Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001238

Physical Location & Seq

Genomic Coordinates Reverse (-)

10584390 .. 10585704

Gene Structure 1315 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00391770.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGGCGACTGAAGAGGTCAAGAAACCGCCATCACTCCCTCCCTACCCTGAGATGATTCTGAAGGCCATCGAAGGGTTGAATGAGAAGAATGGCTCAAACAAGTCGTCAATATCAAGATTCATTGAATCAACTTACGGGGAATTGCCAGCCGGACACTCTGGACTCCTGTCTAATCACCTCAGCAAAATGAAAGATAGCGGTGAGTTGGTGTTCTGGAAAAACAACTACACAAAGCCGGACCCAAATGCCCCACCGAGACGGGGACGTGGGAGGCCACCAAAACCCAGGGATCCAAATCAACCACAGGGGCAGGGGCGCCCACCTAAGGATCCTGATGCACCCCCAAGACCCCCCAAGGTCAAGGCATCTTCAGGGAGCGGGAAACCTAGAGGACGACCGAGGAAGATGGCTCGGCCTACTGGAGGTTTAAGTGGCTCGACAACCATAACAGATGCAGTGACTGGGAGGCCAAGGGGTAGACCTCCAAAGGTGAAGGATTCATTGAATGAATTGAGCATTCAGCAGTAG

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:0008150 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048580 GO:0050789 GO:0050793 GO:0051239 GO:0065007 GO:0070013 GO:0080050 GO:0097159 GO:1901363 GO:2000014 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AT_hook Linker_histone

Protein Analysis

175

Amino Acids

18.97

Weight (kDa)

10.43

Isoelectric Point (pI)

50.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	13 - 73	2.4e-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

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	1 cut(s)	315
AccBSI	CCGCTC	1 cut(s)	378
AccI	GTMKAC	1 cut(s)	478
AciI	CCGC	3 cut(s)	26, 198, 378
AclWI	GGATC	4 cut(s)	284, 297, 323, 336
AcuI	CTGAAG	3 cut(s)	30, 80, 354
AcyI	GRCGYC	1 cut(s)	316
AfiI	CCNNNNNNNGG	4 cut(s)	72, 260, 325, 422
AgsI	TTSAA	3 cut(s)	79, 125, 505
AjiI	CACGTC	1 cut(s)	266
AjnI	CCWGG	1 cut(s)	284
Alw26I	GTCTC	1 cut(s)	250
AlwI	GGATC	4 cut(s)	284, 297, 323, 336
AlwNI	CAGNNNCTG	1 cut(s)	461
AoxI	GGCC	4 cut(s)	63, 272, 413, 467
ArsI	GACNNNNNNTTYG	2 cut(s)	89, 121
AspLEI	GCGC	1 cut(s)	318
AspS9I	GGNCC	1 cut(s)	238
AsuHPI	GGTGA	3 cut(s)	167, 212, 502
AvaII	GGWCC	1 cut(s)	238
AxyI	CCTNAGG	1 cut(s)	324
BamHI	GGATCC	2 cut(s)	289, 328
BanI	GGYRCC	1 cut(s)	315
BbvCI	CCTCAGC	1 cut(s)	179
BccI	CCATC	3 cut(s)	37, 74, 400
BciT130I	CCWGG	1 cut(s)	286
BcoDI	GTCTC	1 cut(s)	250
BfaI	CTAG	1 cut(s)	387
BfoI	RGCGCY	1 cut(s)	319
Bme1390I	CCNGG	1 cut(s)	286
Bme18I	GGWCC	1 cut(s)	238
BmgBI	CACGTC	1 cut(s)	266
BmgT120I	GGNCC	1 cut(s)	238
BmiI	GGNNCC	4 cut(s)	240, 291, 317, 330
BmrFI	CCNGG	1 cut(s)	286
BmrI	ACTGGG	1 cut(s)	471
BmsI	GCATC	3 cut(s)	325, 374, 442
BmuI	ACTGGG	1 cut(s)	471
BoxI	GACNNNNGTC	1 cut(s)	166
BpmI	CTGGAG	1 cut(s)	441
Bpu10I	CCTNAGC	1 cut(s)	179
BsaBI	GATNNNNATC	1 cut(s)	294
BsaHI	GRCGYC	1 cut(s)	316
BsaJI	CCNNGG	5 cut(s)	284, 285, 354, 398, 470
Bsc4I	CCNNNNNNNGG	4 cut(s)	72, 260, 325, 422
Bse1I	ACTGG	2 cut(s)	424, 466
Bse21I	CCTNAGG	1 cut(s)	324
Bse8I	GATNNNNATC	1 cut(s)	294
BseBI	CCWGG	1 cut(s)	286
BseDI	CCNNGG	5 cut(s)	284, 285, 354, 398, 470
BseJI	GATNNNNATC	1 cut(s)	294
BseLI	CCNNNNNNNGG	4 cut(s)	72, 260, 325, 422
BseMII	CTCAG	2 cut(s)	39, 193
BseNI	ACTGG	2 cut(s)	424, 466
Bsh1285I	CGRYCG	1 cut(s)	398
BshFI	GGCC	4 cut(s)	65, 274, 415, 469
BshNI	GGYRCC	1 cut(s)	315
BsiEI	CGRYCG	1 cut(s)	398
BsiSI	CCGG	2 cut(s)	150, 236
BslFI	GGGAC	1 cut(s)	276
BslI	CCNNNNNNNGG	4 cut(s)	72, 260, 325, 422
BsmAI	GTCTC	1 cut(s)	250
BsmBI	CGTCTC	1 cut(s)	250
BsmFI	GGGAC	1 cut(s)	276
BsmI	GAATGC	1 cut(s)	516
BsnI	GGCC	4 cut(s)	65, 274, 415, 469
Bsp143I	GATC	2 cut(s)	289, 328
BspACI	CCGC	3 cut(s)	26, 198, 378
BspANI	GGCC	4 cut(s)	65, 274, 415, 469
BspCNI	CTCAG	2 cut(s)	40, 192
BspLI	GGNNCC	4 cut(s)	240, 291, 317, 330
BspPI	GGATC	4 cut(s)	284, 297, 323, 336
BspT107I	GGYRCC	1 cut(s)	315
BsrBI	CCGCTC	1 cut(s)	378
BsrI	ACTGG	2 cut(s)	424, 466
BssECI	CCNNGG	5 cut(s)	284, 285, 354, 398, 470
BssMI	GATC	2 cut(s)	289, 328
BssNI	GRCGYC	1 cut(s)	316
BssT1I	CCWWGG	2 cut(s)	354, 470
Bst2UI	CCWGG	1 cut(s)	286
Bst6I	CTCTTC	1 cut(s)	6
BstACI	GRCGYC	1 cut(s)	316
BstC8I	GCNNGC	1 cut(s)	147
BstDEI	CTNAG	3 cut(s)	48, 179, 324
BstENI	CCTNNNNNAGG	1 cut(s)	420
BstH2I	RGCGCY	1 cut(s)	319
BstHHI	GCGC	1 cut(s)	318
BstKTI	GATC	2 cut(s)	292, 331
BstMAI	GTCTC	1 cut(s)	250
BstMBI	GATC	2 cut(s)	289, 328
BstMCI	CGRYCG	1 cut(s)	398
BstNI	CCWGG	1 cut(s)	286
BstPAI	GACNNNNGTC	1 cut(s)	166
BstSCI	CCNGG	1 cut(s)	284
BstX2I	RGATCY	2 cut(s)	289, 328
BstYI	RGATCY	2 cut(s)	289, 328
Bsu36I	CCTNAGG	1 cut(s)	324
BsuRI	GGCC	4 cut(s)	65, 274, 415, 469
BtrI	CACGTC	1 cut(s)	266
BtsI	GCAGTG	1 cut(s)	462
BtsIMutI	CAGTG	1 cut(s)	462
Cac8I	GCNNGC	1 cut(s)	147
CaiI	CAGNNNCTG	1 cut(s)	461
CfoI	GCGC	1 cut(s)	318
Cfr13I	GGNCC	1 cut(s)	238
CviJI	RGCY	9 cut(s)	65, 93, 149, 235, 274, 410, 415, 435, 469
CviKI_1	RGCY	9 cut(s)	65, 93, 149, 235, 274, 410, 415, 435, 469
DdeI	CTNAG	3 cut(s)	48, 179, 324
DinI	GGCGCC	1 cut(s)	317
DpnI	GATC	2 cut(s)	291, 330
DpnII	GATC	2 cut(s)	289, 328
Eam1104I	CTCTTC	1 cut(s)	6
EarI	CTCTTC	1 cut(s)	6
Eco130I	CCWWGG	2 cut(s)	354, 470
Eco47I	GGWCC	1 cut(s)	238
Eco57I	CTGAAG	3 cut(s)	30, 80, 354
Eco81I	CCTNAGG	1 cut(s)	324
EcoNI	CCTNNNNNAGG	1 cut(s)	420
EcoRII	CCWGG	1 cut(s)	284
EcoT14I	CCWWGG	2 cut(s)	354, 470
EgeI	GGCGCC	1 cut(s)	317
EheI	GGCGCC	1 cut(s)	317
ErhI	CCWWGG	2 cut(s)	354, 470
Esp3I	CGTCTC	1 cut(s)	250
FaiI	YATR	1 cut(s)	446
FaqI	GGGAC	1 cut(s)	276
FauI	CCCGC	1 cut(s)	371
FblI	GTMKAC	1 cut(s)	478
FspBI	CTAG	1 cut(s)	387
GlaI	GCGC	1 cut(s)	317
GsuI	CTGGAG	1 cut(s)	441
HaeII	RGCGCY	1 cut(s)	319
HaeIII	GGCC	4 cut(s)	65, 274, 415, 469
HapII	CCGG	2 cut(s)	150, 236
HhaI	GCGC	1 cut(s)	318
Hin1I	GRCGYC	1 cut(s)	316
Hin6I	GCGC	1 cut(s)	316
HinP1I	GCGC	1 cut(s)	316
HinfI	GANTC	5 cut(s)	55, 117, 125, 162, 497
HpaII	CCGG	2 cut(s)	150, 236
HphI	GGTGA	3 cut(s)	167, 212, 502
Hpy166II	GTNNAC	1 cut(s)	479
Hpy188I	TCNGA	1 cut(s)	60
Hpy188III	TCNNGA	5 cut(s)	19, 114, 159, 214, 332
Hpy8I	GTNNAC	1 cut(s)	479
HpyAV	CCTTC	3 cut(s)	55, 65, 487
HpyCH4IV	ACGT	1 cut(s)	265
HpyCH4V	TGCA	2 cut(s)	338, 455
HpyF3I	CTNAG	3 cut(s)	48, 179, 324
HpySE526I	ACGT	1 cut(s)	265
Hsp92I	GRCGYC	1 cut(s)	316
HspAI	GCGC	1 cut(s)	316
KasI	GGCGCC	1 cut(s)	315
Kzo9I	GATC	2 cut(s)	289, 328
LmnI	GCTCC	1 cut(s)	375
LweI	GCATC	3 cut(s)	325, 374, 442
MaeI	CTAG	1 cut(s)	387
MaeII	ACGT	1 cut(s)	265
MaeIII	GTNAC	1 cut(s)	457
MalI	GATC	2 cut(s)	291, 330
MbiI	CCGCTC	1 cut(s)	378
MboI	GATC	2 cut(s)	289, 328
MboII	GAAGA	4 cut(s)	23, 97, 360, 415
MflI	RGATCY	2 cut(s)	289, 328
MluCI	AATT	2 cut(s)	140, 509
Mly113I	GGCGCC	1 cut(s)	316
MlyI	GAGTC	1 cut(s)	156
MnlI	CCTC	9 cut(s)	7, 48, 188, 264, 383, 393, 416, 459, 492
MseI	TTAA	1 cut(s)	428
MspI	CCGG	2 cut(s)	150, 236
MspR9I	CCNGG	1 cut(s)	286
Mva1269I	GAATGC	1 cut(s)	516
MvaI	CCWGG	1 cut(s)	286
NarI	GGCGCC	1 cut(s)	316
NdeII	GATC	2 cut(s)	289, 328
NlaIV	GGNNCC	4 cut(s)	240, 291, 317, 330
NmeAIII	GCCGAG	1 cut(s)	391
NmuCI	GTSAC	1 cut(s)	457
PasI	CCCWGGG	1 cut(s)	285
PctI	GAATGC	1 cut(s)	516
PfeI	GAWTC	4 cut(s)	55, 117, 125, 497
PleI	GAGTC	1 cut(s)	156
PluTI	GGCGCC	1 cut(s)	319
PpsI	GAGTC	1 cut(s)	156
PshAI	GACNNNNGTC	1 cut(s)	166
Psp6I	CCWGG	1 cut(s)	284
PspGI	CCWGG	1 cut(s)	284
PspN4I	GGNNCC	4 cut(s)	240, 291, 317, 330
PspPI	GGNCC	1 cut(s)	238
PstNI	CAGNNNCTG	1 cut(s)	461
PsuI	RGATCY	2 cut(s)	289, 328
SaqAI	TTAA	1 cut(s)	428
Sau3AI	GATC	2 cut(s)	289, 328
Sau96I	GGNCC	1 cut(s)	238
SchI	GAGTC	1 cut(s)	156
ScrFI	CCNGG	1 cut(s)	286
SetI	ASST	9 cut(s)	18, 180, 268, 325, 360, 388, 427, 484, 492
SfaNI	GCATC	3 cut(s)	325, 374, 442
SfoI	GGCGCC	1 cut(s)	317
SinI	GGWCC	1 cut(s)	238
Sse9I	AATT	2 cut(s)	140, 509
SsiI	CCGC	3 cut(s)	26, 198, 378
SspDI	GGCGCC	1 cut(s)	315
SspMI	CTAG	1 cut(s)	387
StyD4I	CCNGG	1 cut(s)	284
StyI	CCWWGG	2 cut(s)	354, 470
TaiI	ACGT	1 cut(s)	268
TaqI	TCGA	2 cut(s)	69, 437
TaqII	GACCGA	1 cut(s)	412
TasI	AATT	2 cut(s)	140, 509
TfiI	GAWTC	4 cut(s)	55, 117, 125, 497
Tru1I	TTAA	1 cut(s)	428
Tru9I	TTAA	1 cut(s)	428
TscAI	CASTG	1 cut(s)	462
TseFI	GTSAC	1 cut(s)	457
Tsp45I	GTSAC	1 cut(s)	457
TspDTI	ATGAA	4 cut(s)	109, 203, 489, 522
TspRI	CASTG	1 cut(s)	462
VpaK11BI	GGWCC	1 cut(s)	238
XagI	CCTNNNNNAGG	1 cut(s)	420
XmiI	GTMKAC	1 cut(s)	478
XspI	CTAG	1 cut(s)	387

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