Rroxscaffold_2G00142870

Histone H1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0013454
Physical Location & Seq
Reverse (-)
80959174 .. 80959826
653 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00142870.1

Sequence Viewer

Length: 567 bp
ATGTCTGCCACCGAAGAAGTAGAAGCTCCGACCGTGGAAGCCCCACCGGCGACGGAGGAGAAGCCGGTGAGGGAGAAAAAGCTCAGGGATCTGAAGGAGAAGAAGCCCAAACAGCCCAAAACCAAACCCAAAACAGCTGCTCATCCTCCCTATTTTCAGATGATCAAAGAGGCACTGTTGGCTCTGAACGAGAAGAGCGGGTCGAGTCCTTACGCCATAGCCAAGTACATGGAGGAGAAGCACAAGGCGGTGCTTCCGGCCAATTTCAAGAAGACTCTGGCTCTGCAATTGAAGAACTCGGAGGGGAGAGGGAAACTGGTCAAGGTCAAGGCCTCTTACAAGTTGTCTGAGGCGGGGAAGAAGGACAAGAGCGCCAGCAAAAGAACAACTCGAGCTTCGAAGTCCAAGGAGGAGGAGAAGAAGACCAAGACTCAGGCGTCTGCTGCTCCAAAGGTGACGAAGAAGAAGCCGGCTAAGAAGAATAAGAAATCGAGCGCTGCAAAGCCGAAGCAGCCCAAGTCGATCAAGAGCCCTGCTGCTAAGAAACCCAAGAAGGCTGCTGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Linker_histone

Protein Analysis

188

Amino Acids

20.61

Weight (kDa)

10.22

Isoelectric Point (pI)

46.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Linker_histone PF00538 48 - 114 5.4e-16 linker histone H1 and H5 family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0013454)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G18050 AT2G18050
fragaria_vesca FvH4_1g12030
malus_domestica MD02G1134400.v1.1 MD15G1247400.v1.1
prunus_persica Prupe.7G166400_v2.0.a1
pyrus_communis pycom02g10600 pycom15g21750
rosa_chinensis RchiOBHm_Chr2g0099661
rosa_laevigata RLG00000016902
rosa_multiflora Rmu_sc0005120.1_g000018
rosa_roxburghii Rroxscaffold_2G00142870
rosa_rugosa Rorug02G0081800
rosa_samantha Rh2AG131400 Rh2BG134700 Rh2CG135600 Rh2DG136100
rosa_wichuraiana Rw2G010170

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 436
AccBSI CCGCTC 1 cut(s) 198
AciI CCGC 3 cut(s) 198, 248, 353
AclWI GGATC 1 cut(s) 96
AcoI YGGCCR 1 cut(s) 258
AcuI CTGAAG 1 cut(s) 113
AcyI GRCGYC 1 cut(s) 437
AfaI GTAC 1 cut(s) 227
AfeI AGCGCT 1 cut(s) 496
AgsI TTSAA 2 cut(s) 268, 292
AluBI AGCT 4 cut(s) 26, 82, 137, 395
AluI AGCT 4 cut(s) 26, 82, 137, 395
AlwI GGATC 1 cut(s) 96
Ama87I CYCGRG 1 cut(s) 390
Aor51HI AGCGCT 1 cut(s) 496
AoxI GGCC 2 cut(s) 258, 330
ApeKI GCWGC 7 cut(s) 137, 443, 497, 511, 536, 557, 560
AspLEI GCGC 2 cut(s) 374, 497
AsuHPI GGTGA 2 cut(s) 79, 466
AsuII TTCGAA 1 cut(s) 398
AvaI CYCGRG 1 cut(s) 390
BanII GRGCYC 1 cut(s) 533
BbsI GAAGAC 2 cut(s) 278, 428
BbvI GCAGC 7 cut(s) 124, 430, 484, 523, 523, 544, 547
BclI TGATCA 1 cut(s) 162
BfoI RGCGCY 2 cut(s) 375, 498
BglI GCCNNNNNGGC 1 cut(s) 47
BisI GCNGC 7 cut(s) 138, 444, 498, 512, 537, 558, 561
BlsI GCNGC 7 cut(s) 139, 445, 499, 513, 538, 559, 562
BmeT110I CYCGRG 1 cut(s) 390
BpiI GAAGAC 2 cut(s) 278, 428
Bpu10I CCTNAGC 1 cut(s) 83
Bpu14I TTCGAA 1 cut(s) 398
BsaHI GRCGYC 1 cut(s) 437
BsaJI CCNNGG 2 cut(s) 33, 405
Bse118I RCCGGY 3 cut(s) 46, 64, 469
Bse1I ACTGG 1 cut(s) 321
BseDI CCNNGG 2 cut(s) 33, 405
BseGI GGATG 1 cut(s) 142
BseMII CTCAG 3 cut(s) 97, 339, 446
BseNI ACTGG 1 cut(s) 321
BseRI GAGGAG 4 cut(s) 71, 248, 425, 428
BseXI GCAGC 7 cut(s) 124, 430, 484, 523, 523, 544, 547
Bsh1285I CGRYCG 1 cut(s) 33
BshFI GGCC 2 cut(s) 260, 332
BsiEI CGRYCG 1 cut(s) 33
BsiHKCI CYCGRG 1 cut(s) 390
BsiSI CCGG 4 cut(s) 47, 65, 257, 470
BsnI GGCC 2 cut(s) 260, 332
BsoBI CYCGRG 1 cut(s) 390
Bsp119I TTCGAA 1 cut(s) 398
Bsp1286I GDGCHC 1 cut(s) 533
Bsp143I GATC 3 cut(s) 88, 162, 522
BspACI CCGC 3 cut(s) 198, 248, 353
BspANI GGCC 2 cut(s) 260, 332
BspCNI CTCAG 3 cut(s) 96, 340, 445
BspPI GGATC 1 cut(s) 96
BspQI GCTCTTC 1 cut(s) 188
BspT104I TTCGAA 1 cut(s) 398
BsrBI CCGCTC 1 cut(s) 198
BsrFI RCCGGY 3 cut(s) 46, 64, 469
BsrI ACTGG 1 cut(s) 321
BssAI RCCGGY 3 cut(s) 46, 64, 469
BssECI CCNNGG 2 cut(s) 33, 405
BssMI GATC 3 cut(s) 88, 162, 522
BssNI GRCGYC 1 cut(s) 437
BssT1I CCWWGG 1 cut(s) 405
Bst4CI ACNGT 2 cut(s) 34, 177
Bst6I CTCTTC 1 cut(s) 188
BstACI GRCGYC 1 cut(s) 437
BstBI TTCGAA 1 cut(s) 398
BstC8I GCNNGC 2 cut(s) 376, 471
BstDEI CTNAG 5 cut(s) 83, 348, 432, 474, 540
BstDSI CCRYGG 1 cut(s) 33
BstF5I GGATG 1 cut(s) 142
BstH2I RGCGCY 2 cut(s) 375, 498
BstHHI GCGC 2 cut(s) 374, 497
BstKTI GATC 3 cut(s) 91, 165, 525
BstMBI GATC 3 cut(s) 88, 162, 522
BstMCI CGRYCG 1 cut(s) 33
BstMWI GCNNNNNNNGC 5 cut(s) 47, 112, 179, 443, 511
BstV1I GCAGC 7 cut(s) 124, 430, 484, 523, 523, 544, 547
BstV2I GAAGAC 2 cut(s) 278, 428
BstX2I RGATCY 1 cut(s) 88
BstXI CCANNNNNNTGG 1 cut(s) 229
BstYI RGATCY 1 cut(s) 88
BsuRI GGCC 2 cut(s) 260, 332
BtgI CCRYGG 1 cut(s) 33
BtsCI GGATG 1 cut(s) 142
BtsIMutI CAGTG 1 cut(s) 173
Cac8I GCNNGC 2 cut(s) 376, 471
CfoI GCGC 2 cut(s) 374, 497
Cfr10I RCCGGY 3 cut(s) 46, 64, 469
CseI GACGC 1 cut(s) 426
Csp6I GTAC 1 cut(s) 226
CviAII CATG 1 cut(s) 229
CviQI GTAC 1 cut(s) 226
DdeI CTNAG 5 cut(s) 83, 348, 432, 474, 540
DpnI GATC 3 cut(s) 90, 164, 524
DpnII GATC 3 cut(s) 88, 162, 522
DrdI GACNNNNNNGTC 1 cut(s) 436
DseDI GACNNNNNNGTC 1 cut(s) 436
EaeI YGGCCR 1 cut(s) 258
Eam1104I CTCTTC 1 cut(s) 188
EarI CTCTTC 1 cut(s) 188
Eco130I CCWWGG 1 cut(s) 405
Eco147I AGGCCT 1 cut(s) 332
Eco24I GRGCYC 1 cut(s) 533
Eco47III AGCGCT 1 cut(s) 496
Eco57I CTGAAG 1 cut(s) 113
Eco88I CYCGRG 1 cut(s) 390
EcoT14I CCWWGG 1 cut(s) 405
EcoT38I GRGCYC 1 cut(s) 533
ErhI CCWWGG 1 cut(s) 405
FaeI CATG 1 cut(s) 232
FaiI YATR 2 cut(s) 218, 230
FatI CATG 1 cut(s) 228
FauI CCCGC 2 cut(s) 191, 346
FbaI TGATCA 1 cut(s) 162
Fnu4HI GCNGC 7 cut(s) 138, 444, 498, 512, 537, 558, 561
FokI GGATG 1 cut(s) 129
FriOI GRGCYC 1 cut(s) 533
Fsp4HI GCNGC 7 cut(s) 138, 444, 498, 512, 537, 558, 561
GlaI GCGC 2 cut(s) 373, 496
GluI GCNGC 7 cut(s) 138, 444, 498, 512, 537, 558, 561
HaeII RGCGCY 2 cut(s) 375, 498
HaeIII GGCC 2 cut(s) 260, 332
HapII CCGG 4 cut(s) 47, 65, 257, 470
HgaI GACGC 1 cut(s) 426
HhaI GCGC 2 cut(s) 374, 497
Hin1I GRCGYC 1 cut(s) 437
Hin1II CATG 1 cut(s) 232
Hin6I GCGC 2 cut(s) 372, 495
HinP1I GCGC 2 cut(s) 372, 495
HinfI GANTC 3 cut(s) 205, 274, 430
HpaII CCGG 4 cut(s) 47, 65, 257, 470
HphI GGTGA 2 cut(s) 79, 466
Hpy188I TCNGA 6 cut(s) 30, 93, 159, 186, 301, 349
Hpy188III TCNNGA 2 cut(s) 268, 526
Hpy99I CGWCG 1 cut(s) 55
HpyAV CCTTC 3 cut(s) 88, 355, 547
HpyCH4III ACNGT 2 cut(s) 34, 177
HpyCH4V TGCA 2 cut(s) 286, 500
HpyF10VI GCNNNNNNNGC 5 cut(s) 47, 112, 179, 443, 511
HpyF3I CTNAG 5 cut(s) 83, 348, 432, 474, 540
Hsp92I GRCGYC 1 cut(s) 437
Hsp92II CATG 1 cut(s) 232
HspAI GCGC 2 cut(s) 372, 495
KroI GCCGGC 1 cut(s) 469
KroNI GCCGGC 1 cut(s) 471
Ksp22I TGATCA 1 cut(s) 162
Kzo9I GATC 3 cut(s) 88, 162, 522
LguI GCTCTTC 1 cut(s) 188
LmnI GCTCC 2 cut(s) 31, 451
Lsp1109I GCAGC 7 cut(s) 124, 430, 484, 523, 523, 544, 547
MaeIII GTNAC 1 cut(s) 454
MalI GATC 3 cut(s) 90, 164, 524
MbiI CCGCTC 1 cut(s) 198
MboI GATC 3 cut(s) 88, 162, 522
MfeI CAATTG 1 cut(s) 287
MflI RGATCY 1 cut(s) 88
MhlI GDGCHC 1 cut(s) 533
MluCI AATT 2 cut(s) 262, 287
MlyI GAGTC 3 cut(s) 214, 268, 424
MmeI TCCRAC 1 cut(s) 53
MroNI GCCGGC 1 cut(s) 469
MspA1I CMGCKG 1 cut(s) 137
MspI CCGG 4 cut(s) 47, 65, 257, 470
MunI CAATTG 1 cut(s) 287
MwoI GCNNNNNNNGC 5 cut(s) 47, 112, 179, 443, 511
NaeI GCCGGC 1 cut(s) 471
NdeII GATC 3 cut(s) 88, 162, 522
NgoMIV GCCGGC 1 cut(s) 469
NlaIII CATG 1 cut(s) 232
NmuCI GTSAC 1 cut(s) 454
NspV TTCGAA 1 cut(s) 398
PaeR7I CTCGAG 1 cut(s) 390
PceI AGGCCT 1 cut(s) 332
PciSI GCTCTTC 1 cut(s) 188
PdiI GCCGGC 1 cut(s) 471
PkrI GCNGC 7 cut(s) 139, 445, 499, 513, 538, 559, 562
PleI GAGTC 3 cut(s) 213, 268, 424
PpsI GAGTC 3 cut(s) 213, 268, 424
PspXI VCTCGAGB 1 cut(s) 390
PsuI RGATCY 1 cut(s) 88
PvuII CAGCTG 1 cut(s) 137
RsaI GTAC 1 cut(s) 227
RsaNI GTAC 1 cut(s) 226
SapI GCTCTTC 1 cut(s) 188
SatI GCNGC 7 cut(s) 138, 444, 498, 512, 537, 558, 561
Sau3AI GATC 3 cut(s) 88, 162, 522
SchI GAGTC 3 cut(s) 214, 268, 424
SduI GDGCHC 1 cut(s) 533
SetI ASST 6 cut(s) 28, 84, 139, 327, 397, 456
Sfr274I CTCGAG 1 cut(s) 390
SfuI TTCGAA 1 cut(s) 398
SgrAI CRCCGGYG 1 cut(s) 46
SlaI CTCGAG 1 cut(s) 390
SmlI CTYRAG 1 cut(s) 390
SmoI CTYRAG 1 cut(s) 390
Sse9I AATT 2 cut(s) 262, 287
SseBI AGGCCT 1 cut(s) 332
SsiI CCGC 3 cut(s) 198, 248, 353
StuI AGGCCT 1 cut(s) 332
StyI CCWWGG 1 cut(s) 405
TaaI ACNGT 2 cut(s) 34, 177
TaqI TCGA 5 cut(s) 203, 391, 398, 491, 521
TasI AATT 2 cut(s) 262, 287
TatI WGTACW 1 cut(s) 225
TscAI CASTG 1 cut(s) 180
TseFI GTSAC 1 cut(s) 454
TseI GCWGC 7 cut(s) 137, 443, 497, 511, 536, 557, 560
Tsp45I GTSAC 1 cut(s) 454
TspGWI ACGGA 1 cut(s) 68
TspRI CASTG 1 cut(s) 180
XhoI CTCGAG 1 cut(s) 390
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.