Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0003132

Physical Location & Seq

Genomic Coordinates Reverse (-)

4319853 .. 4321154

Gene Structure 1302 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0057000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 753 bp

ATGGCAGTTATAATTATGCTTCCACTGATTTGGCAGCTCTTTGGTATCGACTTAATGAGGAGAAAGCTGAATGGATCATATATGTTACTGATGTTGGCCAGCAGGAACACTTTGATATGTTATTCAAGGCAGCTACGCTTGCAGGTTGGCTTCCAGTTGATGGCTCGTACCCTAAAGTTAGCCATGTACGTTGGTTTTGGTCTTGTTCTTGGAGAAGATGGTAAACGATTACGGACTCGCTCTTCTGATGATGTGGTTCGATTGGTTGATTTACTTGATGAAGCCAAGAGCCGAAGCAAAACAAGTCTTGTCGAGCGTGGTAAGAGTGAAGACTGGACTGAAGAGGAGCTTGAGCAAACTGCAGTGGCCGTTGGTTATGGCGCCGTGAAGTATGCTGATCTGAAGAACAACAGATCGACCGATTACACTTTTGATTTCAATCAGATGCTAAATGATAAGGGAAACACTGCTGTCTACTTGCTATACATGCATGCTCGGATCTGTTCAATCATAAGGAAATCTGGTAAAGACATTGACGAATTGAAAAAAACGGGGGAAATTGTGTTGGGTCATGCCGGTGAGCGTAAATTGGCGCTTCACTTATTAAAGTTTCCTGAGACCGTGGAGGAGGCTTGCACGAATCTGTTGCCAAGTGTTTTATGTGAATACCTCTATAATCTATCAGAAATCTACAGCAGAAAGTTCTATTCCAATTGCCAGGTTATTGGGTCGATCGGCAGAGGAAACGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0006139 GO:0006163 GO:0006725 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009117 GO:0009150 GO:0009259 GO:0009987 GO:0016787 GO:0016817 GO:0016819 GO:0019637 GO:0019693 GO:0034641 GO:0044237 GO:0044238 GO:0044281 GO:0046483 GO:0047627 GO:0055086 GO:0071704 GO:0072521 GO:1901135 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AAA_33 DcpS_C HLH Macro zf-C2HE

Protein Analysis

250

Amino Acids

28.44

Weight (kDa)

8.7

Isoelectric Point (pI)

39.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1d	PF00750	63 - 146	1.2e-22	tRNA synthetases class I (R), catalytic domain
DALR_1	PF05746	160 - 243	1.6e-18	DALR anticodon binding domain

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: OG0003132)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01310
fragaria_vesca	FvH4_6g11090 FvH4_6g11090 FvH4_6g11090 FvH4_6g11090 FvH4_6g11090
malus_domestica	MD04G1160300.v1.1 MD05G1095500.v1.1 MD10G1110900.v1.1 MD12G1172800.v1.1
prunus_persica	Prupe.6G280900_v2.0.a1 Prupe.6G280900_v2.0.a1 Prupe.6G280900_v2.0.a1 Prupe.6G280900_v2.0.a1 Prupe.6G280900_v2.0.a1
pyrus_communis	pycom04g14360 pycom12g16400 pycom12g16440
rosa_chinensis	RchiOBHm_Chr3g0462501 RchiOBHm_Chr3g0462521
rosa_laevigata	RLG00000024853 RLG00000024857
rosa_multiflora	Rmu_sc0003624.1_g000009 Rmu_sc0003624.1_g000012 Rmu_sc0003624.1_g000015 Rmu_sc0011346.1_g000002 Rmu_sc0011346.1_g000005
rosa_roxburghii	Rroxscaffold_6G00417460
rosa_rugosa	Rorug03G0057000
rosa_samantha	Rh3AG115200 Rh3BG118500 Rh3BG118600 Rh3CG121400 Rh3CG122000 Rh3DG120700
rosa_wichuraiana	Rw0G003810 Rw3G009750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	11
Acc36I	ACCTGC	1 cut(s)	133
AccB1I	GGYRCC	1 cut(s)	380
AccB7I	CCANNNNNTGG	1 cut(s)	160
AccI	GTMKAC	1 cut(s)	474
AclWI	GGATC	2 cut(s)	82, 506
AcoI	YGGCCR	2 cut(s)	96, 366
AcuI	CTGAAG	2 cut(s)	360, 422
AcyI	GRCGYC	1 cut(s)	381
AfaI	GTAC	2 cut(s)	169, 188
AfiI	CCNNNNNNNGG	1 cut(s)	160
AgsI	TTSAA	4 cut(s)	126, 439, 507, 544
AjnI	CCWGG	1 cut(s)	717
AluBI	AGCT	4 cut(s)	37, 67, 133, 349
AluI	AGCT	4 cut(s)	37, 67, 133, 349
Alw26I	GTCTC	1 cut(s)	611
AlwI	GGATC	2 cut(s)	82, 506
AoxI	GGCC	2 cut(s)	96, 366
ApeKI	GCWGC	2 cut(s)	34, 130
AspLEI	GCGC	2 cut(s)	383, 595
AsuHPI	GGTGA	1 cut(s)	590
BalI	TGGCCA	1 cut(s)	98
BanI	GGYRCC	1 cut(s)	380
BbsI	GAAGAC	1 cut(s)	336
BbvI	GCAGC	2 cut(s)	46, 142
BccI	CCATC	2 cut(s)	154, 212
BceAI	ACGGC	2 cut(s)	353, 368
BcgI	CGANNNNNNTGC	2 cut(s)	628, 662
BciT130I	CCWGG	1 cut(s)	719
BcoDI	GTCTC	1 cut(s)	611
BfmI	CTRYAG	2 cut(s)	360, 691
BfoI	RGCGCY	2 cut(s)	384, 596
BfuAI	ACCTGC	1 cut(s)	133
BisI	GCNGC	2 cut(s)	35, 131
BlsI	GCNGC	2 cut(s)	36, 132
Bme1390I	CCNGG	1 cut(s)	719
BmiI	GGNNCC	1 cut(s)	382
BmrFI	CCNGG	1 cut(s)	719
BmsI	GCATC	1 cut(s)	435
BpiI	GAAGAC	1 cut(s)	336
BpuEI	CTTGAG	1 cut(s)	371
BsaBI	GATNNNNATC	1 cut(s)	438
BsaHI	GRCGYC	1 cut(s)	381
BsaI	GGTCTC	1 cut(s)	611
BsaJI	CCNNGG	1 cut(s)	621
Bsc4I	CCNNNNNNNGG	1 cut(s)	160
Bse118I	RCCGGY	1 cut(s)	575
Bse1I	ACTGG	2 cut(s)	154, 338
Bse8I	GATNNNNATC	1 cut(s)	438
BseBI	CCWGG	1 cut(s)	719
BseDI	CCNNGG	1 cut(s)	621
BseJI	GATNNNNATC	1 cut(s)	438
BseLI	CCNNNNNNNGG	1 cut(s)	160
BseMII	CTCAG	1 cut(s)	606
BseNI	ACTGG	2 cut(s)	154, 338
BseRI	GAGGAG	3 cut(s)	73, 359, 641
BseXI	GCAGC	2 cut(s)	46, 142
Bsh1285I	CGRYCG	2 cut(s)	420, 735
BshFI	GGCC	2 cut(s)	98, 368
BshNI	GGYRCC	1 cut(s)	380
BsiEI	CGRYCG	2 cut(s)	420, 735
BsiSI	CCGG	1 cut(s)	576
BslI	CCNNNNNNNGG	1 cut(s)	160
BsmAI	GTCTC	1 cut(s)	611
BsnI	GGCC	2 cut(s)	98, 368
Bso31I	GGTCTC	1 cut(s)	611
Bsp143I	GATC	5 cut(s)	74, 397, 413, 498, 732
BspANI	GGCC	2 cut(s)	98, 368
BspCNI	CTCAG	1 cut(s)	607
BspLI	GGNNCC	1 cut(s)	382
BspMAI	CTGCAG	1 cut(s)	364
BspMI	ACCTGC	1 cut(s)	133
BspPI	GGATC	2 cut(s)	82, 506
BspQI	GCTCTTC	1 cut(s)	247
BspT107I	GGYRCC	1 cut(s)	380
BspTNI	GGTCTC	1 cut(s)	611
BsrFI	RCCGGY	1 cut(s)	575
BsrI	ACTGG	2 cut(s)	154, 338
BssAI	RCCGGY	1 cut(s)	575
BssECI	CCNNGG	1 cut(s)	621
BssMI	GATC	5 cut(s)	74, 397, 413, 498, 732
BssNI	GRCGYC	1 cut(s)	381
Bst2UI	CCWGG	1 cut(s)	719
Bst4CI	ACNGT	1 cut(s)	622
Bst6I	CTCTTC	2 cut(s)	247, 336
BstACI	GRCGYC	1 cut(s)	381
BstC8I	GCNNGC	4 cut(s)	100, 140, 492, 634
BstDEI	CTNAG	1 cut(s)	615
BstDSI	CCRYGG	1 cut(s)	621
BstH2I	RGCGCY	2 cut(s)	384, 596
BstHHI	GCGC	2 cut(s)	383, 595
BstKTI	GATC	5 cut(s)	77, 400, 416, 501, 735
BstMAI	GTCTC	1 cut(s)	611
BstMBI	GATC	5 cut(s)	74, 397, 413, 498, 732
BstMCI	CGRYCG	2 cut(s)	420, 735
BstMWI	GCNNNNNNNGC	2 cut(s)	139, 487
BstNI	CCWGG	1 cut(s)	719
BstNSI	RCATGY	2 cut(s)	490, 494
BstSCI	CCNGG	1 cut(s)	717
BstSFI	CTRYAG	2 cut(s)	360, 691
BstV1I	GCAGC	2 cut(s)	46, 142
BstV2I	GAAGAC	1 cut(s)	336
BstX2I	RGATCY	1 cut(s)	498
BstXI	CCANNNNNNTGG	2 cut(s)	30, 725
BstYI	RGATCY	1 cut(s)	498
BsuRI	GGCC	2 cut(s)	98, 368
BtgI	CCRYGG	1 cut(s)	621
BtsI	GCAGTG	2 cut(s)	369, 465
BtsIMutI	CAGTG	3 cut(s)	23, 369, 465
BveI	ACCTGC	1 cut(s)	133
Cac8I	GCNNGC	4 cut(s)	100, 140, 492, 634
CfoI	GCGC	2 cut(s)	383, 595
Cfr10I	RCCGGY	1 cut(s)	575
Csp6I	GTAC	2 cut(s)	168, 187
CviAII	CATG	4 cut(s)	184, 487, 491, 572
CviQI	GTAC	2 cut(s)	168, 187
DdeI	CTNAG	1 cut(s)	615
DinI	GGCGCC	1 cut(s)	382
DpnI	GATC	5 cut(s)	76, 399, 415, 500, 734
DpnII	GATC	5 cut(s)	74, 397, 413, 498, 732
EaeI	YGGCCR	2 cut(s)	96, 366
Eam1104I	CTCTTC	2 cut(s)	247, 336
EarI	CTCTTC	2 cut(s)	247, 336
Eco31I	GGTCTC	1 cut(s)	611
Eco57I	CTGAAG	2 cut(s)	360, 422
EcoRII	CCWGG	1 cut(s)	717
EcoT22I	ATGCAT	1 cut(s)	492
EgeI	GGCGCC	1 cut(s)	382
EheI	GGCGCC	1 cut(s)	382
FaeI	CATG	4 cut(s)	187, 490, 494, 575
FalI	AAGNNNNNCTT	2 cut(s)	333, 365
FatI	CATG	4 cut(s)	183, 486, 490, 571
FblI	GTMKAC	1 cut(s)	474
Fnu4HI	GCNGC	2 cut(s)	35, 131
Fsp4HI	GCNGC	2 cut(s)	35, 131
GlaI	GCGC	2 cut(s)	382, 594
GluI	GCNGC	2 cut(s)	35, 131
HaeII	RGCGCY	2 cut(s)	384, 596
HaeIII	GGCC	2 cut(s)	98, 368
HapII	CCGG	1 cut(s)	576
HhaI	GCGC	2 cut(s)	383, 595
Hin1I	GRCGYC	1 cut(s)	381
Hin1II	CATG	4 cut(s)	187, 490, 494, 575
Hin6I	GCGC	2 cut(s)	381, 593
HinP1I	GCGC	2 cut(s)	381, 593
HinfI	GANTC	2 cut(s)	235, 640
HpaII	CCGG	1 cut(s)	576
HphI	GGTGA	1 cut(s)	590
Hpy166II	GTNNAC	2 cut(s)	224, 475
Hpy188I	TCNGA	5 cut(s)	247, 402, 444, 498, 685
Hpy188III	TCNNGA	1 cut(s)	614
Hpy8I	GTNNAC	2 cut(s)	224, 475
HpyCH4III	ACNGT	1 cut(s)	622
HpyCH4IV	ACGT	1 cut(s)	189
HpyCH4V	TGCA	4 cut(s)	142, 362, 490, 636
HpyF10VI	GCNNNNNNNGC	2 cut(s)	139, 487
HpyF3I	CTNAG	1 cut(s)	615
HpySE526I	ACGT	1 cut(s)	189
Hsp92I	GRCGYC	1 cut(s)	381
Hsp92II	CATG	4 cut(s)	187, 490, 494, 575
HspAI	GCGC	2 cut(s)	381, 593
KasI	GGCGCC	1 cut(s)	380
Kzo9I	GATC	5 cut(s)	74, 397, 413, 498, 732
LguI	GCTCTTC	1 cut(s)	247
LmnI	GCTCC	1 cut(s)	346
Lsp1109I	GCAGC	2 cut(s)	46, 142
LweI	GCATC	1 cut(s)	435
MaeII	ACGT	1 cut(s)	189
MaeIII	GTNAC	1 cut(s)	84
MalI	GATC	5 cut(s)	76, 399, 415, 500, 734
MboI	GATC	5 cut(s)	74, 397, 413, 498, 732
MboII	GAAGA	5 cut(s)	227, 234, 341, 353, 415
MfeI	CAATTG	1 cut(s)	712
MflI	RGATCY	1 cut(s)	498
MlsI	TGGCCA	1 cut(s)	98
MluCI	AATT	5 cut(s)	12, 539, 558, 587, 712
MluNI	TGGCCA	1 cut(s)	98
Mly113I	GGCGCC	1 cut(s)	381
MlyI	GAGTC	1 cut(s)	229
MnlI	CCTC	6 cut(s)	51, 337, 619, 622, 680, 734
Mox20I	TGGCCA	1 cut(s)	98
Mph1103I	ATGCAT	1 cut(s)	492
MscI	TGGCCA	1 cut(s)	98
MseI	TTAA	2 cut(s)	53, 605
MslI	CAYNNNNRTG	1 cut(s)	576
Msp20I	TGGCCA	1 cut(s)	98
MspI	CCGG	1 cut(s)	576
MspR9I	CCNGG	1 cut(s)	719
MunI	CAATTG	1 cut(s)	712
MvaI	CCWGG	1 cut(s)	719
MwoI	GCNNNNNNNGC	2 cut(s)	139, 487
NarI	GGCGCC	1 cut(s)	381
NdeII	GATC	5 cut(s)	74, 397, 413, 498, 732
NlaIII	CATG	4 cut(s)	187, 490, 494, 575
NlaIV	GGNNCC	1 cut(s)	382
NsiI	ATGCAT	1 cut(s)	492
NspI	RCATGY	2 cut(s)	490, 494
PaeI	GCATGC	1 cut(s)	494
PciSI	GCTCTTC	1 cut(s)	247
PfeI	GAWTC	1 cut(s)	640
PflMI	CCANNNNNTGG	1 cut(s)	160
PkrI	GCNGC	2 cut(s)	36, 132
Ple19I	CGATCG	1 cut(s)	735
PleI	GAGTC	1 cut(s)	229
PluTI	GGCGCC	1 cut(s)	384
PpsI	GAGTC	1 cut(s)	229
PsiI	TTATAA	1 cut(s)	11
Psp6I	CCWGG	1 cut(s)	717
PspGI	CCWGG	1 cut(s)	717
PspN4I	GGNNCC	1 cut(s)	382
PstI	CTGCAG	1 cut(s)	364
PsuI	RGATCY	1 cut(s)	498
PvuI	CGATCG	1 cut(s)	735
RsaI	GTAC	2 cut(s)	169, 188
RsaNI	GTAC	2 cut(s)	168, 187
RseI	CAYNNNNRTG	1 cut(s)	576
SapI	GCTCTTC	1 cut(s)	247
SaqAI	TTAA	2 cut(s)	53, 605
SatI	GCNGC	2 cut(s)	35, 131
Sau3AI	GATC	5 cut(s)	74, 397, 413, 498, 732
SchI	GAGTC	1 cut(s)	229
ScrFI	CCNGG	1 cut(s)	719
SetI	ASST	8 cut(s)	39, 69, 135, 147, 192, 351, 672, 723
SfaNI	GCATC	1 cut(s)	435
SfcI	CTRYAG	2 cut(s)	360, 691
SfoI	GGCGCC	1 cut(s)	382
SmiMI	CAYNNNNRTG	1 cut(s)	576
SmlI	CTYRAG	1 cut(s)	350
SmoI	CTYRAG	1 cut(s)	350
SphI	GCATGC	1 cut(s)	494
Sse9I	AATT	5 cut(s)	12, 539, 558, 587, 712
SspDI	GGCGCC	1 cut(s)	380
StyD4I	CCNGG	1 cut(s)	717
TaaI	ACNGT	1 cut(s)	622
TaiI	ACGT	1 cut(s)	192
TaqI	TCGA	5 cut(s)	48, 259, 312, 416, 731
TaqII	GACCGA	1 cut(s)	434
TasI	AATT	5 cut(s)	12, 539, 558, 587, 712
TfiI	GAWTC	1 cut(s)	640
Tru1I	TTAA	2 cut(s)	53, 605
Tru9I	TTAA	2 cut(s)	53, 605
TscAI	CASTG	3 cut(s)	30, 369, 472
TseI	GCWGC	2 cut(s)	34, 130
TspDTI	ATGAA	1 cut(s)	294
TspGWI	ACGGA	1 cut(s)	247
TspRI	CASTG	3 cut(s)	30, 369, 472
Van91I	CCANNNNNTGG	1 cut(s)	160
XceI	RCATGY	2 cut(s)	490, 494
XmiI	GTMKAC	1 cut(s)	474
Zsp2I	ATGCAT	1 cut(s)	492

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