Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001238

Physical Location & Seq

Genomic Coordinates Forward (+)

35941396 .. 35941980

Gene Structure 585 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG208400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGGCCACCGAGGAGTCCAACGAGCAACCGCCACCATCGCCGGCACCGCCTAATCCGGCTCCGTCCCTCCCTGAGTACCCGAAGATGATTATGGCGGCGATTGAGGCGCTTAATGAGAGCGAGGGGTCGAACAAGACCTCAATCGCGCAGCAAATCGAGTCCACCTACGGCGATCTGCCGCAGGCTCACGCCACGCTTCTGGCACACCACCTCAACAAGATGAAGCAGAGCGGCGAGCTCGTTTTCGTCAAGAACAACTACATGAAGCCCGACCCCAACGCGCCGCCCAAGCGGGGCCGTGGCCGCCCGTCCAAGCCCAAGGTCCCGACGCCGGAAGGAGCCGCCGTGGTCTCCTCGCCTCCGAGGCCACGTGGCAGACCTCCCAAGCCTAGGGATCCGTTTTTCCCGCTCCCAATTGCCAAGAGCTCGACATCCACCGGGTCCGGCAGGCCACGTGGCCGCCCTCCGAAGAAGGCCAAGACAAGTCCGACCTCGACTCCGGCTTCGGCTCCGGCGAGTGGTGCCCCTAGAGGTAGAGGCAGGCCACCGAAAGTCAAGCCCTCCGTAGCTCCGGTGGGTTGCTGA

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

194

Amino Acids

20.42

Weight (kDa)

10.41

Isoelectric Point (pI)

74.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	24 - 85	2.2e-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

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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, 521
AccBSI	CCGCTC	2 cut(s)	231, 409
AccII	CGCG	2 cut(s)	146, 281
AclWI	GGATC	2 cut(s)	389, 402
AcoI	YGGCCR	3 cut(s)	3, 301, 457
AcvI	CACGTG	2 cut(s)	371, 455
AcyI	GRCGYC	1 cut(s)	329
AfaI	GTAC	1 cut(s)	77
AfiI	CCNNNNNNNGG	4 cut(s)	293, 331, 390, 518
AluBI	AGCT	3 cut(s)	238, 426, 569
AluI	AGCT	3 cut(s)	238, 426, 569
Alw21I	GWGCWC	2 cut(s)	240, 428
Alw26I	GTCTC	1 cut(s)	355
AlwI	GGATC	2 cut(s)	389, 402
AoxI	GGCC	8 cut(s)	3, 295, 301, 365, 449, 457, 474, 542
ApeKI	GCWGC	1 cut(s)	148
ArsI	GACNNNNNNTTYG	2 cut(s)	487, 519
AspA2I	CCTAGG	1 cut(s)	389
AspLEI	GCGC	3 cut(s)	109, 148, 283
AspS9I	GGNCC	3 cut(s)	295, 322, 441
AsuC2I	CCSGG	1 cut(s)	439
AvaII	GGWCC	2 cut(s)	322, 441
AvrII	CCTAGG	1 cut(s)	389
BaeGI	GKGCMC	1 cut(s)	526
BalI	TGGCCA	1 cut(s)	5
BamHI	GGATCC	1 cut(s)	394
BanI	GGYRCC	2 cut(s)	43, 521
BanII	GRGCYC	2 cut(s)	240, 428
BbrPI	CACGTG	2 cut(s)	371, 455
Bbv12I	GWGCWC	2 cut(s)	240, 428
BbvI	GCAGC	1 cut(s)	160
BccI	CCATC	1 cut(s)	43
BceAI	ACGGC	3 cut(s)	184, 282, 329
BcnI	CCSGG	1 cut(s)	439
BcoDI	GTCTC	1 cut(s)	355
BfaI	CTAG	2 cut(s)	390, 528
BfoI	RGCGCY	1 cut(s)	110
BglI	GCCNNNNNGGC	1 cut(s)	364
BisI	GCNGC	8 cut(s)	96, 149, 179, 232, 284, 304, 342, 460
BlnI	CCTAGG	1 cut(s)	389
BlsI	GCNGC	8 cut(s)	97, 150, 180, 233, 285, 305, 343, 461
Bme1390I	CCNGG	1 cut(s)	439
Bme18I	GGWCC	2 cut(s)	322, 441
BmgT120I	GGNCC	3 cut(s)	295, 322, 441
BmiI	GGNNCC	9 cut(s)	45, 60, 296, 324, 340, 396, 442, 510, 523
BmrFI	CCNGG	1 cut(s)	439
BpuMI	CCSGG	1 cut(s)	439
BsaAI	YACGTR	2 cut(s)	371, 455
BsaHI	GRCGYC	1 cut(s)	329
BsaI	GGTCTC	1 cut(s)	355
BsaJI	CCNNGG	6 cut(s)	9, 298, 318, 345, 362, 389
BsaWI	WCCGGW	1 cut(s)	571
BsaXI	ACNNNNNCTCC	4 cut(s)	330, 360, 481, 511
Bsc4I	CCNNNNNNNGG	4 cut(s)	293, 331, 390, 518
Bse118I	RCCGGY	1 cut(s)	40
BseDI	CCNNGG	6 cut(s)	9, 298, 318, 345, 362, 389
BseGI	GGATG	1 cut(s)	431
BseLI	CCNNNNNNNGG	4 cut(s)	293, 331, 390, 518
BseMII	CTCAG	1 cut(s)	63
BseRI	GAGGAG	2 cut(s)	26, 343
BseSI	GKGCMC	1 cut(s)	526
BseXI	GCAGC	1 cut(s)	160
Bsh1236I	CGCG	2 cut(s)	146, 281
BshFI	GGCC	8 cut(s)	5, 297, 303, 367, 451, 459, 476, 544
BshNI	GGYRCC	2 cut(s)	43, 521
BsiHKAI	GWGCWC	2 cut(s)	240, 428
BsiSI	CCGG	8 cut(s)	41, 56, 332, 438, 444, 500, 512, 572
BslFI	GGGAC	2 cut(s)	49, 308
BslI	CCNNNNNNNGG	4 cut(s)	293, 331, 390, 518
BsmAI	GTCTC	1 cut(s)	355
BsmFI	GGGAC	2 cut(s)	49, 308
BsnI	GGCC	8 cut(s)	5, 297, 303, 367, 451, 459, 476, 544
Bso31I	GGTCTC	1 cut(s)	355
Bsp1286I	GDGCHC	3 cut(s)	240, 428, 526
Bsp143I	GATC	2 cut(s)	172, 394
BspANI	GGCC	8 cut(s)	5, 297, 303, 367, 451, 459, 476, 544
BspCNI	CTCAG	1 cut(s)	64
BspFNI	CGCG	2 cut(s)	146, 281
BspLI	GGNNCC	9 cut(s)	45, 60, 296, 324, 340, 396, 442, 510, 523
BspPI	GGATC	2 cut(s)	389, 402
BspT107I	GGYRCC	2 cut(s)	43, 521
BspTNI	GGTCTC	1 cut(s)	355
BsrBI	CCGCTC	2 cut(s)	231, 409
BsrFI	RCCGGY	1 cut(s)	40
BssAI	RCCGGY	1 cut(s)	40
BssECI	CCNNGG	6 cut(s)	9, 298, 318, 345, 362, 389
BssMI	GATC	2 cut(s)	172, 394
BssNI	GRCGYC	1 cut(s)	329
BssT1I	CCWWGG	2 cut(s)	318, 389
BstACI	GRCGYC	1 cut(s)	329
BstBAI	YACGTR	2 cut(s)	371, 455
BstC8I	GCNNGC	5 cut(s)	42, 183, 236, 449, 542
BstDEI	CTNAG	1 cut(s)	72
BstDSI	CCRYGG	2 cut(s)	298, 345
BstF5I	GGATG	1 cut(s)	431
BstFNI	CGCG	2 cut(s)	146, 281
BstH2I	RGCGCY	1 cut(s)	110
BstHHI	GCGC	3 cut(s)	109, 148, 283
BstKTI	GATC	2 cut(s)	175, 397
BstMAI	GTCTC	1 cut(s)	355
BstMBI	GATC	2 cut(s)	172, 394
BstMWI	GCNNNNNNNGC	7 cut(s)	37, 46, 104, 289, 303, 364, 521
BstSCI	CCNGG	1 cut(s)	437
BstSLI	GKGCMC	1 cut(s)	526
BstUI	CGCG	2 cut(s)	146, 281
BstV1I	GCAGC	1 cut(s)	160
BstX2I	RGATCY	1 cut(s)	394
BstXI	CCANNNNNNTGG	1 cut(s)	199
BstYI	RGATCY	1 cut(s)	394
BsuRI	GGCC	8 cut(s)	5, 297, 303, 367, 451, 459, 476, 544
BtgI	CCRYGG	2 cut(s)	298, 345
BtgZI	GCGATG	1 cut(s)	21
BtsCI	GGATG	1 cut(s)	431
Cac8I	GCNNGC	5 cut(s)	42, 183, 236, 449, 542
CfoI	GCGC	3 cut(s)	109, 148, 283
Cfr10I	RCCGGY	1 cut(s)	40
Cfr13I	GGNCC	3 cut(s)	295, 322, 441
CseI	GACGC	1 cut(s)	337
Csp6I	GTAC	1 cut(s)	76
CviAII	CATG	1 cut(s)	262
CviQI	GTAC	1 cut(s)	76
DdeI	CTNAG	1 cut(s)	72
DpnI	GATC	2 cut(s)	174, 396
DpnII	GATC	2 cut(s)	172, 394
EaeI	YGGCCR	3 cut(s)	3, 301, 457
Ecl136II	GAGCTC	2 cut(s)	238, 426
Eco130I	CCWWGG	2 cut(s)	318, 389
Eco24I	GRGCYC	2 cut(s)	240, 428
Eco31I	GGTCTC	1 cut(s)	355
Eco47I	GGWCC	2 cut(s)	322, 441
Eco53kI	GAGCTC	2 cut(s)	238, 426
Eco72I	CACGTG	2 cut(s)	371, 455
EcoICRI	GAGCTC	2 cut(s)	238, 426
EcoO109I	RGGNCCY	1 cut(s)	322
EcoT14I	CCWWGG	2 cut(s)	318, 389
EcoT38I	GRGCYC	2 cut(s)	240, 428
ErhI	CCWWGG	2 cut(s)	318, 389
FaeI	CATG	1 cut(s)	265
FaiI	YATR	2 cut(s)	92, 263
FaqI	GGGAC	2 cut(s)	49, 308
FatI	CATG	1 cut(s)	261
FauI	CCCGC	2 cut(s)	285, 414
Fnu4HI	GCNGC	8 cut(s)	96, 149, 179, 232, 284, 304, 342, 460
FokI	GGATG	1 cut(s)	418
FriOI	GRGCYC	2 cut(s)	240, 428
Fsp4HI	GCNGC	8 cut(s)	96, 149, 179, 232, 284, 304, 342, 460
FspBI	CTAG	2 cut(s)	390, 528
GlaI	GCGC	3 cut(s)	108, 147, 282
GluI	GCNGC	8 cut(s)	96, 149, 179, 232, 284, 304, 342, 460
HaeII	RGCGCY	1 cut(s)	110
HaeIII	GGCC	8 cut(s)	5, 297, 303, 367, 451, 459, 476, 544
HapII	CCGG	8 cut(s)	41, 56, 332, 438, 444, 500, 512, 572
HgaI	GACGC	1 cut(s)	337
HhaI	GCGC	3 cut(s)	109, 148, 283
Hin1I	GRCGYC	1 cut(s)	329
Hin1II	CATG	1 cut(s)	265
Hin6I	GCGC	3 cut(s)	107, 146, 281
HinP1I	GCGC	3 cut(s)	107, 146, 281
HinfI	GANTC	3 cut(s)	14, 158, 496
HpaII	CCGG	8 cut(s)	41, 56, 332, 438, 444, 500, 512, 572
Hpy166II	GTNNAC	1 cut(s)	162
Hpy188I	TCNGA	3 cut(s)	363, 468, 489
Hpy188III	TCNNGA	2 cut(s)	250, 325
Hpy8I	GTNNAC	1 cut(s)	162
Hpy99I	CGWCG	1 cut(s)	331
HpyAV	CCTTC	2 cut(s)	329, 466
HpyCH4IV	ACGT	2 cut(s)	370, 454
HpyF10VI	GCNNNNNNNGC	7 cut(s)	37, 46, 104, 289, 303, 364, 521
HpyF3I	CTNAG	1 cut(s)	72
HpySE526I	ACGT	2 cut(s)	370, 454
Hsp92I	GRCGYC	1 cut(s)	329
Hsp92II	CATG	1 cut(s)	265
HspAI	GCGC	3 cut(s)	107, 146, 281
KroI	GCCGGC	1 cut(s)	40
KroNI	GCCGGC	1 cut(s)	42
Kzo9I	GATC	2 cut(s)	172, 394
LmnI	GCTCC	5 cut(s)	64, 338, 414, 514, 574
Lsp1109I	GCAGC	1 cut(s)	160
MaeI	CTAG	2 cut(s)	390, 528
MaeII	ACGT	2 cut(s)	370, 454
MalI	GATC	2 cut(s)	174, 396
MbiI	CCGCTC	2 cut(s)	231, 409
MboI	GATC	2 cut(s)	172, 394
MboII	GAAGA	2 cut(s)	94, 481
MfeI	CAATTG	1 cut(s)	414
MflI	RGATCY	1 cut(s)	394
MhlI	GDGCHC	3 cut(s)	240, 428, 526
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	1 cut(s)	414
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	3 cut(s)	23, 167, 490
MmeI	TCCRAC	2 cut(s)	42, 512
Mox20I	TGGCCA	1 cut(s)	5
MroNI	GCCGGC	1 cut(s)	40
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	111
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	8 cut(s)	41, 56, 332, 438, 444, 500, 512, 572
MspR9I	CCNGG	1 cut(s)	439
MunI	CAATTG	1 cut(s)	414
MvnI	CGCG	2 cut(s)	146, 281
MwoI	GCNNNNNNNGC	7 cut(s)	37, 46, 104, 289, 303, 364, 521
NaeI	GCCGGC	1 cut(s)	42
NciI	CCSGG	1 cut(s)	439
NdeII	GATC	2 cut(s)	172, 394
NgoMIV	GCCGGC	1 cut(s)	40
NlaIII	CATG	1 cut(s)	265
NlaIV	GGNNCC	9 cut(s)	45, 60, 296, 324, 340, 396, 442, 510, 523
PcsI	WCGNNNNNNNCGW	1 cut(s)	512
PdiI	GCCGGC	1 cut(s)	42
PkrI	GCNGC	8 cut(s)	97, 150, 180, 233, 285, 305, 343, 461
PleI	GAGTC	3 cut(s)	22, 166, 490
PmaCI	CACGTG	2 cut(s)	371, 455
PmlI	CACGTG	2 cut(s)	371, 455
PpsI	GAGTC	3 cut(s)	22, 166, 490
Ppu21I	YACGTR	2 cut(s)	371, 455
PpuMI	RGGWCCY	1 cut(s)	322
Psp124BI	GAGCTC	2 cut(s)	240, 428
Psp5II	RGGWCCY	1 cut(s)	322
PspCI	CACGTG	2 cut(s)	371, 455
PspN4I	GGNNCC	9 cut(s)	45, 60, 296, 324, 340, 396, 442, 510, 523
PspPI	GGNCC	3 cut(s)	295, 322, 441
PspPPI	RGGWCCY	1 cut(s)	322
PsuI	RGATCY	1 cut(s)	394
RsaI	GTAC	1 cut(s)	77
RsaNI	GTAC	1 cut(s)	76
SacI	GAGCTC	2 cut(s)	240, 428
SaqAI	TTAA	1 cut(s)	111
SatI	GCNGC	8 cut(s)	96, 149, 179, 232, 284, 304, 342, 460
Sau3AI	GATC	2 cut(s)	172, 394
Sau96I	GGNCC	3 cut(s)	295, 322, 441
SchI	GAGTC	3 cut(s)	23, 167, 490
ScrFI	CCNGG	1 cut(s)	439
SduI	GDGCHC	3 cut(s)	240, 428, 526
SinI	GGWCC	2 cut(s)	322, 441
Sse9I	AATT	1 cut(s)	414
SspMI	CTAG	2 cut(s)	390, 528
SstI	GAGCTC	2 cut(s)	240, 428
StyD4I	CCNGG	1 cut(s)	437
StyI	CCWWGG	2 cut(s)	318, 389
TaiI	ACGT	2 cut(s)	373, 457
TaqI	TCGA	4 cut(s)	128, 156, 428, 494
TasI	AATT	1 cut(s)	414
TauI	GCSGC	7 cut(s)	98, 181, 234, 286, 306, 344, 462
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	3 cut(s)	51, 387, 553
VpaK11BI	GGWCC	2 cut(s)	322, 441
XmaJI	CCTAGG	1 cut(s)	389
XspI	CTAG	2 cut(s)	390, 528

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