGTGA 2 cut(s) 223, 407
Hpy188I TCNGA 1 cut(s) 183
Hpy188III TCNNGA 6 cut(s) 154, 202, 227, 235, 253, 278
HpyAV CCTTC 2 cut(s) 71, 208
HpyCH4III ACNGT 1 cut(s) 136
HpyF10VI GCNNNNNNNGC 3 cut(s) 269, 290, 338
HpyF3I CTNAG 3 cut(s) 143, 225, 405
Hsp92II CATG 1 cut(s) 341
HspAI GCGC 3 cut(s) 140, 261, 272
Kzo9I GATC 4 cut(s) 34, 150, 183, 241
LguI GCTCTTC 1 cut(s) 161
LmnI GCTCC 2 cut(s) 92, 175
MaeIII GTNAC 1 cut(s) 349
MalI GATC 4 cut(s) 36, 152, 185, 243
MboI GATC 4 cut(s) 34, 150, 183, 241
MboII GAAGA 2 cut(s) 178, 236
MhlI GDGCHC 1 cut(s) 173
MspI CCGG 2 cut(s) 90, 97
MspR9I CCNGG 2 cut(s) 98, 129
MvaI CCWGG 1 cut(s) 129
MvnI CGCG 1 cut(s) 32
MwoI GCNNNNNNNGC 3 cut(s) 269, 290, 338
NciI CCSGG 1 cut(s) 98
NdeII GATC 4 cut(s) 34, 150, 183, 241
NlaIII CATG 1 cut(s) 341
NlaIV GGNNCC 2 cut(s) 88, 133
NmeAIII GCCGAG 1 cut(s) 63
PciSI GCTCTTC 1 cut(s) 161
PcsI WCGNNNNNNNCGW 1 cut(s) 90
PfeI GAWTC 2 cut(s) 73, 334
PflMI CCANNNNNTGG 1 cut(s) 208
PkrI GCNGC 2 cut(s) 271, 286
Psp6I CCWGG 1 cut(s) 127
PspEI GGTNACC 1 cut(s) 349
PspGI CCWGG 1 cut(s) 127
PspN4I GGNNCC 2 cut(s) 88, 133
PspPI GGNCC 1 cut(s) 14
PstNI CAGNNNCTG 1 cut(s) 208
RsaI GTAC 1 cut(s) 161
RsaNI GTAC 1 cut(s) 160
SapI GCTCTTC 1 cut(s) 161
SatI GCNGC 2 cut(s) 270, 285
Sau3AI GATC 4 cut(s) 34, 150, 183, 241
Sau96I GGNCC 1 cut(s) 14
ScrFI CCNGG 2 cut(s) 98, 129
SduI GDGCHC 1 cut(s) 173
SetI ASST 6 cut(s) 63, 84, 180, 195, 378, 406
SinI GGWCC 1 cut(s) 14
SsiI CCGC 6 cut(s) 32, 118, 187, 269, 284, 287
StyD4I CCNGG 2 cut(s) 96, 127
StyI CCWWGG 1 cut(s) 363
TaaI ACNGT 1 cut(s) 136
TauI GCSGC 2 cut(s) 272, 287
TfiI GAWTC 2 cut(s) 73, 334
TspDTI ATGAA 2 cut(s) 17, 326
TspGWI ACGGA 1 cut(s) 188
Van91I CCANNNNNTGG 1 cut(s) 208
VpaK11BI GGWCC 1 cut(s) 14
XagI CCTNNNNNAGG 1 cut(s) 202
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.