Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001238

Physical Location & Seq

Genomic Coordinates Forward (+)

83219718 .. 83220089

Gene Structure 372 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG528400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGGCCACCGAGGAGTCCAACGAGCAACCGCCACCGTCGCCGGCACCGCCTAATCCAGCTCCGTCCCTCCCTGAGTACCCGAAGATGATTATGGCGGCGATTGAGGCGCTTAATGAGAGCGAGGGGTCGAACAAGACCTCAATCGCGCAGCAAATCGAGTCCACCTACGGCGATCTGCCGCCGGCTCACGCCACGCTTCTGGCGCACCACCTCAACAAGATGAAGCAGAGCGGCGAGCTCGTTTTCGTCAAGAACAACTACATGAAGCCCGACCCCAACGCGCCGCCCTCCCAAGCCCAAGGTCCCGGTGCCGGAAGGAGCCGCCATGGTCTCCTCGCCTCCGAGGCCACGTGGCAGACCTCCCAAGCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0070013 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AT_hook Linker_histone

Protein Analysis

123

Amino Acids

13.09

Weight (kDa)

5.47

Isoelectric Point (pI)

87.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	24 - 85	1.7e-09	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001238)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G14900
fragaria_vesca	FvH4_1g28760 FvH4_3g22350 FvH4_4g10240 FvH4_4g16250 FvH4_4g34011 FvH4_4g34030 FvH4_5g06490
malus_domestica	MD09G1263200.v1.1 MD13G1021100.v1.1 MD16G1022400.v1.1 MD17G1258400.v1.1
prunus_persica	Prupe.1G330600_v2.0.a1 Prupe.3G161100_v2.0.a1
pyrus_communis	pycom09g17750 pycom13g02000 pycom16g01970 pycom17g26030
rosa_chinensis	RchiOBHm_Chr3g0493151 RchiOBHm_Chr4g0443521
rosa_laevigata	RLG00000005921 RLG00000022725
rosa_multiflora	Rmu_sc0004094.1_g000037 Rmu_sc0009488.1_g000002 Rmu_sc0009954.1_g000002
rosa_roxburghii	Rroxscaffold_1G00033110 Rroxscaffold_5G00353160 Rroxscaffold_5G00384060 Rroxscaffold_6G00391770
rosa_rugosa	Rorug03G0259500 Rorug04G0347000
rosa_samantha	Rh2BG493600 Rh2BG493700 Rh2DG502600 Rh2DG502700 Rh3AG308500 Rh3BG344600 Rh3CG341800 Rh3DG343900 Rh4AG402600 Rh4BG208400 Rh4BG414100 Rh4CG429900 Rh4DG241300 Rh4DG409800 Rh4DG411100 Rh5BG528400 Rh5CG552800 Rh5DG132000 Rh5DG289700 Rh6CG100400
rosa_wichuraiana	Rw0G017400 Rw3G027130 Rw4G007110 Rw4G007140 Rw4G034710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	43, 308
AccBSI	CCGCTC	1 cut(s)	231
AccII	CGCG	2 cut(s)	146, 281
AciI	CCGC	7 cut(s)	29, 47, 95, 179, 231, 284, 322
AcoI	YGGCCR	1 cut(s)	3
AcvI	CACGTG	1 cut(s)	351
AfaI	GTAC	1 cut(s)	77
AfiI	CCNNNNNNNGG	1 cut(s)	311
AluBI	AGCT	2 cut(s)	59, 238
AluI	AGCT	2 cut(s)	59, 238
Alw21I	GWGCWC	1 cut(s)	240
Alw26I	GTCTC	1 cut(s)	335
AoxI	GGCC	2 cut(s)	3, 345
ApeKI	GCWGC	1 cut(s)	148
AspLEI	GCGC	4 cut(s)	109, 148, 205, 283
AspS9I	GGNCC	1 cut(s)	302
AsuC2I	CCSGG	1 cut(s)	306
AvaII	GGWCC	1 cut(s)	302
BalI	TGGCCA	1 cut(s)	5
BanI	GGYRCC	2 cut(s)	43, 308
BanII	GRGCYC	1 cut(s)	240
BbrPI	CACGTG	1 cut(s)	351
Bbv12I	GWGCWC	1 cut(s)	240
BbvI	GCAGC	1 cut(s)	160
BceAI	ACGGC	1 cut(s)	184
BcnI	CCSGG	1 cut(s)	306
BcoDI	GTCTC	1 cut(s)	335
BfaI	CTAG	1 cut(s)	370
BfoI	RGCGCY	1 cut(s)	110
BglI	GCCNNNNNGGC	1 cut(s)	344
BisI	GCNGC	6 cut(s)	96, 149, 179, 232, 284, 322
BlsI	GCNGC	6 cut(s)	97, 150, 180, 233, 285, 323
Bme1390I	CCNGG	1 cut(s)	306
Bme18I	GGWCC	1 cut(s)	302
BmgT120I	GGNCC	1 cut(s)	302
BmiI	GGNNCC	4 cut(s)	45, 304, 310, 320
BmrFI	CCNGG	1 cut(s)	306
BpuMI	CCSGG	1 cut(s)	306
BsaAI	YACGTR	1 cut(s)	351
BsaI	GGTCTC	1 cut(s)	335
BsaJI	CCNNGG	4 cut(s)	9, 298, 325, 342
Bsc4I	CCNNNNNNNGG	1 cut(s)	311
Bse118I	RCCGGY	2 cut(s)	40, 181
BseDI	CCNNGG	4 cut(s)	9, 298, 325, 342
BseLI	CCNNNNNNNGG	1 cut(s)	311
BseMII	CTCAG	1 cut(s)	63
BseRI	GAGGAG	2 cut(s)	26, 323
BseXI	GCAGC	1 cut(s)	160
Bsh1236I	CGCG	2 cut(s)	146, 281
BshFI	GGCC	2 cut(s)	5, 347
BshNI	GGYRCC	2 cut(s)	43, 308
BsiHKAI	GWGCWC	1 cut(s)	240
BsiSI	CCGG	4 cut(s)	41, 182, 306, 312
BslFI	GGGAC	2 cut(s)	49, 288
BslI	CCNNNNNNNGG	1 cut(s)	311
BsmAI	GTCTC	1 cut(s)	335
BsmFI	GGGAC	2 cut(s)	49, 288
BsnI	GGCC	2 cut(s)	5, 347
Bso31I	GGTCTC	1 cut(s)	335
Bsp1286I	GDGCHC	1 cut(s)	240
Bsp143I	GATC	1 cut(s)	172
Bsp19I	CCATGG	1 cut(s)	325
BspACI	CCGC	7 cut(s)	29, 47, 95, 179, 231, 284, 322
BspANI	GGCC	2 cut(s)	5, 347
BspCNI	CTCAG	1 cut(s)	64
BspFNI	CGCG	2 cut(s)	146, 281
BspLI	GGNNCC	4 cut(s)	45, 304, 310, 320
BspT107I	GGYRCC	2 cut(s)	43, 308
BspTNI	GGTCTC	1 cut(s)	335
BsrBI	CCGCTC	1 cut(s)	231
BsrFI	RCCGGY	2 cut(s)	40, 181
BssAI	RCCGGY	2 cut(s)	40, 181
BssECI	CCNNGG	4 cut(s)	9, 298, 325, 342
BssMI	GATC	1 cut(s)	172
BssT1I	CCWWGG	2 cut(s)	298, 325
Bst4CI	ACNGT	1 cut(s)	36
BstBAI	YACGTR	1 cut(s)	351
BstC8I	GCNNGC	3 cut(s)	42, 183, 236
BstDEI	CTNAG	1 cut(s)	72
BstDSI	CCRYGG	1 cut(s)	325
BstFNI	CGCG	2 cut(s)	146, 281
BstH2I	RGCGCY	1 cut(s)	110
BstHHI	GCGC	4 cut(s)	109, 148, 205, 283
BstKTI	GATC	1 cut(s)	175
BstMAI	GTCTC	1 cut(s)	335
BstMBI	GATC	1 cut(s)	172
BstMWI	GCNNNNNNNGC	5 cut(s)	37, 46, 104, 202, 344
BstSCI	CCNGG	1 cut(s)	304
BstUI	CGCG	2 cut(s)	146, 281
BstV1I	GCAGC	1 cut(s)	160
BstXI	CCANNNNNNTGG	1 cut(s)	199
BsuRI	GGCC	2 cut(s)	5, 347
BtgI	CCRYGG	1 cut(s)	325
Cac8I	GCNNGC	3 cut(s)	42, 183, 236
CfoI	GCGC	4 cut(s)	109, 148, 205, 283
Cfr10I	RCCGGY	2 cut(s)	40, 181
Cfr13I	GGNCC	1 cut(s)	302
Csp6I	GTAC	1 cut(s)	76
CviAII	CATG	2 cut(s)	262, 326
CviJI	RGCY	9 cut(s)	5, 59, 185, 238, 268, 296, 321, 347, 368
CviKI_1	RGCY	9 cut(s)	5, 59, 185, 238, 268, 296, 321, 347, 368
CviQI	GTAC	1 cut(s)	76
DdeI	CTNAG	1 cut(s)	72
DpnI	GATC	1 cut(s)	174
DpnII	GATC	1 cut(s)	172
EaeI	YGGCCR	1 cut(s)	3
Ecl136II	GAGCTC	1 cut(s)	238
Eco130I	CCWWGG	2 cut(s)	298, 325
Eco24I	GRGCYC	1 cut(s)	240
Eco31I	GGTCTC	1 cut(s)	335
Eco47I	GGWCC	1 cut(s)	302
Eco53kI	GAGCTC	1 cut(s)	238
Eco72I	CACGTG	1 cut(s)	351
EcoICRI	GAGCTC	1 cut(s)	238
EcoO109I	RGGNCCY	1 cut(s)	302
EcoT14I	CCWWGG	2 cut(s)	298, 325
EcoT38I	GRGCYC	1 cut(s)	240
ErhI	CCWWGG	2 cut(s)	298, 325
FaeI	CATG	2 cut(s)	265, 329
FaiI	YATR	3 cut(s)	92, 263, 327
FaqI	GGGAC	2 cut(s)	49, 288
FatI	CATG	2 cut(s)	261, 325
Fnu4HI	GCNGC	6 cut(s)	96, 149, 179, 232, 284, 322
FriOI	GRGCYC	1 cut(s)	240
Fsp4HI	GCNGC	6 cut(s)	96, 149, 179, 232, 284, 322
FspBI	CTAG	1 cut(s)	370
GlaI	GCGC	4 cut(s)	108, 147, 204, 282
GluI	GCNGC	6 cut(s)	96, 149, 179, 232, 284, 322
HaeII	RGCGCY	1 cut(s)	110
HaeIII	GGCC	2 cut(s)	5, 347
HapII	CCGG	4 cut(s)	41, 182, 306, 312
HhaI	GCGC	4 cut(s)	109, 148, 205, 283
Hin1II	CATG	2 cut(s)	265, 329
Hin6I	GCGC	4 cut(s)	107, 146, 203, 281
HinP1I	GCGC	4 cut(s)	107, 146, 203, 281
HinfI	GANTC	2 cut(s)	14, 158
HpaII	CCGG	4 cut(s)	41, 182, 306, 312
Hpy166II	GTNNAC	1 cut(s)	162
Hpy188I	TCNGA	1 cut(s)	343
Hpy188III	TCNNGA	1 cut(s)	250
Hpy8I	GTNNAC	1 cut(s)	162
Hpy99I	CGWCG	1 cut(s)	40
HpyAV	CCTTC	1 cut(s)	309
HpyCH4III	ACNGT	1 cut(s)	36
HpyCH4IV	ACGT	1 cut(s)	350
HpyF10VI	GCNNNNNNNGC	5 cut(s)	37, 46, 104, 202, 344
HpyF3I	CTNAG	1 cut(s)	72
HpySE526I	ACGT	1 cut(s)	350
Hsp92II	CATG	2 cut(s)	265, 329
HspAI	GCGC	4 cut(s)	107, 146, 203, 281
KroI	GCCGGC	2 cut(s)	40, 181
KroNI	GCCGGC	2 cut(s)	42, 183
Kzo9I	GATC	1 cut(s)	172
LmnI	GCTCC	2 cut(s)	64, 318
LpnPI	CCDG	7 cut(s)	54, 69, 84, 185, 195, 319, 325
Lsp1109I	GCAGC	1 cut(s)	160
MaeI	CTAG	1 cut(s)	370
MaeII	ACGT	1 cut(s)	350
MalI	GATC	1 cut(s)	174
MbiI	CCGCTC	1 cut(s)	231
MboI	GATC	1 cut(s)	172
MboII	GAAGA	1 cut(s)	94
MhlI	GDGCHC	1 cut(s)	240
MlsI	TGGCCA	1 cut(s)	5
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	23, 167
MmeI	TCCRAC	1 cut(s)	42
Mox20I	TGGCCA	1 cut(s)	5
MroNI	GCCGGC	2 cut(s)	40, 181
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	111
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	4 cut(s)	41, 182, 306, 312
MspR9I	CCNGG	1 cut(s)	306
MvnI	CGCG	2 cut(s)	146, 281
MwoI	GCNNNNNNNGC	5 cut(s)	37, 46, 104, 202, 344
NaeI	GCCGGC	2 cut(s)	42, 183
NciI	CCSGG	1 cut(s)	306
NcoI	CCATGG	1 cut(s)	325
NdeII	GATC	1 cut(s)	172
NgoMIV	GCCGGC	2 cut(s)	40, 181
NlaIII	CATG	2 cut(s)	265, 329
NlaIV	GGNNCC	4 cut(s)	45, 304, 310, 320
PdiI	GCCGGC	2 cut(s)	42, 183
PkrI	GCNGC	6 cut(s)	97, 150, 180, 233, 285, 323
PleI	GAGTC	2 cut(s)	22, 166
PmaCI	CACGTG	1 cut(s)	351
PmlI	CACGTG	1 cut(s)	351
PpsI	GAGTC	2 cut(s)	22, 166
Ppu21I	YACGTR	1 cut(s)	351
PpuMI	RGGWCCY	1 cut(s)	302
Psp124BI	GAGCTC	1 cut(s)	240
Psp5II	RGGWCCY	1 cut(s)	302
PspCI	CACGTG	1 cut(s)	351
PspN4I	GGNNCC	4 cut(s)	45, 304, 310, 320
PspPI	GGNCC	1 cut(s)	302
PspPPI	RGGWCCY	1 cut(s)	302
RsaI	GTAC	1 cut(s)	77
RsaNI	GTAC	1 cut(s)	76
SacI	GAGCTC	1 cut(s)	240
SaqAI	TTAA	1 cut(s)	111
SatI	GCNGC	6 cut(s)	96, 149, 179, 232, 284, 322
Sau3AI	GATC	1 cut(s)	172
Sau96I	GGNCC	1 cut(s)	302
SchI	GAGTC	2 cut(s)	23, 167
ScrFI	CCNGG	1 cut(s)	306
SduI	GDGCHC	1 cut(s)	240
SetI	ASST	8 cut(s)	61, 140, 167, 213, 240, 304, 353, 362
SinI	GGWCC	1 cut(s)	302
SsiI	CCGC	7 cut(s)	29, 47, 95, 179, 231, 284, 322
SspMI	CTAG	1 cut(s)	370
SstI	GAGCTC	1 cut(s)	240
StyD4I	CCNGG	1 cut(s)	304
StyI	CCWWGG	2 cut(s)	298, 325
TaaI	ACNGT	1 cut(s)	36
TaiI	ACGT	1 cut(s)	353
TaqI	TCGA	2 cut(s)	128, 156
TauI	GCSGC	5 cut(s)	98, 181, 234, 286, 324
Tru1I	TTAA	1 cut(s)	111
Tru9I	TTAA	1 cut(s)	111
TseI	GCWGC	1 cut(s)	148
TspDTI	ATGAA	2 cut(s)	236, 278
TspGWI	ACGGA	1 cut(s)	51
VpaK11BI	GGWCC	1 cut(s)	302
XspI	CTAG	1 cut(s)	370

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.