Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0001238

Physical Location & Seq

Genomic Coordinates Forward (+)

30726984 .. 30731940

Gene Structure 4957 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00353160.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 720 bp

ATGTTTGCAAACTTTCATATCTACGTGTCGAACATATATAAAAAATTAGTGTTCAAGATATGTGACATTTTGTATGCATGTAGTGATCATTGGGTGTTGACACTTGTTGATCCGGAGAAAGGAACTGCCTATTTTATGGACCCGCTGAAAAGACGCTTACCCATAGGAGATTGGATGTCTATCGTGGATACCTCTCATGGCCACCGAGGAGTCCAACGAGCAACCGCCACCGTCGCCGCACCGCCTAATCCGGCTCCGTCCCTCCCCGAGTACCCGAAGATGATTATGGCGGCGATTGAGGCGCTTAATGAGAGCGAGGGGTCGAACAAGACCTCAATCGCGCAGCAAATCGAGTCCACCTACGGCGATCCGCCGCCGGCTCACGCCACGCTTCTAGCGCACCACCTCAACAAGATGAAGCAGAGCGGCGAGCTCGTTTTCGTCAAGAACAACTACATGAAGCCCGACCCCAACGCGCCGCCCAAGCGGGGCCGTGGCCGCCCGCCCAAGCCCAAGGTCCCGGCGGAAGGAGCCGCCGTGGTCTCCTCGCCTCCGAGGCCACGTGGCAGACCTCCCAAGCCTAGGGATCCGTTTTCCCGCTCCCAATTGCCAAGAGCTCGACATCCACCGGTCCGACGGAGCCACGTGGCCGCCCTCCGAAGAAGGCCAAGACAAGTCCGACCTCGACTCGGCTTCGGCTCCGGCGAGTGGTGCCCCTAG

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

239

Amino Acids

26.65

Weight (kDa)

10.3

Isoelectric Point (pI)

69.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	89 - 150	5.3e-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

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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	1 cut(s)	711
AccBSI	CCGCTC	2 cut(s)	426, 600
AccII	CGCG	2 cut(s)	341, 476
AccIII	TCCGGA	1 cut(s)	112
AclWI	GGATC	4 cut(s)	104, 362, 581, 594
AcoI	YGGCCR	3 cut(s)	199, 496, 648
AcvI	CACGTG	2 cut(s)	563, 646
AfaI	GTAC	1 cut(s)	272
AfiI	CCNNNNNNNGG	6 cut(s)	119, 488, 527, 582, 689, 708
AflIII	ACRYGT	1 cut(s)	24
AgeI	ACCGGT	1 cut(s)	628
AgsI	TTSAA	1 cut(s)	55
AluBI	AGCT	2 cut(s)	433, 617
AluI	AGCT	2 cut(s)	433, 617
Alw21I	GWGCWC	2 cut(s)	435, 619
Alw26I	GTCTC	1 cut(s)	547
AlwI	GGATC	4 cut(s)	104, 362, 581, 594
Ama87I	CYCGRG	1 cut(s)	266
Aor13HI	TCCGGA	1 cut(s)	112
AoxI	GGCC	6 cut(s)	199, 490, 496, 557, 648, 665
ApeKI	GCWGC	1 cut(s)	343
AsiGI	ACCGGT	1 cut(s)	628
AspA2I	CCTAGG	1 cut(s)	581
AspLEI	GCGC	4 cut(s)	304, 343, 400, 478
AspS9I	GGNCC	4 cut(s)	139, 490, 517, 631
AsuC2I	CCSGG	1 cut(s)	521
AvaI	CYCGRG	1 cut(s)	266
AvaII	GGWCC	3 cut(s)	139, 517, 631
AvrII	CCTAGG	1 cut(s)	581
BaeGI	GKGCMC	1 cut(s)	716
BalI	TGGCCA	1 cut(s)	201
BamHI	GGATCC	1 cut(s)	586
BanI	GGYRCC	1 cut(s)	711
BanII	GRGCYC	2 cut(s)	435, 619
BbrPI	CACGTG	2 cut(s)	563, 646
Bbv12I	GWGCWC	2 cut(s)	435, 619
BbvI	GCAGC	1 cut(s)	355
BceAI	ACGGC	3 cut(s)	379, 477, 521
BciVI	GTATCC	1 cut(s)	181
BclI	TGATCA	1 cut(s)	85
BcnI	CCSGG	1 cut(s)	521
BcoDI	GTCTC	1 cut(s)	547
BfaI	CTAG	3 cut(s)	395, 582, 718
BfoI	RGCGCY	1 cut(s)	305
BfuI	GTATCC	1 cut(s)	181
BglI	GCCNNNNNGGC	1 cut(s)	556
BisI	GCNGC	9 cut(s)	237, 291, 344, 374, 427, 479, 499, 534, 651
BlnI	CCTAGG	1 cut(s)	581
BlsI	GCNGC	9 cut(s)	238, 292, 345, 375, 428, 480, 500, 535, 652
Bme1390I	CCNGG	1 cut(s)	521
Bme18I	GGWCC	3 cut(s)	139, 517, 631
BmeT110I	CYCGRG	1 cut(s)	266
BmgT120I	GGNCC	4 cut(s)	139, 490, 517, 631
BmiI	GGNNCC	9 cut(s)	141, 255, 491, 519, 532, 588, 641, 700, 713
BmrFI	CCNGG	1 cut(s)	521
BpuMI	CCSGG	1 cut(s)	521
BsaAI	YACGTR	3 cut(s)	25, 563, 646
BsaBI	GATNNNNATC	1 cut(s)	179
BsaI	GGTCTC	1 cut(s)	547
BsaJI	CCNNGG	6 cut(s)	205, 493, 513, 537, 554, 581
BsaWI	WCCGGW	2 cut(s)	112, 628
BsaXI	ACNNNNNCTCC	2 cut(s)	522, 552
Bsc4I	CCNNNNNNNGG	6 cut(s)	119, 488, 527, 582, 689, 708
Bse118I	RCCGGY	2 cut(s)	376, 628
Bse8I	GATNNNNATC	1 cut(s)	179
BseAI	TCCGGA	1 cut(s)	112
BseDI	CCNNGG	6 cut(s)	205, 493, 513, 537, 554, 581
BseGI	GGATG	2 cut(s)	180, 622
BseJI	GATNNNNATC	1 cut(s)	179
BseLI	CCNNNNNNNGG	6 cut(s)	119, 488, 527, 582, 689, 708
BseRI	GAGGAG	2 cut(s)	222, 535
BseSI	GKGCMC	1 cut(s)	716
BseXI	GCAGC	1 cut(s)	355
Bsh1236I	CGCG	2 cut(s)	341, 476
BshFI	GGCC	6 cut(s)	201, 492, 498, 559, 650, 667
BshNI	GGYRCC	1 cut(s)	711
BshTI	ACCGGT	1 cut(s)	628
BsiHKAI	GWGCWC	2 cut(s)	435, 619
BsiHKCI	CYCGRG	1 cut(s)	266
BsiSI	CCGG	6 cut(s)	113, 251, 377, 521, 629, 702
BslFI	GGGAC	2 cut(s)	244, 503
BslI	CCNNNNNNNGG	6 cut(s)	119, 488, 527, 582, 689, 708
BsmAI	GTCTC	1 cut(s)	547
BsmFI	GGGAC	2 cut(s)	244, 503
BsnI	GGCC	6 cut(s)	201, 492, 498, 559, 650, 667
Bso31I	GGTCTC	1 cut(s)	547
BsoBI	CYCGRG	1 cut(s)	266
Bsp1286I	GDGCHC	3 cut(s)	435, 619, 716
Bsp13I	TCCGGA	1 cut(s)	112
Bsp143I	GATC	4 cut(s)	85, 109, 367, 586
BspANI	GGCC	6 cut(s)	201, 492, 498, 559, 650, 667
BspEI	TCCGGA	1 cut(s)	112
BspFNI	CGCG	2 cut(s)	341, 476
BspLI	GGNNCC	9 cut(s)	141, 255, 491, 519, 532, 588, 641, 700, 713
BspPI	GGATC	4 cut(s)	104, 362, 581, 594
BspT107I	GGYRCC	1 cut(s)	711
BspTNI	GGTCTC	1 cut(s)	547
BsrBI	CCGCTC	2 cut(s)	426, 600
BsrFI	RCCGGY	2 cut(s)	376, 628
BssAI	RCCGGY	2 cut(s)	376, 628
BssECI	CCNNGG	6 cut(s)	205, 493, 513, 537, 554, 581
BssMI	GATC	4 cut(s)	85, 109, 367, 586
BssT1I	CCWWGG	2 cut(s)	513, 581
Bst4CI	ACNGT	1 cut(s)	232
BstBAI	YACGTR	3 cut(s)	25, 563, 646
BstC8I	GCNNGC	3 cut(s)	378, 431, 503
BstDSI	CCRYGG	2 cut(s)	493, 537
BstF5I	GGATG	2 cut(s)	180, 622
BstFNI	CGCG	2 cut(s)	341, 476
BstH2I	RGCGCY	1 cut(s)	305
BstHHI	GCGC	4 cut(s)	304, 343, 400, 478
BstKTI	GATC	4 cut(s)	88, 112, 370, 589
BstMAI	GTCTC	1 cut(s)	547
BstMBI	GATC	4 cut(s)	85, 109, 367, 586
BstMWI	GCNNNNNNNGC	8 cut(s)	233, 299, 397, 484, 498, 530, 556, 711
BstNSI	RCATGY	1 cut(s)	81
BstSCI	CCNGG	1 cut(s)	519
BstSLI	GKGCMC	1 cut(s)	716
BstUI	CGCG	2 cut(s)	341, 476
BstV1I	GCAGC	1 cut(s)	355
BstX2I	RGATCY	1 cut(s)	586
BstYI	RGATCY	1 cut(s)	586
BsuI	GTATCC	1 cut(s)	181
BsuRI	GGCC	6 cut(s)	201, 492, 498, 559, 650, 667
BtgI	CCRYGG	2 cut(s)	493, 537
BtsCI	GGATG	2 cut(s)	180, 622
Cac8I	GCNNGC	3 cut(s)	378, 431, 503
CfoI	GCGC	4 cut(s)	304, 343, 400, 478
Cfr10I	RCCGGY	2 cut(s)	376, 628
Cfr13I	GGNCC	4 cut(s)	139, 490, 517, 631
CpoI	CGGWCCG	1 cut(s)	631
CseI	GACGC	1 cut(s)	162
Csp6I	GTAC	1 cut(s)	271
CspAI	ACCGGT	1 cut(s)	628
CspI	CGGWCCG	1 cut(s)	631
CviAII	CATG	3 cut(s)	78, 197, 457
CviQI	GTAC	1 cut(s)	271
DpnI	GATC	4 cut(s)	87, 111, 369, 588
DpnII	GATC	4 cut(s)	85, 109, 367, 586
EaeI	YGGCCR	3 cut(s)	199, 496, 648
EciI	GGCGGA	2 cut(s)	360, 539
Ecl136II	GAGCTC	2 cut(s)	433, 617
Eco130I	CCWWGG	2 cut(s)	513, 581
Eco24I	GRGCYC	2 cut(s)	435, 619
Eco31I	GGTCTC	1 cut(s)	547
Eco47I	GGWCC	3 cut(s)	139, 517, 631
Eco53kI	GAGCTC	2 cut(s)	433, 617
Eco72I	CACGTG	2 cut(s)	563, 646
Eco88I	CYCGRG	1 cut(s)	266
EcoICRI	GAGCTC	2 cut(s)	433, 617
EcoO109I	RGGNCCY	1 cut(s)	517
EcoT14I	CCWWGG	2 cut(s)	513, 581
EcoT22I	ATGCAT	1 cut(s)	79
EcoT38I	GRGCYC	2 cut(s)	435, 619
ErhI	CCWWGG	2 cut(s)	513, 581
FaeI	CATG	3 cut(s)	81, 200, 460
FaqI	GGGAC	2 cut(s)	244, 503
FatI	CATG	3 cut(s)	77, 196, 456
FauI	CCCGC	4 cut(s)	150, 480, 510, 605
FbaI	TGATCA	1 cut(s)	85
Fnu4HI	GCNGC	9 cut(s)	237, 291, 344, 374, 427, 479, 499, 534, 651
FokI	GGATG	2 cut(s)	187, 609
FriOI	GRGCYC	2 cut(s)	435, 619
Fsp4HI	GCNGC	9 cut(s)	237, 291, 344, 374, 427, 479, 499, 534, 651
FspBI	CTAG	3 cut(s)	395, 582, 718
GlaI	GCGC	4 cut(s)	303, 342, 399, 477
GluI	GCNGC	9 cut(s)	237, 291, 344, 374, 427, 479, 499, 534, 651
HaeII	RGCGCY	1 cut(s)	305
HaeIII	GGCC	6 cut(s)	201, 492, 498, 559, 650, 667
HapII	CCGG	6 cut(s)	113, 251, 377, 521, 629, 702
HgaI	GACGC	1 cut(s)	162
HhaI	GCGC	4 cut(s)	304, 343, 400, 478
Hin1II	CATG	3 cut(s)	81, 200, 460
Hin6I	GCGC	4 cut(s)	302, 341, 398, 476
HinP1I	GCGC	4 cut(s)	302, 341, 398, 476
HincII	GTYRAC	1 cut(s)	99
HindII	GTYRAC	1 cut(s)	99
HinfI	GANTC	3 cut(s)	210, 353, 687
HpaII	CCGG	6 cut(s)	113, 251, 377, 521, 629, 702
Hpy166II	GTNNAC	2 cut(s)	99, 357
Hpy188I	TCNGA	4 cut(s)	555, 635, 659, 680
Hpy188III	TCNNGA	3 cut(s)	55, 113, 445
Hpy8I	GTNNAC	2 cut(s)	99, 357
Hpy99I	CGWCG	2 cut(s)	236, 639
HpyAV	CCTTC	2 cut(s)	521, 657
HpyCH4III	ACNGT	1 cut(s)	232
HpyCH4IV	ACGT	3 cut(s)	24, 562, 645
HpyCH4V	TGCA	2 cut(s)	8, 77
HpyF10VI	GCNNNNNNNGC	8 cut(s)	233, 299, 397, 484, 498, 530, 556, 711
HpySE526I	ACGT	3 cut(s)	24, 562, 645
Hsp92II	CATG	3 cut(s)	81, 200, 460
HspAI	GCGC	4 cut(s)	302, 341, 398, 476
Kpn2I	TCCGGA	1 cut(s)	112
KroI	GCCGGC	1 cut(s)	376
KroNI	GCCGGC	1 cut(s)	378
Ksp22I	TGATCA	1 cut(s)	85
Kzo9I	GATC	4 cut(s)	85, 109, 367, 586
LmnI	GCTCC	5 cut(s)	259, 530, 605, 639, 704
LpnPI	CCDG	6 cut(s)	126, 264, 390, 534, 642, 715
Lsp1109I	GCAGC	1 cut(s)	355
MaeI	CTAG	3 cut(s)	395, 582, 718
MaeII	ACGT	3 cut(s)	24, 562, 645
MaeIII	GTNAC	1 cut(s)	62
MalI	GATC	4 cut(s)	87, 111, 369, 588
MbiI	CCGCTC	2 cut(s)	426, 600
MboI	GATC	4 cut(s)	85, 109, 367, 586
MboII	GAAGA	2 cut(s)	289, 672
MfeI	CAATTG	1 cut(s)	605
MflI	RGATCY	1 cut(s)	586
MhlI	GDGCHC	3 cut(s)	435, 619, 716
MlsI	TGGCCA	1 cut(s)	201
MluCI	AATT	2 cut(s)	44, 605
MluNI	TGGCCA	1 cut(s)	201
MlyI	GAGTC	3 cut(s)	219, 362, 681
MmeI	TCCRAC	3 cut(s)	238, 658, 703
Mox20I	TGGCCA	1 cut(s)	201
Mph1103I	ATGCAT	1 cut(s)	79
MroI	TCCGGA	1 cut(s)	112
MroNI	GCCGGC	1 cut(s)	376
MscI	TGGCCA	1 cut(s)	201
MseI	TTAA	1 cut(s)	306
Msp20I	TGGCCA	1 cut(s)	201
MspA1I	CMGCKG	1 cut(s)	145
MspI	CCGG	6 cut(s)	113, 251, 377, 521, 629, 702
MspR9I	CCNGG	1 cut(s)	521
MunI	CAATTG	1 cut(s)	605
MvnI	CGCG	2 cut(s)	341, 476
MwoI	GCNNNNNNNGC	8 cut(s)	233, 299, 397, 484, 498, 530, 556, 711
NaeI	GCCGGC	1 cut(s)	378
NciI	CCSGG	1 cut(s)	521
NdeII	GATC	4 cut(s)	85, 109, 367, 586
NgoMIV	GCCGGC	1 cut(s)	376
NlaIII	CATG	3 cut(s)	81, 200, 460
NlaIV	GGNNCC	9 cut(s)	141, 255, 491, 519, 532, 588, 641, 700, 713
NmeAIII	GCCGAG	1 cut(s)	669
NmuCI	GTSAC	1 cut(s)	62
NsiI	ATGCAT	1 cut(s)	79
NspI	RCATGY	1 cut(s)	81
PcsI	WCGNNNNNNNCGW	1 cut(s)	702
PdiI	GCCGGC	1 cut(s)	378
PinAI	ACCGGT	1 cut(s)	628
PkrI	GCNGC	9 cut(s)	238, 292, 345, 375, 428, 480, 500, 535, 652
PleI	GAGTC	3 cut(s)	218, 361, 681
PmaCI	CACGTG	2 cut(s)	563, 646
PmlI	CACGTG	2 cut(s)	563, 646
PpsI	GAGTC	3 cut(s)	218, 361, 681
Ppu21I	YACGTR	3 cut(s)	25, 563, 646
PpuMI	RGGWCCY	1 cut(s)	517
Psp124BI	GAGCTC	2 cut(s)	435, 619
Psp5II	RGGWCCY	1 cut(s)	517
PspCI	CACGTG	2 cut(s)	563, 646
PspN4I	GGNNCC	9 cut(s)	141, 255, 491, 519, 532, 588, 641, 700, 713
PspPI	GGNCC	4 cut(s)	139, 490, 517, 631
PspPPI	RGGWCCY	1 cut(s)	517
PsuI	RGATCY	1 cut(s)	586
RsaI	GTAC	1 cut(s)	272
RsaNI	GTAC	1 cut(s)	271
Rsr2I	CGGWCCG	1 cut(s)	631
RsrII	CGGWCCG	1 cut(s)	631
SacI	GAGCTC	2 cut(s)	435, 619
SaqAI	TTAA	1 cut(s)	306
SatI	GCNGC	9 cut(s)	237, 291, 344, 374, 427, 479, 499, 534, 651
Sau3AI	GATC	4 cut(s)	85, 109, 367, 586
Sau96I	GGNCC	4 cut(s)	139, 490, 517, 631
SchI	GAGTC	3 cut(s)	219, 362, 681
ScrFI	CCNGG	1 cut(s)	521
SduI	GDGCHC	3 cut(s)	435, 619, 716
SinI	GGWCC	3 cut(s)	139, 517, 631
Sse9I	AATT	2 cut(s)	44, 605
SspMI	CTAG	3 cut(s)	395, 582, 718
SstI	GAGCTC	2 cut(s)	435, 619
StyD4I	CCNGG	1 cut(s)	519
StyI	CCWWGG	2 cut(s)	513, 581
TaaI	ACNGT	1 cut(s)	232
TaiI	ACGT	3 cut(s)	27, 565, 648
TaqI	TCGA	5 cut(s)	29, 323, 351, 619, 685
TasI	AATT	2 cut(s)	44, 605
TauI	GCSGC	8 cut(s)	239, 293, 376, 429, 481, 501, 536, 653
Tru1I	TTAA	1 cut(s)	306
Tru9I	TTAA	1 cut(s)	306
TseFI	GTSAC	1 cut(s)	62
TseI	GCWGC	1 cut(s)	343
Tsp45I	GTSAC	1 cut(s)	62
TspDTI	ATGAA	3 cut(s)	5, 431, 473
TspGWI	ACGGA	3 cut(s)	246, 579, 652
VpaK11BI	GGWCC	3 cut(s)	139, 517, 631
XceI	RCATGY	1 cut(s)	81
XmaJI	CCTAGG	1 cut(s)	581
XspI	CTAG	3 cut(s)	395, 582, 718
Zsp2I	ATGCAT	1 cut(s)	79

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