Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0004790

Physical Location & Seq

Genomic Coordinates Forward (+)

56434582 .. 56438088

Gene Structure 3507 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0408700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 873 bp

ATGGGCGCTAAGAAGAGCGACGGCGGAGACAACAAGAAGGGCGGCGACGGGGCCGAGAAGAAGAAGGAGGACAACCCCATCACTGTGGTCTTGAAGATTGACATGCACTGTGACGGCTGCACTTCCAAAATCGTCAAAACTCTCAAAGGCTTTCAAGGGGTCGACACAGTGAAGCCAGAGGTCGGAGCCCACAAGCTGACGGTGGTCGGAAAAGTGGACCCTTCAAAGCTCCGGGAACAGCTCGCCGGAAAGCTGAAGAAGAAGGTGGACCTCATCTCGCCGCAGCCCAAGAAAGAGAAAGACGACAACAGCAACAAGAAGCAGCCTGAAAAAGCAGCAAACGACGACAAAAAACCCAAAGAGCCTCCGGTGACGACGGCGGTTCTCAAGCTCAATCTGCACTGCGAGGGTTGCATTCAGAAGATTCACAAGACCGTCACCAAGACCAGAGGGTTCCATGACATGAGCATTGACAAGGAGAAGGAGCTGGTGACTGTGAAGGGGGCAATGGACATGAAGGCGGTGGCTGAGAGTCTCAAAGCGAGGCTGAAGAGGAATGTGGAGATTGTGCCACCCAAGAAGGACAACAAGAAAGACAAGGAGAAAGGTGAAGGCGGCGGCGGCGACAATGGCGGAGGTGGCAAGAAGAAGAACAAGGAGGAAGGAGGAGAGGGTGGTAATGCTGGCGGCGGCGGAGGTGAAAAATTGGACAAGATGGATTTTCCGGTTGGTCAACCCGGGTTTGGGCAGGTTCCTCCATATGGGGTTGTTTATGGGTATGATTATCCACCACCACCAATGAACTACATGGGGAATCCACATGCTCCTCAGATTTTCAGTGATGAGAACCCAAATGCTTGTTCAATTATGTGA

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

Rab3-GTPase_cat

Protein Analysis

290

Amino Acids

31.11

Weight (kDa)

9.22

Isoelectric Point (pI)

35.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMA	PF00403	31 - 83	1.9e-12	Heavy-metal-associated domain
HMA	PF00403	132 - 180	1.4e-07	Heavy-metal-associated 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

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Publication-ready

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Orthologous Genes (Group: OG0004790)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G58510 AT5G58510
fragaria_vesca	FvH4_3g39400 FvH4_3g39400 FvH4_3g39400 FvH4_3g39400
malus_domestica	MD11G1065500.v1.1
prunus_persica	Prupe.6G051700_v2.0.a1 Prupe.6G051700_v2.0.a1 Prupe.6G051700_v2.0.a1 Prupe.6G051700_v2.0.a1 Prupe.6G051700_v2.0.a1
pyrus_communis	pycom11g05550
rosa_chinensis	RchiOBHm_Chr5g0070931
rosa_laevigata	RLG00000036172
rosa_multiflora	Rmu_sc0006203.1_g000001
rosa_roxburghii	Rroxscaffold_1G00010270 Rroxscaffold_1G00026030 Rroxscaffold_3G00223950 Rroxscaffold_4G00311860 Rroxscaffold_5G00336150 Rroxscaffold_5G00336440 Rroxscaffold_6G00388970 Rroxscaffold_6G00423050
rosa_rugosa	Rorug05G0408600 Rorug05G0408700
rosa_samantha	Rh5AG464800 Rh5BG483500 Rh5CG508200 Rh5DG495100
rosa_wichuraiana	Rw5G043240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	739
AccI	GTMKAC	1 cut(s)	162
AcuI	CTGAAG	2 cut(s)	275, 569
AfiI	CCNNNNNNNGG	4 cut(s)	182, 743, 744, 761
AgsI	TTSAA	4 cut(s)	94, 155, 225, 864
AjuI	GAANNNNNNNTTGG	1 cut(s)	844
AluBI	AGCT	6 cut(s)	196, 229, 241, 253, 391, 487
AluI	AGCT	6 cut(s)	196, 229, 241, 253, 391, 487
Alw26I	GTCTC	2 cut(s)	21, 539
Ama87I	CYCGRG	1 cut(s)	737
AoxI	GGCC	1 cut(s)	51
ApeKI	GCWGC	4 cut(s)	117, 283, 322, 335
AspLEI	GCGC	1 cut(s)	8
AspS9I	GGNCC	3 cut(s)	51, 217, 268
AsuC2I	CCSGG	3 cut(s)	233, 738, 739
AsuHPI	GGTGA	5 cut(s)	382, 430, 502, 620, 710
AvaI	CYCGRG	1 cut(s)	737
AvaII	GGWCC	2 cut(s)	217, 268
BanII	GRGCYC	1 cut(s)	190
BbvI	GCAGC	4 cut(s)	104, 295, 334, 347
BccI	CCATC	2 cut(s)	86, 709
BceAI	ACGGC	3 cut(s)	37, 130, 393
BcnI	CCSGG	3 cut(s)	233, 738, 739
BcoDI	GTCTC	2 cut(s)	21, 539
BfoI	RGCGCY	1 cut(s)	9
BfuAI	ACCTGC	1 cut(s)	739
Bme1390I	CCNGG	3 cut(s)	233, 738, 739
Bme18I	GGWCC	2 cut(s)	217, 268
BmeT110I	CYCGRG	1 cut(s)	737
BmgT120I	GGNCC	3 cut(s)	51, 217, 268
BmiI	GGNNCC	5 cut(s)	52, 187, 219, 455, 753
BmrFI	CCNGG	3 cut(s)	233, 738, 739
BoxI	GACNNNNGTC	1 cut(s)	203
BpuEI	CTTGAG	1 cut(s)	371
BpuMI	CCSGG	3 cut(s)	233, 738, 739
BsaJI	CCNNGG	1 cut(s)	737
BsaWI	WCCGGW	2 cut(s)	367, 724
Bsc4I	CCNNNNNNNGG	4 cut(s)	182, 743, 744, 761
Bse3DI	GCAATG	1 cut(s)	513
BseDI	CCNNGG	1 cut(s)	737
BseLI	CCNNNNNNNGG	4 cut(s)	182, 743, 744, 761
BseMI	GCAATG	1 cut(s)	513
BseMII	CTCAG	2 cut(s)	519, 842
BseRI	GAGGAG	2 cut(s)	681, 816
BseXI	GCAGC	4 cut(s)	104, 295, 334, 347
BsgI	GTGCAG	2 cut(s)	103, 383
BshFI	GGCC	1 cut(s)	53
BsiHKCI	CYCGRG	1 cut(s)	737
BsiSI	CCGG	5 cut(s)	232, 246, 368, 725, 738
BslI	CCNNNNNNNGG	4 cut(s)	182, 743, 744, 761
BsmAI	GTCTC	2 cut(s)	21, 539
BsmI	GAATGC	1 cut(s)	414
BsnI	GGCC	1 cut(s)	53
BsoBI	CYCGRG	1 cut(s)	737
Bsp1286I	GDGCHC	1 cut(s)	190
BspANI	GGCC	1 cut(s)	53
BspCNI	CTCAG	2 cut(s)	520, 841
BspLI	GGNNCC	5 cut(s)	52, 187, 219, 455, 753
BspMI	ACCTGC	1 cut(s)	739
BspQI	GCTCTTC	1 cut(s)	8
BsrDI	GCAATG	1 cut(s)	513
BssECI	CCNNGG	1 cut(s)	737
Bst4CI	ACNGT	6 cut(s)	85, 110, 169, 202, 436, 496
Bst6I	CTCTTC	2 cut(s)	8, 545
BstC8I	GCNNGC	2 cut(s)	243, 685
BstDEI	CTNAG	3 cut(s)	9, 528, 828
BstH2I	RGCGCY	1 cut(s)	9
BstHHI	GCGC	1 cut(s)	8
BstMAI	GTCTC	2 cut(s)	21, 539
BstMWI	GCNNNNNNNGC	5 cut(s)	397, 411, 621, 630, 639
BstNSI	RCATGY	2 cut(s)	106, 824
BstPAI	GACNNNNGTC	1 cut(s)	203
BstSCI	CCNGG	3 cut(s)	231, 736, 737
BstV1I	GCAGC	4 cut(s)	104, 295, 334, 347
BstXI	CCANNNNNNTGG	1 cut(s)	85
BsuRI	GGCC	1 cut(s)	53
BtsI	GCAGTG	1 cut(s)	400
BtsIMutI	CAGTG	5 cut(s)	81, 106, 174, 400, 844
BveI	ACCTGC	1 cut(s)	739
Cac8I	GCNNGC	2 cut(s)	243, 685
CfoI	GCGC	1 cut(s)	8
Cfr13I	GGNCC	3 cut(s)	51, 217, 268
Cfr9I	CCCGGG	1 cut(s)	737
CviAII	CATG	6 cut(s)	103, 458, 463, 514, 808, 821
DdeI	CTNAG	3 cut(s)	9, 528, 828
Eam1104I	CTCTTC	2 cut(s)	8, 545
EarI	CTCTTC	2 cut(s)	8, 545
EciI	GGCGGA	3 cut(s)	39, 648, 708
Eco24I	GRGCYC	1 cut(s)	190
Eco47I	GGWCC	2 cut(s)	217, 268
Eco57I	CTGAAG	2 cut(s)	275, 569
Eco88I	CYCGRG	1 cut(s)	737
EcoT38I	GRGCYC	1 cut(s)	190
FaeI	CATG	6 cut(s)	106, 461, 466, 517, 811, 824
FatI	CATG	6 cut(s)	102, 457, 462, 513, 807, 820
FauNDI	CATATG	1 cut(s)	760
FblI	GTMKAC	1 cut(s)	162
FriOI	GRGCYC	1 cut(s)	190
GlaI	GCGC	1 cut(s)	7
HaeII	RGCGCY	1 cut(s)	9
HaeIII	GGCC	1 cut(s)	53
HapII	CCGG	5 cut(s)	232, 246, 368, 725, 738
HhaI	GCGC	1 cut(s)	8
Hin1II	CATG	6 cut(s)	106, 461, 466, 517, 811, 824
Hin6I	GCGC	1 cut(s)	6
HinP1I	GCGC	1 cut(s)	6
HincII	GTYRAC	2 cut(s)	163, 734
HindII	GTYRAC	2 cut(s)	163, 734
HinfI	GANTC	3 cut(s)	424, 532, 814
HpaII	CCGG	5 cut(s)	232, 246, 368, 725, 738
HphI	GGTGA	5 cut(s)	382, 430, 502, 620, 710
Hpy166II	GTNNAC	4 cut(s)	163, 217, 268, 734
Hpy188I	TCNGA	4 cut(s)	185, 209, 420, 831
Hpy188III	TCNNGA	1 cut(s)	91
Hpy8I	GTNNAC	4 cut(s)	163, 217, 268, 734
Hpy99I	CGWCG	4 cut(s)	23, 50, 347, 379
HpyCH4III	ACNGT	6 cut(s)	85, 110, 169, 202, 436, 496
HpyCH4V	TGCA	4 cut(s)	106, 120, 400, 414
HpyF10VI	GCNNNNNNNGC	5 cut(s)	397, 411, 621, 630, 639
HpyF3I	CTNAG	3 cut(s)	9, 528, 828
Hsp92II	CATG	6 cut(s)	106, 461, 466, 517, 811, 824
HspAI	GCGC	1 cut(s)	6
LguI	GCTCTTC	1 cut(s)	8
LmnI	GCTCC	4 cut(s)	185, 234, 484, 829
Lsp1109I	GCAGC	4 cut(s)	104, 295, 334, 347
MaeIII	GTNAC	4 cut(s)	110, 370, 436, 490
MhlI	GDGCHC	1 cut(s)	190
MluCI	AATT	2 cut(s)	704, 864
MlyI	GAGTC	1 cut(s)	541
MmeI	TCCRAC	2 cut(s)	163, 187
MslI	CAYNNNNRTG	1 cut(s)	83
MspI	CCGG	5 cut(s)	232, 246, 368, 725, 738
MspR9I	CCNGG	3 cut(s)	233, 738, 739
Mva1269I	GAATGC	1 cut(s)	414
MwoI	GCNNNNNNNGC	5 cut(s)	397, 411, 621, 630, 639
NciI	CCSGG	3 cut(s)	233, 738, 739
NdeI	CATATG	1 cut(s)	760
NlaIII	CATG	6 cut(s)	106, 461, 466, 517, 811, 824
NlaIV	GGNNCC	5 cut(s)	52, 187, 219, 455, 753
NmeAIII	GCCGAG	1 cut(s)	79
NmuCI	GTSAC	4 cut(s)	110, 370, 436, 490
NspI	RCATGY	2 cut(s)	106, 824
PciSI	GCTCTTC	1 cut(s)	8
PctI	GAATGC	1 cut(s)	414
PfeI	GAWTC	2 cut(s)	424, 814
PfoI	TCCNGGA	1 cut(s)	231
PleI	GAGTC	1 cut(s)	540
PpsI	GAGTC	1 cut(s)	540
PshAI	GACNNNNGTC	1 cut(s)	203
PspN4I	GGNNCC	5 cut(s)	52, 187, 219, 455, 753
PspPI	GGNCC	3 cut(s)	51, 217, 268
RseI	CAYNNNNRTG	1 cut(s)	83
SalI	GTCGAC	1 cut(s)	161
SapI	GCTCTTC	1 cut(s)	8
Sau96I	GGNCC	3 cut(s)	51, 217, 268
SchI	GAGTC	1 cut(s)	541
ScrFI	CCNGG	3 cut(s)	233, 738, 739
SduI	GDGCHC	1 cut(s)	190
SinI	GGWCC	2 cut(s)	217, 268
SmaI	CCCGGG	1 cut(s)	739
SmiMI	CAYNNNNRTG	1 cut(s)	83
SmlI	CTYRAG	1 cut(s)	386
SmoI	CTYRAG	1 cut(s)	386
Sse9I	AATT	2 cut(s)	704, 864
StyD4I	CCNGG	3 cut(s)	231, 736, 737
TaaI	ACNGT	6 cut(s)	85, 110, 169, 202, 436, 496
TaqI	TCGA	1 cut(s)	162
TasI	AATT	2 cut(s)	704, 864
TauI	GCSGC	7 cut(s)	45, 283, 618, 621, 624, 690, 693
TfiI	GAWTC	2 cut(s)	424, 814
TscAI	CASTG	5 cut(s)	88, 113, 174, 407, 844
TseFI	GTSAC	4 cut(s)	110, 370, 436, 490
TseI	GCWGC	4 cut(s)	117, 283, 322, 335
Tsp45I	GTSAC	4 cut(s)	110, 370, 436, 490
TspDTI	ATGAA	2 cut(s)	530, 815
TspMI	CCCGGG	1 cut(s)	737
TspRI	CASTG	5 cut(s)	88, 113, 174, 407, 844
VpaK11BI	GGWCC	2 cut(s)	217, 268
XceI	RCATGY	2 cut(s)	106, 824
XmaI	CCCGGG	1 cut(s)	737
XmiI	GTMKAC	1 cut(s)	162

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