Rh5AG407800

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_samantha
Chr5A
OG0000524
Physical Location & Seq
Forward (+)
70480541 .. 70481271
731 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG407800.1

Sequence Viewer

Length: 312 bp
ATGTCCGGCCGCGGCAAGGGAGGCAAGGGTTTGGGCAAAGGAGGAGCCAAGCGTCACAGGAAGGTCCTCCGCGATAACATCCAGGGCATCACCAAGCCCGCCATTCGCCGTCTGGCTCGCCGTGGCGGCGTCAAGCGTATCTCCGGCCTGATCTACGAGGAGACACGTGGCGTGCTCAAGATCTTTCTCGAGAACGTCATCCGTGACGCCGTCACTTACACTGAGCACGCTCGGAGGAAGACCGTCACCGCCATGGATGTGGTGTATGCGCTCAAGAGGCAAGGAAGGACTCTTTACGGGTTCGGGGGTTAG

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
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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 2 cut(s) 12, 72
AciI CCGC 6 cut(s) 10, 12, 70, 99, 126, 249
AcoI YGGCCR 1 cut(s) 7
AcvI CACGTG 1 cut(s) 167
AcyI GRCGYC 2 cut(s) 129, 207
AfiI CCNNNNNNNGG 1 cut(s) 16
AflIII ACRYGT 1 cut(s) 164
AjnI CCWGG 1 cut(s) 81
Alw21I GWGCWC 2 cut(s) 177, 228
Alw26I GTCTC 1 cut(s) 155
Ama87I CYCGRG 1 cut(s) 188
AoxI GGCC 2 cut(s) 7, 145
AspLEI GCGC 1 cut(s) 271
AspS9I GGNCC 1 cut(s) 64
AsuHPI GGTGA 2 cut(s) 82, 238
AvaI CYCGRG 1 cut(s) 188
AvaII GGWCC 1 cut(s) 64
BbrPI CACGTG 1 cut(s) 167
BbsI GAAGAC 1 cut(s) 245
Bbv12I GWGCWC 2 cut(s) 177, 228
BceAI ACGGC 3 cut(s) 93, 105, 194
BciT130I CCWGG 1 cut(s) 83
BcoDI GTCTC 1 cut(s) 155
BglI GCCNNNNNGGC 1 cut(s) 126
BglII AGATCT 1 cut(s) 180
BisI GCNGC 3 cut(s) 10, 13, 127
BlsI GCNGC 3 cut(s) 11, 14, 128
Bme1390I CCNGG 1 cut(s) 83
Bme18I GGWCC 1 cut(s) 64
BmeT110I CYCGRG 1 cut(s) 188
BmgT120I GGNCC 1 cut(s) 64
BmiI GGNNCC 1 cut(s) 46
BmrFI CCNGG 1 cut(s) 83
BmsI GCATC 1 cut(s) 96
BpiI GAAGAC 1 cut(s) 245
BpuEI CTTGAG 2 cut(s) 161, 257
BsaAI YACGTR 1 cut(s) 167
BsaHI GRCGYC 2 cut(s) 129, 207
BsaJI CCNNGG 4 cut(s) 10, 82, 121, 252
Bsc4I CCNNNNNNNGG 1 cut(s) 16
BseBI CCWGG 1 cut(s) 83
BseDI CCNNGG 4 cut(s) 10, 82, 121, 252
BseGI GGATG 3 cut(s) 78, 198, 262
BseLI CCNNNNNNNGG 1 cut(s) 16
BseMII CTCAG 1 cut(s) 213
BseRI GAGGAG 2 cut(s) 57, 173
BseX3I CGGCCG 1 cut(s) 7
Bsh1236I CGCG 2 cut(s) 12, 72
Bsh1285I CGRYCG 1 cut(s) 10
BshFI GGCC 2 cut(s) 9, 147
BsiEI CGRYCG 1 cut(s) 10
BsiHKAI GWGCWC 2 cut(s) 177, 228
BsiHKCI CYCGRG 1 cut(s) 188
BsiSI CCGG 2 cut(s) 6, 144
BslI CCNNNNNNNGG 1 cut(s) 16
BsmAI GTCTC 1 cut(s) 155
BsnI GGCC 2 cut(s) 9, 147
BsoBI CYCGRG 1 cut(s) 188
Bsp1286I GDGCHC 2 cut(s) 177, 228
Bsp143I GATC 2 cut(s) 150, 180
Bsp19I CCATGG 1 cut(s) 252
BspACI CCGC 6 cut(s) 10, 12, 70, 99, 126, 249
BspANI GGCC 2 cut(s) 9, 147
BspCNI CTCAG 1 cut(s) 214
BspFNI CGCG 2 cut(s) 12, 72
BspLI GGNNCC 1 cut(s) 46
BssECI CCNNGG 4 cut(s) 10, 82, 121, 252
BssMI GATC 2 cut(s) 150, 180
BssNI GRCGYC 2 cut(s) 129, 207
BssT1I CCWWGG 1 cut(s) 252
Bst2UI CCWGG 1 cut(s) 83
Bst4CI ACNGT 1 cut(s) 244
BstACI GRCGYC 2 cut(s) 129, 207
BstBAI YACGTR 1 cut(s) 167
BstC8I GCNNGC 4 cut(s) 99, 118, 173, 228
BstDEI CTNAG 1 cut(s) 222
BstDSI CCRYGG 3 cut(s) 10, 121, 252
BstF5I GGATG 3 cut(s) 78, 198, 262
BstFNI CGCG 2 cut(s) 12, 72
BstHHI GCGC 1 cut(s) 271
BstKTI GATC 2 cut(s) 153, 183
BstMAI GTCTC 1 cut(s) 155
BstMBI GATC 2 cut(s) 150, 180
BstMCI CGRYCG 1 cut(s) 10
BstMWI GCNNNNNNNGC 3 cut(s) 21, 126, 277
BstNI CCWGG 1 cut(s) 83
BstSCI CCNGG 1 cut(s) 81
BstUI CGCG 2 cut(s) 12, 72
BstV2I GAAGAC 1 cut(s) 245
BstX2I RGATCY 1 cut(s) 180
BstXI CCANNNNNNTGG 1 cut(s) 259
BstYI RGATCY 1 cut(s) 180
BstZI CGGCCG 1 cut(s) 7
BsuRI GGCC 2 cut(s) 9, 147
BtgI CCRYGG 3 cut(s) 10, 121, 252
BtsCI GGATG 3 cut(s) 78, 198, 262
BtsIMutI CAGTG 1 cut(s) 219
Cac8I GCNNGC 4 cut(s) 99, 118, 173, 228
CfoI GCGC 1 cut(s) 271
Cfr13I GGNCC 1 cut(s) 64
Cfr42I CCGCGG 1 cut(s) 13
CseI GACGC 3 cut(s) 41, 118, 215
CviAII CATG 1 cut(s) 253
CviJI RGCY 5 cut(s) 9, 47, 97, 116, 147
CviKI_1 RGCY 5 cut(s) 9, 47, 97, 116, 147
DdeI CTNAG 1 cut(s) 222
DpnI GATC 2 cut(s) 152, 182
DpnII GATC 2 cut(s) 150, 180
EaeI YGGCCR 1 cut(s) 7
EagI CGGCCG 1 cut(s) 7
EclXI CGGCCG 1 cut(s) 7
Eco130I CCWWGG 1 cut(s) 252
Eco47I GGWCC 1 cut(s) 64
Eco52I CGGCCG 1 cut(s) 7
Eco72I CACGTG 1 cut(s) 167
Eco88I CYCGRG 1 cut(s) 188
EcoO109I RGGNCCY 1 cut(s) 64
EcoRII CCWGG 1 cut(s) 81
EcoT14I CCWWGG 1 cut(s) 252
ErhI CCWWGG 1 cut(s) 252
FaeI CATG 1 cut(s) 256
FaiI YATR 2 cut(s) 254, 267
FatI CATG 1 cut(s) 252
FauI CCCGC 1 cut(s) 106
Fnu4HI GCNGC 3 cut(s) 10, 13, 127
FokI GGATG 3 cut(s) 65, 185, 269
Fsp4HI GCNGC 3 cut(s) 10, 13, 127
GlaI GCGC 1 cut(s) 270
GluI GCNGC 3 cut(s) 10, 13, 127
HaeIII GGCC 2 cut(s) 9, 147
HapII CCGG 2 cut(s) 6, 144
HgaI GACGC 3 cut(s) 41, 118, 215
HhaI GCGC 1 cut(s) 271
Hin1I GRCGYC 2 cut(s) 129, 207
Hin1II CATG 1 cut(s) 256
Hin6I GCGC 1 cut(s) 269
HinP1I GCGC 1 cut(s) 269
HinfI GANTC 1 cut(s) 289
HpaII CCGG 2 cut(s) 6, 144
HphI GGTGA 2 cut(s) 82, 238
Hpy188I TCNGA 1 cut(s) 234
Hpy188III TCNNGA 4 cut(s) 178, 188, 190, 274
HpyAV CCTTC 2 cut(s) 55, 279
HpyCH4III ACNGT 1 cut(s) 244
HpyCH4IV ACGT 2 cut(s) 166, 195
HpyF10VI GCNNNNNNNGC 3 cut(s) 21, 126, 277
HpyF3I CTNAG 1 cut(s) 222
HpySE526I ACGT 2 cut(s) 166, 195
Hsp92I GRCGYC 2 cut(s) 129, 207
Hsp92II CATG 1 cut(s) 256
HspAI GCGC 1 cut(s) 269
KspI CCGCGG 1 cut(s) 13
Kzo9I GATC 2 cut(s) 150, 180
LmnI GCTCC 1 cut(s) 44
LpnPI CCDG 7 cut(s) 19, 43, 68, 95, 98, 157, 161
LweI GCATC 1 cut(s) 96
MaeII ACGT 2 cut(s) 166, 195
MaeIII GTNAC 4 cut(s) 53, 203, 211, 244
MalI GATC 2 cut(s) 152, 182
MboI GATC 2 cut(s) 150, 180
MboII GAAGA 1 cut(s) 250
MflI RGATCY 1 cut(s) 180
MhlI GDGCHC 2 cut(s) 177, 228
MlyI GAGTC 1 cut(s) 283
MnlI CCTC 6 cut(s) 14, 35, 77, 151, 228, 270
MslI CAYNNNNRTG 2 cut(s) 251, 257
MspA1I CMGCKG 1 cut(s) 12
MspI CCGG 2 cut(s) 6, 144
MspR9I CCNGG 1 cut(s) 83
MvaI CCWGG 1 cut(s) 83
MvnI CGCG 2 cut(s) 12, 72
MwoI GCNNNNNNNGC 3 cut(s) 21, 126, 277
NcoI CCATGG 1 cut(s) 252
NdeII GATC 2 cut(s) 150, 180
NlaIII CATG 1 cut(s) 256
NlaIV GGNNCC 1 cut(s) 46
NmuCI GTSAC 4 cut(s) 53, 203, 211, 244
PaeR7I CTCGAG 1 cut(s) 188
PflFI GACNNNGTC 1 cut(s) 209
PkrI GCNGC 3 cut(s) 11, 14, 128
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
PpuMI RGGWCCY 1 cut(s) 64
Psp5II RGGWCCY 1 cut(s) 64
Psp6I CCWGG 1 cut(s) 81
PspCI CACGTG 1 cut(s) 167
PspGI CCWGG 1 cut(s) 81
PspN4I GGNNCC 1 cut(s) 46
PspPI GGNCC 1 cut(s) 64
PspPPI RGGWCCY 1 cut(s) 64
PsuI RGATCY 1 cut(s) 180
PsyI GACNNNGTC 1 cut(s) 209
RseI CAYNNNNRTG 2 cut(s) 251, 257
SacII CCGCGG 1 cut(s) 13
SatI GCNGC 3 cut(s) 10, 13, 127
Sau3AI GATC 2 cut(s) 150, 180
Sau96I GGNCC 1 cut(s) 64
SchI GAGTC 1 cut(s) 283
ScrFI CCNGG 1 cut(s) 83
SduI GDGCHC 2 cut(s) 177, 228
SetI ASST 3 cut(s) 66, 169, 198
SfaNI GCATC 1 cut(s) 96
Sfr274I CTCGAG 1 cut(s) 188
Sfr303I CCGCGG 1 cut(s) 13
SgrBI CCGCGG 1 cut(s) 13
SinI GGWCC 1 cut(s) 64
SlaI CTCGAG 1 cut(s) 188
SmiMI CAYNNNNRTG 2 cut(s) 251, 257
SmlI CTYRAG 3 cut(s) 176, 188, 272
SmoI CTYRAG 3 cut(s) 176, 188, 272
SsiI CCGC 6 cut(s) 10, 12, 70, 99, 126, 249
StyD4I CCNGG 1 cut(s) 81
StyI CCWWGG 1 cut(s) 252
TaaI ACNGT 1 cut(s) 244
TaiI ACGT 2 cut(s) 169, 198
TaqI TCGA 1 cut(s) 189
TauI GCSGC 3 cut(s) 12, 15, 129
TscAI CASTG 1 cut(s) 226
TseFI GTSAC 4 cut(s) 53, 203, 211, 244
Tsp45I GTSAC 4 cut(s) 53, 203, 211, 244
TspGWI ACGGA 1 cut(s) 191
TspRI CASTG 1 cut(s) 226
Tth111I GACNNNGTC 1 cut(s) 209
VpaK11BI GGWCC 1 cut(s) 64
XcmI CCANNNNNNNNNTGG 1 cut(s) 109
XhoI CTCGAG 1 cut(s) 188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.