Rroxscaffold_6G00413990

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000524
Physical Location & Seq
Reverse (-)
36326014 .. 36326325
312 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00413990.1

Sequence Viewer

Length: 312 bp
ATGTCGGGTCGGGGCAAGGGCGGTAAGGGTTTGGGCAAAGGCGGAGCCAAGCGCCACAGGAAGGTGCTCCGCGACAACATCCAGGGCATCACCAAGCCGGCCATCCGCCGTCTGGCTCGCCGTGGCGGCGTCAAGCGTATCAGCGGCCTCATCTACGAGGAGACACGTGGCGTCCTCAAGATCTTTCTGGAGAACGTCATCCGCGATGCCGTGACGTACACTGAGCACGCCAGGAGGAAGACGGTGACGGCCATGGATGTGGTGTACGCGCTCAAGAGGCAGGGCAGGACTCTTTACGGGTTCGGCGGTTAG

Protein Analysis

103

Amino Acids

11.41

Weight (kDa)

11.48

Isoelectric Point (pI)

45.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CENP-T_C PF15511 44 - 96 3.4e-08 Centromere kinetochore component CENP-T histone fold
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: OG0000524)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G07660 AT1G07820 AT1G07820 AT2G28740 AT3G45930 AT3G46320 AT3G53730 AT5G59690 AT5G59970 AT5G59970
malus_domestica MD03G1097000.v1.1 MD03G1105400.v1.1 MD04G1124800.v1.1 MD06G1122500.v1.1 MD07G1184400.v1.1 MD07G1194500.v1.1 MD11G1143500.v1.1 MD12G1139800.v1.1 MD14G1139400.v1.1 MD15G1139200.v1.1
rosa_chinensis RchiOBHm_Chr1g0364991 RchiOBHm_Chr3g0467051 RchiOBHm_Chr5g0062221 RchiOBHm_Chr5g0063251 RchiOBHm_Chr5g0063281 RchiOBHm_Chr5g0063731 RchiOBHm_Chr7g0187711
rosa_laevigata RLG00000024533
rosa_multiflora Rmu_sc0004483.1_g000025 Rmu_sc0005045.1_g000017 Rmu_sc0005045.1_g000024 Rmu_sc0005638.1_g000003 Rmu_sc0042820.1_g000002 Rmu_sc0042820.1_g000003 Rmu_ssc0000112.1_g000021 Rmu_ssc0000309.1_g000047 Rmu_ssc0000409.1_g000022
rosa_roxburghii Rroxscaffold_1G00017140 Rroxscaffold_1G00017150 Rroxscaffold_1G00017430 Rroxscaffold_1G00017460 Rroxscaffold_4G00292020 Rroxscaffold_6G00413990
rosa_rugosa Rorug01G0318800 Rorug01G0329200 Rorug03G0085000 Rorug05G0347300 Rorug05G0355600 Rorug05G0355800 Rorug05G0358800 Rorug05G0358800 Rorug05G0358900 Rorug06G0483800
rosa_samantha Rh1AG327700 Rh1BG289000 Rh1CG305700 Rh1DG320500 Rh3AG133000 Rh3BG154000 Rh3CG154000 Rh3DG155100 Rh5AG407800 Rh5AG417800 Rh5BG421500 Rh5BG430300 Rh5BG433000 Rh5BG433200 Rh5CG445700 Rh5CG456200 Rh5CG456400 Rh5DG436500 Rh5DG443700 Rh5DG443900 Rh5DG446400 Rh5DG446600 Rh7BG090600 Rh7CG089600 Rh7DG091100
rosa_wichuraiana Rw1G029050 Rw3G012590 Rw5G038430 Rw5G039030 Rw5G039230 Rw5G039250 Rw7G007670

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 3 cut(s) 72, 204, 269
AciI CCGC 8 cut(s) 21, 42, 70, 106, 126, 144, 202, 306
AcoI YGGCCR 2 cut(s) 99, 249
AcvI CACGTG 1 cut(s) 167
AcyI GRCGYC 2 cut(s) 129, 171
AfaI GTAC 2 cut(s) 218, 266
AfiI CCNNNNNNNGG 2 cut(s) 61, 112
AflIII ACRYGT 1 cut(s) 164
AjnI CCWGG 2 cut(s) 81, 230
Alw21I GWGCWC 2 cut(s) 69, 228
Alw26I GTCTC 1 cut(s) 155
AoxI GGCC 3 cut(s) 99, 145, 249
AspLEI GCGC 2 cut(s) 54, 271
AsuHPI GGTGA 2 cut(s) 82, 256
BbrPI CACGTG 1 cut(s) 167
BbsI GAAGAC 1 cut(s) 245
Bbv12I GWGCWC 2 cut(s) 69, 228
BccI CCATC 1 cut(s) 110
BceAI ACGGC 4 cut(s) 93, 105, 194, 264
BciT130I CCWGG 2 cut(s) 83, 232
BcoDI GTCTC 1 cut(s) 155
BfoI RGCGCY 1 cut(s) 55
BglI GCCNNNNNGGC 1 cut(s) 126
BglII AGATCT 1 cut(s) 180
BisI GCNGC 2 cut(s) 127, 145
BlsI GCNGC 2 cut(s) 128, 146
Bme1390I CCNGG 2 cut(s) 83, 232
BmiI GGNNCC 1 cut(s) 46
BmrFI CCNGG 2 cut(s) 83, 232
BmsI GCATC 2 cut(s) 96, 196
BpiI GAAGAC 1 cut(s) 245
BpmI CTGGAG 1 cut(s) 209
BpuEI CTTGAG 2 cut(s) 161, 257
BsaAI YACGTR 1 cut(s) 167
BsaHI GRCGYC 2 cut(s) 129, 171
BsaJI CCNNGG 3 cut(s) 82, 121, 252
Bsc4I CCNNNNNNNGG 2 cut(s) 61, 112
Bse118I RCCGGY 1 cut(s) 97
BseBI CCWGG 2 cut(s) 83, 232
BseDI CCNNGG 3 cut(s) 82, 121, 252
BseGI GGATG 4 cut(s) 78, 102, 198, 262
BseLI CCNNNNNNNGG 2 cut(s) 61, 112
BseMII CTCAG 1 cut(s) 213
BseRI GAGGAG 1 cut(s) 173
Bsh1236I CGCG 3 cut(s) 72, 204, 269
BshFI GGCC 3 cut(s) 101, 147, 251
BsiHKAI GWGCWC 2 cut(s) 69, 228
BsiSI CCGG 1 cut(s) 98
BslI CCNNNNNNNGG 2 cut(s) 61, 112
BsmAI GTCTC 1 cut(s) 155
BsnI GGCC 3 cut(s) 101, 147, 251
Bsp1286I GDGCHC 2 cut(s) 69, 228
Bsp143I GATC 1 cut(s) 180
Bsp19I CCATGG 1 cut(s) 252
BspACI CCGC 8 cut(s) 21, 42, 70, 106, 126, 144, 202, 306
BspANI GGCC 3 cut(s) 101, 147, 251
BspCNI CTCAG 1 cut(s) 214
BspFNI CGCG 3 cut(s) 72, 204, 269
BspLI GGNNCC 1 cut(s) 46
BsrFI RCCGGY 1 cut(s) 97
BssAI RCCGGY 1 cut(s) 97
BssECI CCNNGG 3 cut(s) 82, 121, 252
BssMI GATC 1 cut(s) 180
BssNI GRCGYC 2 cut(s) 129, 171
BssT1I CCWWGG 1 cut(s) 252
Bst2UI CCWGG 2 cut(s) 83, 232
Bst4CI ACNGT 1 cut(s) 244
BstACI GRCGYC 2 cut(s) 129, 171
BstBAI YACGTR 1 cut(s) 167
BstC8I GCNNGC 3 cut(s) 99, 118, 228
BstDEI CTNAG 1 cut(s) 222
BstDSI CCRYGG 2 cut(s) 121, 252
BstF5I GGATG 4 cut(s) 78, 102, 198, 262
BstFNI CGCG 3 cut(s) 72, 204, 269
BstH2I RGCGCY 1 cut(s) 55
BstHHI GCGC 2 cut(s) 54, 271
BstKTI GATC 1 cut(s) 183
BstMAI GTCTC 1 cut(s) 155
BstMBI GATC 1 cut(s) 180
BstMWI GCNNNNNNNGC 2 cut(s) 126, 277
BstNI CCWGG 2 cut(s) 83, 232
BstSCI CCNGG 2 cut(s) 81, 230
BstUI CGCG 3 cut(s) 72, 204, 269
BstV2I GAAGAC 1 cut(s) 245
BstX2I RGATCY 1 cut(s) 180
BstXI CCANNNNNNTGG 1 cut(s) 259
BstYI RGATCY 1 cut(s) 180
BsuRI GGCC 3 cut(s) 101, 147, 251
BtgI CCRYGG 2 cut(s) 121, 252
BtgZI GCGATG 1 cut(s) 219
BtsCI GGATG 4 cut(s) 78, 102, 198, 262
BtsIMutI CAGTG 1 cut(s) 219
Cac8I GCNNGC 3 cut(s) 99, 118, 228
CfoI GCGC 2 cut(s) 54, 271
Cfr10I RCCGGY 1 cut(s) 97
CseI GACGC 2 cut(s) 118, 160
Csp6I GTAC 2 cut(s) 217, 265
CviAII CATG 1 cut(s) 253
CviJI RGCY 6 cut(s) 47, 97, 101, 116, 147, 251
CviKI_1 RGCY 6 cut(s) 47, 97, 101, 116, 147, 251
CviQI GTAC 2 cut(s) 217, 265
DdeI CTNAG 1 cut(s) 222
DpnI GATC 1 cut(s) 182
DpnII GATC 1 cut(s) 180
EaeI YGGCCR 2 cut(s) 99, 249
EciI GGCGGA 2 cut(s) 57, 95
Eco130I CCWWGG 1 cut(s) 252
Eco72I CACGTG 1 cut(s) 167
EcoRII CCWGG 2 cut(s) 81, 230
EcoT14I CCWWGG 1 cut(s) 252
ErhI CCWWGG 1 cut(s) 252
FaeI CATG 1 cut(s) 256
FaiI YATR 1 cut(s) 254
FatI CATG 1 cut(s) 252
Fnu4HI GCNGC 2 cut(s) 127, 145
FokI GGATG 4 cut(s) 65, 89, 185, 269
Fsp4HI GCNGC 2 cut(s) 127, 145
GlaI GCGC 2 cut(s) 53, 270
GluI GCNGC 2 cut(s) 127, 145
GsuI CTGGAG 1 cut(s) 209
HaeII RGCGCY 1 cut(s) 55
HaeIII GGCC 3 cut(s) 101, 147, 251
HapII CCGG 1 cut(s) 98
HgaI GACGC 2 cut(s) 118, 160
HhaI GCGC 2 cut(s) 54, 271
Hin1I GRCGYC 2 cut(s) 129, 171
Hin1II CATG 1 cut(s) 256
Hin6I GCGC 2 cut(s) 52, 269
HinP1I GCGC 2 cut(s) 52, 269
HinfI GANTC 1 cut(s) 289
HpaII CCGG 1 cut(s) 98
HphI GGTGA 2 cut(s) 82, 256
Hpy166II GTNNAC 2 cut(s) 219, 265
Hpy188III TCNNGA 3 cut(s) 178, 188, 274
Hpy8I GTNNAC 2 cut(s) 219, 265
HpyAV CCTTC 1 cut(s) 55
HpyCH4III ACNGT 1 cut(s) 244
HpyCH4IV ACGT 3 cut(s) 166, 195, 215
HpyF10VI GCNNNNNNNGC 2 cut(s) 126, 277
HpyF3I CTNAG 1 cut(s) 222
HpySE526I ACGT 3 cut(s) 166, 195, 215
Hsp92I GRCGYC 2 cut(s) 129, 171
Hsp92II CATG 1 cut(s) 256
HspAI GCGC 2 cut(s) 52, 269
KroI GCCGGC 1 cut(s) 97
KroNI GCCGGC 1 cut(s) 99
Kzo9I GATC 1 cut(s) 180
LmnI GCTCC 2 cut(s) 44, 72
LweI GCATC 2 cut(s) 96, 196
MaeII ACGT 3 cut(s) 166, 195, 215
MaeIII GTNAC 2 cut(s) 211, 244
MalI GATC 1 cut(s) 182
MboI GATC 1 cut(s) 180
MboII GAAGA 1 cut(s) 250
MflI RGATCY 1 cut(s) 180
MhlI GDGCHC 2 cut(s) 69, 228
MlyI GAGTC 1 cut(s) 283
MnlI CCTC 5 cut(s) 151, 158, 185, 228, 270
MroNI GCCGGC 1 cut(s) 97
MslI CAYNNNNRTG 1 cut(s) 257
MspA1I CMGCKG 1 cut(s) 144
MspI CCGG 1 cut(s) 98
MspR9I CCNGG 2 cut(s) 83, 232
MvaI CCWGG 2 cut(s) 83, 232
MvnI CGCG 3 cut(s) 72, 204, 269
MwoI GCNNNNNNNGC 2 cut(s) 126, 277
NaeI GCCGGC 1 cut(s) 99
NcoI CCATGG 1 cut(s) 252
NdeII GATC 1 cut(s) 180
NgoMIV GCCGGC 1 cut(s) 97
NlaIII CATG 1 cut(s) 256
NlaIV GGNNCC 1 cut(s) 46
NmuCI GTSAC 2 cut(s) 211, 244
PcsI WCGNNNNNNNCGW 1 cut(s) 201
PdiI GCCGGC 1 cut(s) 99
PkrI GCNGC 2 cut(s) 128, 146
PleI GAGTC 1 cut(s) 283
PmaCI CACGTG 1 cut(s) 167
PmlI CACGTG 1 cut(s) 167
PpsI GAGTC 1 cut(s) 283
Ppu21I YACGTR 1 cut(s) 167
Psp6I CCWGG 2 cut(s) 81, 230
PspCI CACGTG 1 cut(s) 167
PspGI CCWGG 2 cut(s) 81, 230
PspN4I GGNNCC 1 cut(s) 46
PsuI RGATCY 1 cut(s) 180
RsaI GTAC 2 cut(s) 218, 266
RsaNI GTAC 2 cut(s) 217, 265
RseI CAYNNNNRTG 1 cut(s) 257
SatI GCNGC 2 cut(s) 127, 145
Sau3AI GATC 1 cut(s) 180
SchI GAGTC 1 cut(s) 283
ScrFI CCNGG 2 cut(s) 83, 232
SduI GDGCHC 2 cut(s) 69, 228
SetI ASST 4 cut(s) 66, 169, 198, 218
SfaNI GCATC 2 cut(s) 96, 196
SmiMI CAYNNNNRTG 1 cut(s) 257
SmlI CTYRAG 2 cut(s) 176, 272
SmoI CTYRAG 2 cut(s) 176, 272
SsiI CCGC 8 cut(s) 21, 42, 70, 106, 126, 144, 202, 306
StyD4I CCNGG 2 cut(s) 81, 230
StyI CCWWGG 1 cut(s) 252
TaaI ACNGT 1 cut(s) 244
TaiI ACGT 3 cut(s) 169, 198, 218
TauI GCSGC 2 cut(s) 129, 147
TscAI CASTG 1 cut(s) 226
TseFI GTSAC 2 cut(s) 211, 244
Tsp45I GTSAC 2 cut(s) 211, 244
TspRI CASTG 1 cut(s) 226
XcmI CCANNNNNNNNNTGG 1 cut(s) 109
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.