Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0001238

Physical Location & Seq

Genomic Coordinates Forward (+)

38055768 .. 38057165

Gene Structure 1398 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G027130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 552 bp

ATGGCGACTGAAGAGGTCAAGAAACCGCCGTCTCTCCCTCCTTACCCTGAGATGATTCTGAAGGCCATCGAAGGGTTGAATGAGAAGAATGGCTCAAACAAGTCGTCAATATCAAGATTCATCGAATCAACTTATGGGGAATTGCCAGCCGGACACTCTGGACTCCTGTCTAATCACCTCAGCAAAATGAAAGATAGCGGTGAGTTGGTGTTCTGGAAAAACAACTACACAAAGCTGGACCCAAATGCCCCACCGAGACGGGGACGTGGGAGGCCACCAAAACCCAGGGATCCAGATCAGCCACAGGTTGCTAACTTGCCATCAGGAAGGGGCAGGGGACGCCCACCTAAGGACCCTGATGCACCCCCAAGACCTCCCAAGGTCAAGGCATCTTCAGGGAGCGGGAAACCTAGAGGACGACCGAGGAAGATGGCTCGGCCTACTGGAGGTTTAAGTGGCTCGACAACCATGACAGATGCAGTGACTGGGAGGCCAAGGGGTAGACCTCCAAAGGTGAAGGATTCATTGAATGAATTGAGCATTCAGCAGTAG

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

183

Amino Acids

19.83

Weight (kDa)

10.53

Isoelectric Point (pI)

49.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	13 - 73	2.3e-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)
AccBSI	CCGCTC	1 cut(s)	402
AccI	GTMKAC	1 cut(s)	502
AciI	CCGC	3 cut(s)	26, 198, 402
AclWI	GGATC	2 cut(s)	284, 297
AcuI	CTGAAG	3 cut(s)	30, 80, 378
AcyI	GRCGYC	1 cut(s)	340
AfiI	CCNNNNNNNGG	4 cut(s)	72, 260, 349, 446
AgsI	TTSAA	2 cut(s)	79, 529
AjiI	CACGTC	1 cut(s)	266
AjnI	CCWGG	1 cut(s)	284
AluBI	AGCT	1 cut(s)	235
AluI	AGCT	1 cut(s)	235
Alw26I	GTCTC	2 cut(s)	36, 250
AlwI	GGATC	2 cut(s)	284, 297
AlwNI	CAGNNNCTG	1 cut(s)	485
AoxI	GGCC	4 cut(s)	63, 272, 437, 491
ArsI	GACNNNNNNTTYG	2 cut(s)	89, 121
AspS9I	GGNCC	2 cut(s)	238, 352
AsuHPI	GGTGA	3 cut(s)	167, 212, 526
AvaII	GGWCC	2 cut(s)	238, 352
AxyI	CCTNAGG	1 cut(s)	348
BamHI	GGATCC	1 cut(s)	289
BbvCI	CCTCAGC	1 cut(s)	179
BccI	CCATC	3 cut(s)	74, 328, 424
BceAI	ACGGC	1 cut(s)	13
BciT130I	CCWGG	1 cut(s)	286
BcoDI	GTCTC	2 cut(s)	36, 250
BfaI	CTAG	1 cut(s)	411
Bme1390I	CCNGG	1 cut(s)	286
Bme18I	GGWCC	2 cut(s)	238, 352
BmgBI	CACGTC	1 cut(s)	266
BmgT120I	GGNCC	2 cut(s)	238, 352
BmiI	GGNNCC	3 cut(s)	240, 291, 354
BmrFI	CCNGG	1 cut(s)	286
BmrI	ACTGGG	1 cut(s)	495
BmsI	GCATC	3 cut(s)	349, 398, 466
BmuI	ACTGGG	1 cut(s)	495
BoxI	GACNNNNGTC	1 cut(s)	166
BpmI	CTGGAG	1 cut(s)	465
Bpu10I	CCTNAGC	1 cut(s)	179
BsaBI	GATNNNNATC	1 cut(s)	294
BsaHI	GRCGYC	1 cut(s)	340
BsaJI	CCNNGG	5 cut(s)	284, 285, 378, 422, 494
Bsc4I	CCNNNNNNNGG	4 cut(s)	72, 260, 349, 446
Bse1I	ACTGG	2 cut(s)	448, 490
Bse21I	CCTNAGG	1 cut(s)	348
Bse8I	GATNNNNATC	1 cut(s)	294
BseBI	CCWGG	1 cut(s)	286
BseDI	CCNNGG	5 cut(s)	284, 285, 378, 422, 494
BseJI	GATNNNNATC	1 cut(s)	294
BseLI	CCNNNNNNNGG	4 cut(s)	72, 260, 349, 446
BseMII	CTCAG	2 cut(s)	39, 193
BseNI	ACTGG	2 cut(s)	448, 490
Bsh1285I	CGRYCG	1 cut(s)	422
BshFI	GGCC	4 cut(s)	65, 274, 439, 493
BsiEI	CGRYCG	1 cut(s)	422
BsiSI	CCGG	1 cut(s)	150
BslFI	GGGAC	2 cut(s)	276, 351
BslI	CCNNNNNNNGG	4 cut(s)	72, 260, 349, 446
BsmAI	GTCTC	2 cut(s)	36, 250
BsmBI	CGTCTC	2 cut(s)	36, 250
BsmFI	GGGAC	2 cut(s)	276, 351
BsmI	GAATGC	1 cut(s)	540
BsnI	GGCC	4 cut(s)	65, 274, 439, 493
Bsp143I	GATC	2 cut(s)	289, 295
BspACI	CCGC	3 cut(s)	26, 198, 402
BspANI	GGCC	4 cut(s)	65, 274, 439, 493
BspCNI	CTCAG	2 cut(s)	40, 192
BspLI	GGNNCC	3 cut(s)	240, 291, 354
BspPI	GGATC	2 cut(s)	284, 297
BsrBI	CCGCTC	1 cut(s)	402
BsrI	ACTGG	2 cut(s)	448, 490
BssECI	CCNNGG	5 cut(s)	284, 285, 378, 422, 494
BssMI	GATC	2 cut(s)	289, 295
BssNI	GRCGYC	1 cut(s)	340
BssT1I	CCWWGG	2 cut(s)	378, 494
Bst2UI	CCWGG	1 cut(s)	286
Bst6I	CTCTTC	1 cut(s)	6
BstACI	GRCGYC	1 cut(s)	340
BstC8I	GCNNGC	1 cut(s)	147
BstDEI	CTNAG	3 cut(s)	48, 179, 348
BstENI	CCTNNNNNAGG	1 cut(s)	444
BstKTI	GATC	2 cut(s)	292, 298
BstMAI	GTCTC	2 cut(s)	36, 250
BstMBI	GATC	2 cut(s)	289, 295
BstMCI	CGRYCG	1 cut(s)	422
BstMWI	GCNNNNNNNGC	1 cut(s)	339
BstNI	CCWGG	1 cut(s)	286
BstPAI	GACNNNNGTC	1 cut(s)	166
BstSCI	CCNGG	1 cut(s)	284
BstX2I	RGATCY	1 cut(s)	289
BstYI	RGATCY	1 cut(s)	289
Bsu36I	CCTNAGG	1 cut(s)	348
BsuRI	GGCC	4 cut(s)	65, 274, 439, 493
BtrI	CACGTC	1 cut(s)	266
BtsI	GCAGTG	1 cut(s)	486
BtsIMutI	CAGTG	1 cut(s)	486
Cac8I	GCNNGC	1 cut(s)	147
CaiI	CAGNNNCTG	1 cut(s)	485
Cfr13I	GGNCC	2 cut(s)	238, 352
CseI	GACGC	1 cut(s)	348
CviAII	CATG	1 cut(s)	469
DdeI	CTNAG	3 cut(s)	48, 179, 348
DpnI	GATC	2 cut(s)	291, 297
DpnII	GATC	2 cut(s)	289, 295
Eam1104I	CTCTTC	1 cut(s)	6
EarI	CTCTTC	1 cut(s)	6
Eco130I	CCWWGG	2 cut(s)	378, 494
Eco47I	GGWCC	2 cut(s)	238, 352
Eco57I	CTGAAG	3 cut(s)	30, 80, 378
Eco81I	CCTNAGG	1 cut(s)	348
EcoNI	CCTNNNNNAGG	1 cut(s)	444
EcoO109I	RGGNCCY	1 cut(s)	352
EcoRII	CCWGG	1 cut(s)	284
EcoT14I	CCWWGG	2 cut(s)	378, 494
ErhI	CCWWGG	2 cut(s)	378, 494
Esp3I	CGTCTC	2 cut(s)	36, 250
FaeI	CATG	1 cut(s)	472
FaiI	YATR	2 cut(s)	135, 470
FaqI	GGGAC	2 cut(s)	276, 351
FatI	CATG	1 cut(s)	468
FauI	CCCGC	1 cut(s)	395
FblI	GTMKAC	1 cut(s)	502
FspBI	CTAG	1 cut(s)	411
GsuI	CTGGAG	1 cut(s)	465
HaeIII	GGCC	4 cut(s)	65, 274, 439, 493
HapII	CCGG	1 cut(s)	150
HgaI	GACGC	1 cut(s)	348
Hin1I	GRCGYC	1 cut(s)	340
Hin1II	CATG	1 cut(s)	472
HinfI	GANTC	5 cut(s)	55, 117, 125, 162, 521
HpaII	CCGG	1 cut(s)	150
HphI	GGTGA	3 cut(s)	167, 212, 526
Hpy166II	GTNNAC	1 cut(s)	503
Hpy188I	TCNGA	1 cut(s)	60
Hpy188III	TCNNGA	6 cut(s)	19, 114, 159, 214, 293, 324
Hpy8I	GTNNAC	1 cut(s)	503
HpyAV	CCTTC	4 cut(s)	55, 65, 321, 511
HpyCH4IV	ACGT	1 cut(s)	265
HpyCH4V	TGCA	2 cut(s)	362, 479
HpyF10VI	GCNNNNNNNGC	1 cut(s)	339
HpyF3I	CTNAG	3 cut(s)	48, 179, 348
HpySE526I	ACGT	1 cut(s)	265
Hsp92I	GRCGYC	1 cut(s)	340
Hsp92II	CATG	1 cut(s)	472
Kzo9I	GATC	2 cut(s)	289, 295
LmnI	GCTCC	1 cut(s)	399
LweI	GCATC	3 cut(s)	349, 398, 466
MaeI	CTAG	1 cut(s)	411
MaeII	ACGT	1 cut(s)	265
MaeIII	GTNAC	1 cut(s)	481
MalI	GATC	2 cut(s)	291, 297
MbiI	CCGCTC	1 cut(s)	402
MboI	GATC	2 cut(s)	289, 295
MboII	GAAGA	4 cut(s)	23, 97, 384, 439
MflI	RGATCY	1 cut(s)	289
MluCI	AATT	2 cut(s)	140, 533
MlyI	GAGTC	1 cut(s)	156
MseI	TTAA	1 cut(s)	452
MspI	CCGG	1 cut(s)	150
MspR9I	CCNGG	1 cut(s)	286
Mva1269I	GAATGC	1 cut(s)	540
MvaI	CCWGG	1 cut(s)	286
MwoI	GCNNNNNNNGC	1 cut(s)	339
NdeII	GATC	2 cut(s)	289, 295
NlaIII	CATG	1 cut(s)	472
NlaIV	GGNNCC	3 cut(s)	240, 291, 354
NmeAIII	GCCGAG	1 cut(s)	415
NmuCI	GTSAC	1 cut(s)	481
PasI	CCCWGGG	1 cut(s)	285
PctI	GAATGC	1 cut(s)	540
PfeI	GAWTC	4 cut(s)	55, 117, 125, 521
PleI	GAGTC	1 cut(s)	156
PpsI	GAGTC	1 cut(s)	156
PpuMI	RGGWCCY	1 cut(s)	352
PshAI	GACNNNNGTC	1 cut(s)	166
Psp5II	RGGWCCY	1 cut(s)	352
Psp6I	CCWGG	1 cut(s)	284
PspGI	CCWGG	1 cut(s)	284
PspN4I	GGNNCC	3 cut(s)	240, 291, 354
PspPI	GGNCC	2 cut(s)	238, 352
PspPPI	RGGWCCY	1 cut(s)	352
PstNI	CAGNNNCTG	1 cut(s)	485
PsuI	RGATCY	1 cut(s)	289
SaqAI	TTAA	1 cut(s)	452
Sau3AI	GATC	2 cut(s)	289, 295
Sau96I	GGNCC	2 cut(s)	238, 352
SchI	GAGTC	1 cut(s)	156
ScrFI	CCNGG	1 cut(s)	286
SfaNI	GCATC	3 cut(s)	349, 398, 466
SinI	GGWCC	2 cut(s)	238, 352
Sse9I	AATT	2 cut(s)	140, 533
SsiI	CCGC	3 cut(s)	26, 198, 402
SspMI	CTAG	1 cut(s)	411
StyD4I	CCNGG	1 cut(s)	284
StyI	CCWWGG	2 cut(s)	378, 494
TaiI	ACGT	1 cut(s)	268
TaqI	TCGA	3 cut(s)	69, 123, 461
TaqII	GACCGA	1 cut(s)	436
TasI	AATT	2 cut(s)	140, 533
TfiI	GAWTC	4 cut(s)	55, 117, 125, 521
Tru1I	TTAA	1 cut(s)	452
Tru9I	TTAA	1 cut(s)	452
TscAI	CASTG	1 cut(s)	486
TseFI	GTSAC	1 cut(s)	481
Tsp45I	GTSAC	1 cut(s)	481
TspDTI	ATGAA	4 cut(s)	109, 203, 513, 546
TspRI	CASTG	1 cut(s)	486
VpaK11BI	GGWCC	2 cut(s)	238, 352
XagI	CCTNNNNNAGG	1 cut(s)	444
XmiI	GTMKAC	1 cut(s)	502
XspI	CTAG	1 cut(s)	411

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