Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0000827

Physical Location & Seq

Genomic Coordinates Reverse (-)

47314104 .. 47314957

Gene Structure 854 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003335

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGATATCAAACGACATCTTTGTAGACTCTTACCTGTGTTTCACACGCCCTATCACCCCACCTATGCCGTGGGCAATTGAGGAGTTGAATGAGGAACAGGGGTCAACTGAAGAAGCAATATCAAAATTTATTAGAGAGAAGTTCTACGGTTTGCCATTGGCTCATGCAAGTTTCTTGAGTCTTCACTTGAAGAAGCTAAATGAGAGGGGAGAAATTGTTTGTGTATCAAAAAATTGTTATATGCTTCCAACTGATAAGGGTGATTCTCTTTCTAGAAGAAAGTGTGTCCCAAAACAAAAGAAGACTCGGAAGGGTTGGGGAAAAAGAAACTCAGCTAAAGGAAATGAACATAAAACATTAGCAGAAGAACAAGTTGAAGTGACTGAGAAAGAGAGACAGCGGAGGAAGCAAAGTCAAAAACCACAGTATCGTAAGGCAGTTGACAACCAAACTGGATCTCCAGAGCAAGTCAATGGACAACAATGTCAAAAACAAATGGAAGAAATTGCTGCAATTGCTGAAAAGAAAAGTCAAGAACAAATTGAAGAAGATCAGCAGAGTAAGGTGATTGATGATAAAAAAGAATCTCCTGATGCACAGCAAGCAGAAGTAATTAAACAACAAATTCAAGGAATTGCAGTCATTGTTGTTCCCCGAAAATCCGCAGAACAGATATATAAAGTCCCCGAAGAACAAGAAGTTGAAGTGACTGAACAACAGCAGCAGCACGGGCAGCAAAGTCAAGAACTGATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Linker_histone

Protein Analysis

252

Amino Acids

28.84

Weight (kDa)

6.49

Isoelectric Point (pI)

64.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	25 - 76	5e-06	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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Publication-ready

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Orthologous Genes (Group: OG0000827)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08780
fragaria_vesca	FvH4_5g27971
malus_domestica	MD06G1045800.v1.1
prunus_persica	Prupe.5G053600_v2.0.a1 Prupe.5G053600_v2.0.a1
pyrus_communis	pycom06g03880
rosa_chinensis	RchiOBHm_Chr7g0206261 RchiOBHm_Chr7g0206321 RchiOBHm_Chr7g0206331
rosa_laevigata	RLG00000003320 RLG00000003321 RLG00000003322 RLG00000003323 RLG00000003332 RLG00000003335
rosa_multiflora	Rmu_co8193150.1_g000001 Rmu_co8257597.1_g000001 Rmu_sc0000076.1_g000010 Rmu_sc0000076.1_g000011 Rmu_sc0004084.1_g000032 Rmu_sc0004084.1_g000049 Rmu_sc0005065.1_g000013 Rmu_sc0005065.1_g000014 Rmu_sc0006841.1_g000008 Rmu_sc0006841.1_g000010 Rmu_sc0006841.1_g000011 Rmu_sc0007739.1_g000013 Rmu_sc0007739.1_g000014
rosa_roxburghii	Rroxscaffold_3G00251630 Rroxscaffold_3G00251640 Rroxscaffold_3G00251710 Rroxscaffold_3G00251720 Rroxscaffold_3G00251730 Rroxscaffold_3G00251740 Rroxscaffold_3G00251800
rosa_rugosa	Rorug07G0096200
rosa_samantha	Rh7AG226900 Rh7AG227000 Rh7AG227100 Rh7AG227200 Rh7AG228200 Rh7AG228300 Rh7BG223200 Rh7BG223300 Rh7BG224500 Rh7BG224600 Rh7CG241200 Rh7CG241300 Rh7CG241400 Rh7CG241500 Rh7CG241600 Rh7CG242800 Rh7DG234300 Rh7DG234400 Rh7DG234500 Rh7DG234600 Rh7DG234700 Rh7DG234800 Rh7DG235400 Rh7DG235500 Rh7DG235600
rosa_wichuraiana	Rw7G019490 Rw7G019520 Rw7G019560 Rw7G019600 Rw7G019610 Rw7G019660 Rw7G019670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	483
AccI	GTMKAC	1 cut(s)	24
AciI	CCGC	2 cut(s)	400, 663
AclWI	GGATC	1 cut(s)	463
AcsI	RAATTY	2 cut(s)	125, 624
AcuI	CTGAAG	1 cut(s)	129
AgsI	TTSAA	6 cut(s)	88, 190, 377, 545, 629, 704
AluBI	AGCT	2 cut(s)	196, 335
AluI	AGCT	2 cut(s)	196, 335
Alw26I	GTCTC	1 cut(s)	388
AlwI	GGATC	1 cut(s)	463
ApeKI	GCWGC	4 cut(s)	509, 721, 724, 733
ApoI	RAATTY	2 cut(s)	125, 624
AsuHPI	GGTGA	3 cut(s)	46, 272, 577
BaeI	ACNNNNGTAYC	2 cut(s)	410, 443
BbsI	GAAGAC	2 cut(s)	173, 308
BbvI	GCAGC	4 cut(s)	496, 733, 736, 745
BceAI	ACGGC	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	388
BfaI	CTAG	1 cut(s)	273
BisI	GCNGC	4 cut(s)	510, 722, 725, 734
BlsI	GCNGC	4 cut(s)	511, 723, 726, 735
BmsI	GCATC	1 cut(s)	583
BpiI	GAAGAC	2 cut(s)	173, 308
BpmI	CTGGAG	1 cut(s)	444
BpuEI	CTTGAG	1 cut(s)	196
BsaJI	CCNNGG	1 cut(s)	68
BsaXI	ACNNNNNCTCC	4 cut(s)	201, 231, 442, 472
Bse1I	ACTGG	1 cut(s)	457
BseDI	CCNNGG	1 cut(s)	68
BseMII	CTCAG	2 cut(s)	345, 375
BseNI	ACTGG	1 cut(s)	457
BseRI	GAGGAG	1 cut(s)	95
BseXI	GCAGC	4 cut(s)	496, 733, 736, 745
BslFI	GGGAC	2 cut(s)	272, 668
BsmAI	GTCTC	1 cut(s)	388
BsmFI	GGGAC	2 cut(s)	272, 668
Bsp143I	GATC	2 cut(s)	455, 550
BspACI	CCGC	2 cut(s)	400, 663
BspCNI	CTCAG	2 cut(s)	344, 376
BspPI	GGATC	1 cut(s)	463
BsrI	ACTGG	1 cut(s)	457
BssECI	CCNNGG	1 cut(s)	68
BssMI	GATC	2 cut(s)	455, 550
Bst4CI	ACNGT	2 cut(s)	149, 426
BstC8I	GCNNGC	1 cut(s)	603
BstDEI	CTNAG	2 cut(s)	331, 384
BstDSI	CCRYGG	1 cut(s)	68
BstKTI	GATC	2 cut(s)	458, 553
BstMAI	GTCTC	1 cut(s)	388
BstMBI	GATC	2 cut(s)	455, 550
BstMWI	GCNNNNNNNGC	5 cut(s)	406, 515, 602, 730, 733
BstV1I	GCAGC	4 cut(s)	496, 733, 736, 745
BstV2I	GAAGAC	2 cut(s)	173, 308
BstX2I	RGATCY	1 cut(s)	455
BstYI	RGATCY	1 cut(s)	455
BtgI	CCRYGG	1 cut(s)	68
Cac8I	GCNNGC	1 cut(s)	603
CviAII	CATG	1 cut(s)	164
CviJI	RGCY	3 cut(s)	161, 196, 335
CviKI_1	RGCY	3 cut(s)	161, 196, 335
DdeI	CTNAG	2 cut(s)	331, 384
DpnI	GATC	2 cut(s)	457, 552
DpnII	GATC	2 cut(s)	455, 550
DrdI	GACNNNNNNGTC	1 cut(s)	483
DseDI	GACNNNNNNGTC	1 cut(s)	483
Eco32I	GATATC	1 cut(s)	6
Eco57I	CTGAAG	1 cut(s)	129
EcoRV	GATATC	1 cut(s)	6
FaeI	CATG	1 cut(s)	167
FaiI	YATR	7 cut(s)	65, 165, 240, 242, 351, 676, 678
FaqI	GGGAC	2 cut(s)	272, 668
FatI	CATG	1 cut(s)	163
FblI	GTMKAC	1 cut(s)	24
Fnu4HI	GCNGC	4 cut(s)	510, 722, 725, 734
Fsp4HI	GCNGC	4 cut(s)	510, 722, 725, 734
FspBI	CTAG	1 cut(s)	273
GluI	GCNGC	4 cut(s)	510, 722, 725, 734
GsuI	CTGGAG	1 cut(s)	444
Hin1II	CATG	1 cut(s)	167
HincII	GTYRAC	2 cut(s)	105, 442
HindII	GTYRAC	2 cut(s)	105, 442
HinfI	GANTC	5 cut(s)	26, 178, 263, 304, 584
HphI	GGTGA	3 cut(s)	46, 272, 577
Hpy166II	GTNNAC	3 cut(s)	25, 105, 442
Hpy188I	TCNGA	1 cut(s)	309
Hpy188III	TCNNGA	6 cut(s)	175, 273, 461, 533, 590, 743
Hpy8I	GTNNAC	3 cut(s)	25, 105, 442
HpyAV	CCTTC	1 cut(s)	304
HpyCH4III	ACNGT	2 cut(s)	149, 426
HpyCH4V	TGCA	4 cut(s)	167, 512, 596, 638
HpyF10VI	GCNNNNNNNGC	5 cut(s)	406, 515, 602, 730, 733
HpyF3I	CTNAG	2 cut(s)	331, 384
Hsp92II	CATG	1 cut(s)	167
Kzo9I	GATC	2 cut(s)	455, 550
LpnPI	CCDG	5 cut(s)	47, 83, 438, 474, 603
Lsp1109I	GCAGC	4 cut(s)	496, 733, 736, 745
LweI	GCATC	1 cut(s)	583
MaeI	CTAG	1 cut(s)	273
MaeIII	GTNAC	2 cut(s)	379, 706
MalI	GATC	2 cut(s)	457, 552
MboI	GATC	2 cut(s)	455, 550
MfeI	CAATTG	2 cut(s)	75, 513
MflI	RGATCY	1 cut(s)	455
MlyI	GAGTC	3 cut(s)	20, 187, 298
MmeI	TCCRAC	1 cut(s)	272
MnlI	CCTC	4 cut(s)	73, 85, 198, 396
MseI	TTAA	1 cut(s)	615
MspA1I	CMGCKG	1 cut(s)	400
MunI	CAATTG	2 cut(s)	75, 513
MwoI	GCNNNNNNNGC	5 cut(s)	406, 515, 602, 730, 733
NdeII	GATC	2 cut(s)	455, 550
NlaIII	CATG	1 cut(s)	167
NmuCI	GTSAC	2 cut(s)	379, 706
PfeI	GAWTC	2 cut(s)	263, 584
PkrI	GCNGC	4 cut(s)	511, 723, 726, 735
PleI	GAGTC	3 cut(s)	20, 186, 298
PpsI	GAGTC	3 cut(s)	20, 186, 298
PsuI	RGATCY	1 cut(s)	455
SaqAI	TTAA	1 cut(s)	615
SatI	GCNGC	4 cut(s)	510, 722, 725, 734
Sau3AI	GATC	2 cut(s)	455, 550
SchI	GAGTC	3 cut(s)	20, 187, 298
SetI	ASST	5 cut(s)	36, 64, 198, 337, 567
SfaNI	GCATC	1 cut(s)	583
SmlI	CTYRAG	1 cut(s)	175
SmoI	CTYRAG	1 cut(s)	175
SsiI	CCGC	2 cut(s)	400, 663
SspMI	CTAG	1 cut(s)	273
TaaI	ACNGT	2 cut(s)	149, 426
TfiI	GAWTC	2 cut(s)	263, 584
Tru1I	TTAA	1 cut(s)	615
Tru9I	TTAA	1 cut(s)	615
TseFI	GTSAC	2 cut(s)	379, 706
TseI	GCWGC	4 cut(s)	509, 721, 724, 733
Tsp45I	GTSAC	2 cut(s)	379, 706
TspDTI	ATGAA	1 cut(s)	360
XapI	RAATTY	2 cut(s)	125, 624
XbaI	TCTAGA	1 cut(s)	272
XcmI	CCANNNNNNNNNTGG	1 cut(s)	66
XmiI	GTMKAC	1 cut(s)	24
XspI	CTAG	1 cut(s)	273

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