MD05G1308500.v1.1

Histone H3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0000501
Physical Location & Seq
Forward (+)
43951922 .. 43952332
411 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1308500.v1.1.491

Sequence Viewer

Length: 411 bp
ATGGCACGCACCAAGCAAACCGCCCGCAAGTCCACCGGAGGAAAAGCTCCCCGTAAGCAGCTGGCCACCAAGGCGGCTCGCAAGTCTGCTCCGGCCACCGGCGGAGTGAAGAAGCCCCACCGCTTCAGGCCCGGAACCGTTGCTCTCCGTGAGATTCGTAAGTACCAGAAGAGCACTGAGCTCCTGATCCGAAAGCTCCCATTCCAGCGCCTGGTCCGTGAGATCGCCCAGGACTTCAAGACCGACCTGAGGTTCCAGAGCTCCGCCGTTGCGGCCCTCCAGGAGGCGGCGGAGGCCTACCTCGTCGGGCTTTTTGAGGACACCAACCTTTGCGCCATCCACGCCAAGAGGGTTACCATCATGCCCAAGGATATCCAGCTCGCTAGGCGCATCAGGGGTGAGAGGGCTTAG
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

137

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
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) 211
AciI CCGC 9 cut(s) 21, 25, 74, 102, 121, 264, 272, 287, 290
AclWI GGATC 1 cut(s) 181
AcoI YGGCCR 2 cut(s) 63, 93
AcuI CTGAAG 1 cut(s) 109
AfaI GTAC 1 cut(s) 164
AfiI CCNNNNNNNGG 5 cut(s) 98, 211, 249, 283, 286
AgsI TTSAA 1 cut(s) 238
AjnI CCWGG 3 cut(s) 210, 228, 279
AluBI AGCT 6 cut(s) 47, 61, 181, 196, 261, 379
AluI AGCT 6 cut(s) 47, 61, 181, 196, 261, 379
Alw21I GWGCWC 3 cut(s) 176, 183, 263
AlwI GGATC 1 cut(s) 181
AlwNI CAGNNNCTG 1 cut(s) 211
AoxI GGCC 5 cut(s) 63, 93, 128, 273, 294
ApeKI GCWGC 1 cut(s) 58
AspLEI GCGC 3 cut(s) 210, 335, 390
AspS9I GGNCC 3 cut(s) 129, 214, 274
AsuC2I CCSGG 1 cut(s) 132
AsuHPI GGTGA 1 cut(s) 410
AvaII GGWCC 1 cut(s) 214
AxyI CCTNAGG 1 cut(s) 248
BalI TGGCCA 1 cut(s) 65
BanII GRGCYC 2 cut(s) 183, 263
Bbv12I GWGCWC 3 cut(s) 176, 183, 263
BbvI GCAGC 1 cut(s) 70
BccI CCATC 2 cut(s) 344, 365
BceAI ACGGC 1 cut(s) 251
BciT130I CCWGG 3 cut(s) 212, 230, 281
BcnI CCSGG 1 cut(s) 132
BfaI CTAG 1 cut(s) 384
BfoI RGCGCY 1 cut(s) 211
BglI GCCNNNNNGGC 2 cut(s) 71, 272
BisI GCNGC 4 cut(s) 59, 75, 273, 288
BlsI GCNGC 4 cut(s) 60, 76, 274, 289
Bme1390I CCNGG 4 cut(s) 132, 212, 230, 281
Bme18I GGWCC 1 cut(s) 214
BmgT120I GGNCC 3 cut(s) 129, 214, 274
BmiI GGNNCC 2 cut(s) 136, 254
BmrFI CCNGG 4 cut(s) 132, 212, 230, 281
BmsI GCATC 1 cut(s) 399
BpmI CTGGAG 1 cut(s) 263
BpuMI CCSGG 1 cut(s) 132
BsaJI CCNNGG 3 cut(s) 69, 228, 366
BsaWI WCCGGW 1 cut(s) 35
Bsc4I CCNNNNNNNGG 5 cut(s) 98, 211, 249, 283, 286
Bse118I RCCGGY 1 cut(s) 98
Bse21I CCTNAGG 1 cut(s) 248
BseBI CCWGG 3 cut(s) 212, 230, 281
BseDI CCNNGG 3 cut(s) 69, 228, 366
BseGI GGATG 1 cut(s) 336
BseLI CCNNNNNNNGG 5 cut(s) 98, 211, 249, 283, 286
BseMII CTCAG 2 cut(s) 168, 239
BseXI GCAGC 1 cut(s) 70
BshFI GGCC 5 cut(s) 65, 95, 130, 275, 296
BsiHKAI GWGCWC 3 cut(s) 176, 183, 263
BsiSI CCGG 4 cut(s) 36, 92, 99, 132
BslI CCNNNNNNNGG 5 cut(s) 98, 211, 249, 283, 286
BsnI GGCC 5 cut(s) 65, 95, 130, 275, 296
Bsp1286I GDGCHC 3 cut(s) 176, 183, 263
Bsp143I GATC 2 cut(s) 186, 222
BspACI CCGC 9 cut(s) 21, 25, 74, 102, 121, 264, 272, 287, 290
BspANI GGCC 5 cut(s) 65, 95, 130, 275, 296
BspCNI CTCAG 2 cut(s) 169, 240
BspLI GGNNCC 2 cut(s) 136, 254
BspPI GGATC 1 cut(s) 181
BspQI GCTCTTC 1 cut(s) 164
BsrFI RCCGGY 1 cut(s) 98
BssAI RCCGGY 1 cut(s) 98
BssECI CCNNGG 3 cut(s) 69, 228, 366
BssMI GATC 2 cut(s) 186, 222
BssT1I CCWWGG 2 cut(s) 69, 366
Bst2UI CCWGG 3 cut(s) 212, 230, 281
Bst4CI ACNGT 1 cut(s) 139
Bst6I CTCTTC 1 cut(s) 164
BstC8I GCNNGC 5 cut(s) 7, 25, 63, 79, 381
BstDEI CTNAG 3 cut(s) 177, 248, 408
BstEII GGTNACC 1 cut(s) 352
BstENI CCTNNNNNAGG 1 cut(s) 281
BstF5I GGATG 1 cut(s) 336
BstH2I RGCGCY 1 cut(s) 211
BstHHI GCGC 3 cut(s) 210, 335, 390
BstKTI GATC 2 cut(s) 189, 225
BstMBI GATC 2 cut(s) 186, 222
BstMWI GCNNNNNNNGC 5 cut(s) 71, 272, 293, 341, 385
BstNI CCWGG 3 cut(s) 212, 230, 281
BstPI GGTNACC 1 cut(s) 352
BstSCI CCNGG 4 cut(s) 130, 210, 228, 279
BstV1I GCAGC 1 cut(s) 70
Bsu36I CCTNAGG 1 cut(s) 248
BsuRI GGCC 5 cut(s) 65, 95, 130, 275, 296
BtsCI GGATG 1 cut(s) 336
BtsIMutI CAGTG 1 cut(s) 174
Cac8I GCNNGC 5 cut(s) 7, 25, 63, 79, 381
CaiI CAGNNNCTG 1 cut(s) 211
CfoI GCGC 3 cut(s) 210, 335, 390
Cfr10I RCCGGY 1 cut(s) 98
Cfr13I GGNCC 3 cut(s) 129, 214, 274
Csp6I GTAC 1 cut(s) 163
CviAII CATG 1 cut(s) 361
CviQI GTAC 1 cut(s) 163
DdeI CTNAG 3 cut(s) 177, 248, 408
DpnI GATC 2 cut(s) 188, 224
DpnII GATC 2 cut(s) 186, 222
EaeI YGGCCR 2 cut(s) 63, 93
Eam1104I CTCTTC 1 cut(s) 164
EarI CTCTTC 1 cut(s) 164
EciI GGCGGA 3 cut(s) 117, 253, 305
Ecl136II GAGCTC 2 cut(s) 181, 261
Eco130I CCWWGG 2 cut(s) 69, 366
Eco147I AGGCCT 1 cut(s) 296
Eco24I GRGCYC 2 cut(s) 183, 263
Eco32I GATATC 1 cut(s) 373
Eco47I GGWCC 1 cut(s) 214
Eco53kI GAGCTC 2 cut(s) 181, 261
Eco57I CTGAAG 1 cut(s) 109
Eco81I CCTNAGG 1 cut(s) 248
Eco91I GGTNACC 1 cut(s) 352
EcoICRI GAGCTC 2 cut(s) 181, 261
EcoNI CCTNNNNNAGG 1 cut(s) 281
EcoO65I GGTNACC 1 cut(s) 352
EcoRII CCWGG 3 cut(s) 210, 228, 279
EcoRV GATATC 1 cut(s) 373
EcoT14I CCWWGG 2 cut(s) 69, 366
EcoT38I GRGCYC 2 cut(s) 183, 263
ErhI CCWWGG 2 cut(s) 69, 366
FaeI CATG 1 cut(s) 364
FaiI YATR 1 cut(s) 362
FatI CATG 1 cut(s) 360
FauI CCCGC 1 cut(s) 32
Fnu4HI GCNGC 4 cut(s) 59, 75, 273, 288
FokI GGATG 1 cut(s) 323
FriOI GRGCYC 2 cut(s) 183, 263
Fsp4HI GCNGC 4 cut(s) 59, 75, 273, 288
FspBI CTAG 1 cut(s) 384
GlaI GCGC 3 cut(s) 209, 334, 389
GluI GCNGC 4 cut(s) 59, 75, 273, 288
GsuI CTGGAG 1 cut(s) 263
HaeII RGCGCY 1 cut(s) 211
HaeIII GGCC 5 cut(s) 65, 95, 130, 275, 296
HapII CCGG 4 cut(s) 36, 92, 99, 132
HhaI GCGC 3 cut(s) 210, 335, 390
Hin1II CATG 1 cut(s) 364
Hin6I GCGC 3 cut(s) 208, 333, 388
HinP1I GCGC 3 cut(s) 208, 333, 388
HinfI GANTC 1 cut(s) 154
HpaII CCGG 4 cut(s) 36, 92, 99, 132
HphI GGTGA 1 cut(s) 410
Hpy166II GTNNAC 1 cut(s) 33
Hpy188I TCNGA 1 cut(s) 191
Hpy188III TCNNGA 3 cut(s) 184, 238, 256
Hpy8I GTNNAC 1 cut(s) 33
Hpy99I CGWCG 1 cut(s) 308
HpyCH4III ACNGT 1 cut(s) 139
HpyF10VI GCNNNNNNNGC 5 cut(s) 71, 272, 293, 341, 385
HpyF3I CTNAG 3 cut(s) 177, 248, 408
Hsp92II CATG 1 cut(s) 364
HspAI GCGC 3 cut(s) 208, 333, 388
Kzo9I GATC 2 cut(s) 186, 222
LguI GCTCTTC 1 cut(s) 164
LmnI GCTCC 5 cut(s) 52, 94, 186, 201, 266
Lsp1109I GCAGC 1 cut(s) 70
LweI GCATC 1 cut(s) 399
MaeI CTAG 1 cut(s) 384
MaeIII GTNAC 1 cut(s) 352
MalI GATC 2 cut(s) 188, 224
MboI GATC 2 cut(s) 186, 222
MboII GAAGA 2 cut(s) 121, 181
MhlI GDGCHC 3 cut(s) 176, 183, 263
MlsI TGGCCA 1 cut(s) 65
MluNI TGGCCA 1 cut(s) 65
MnlI CCTC 9 cut(s) 32, 243, 277, 286, 287, 310, 311, 342, 396
Mox20I TGGCCA 1 cut(s) 65
MscI TGGCCA 1 cut(s) 65
Msp20I TGGCCA 1 cut(s) 65
MspA1I CMGCKG 1 cut(s) 61
MspI CCGG 4 cut(s) 36, 92, 99, 132
MspR9I CCNGG 4 cut(s) 132, 212, 230, 281
MvaI CCWGG 3 cut(s) 212, 230, 281
MwoI GCNNNNNNNGC 5 cut(s) 71, 272, 293, 341, 385
NciI CCSGG 1 cut(s) 132
NdeII GATC 2 cut(s) 186, 222
NlaIII CATG 1 cut(s) 364
NlaIV GGNNCC 2 cut(s) 136, 254
PceI AGGCCT 1 cut(s) 296
PciSI GCTCTTC 1 cut(s) 164
PfeI GAWTC 1 cut(s) 154
PflMI CCANNNNNTGG 1 cut(s) 211
PfoI TCCNGGA 1 cut(s) 279
PkrI GCNGC 4 cut(s) 60, 76, 274, 289
Psp124BI GAGCTC 2 cut(s) 183, 263
Psp6I CCWGG 3 cut(s) 210, 228, 279
PspEI GGTNACC 1 cut(s) 352
PspGI CCWGG 3 cut(s) 210, 228, 279
PspN4I GGNNCC 2 cut(s) 136, 254
PspPI GGNCC 3 cut(s) 129, 214, 274
PstNI CAGNNNCTG 1 cut(s) 211
PvuII CAGCTG 1 cut(s) 61
RsaI GTAC 1 cut(s) 164
RsaNI GTAC 1 cut(s) 163
SacI GAGCTC 2 cut(s) 183, 263
SapI GCTCTTC 1 cut(s) 164
SatI GCNGC 4 cut(s) 59, 75, 273, 288
Sau3AI GATC 2 cut(s) 186, 222
Sau96I GGNCC 3 cut(s) 129, 214, 274
ScrFI CCNGG 4 cut(s) 132, 212, 230, 281
SduI GDGCHC 3 cut(s) 176, 183, 263
SfaNI GCATC 1 cut(s) 399
SgrAI CRCCGGYG 1 cut(s) 98
SinI GGWCC 1 cut(s) 214
SseBI AGGCCT 1 cut(s) 296
SsiI CCGC 9 cut(s) 21, 25, 74, 102, 121, 264, 272, 287, 290
SspMI CTAG 1 cut(s) 384
SstI GAGCTC 2 cut(s) 183, 263
StuI AGGCCT 1 cut(s) 296
StyD4I CCNGG 4 cut(s) 130, 210, 228, 279
StyI CCWWGG 2 cut(s) 69, 366
TaaI ACNGT 1 cut(s) 139
TaqII GACCGA 1 cut(s) 257
TauI GCSGC 3 cut(s) 77, 275, 290
TfiI GAWTC 1 cut(s) 154
TscAI CASTG 1 cut(s) 181
TseI GCWGC 1 cut(s) 58
TspGWI ACGGA 2 cut(s) 137, 206
TspRI CASTG 1 cut(s) 181
Van91I CCANNNNNTGG 1 cut(s) 211
VpaK11BI GGWCC 1 cut(s) 214
XagI CCTNNNNNAGG 1 cut(s) 281
XspI CTAG 1 cut(s) 384
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.