Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0001276

Physical Location & Seq

Genomic Coordinates Forward (+)

49417993 .. 49419864

Gene Structure 1872 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0369000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGCAGCCTGAAAACCAAGAACTCTACCGCTTTCTTGCCCAAAACGGCTTAATCAACGGTCATCCCTATGGATCATTTCCCGGAGGAGTGGCTAATTGTGAGTTCTCATCTTCAGCTTCAGCTGTTCCTATGCAGCACAGCTTTTGCAGCTCCTCCTCGTATTACAGTAATAATTACCCCTTGAATAATCTGGAGGGGTCTGGGGTACTCAGTACTACTAGTACTGATACTACTACTACACCTCACGACAGAGCCCTTGCTGCTCTCAACAATCACAAGGAGGCCGAGAAGAGAAGGAGAGAGAGAATTAACTCACACCTCGATAAGCTTCGGGCACTTCTTCCTTGTAATTCCAAGACAGACAAAGCCTCGCTGTTAGCAAAGGTGGTTGAACGAGTGAAAGAACTGAAACAACAAATGTCAGAAATCTCAGAACTCGAAACATTCCCTTCTGAAACTGATGAAATTACTGTACTTTCCTCGGGTGAGGATGATTATTCGAGCAATGGAGGAATTATTTTCAAAGCATCATTGTCCTGCGAGGACCGACCAGAACTCCTATCCGATCTAATTGAAATACTAAAATCCCTCCACTTGAAGACACTTAAAGCTGAAATGGCAACTCTCGGAGGAAGAATCCGCAGTGTACTTATTGTTGCCGCGGATAAAGATCACACAATTGAATCAGTTCCCTTCTTGCAGAATGCATTCAAGTCTTTATTAGAACGCTCGAACTCTAGTGAGAGATCAAAAAGGCGTCGCCGTGTATTAGATCCAACGTTACTCGTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00260 ko00261 ko00270 ko00300 ko01100 ko01110 ko01120 ko01130 ko01210 ko01230 map00260 map00261 map00270 map00300 map01100 map01110 map01120 map01130 map01210 map01230

Pfam Domains

Protein Families

Mem_trans PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

263

Amino Acids

29.17

Weight (kDa)

6.4

Isoelectric Point (pI)

53.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	90 - 137	8.3e-12	Helix-loop-helix DNA-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

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Orthologous Genes (Group: OG0001276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G61990
fragaria_vesca	FvH4_5g09340 FvH4_5g09340 FvH4_5g09340 FvH4_5g09340
malus_domestica	MD06G1131900.v1.1 MD14G1148300.v1.1
prunus_persica	Prupe.5G142900_v2.0.a1 Prupe.5G142900_v2.0.a1
pyrus_communis	pycom06g12350 pycom14g12300
rosa_chinensis	RchiOBHm_Chr1g0325241 RchiOBHm_Chr1g0325261 RchiOBHm_Chr2g0162681 RchiOBHm_Chr7g0188811 RchiOBHm_Chr7g0229441
rosa_laevigata	RLG00000004657 RLG00000028121 RLG00000028122 RLG00000031426 RLG00000035825
rosa_multiflora	Rmu_sc0001621.1_g000013 Rmu_sc0001918.1_g000006 Rmu_sc0004279.1_g000018 Rmu_sc0034360.1_g000001 Rmu_sc0034361.1_g000001
rosa_roxburghii	Rroxscaffold_3G00266000 Rroxscaffold_5G00381140
rosa_rugosa	Rorug02G0360500 Rorug05G0369000 Rorug06G0494100 Rorug07G0156300
rosa_samantha	Rh1BG033100 Rh2CG348200 Rh2CG348300 Rh4AG001800 Rh4AG163800 Rh4BG001600 Rh4BG400000 Rh4BG400100 Rh4CG415000 Rh4CG415100 Rh6DG332400 Rh6DG332500 Rh7AG098900 Rh7AG408500 Rh7BG100600 Rh7CG102100 Rh7CG477400 Rh7DG100700 Rh7DG406300 Rh7DG406400 Rh7DG446700
rosa_wichuraiana	Rw0G022150 Rw7G008520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	662
AciI	CCGC	4 cut(s)	28, 640, 660, 662
AclI	AACGTT	1 cut(s)	779
AclWI	GGATC	2 cut(s)	79, 767
AcuI	CTGAAG	2 cut(s)	96, 102
AcyI	GRCGYC	1 cut(s)	757
AfaI	GTAC	5 cut(s)	207, 214, 223, 474, 648
AgsI	TTSAA	7 cut(s)	184, 392, 523, 575, 598, 683, 712
AhlI	ACTAGT	1 cut(s)	218
AluBI	AGCT	6 cut(s)	116, 122, 141, 150, 328, 611
AluI	AGCT	6 cut(s)	116, 122, 141, 150, 328, 611
AlwI	GGATC	2 cut(s)	79, 767
Ama87I	CYCGRG	1 cut(s)	481
AoxI	GGCC	1 cut(s)	282
ApeKI	GCWGC	4 cut(s)	4, 133, 147, 260
Asp700I	GAANNNNTTC	2 cut(s)	687, 707
AspS9I	GGNCC	1 cut(s)	544
AsuC2I	CCSGG	1 cut(s)	81
AsuHPI	GGTGA	1 cut(s)	497
AvaI	CYCGRG	1 cut(s)	481
AvaII	GGWCC	1 cut(s)	544
BaeGI	GKGCMC	1 cut(s)	337
BanII	GRGCYC	1 cut(s)	256
BbsI	GAAGAC	1 cut(s)	605
BbvI	GCAGC	4 cut(s)	16, 145, 159, 247
BceAI	ACGGC	2 cut(s)	61, 747
BcnI	CCSGG	1 cut(s)	81
BcuI	ACTAGT	1 cut(s)	218
BfaI	CTAG	3 cut(s)	219, 738, 790
BisI	GCNGC	5 cut(s)	5, 134, 148, 261, 660
BlsI	GCNGC	5 cut(s)	6, 135, 149, 262, 661
BmcAI	AGTACT	2 cut(s)	214, 223
Bme1390I	CCNGG	1 cut(s)	81
Bme18I	GGWCC	1 cut(s)	544
BmeT110I	CYCGRG	1 cut(s)	481
BmgT120I	GGNCC	1 cut(s)	544
BmrFI	CCNGG	1 cut(s)	81
BmsI	GCATC	1 cut(s)	536
BpiI	GAAGAC	1 cut(s)	605
BpmI	CTGGAG	1 cut(s)	212
BpuMI	CCSGG	1 cut(s)	81
BsaBI	GATNNNNATC	1 cut(s)	669
BsaHI	GRCGYC	1 cut(s)	757
BsaJI	CCNNGG	2 cut(s)	480, 660
BsaXI	ACNNNNNCTCC	2 cut(s)	540, 570
Bse3DI	GCAATG	1 cut(s)	511
Bse8I	GATNNNNATC	1 cut(s)	669
BseDI	CCNNGG	2 cut(s)	480, 660
BseGI	GGATG	2 cut(s)	61, 496
BseJI	GATNNNNATC	1 cut(s)	669
BseMI	GCAATG	1 cut(s)	511
BseMII	CTCAG	2 cut(s)	223, 444
BseRI	GAGGAG	3 cut(s)	99, 142, 145
BseSI	GKGCMC	1 cut(s)	337
BseXI	GCAGC	4 cut(s)	16, 145, 159, 247
Bsh1236I	CGCG	1 cut(s)	662
BshFI	GGCC	1 cut(s)	284
BsiHKCI	CYCGRG	1 cut(s)	481
BsiSI	CCGG	1 cut(s)	81
BsmI	GAATGC	2 cut(s)	707, 709
BsnI	GGCC	1 cut(s)	284
BsoBI	CYCGRG	1 cut(s)	481
Bsp1286I	GDGCHC	2 cut(s)	256, 337
Bsp143I	GATC	5 cut(s)	71, 565, 670, 746, 772
BspACI	CCGC	4 cut(s)	28, 640, 660, 662
BspANI	GGCC	1 cut(s)	284
BspCNI	CTCAG	2 cut(s)	222, 443
BspFNI	CGCG	1 cut(s)	662
BspPI	GGATC	2 cut(s)	79, 767
BsrDI	GCAATG	1 cut(s)	511
BssECI	CCNNGG	2 cut(s)	480, 660
BssMI	GATC	5 cut(s)	71, 565, 670, 746, 772
BssNI	GRCGYC	1 cut(s)	757
Bst4CI	ACNGT	3 cut(s)	59, 167, 472
Bst6I	CTCTTC	1 cut(s)	284
BstACI	GRCGYC	1 cut(s)	757
BstDEI	CTNAG	2 cut(s)	209, 430
BstDSI	CCRYGG	1 cut(s)	660
BstF5I	GGATG	2 cut(s)	61, 496
BstFNI	CGCG	1 cut(s)	662
BstKTI	GATC	5 cut(s)	74, 568, 673, 749, 775
BstMBI	GATC	5 cut(s)	71, 565, 670, 746, 772
BstMWI	GCNNNNNNNGC	3 cut(s)	147, 260, 617
BstSCI	CCNGG	1 cut(s)	79
BstSLI	GKGCMC	1 cut(s)	337
BstUI	CGCG	1 cut(s)	662
BstV1I	GCAGC	4 cut(s)	16, 145, 159, 247
BstV2I	GAAGAC	1 cut(s)	605
BstX2I	RGATCY	1 cut(s)	772
BstYI	RGATCY	1 cut(s)	772
BsuRI	GGCC	1 cut(s)	284
BtgI	CCRYGG	1 cut(s)	660
BtsCI	GGATG	2 cut(s)	61, 496
BtsI	GCAGTG	1 cut(s)	649
BtsIMutI	CAGTG	1 cut(s)	649
Cfr13I	GGNCC	1 cut(s)	544
Cfr42I	CCGCGG	1 cut(s)	663
CseI	GACGC	1 cut(s)	746
Csp6I	GTAC	5 cut(s)	206, 213, 222, 473, 647
CviQI	GTAC	5 cut(s)	206, 213, 222, 473, 647
DdeI	CTNAG	2 cut(s)	209, 430
DpnI	GATC	5 cut(s)	73, 567, 672, 748, 774
DpnII	GATC	5 cut(s)	71, 565, 670, 746, 772
Eam1104I	CTCTTC	1 cut(s)	284
EarI	CTCTTC	1 cut(s)	284
Eco24I	GRGCYC	1 cut(s)	256
Eco47I	GGWCC	1 cut(s)	544
Eco57I	CTGAAG	2 cut(s)	96, 102
Eco88I	CYCGRG	1 cut(s)	481
EcoT22I	ATGCAT	1 cut(s)	709
EcoT38I	GRGCYC	1 cut(s)	256
FaiI	YATR	2 cut(s)	69, 131
Fnu4HI	GCNGC	5 cut(s)	5, 134, 148, 261, 660
FokI	GGATG	2 cut(s)	48, 503
FriOI	GRGCYC	1 cut(s)	256
Fsp4HI	GCNGC	5 cut(s)	5, 134, 148, 261, 660
FspBI	CTAG	3 cut(s)	219, 738, 790
GluI	GCNGC	5 cut(s)	5, 134, 148, 261, 660
GsuI	CTGGAG	1 cut(s)	212
HaeIII	GGCC	1 cut(s)	284
HapII	CCGG	1 cut(s)	81
HgaI	GACGC	1 cut(s)	746
Hin1I	GRCGYC	1 cut(s)	757
HindIII	AAGCTT	1 cut(s)	326
HinfI	GANTC	2 cut(s)	636, 683
HpaII	CCGG	1 cut(s)	81
HphI	GGTGA	1 cut(s)	497
Hpy166II	GTNNAC	1 cut(s)	647
Hpy188I	TCNGA	5 cut(s)	424, 433, 454, 565, 629
Hpy188III	TCNNGA	2 cut(s)	191, 245
Hpy8I	GTNNAC	1 cut(s)	647
Hpy99I	CGWCG	1 cut(s)	762
HpyAV	CCTTC	3 cut(s)	288, 459, 703
HpyCH4III	ACNGT	3 cut(s)	59, 167, 472
HpyCH4IV	ACGT	1 cut(s)	779
HpyCH4V	TGCA	5 cut(s)	4, 133, 147, 700, 707
HpyF10VI	GCNNNNNNNGC	3 cut(s)	147, 260, 617
HpyF3I	CTNAG	2 cut(s)	209, 430
HpySE526I	ACGT	1 cut(s)	779
Hsp92I	GRCGYC	1 cut(s)	757
KspI	CCGCGG	1 cut(s)	663
Kzo9I	GATC	5 cut(s)	71, 565, 670, 746, 772
LmnI	GCTCC	1 cut(s)	155
LpnPI	CCDG	6 cut(s)	21, 94, 176, 186, 550, 564
Lsp1109I	GCAGC	4 cut(s)	16, 145, 159, 247
LweI	GCATC	1 cut(s)	536
MaeI	CTAG	3 cut(s)	219, 738, 790
MaeII	ACGT	1 cut(s)	779
MaeIII	GTNAC	1 cut(s)	780
MalI	GATC	5 cut(s)	73, 567, 672, 748, 774
MboI	GATC	5 cut(s)	71, 565, 670, 746, 772
MboII	GAAGA	5 cut(s)	102, 301, 332, 610, 645
MfeI	CAATTG	1 cut(s)	678
MflI	RGATCY	1 cut(s)	772
MhlI	GDGCHC	2 cut(s)	256, 337
MluCI	AATT	8 cut(s)	94, 172, 306, 349, 465, 513, 570, 678
Mph1103I	ATGCAT	1 cut(s)	709
MroXI	GAANNNNTTC	2 cut(s)	687, 707
MseI	TTAA	3 cut(s)	50, 309, 606
MslI	CAYNNNNRTG	1 cut(s)	66
MspA1I	CMGCKG	2 cut(s)	122, 662
MspI	CCGG	1 cut(s)	81
MspR9I	CCNGG	1 cut(s)	81
MunI	CAATTG	1 cut(s)	678
Mva1269I	GAATGC	2 cut(s)	707, 709
MvnI	CGCG	1 cut(s)	662
MwoI	GCNNNNNNNGC	3 cut(s)	147, 260, 617
NciI	CCSGG	1 cut(s)	81
NdeII	GATC	5 cut(s)	71, 565, 670, 746, 772
NmeAIII	GCCGAG	1 cut(s)	310
NsiI	ATGCAT	1 cut(s)	709
PctI	GAATGC	2 cut(s)	707, 709
PdmI	GAANNNNTTC	2 cut(s)	687, 707
PfeI	GAWTC	2 cut(s)	636, 683
PfoI	TCCNGGA	1 cut(s)	79
PkrI	GCNGC	5 cut(s)	6, 135, 149, 262, 661
Psp1406I	AACGTT	1 cut(s)	779
PspPI	GGNCC	1 cut(s)	544
PsuI	RGATCY	1 cut(s)	772
PvuII	CAGCTG	1 cut(s)	122
RsaI	GTAC	5 cut(s)	207, 214, 223, 474, 648
RsaNI	GTAC	5 cut(s)	206, 213, 222, 473, 647
RseI	CAYNNNNRTG	1 cut(s)	66
SacII	CCGCGG	1 cut(s)	663
SaqAI	TTAA	3 cut(s)	50, 309, 606
SatI	GCNGC	5 cut(s)	5, 134, 148, 261, 660
Sau3AI	GATC	5 cut(s)	71, 565, 670, 746, 772
Sau96I	GGNCC	1 cut(s)	544
ScaI	AGTACT	2 cut(s)	214, 223
ScrFI	CCNGG	1 cut(s)	81
SduI	GDGCHC	2 cut(s)	256, 337
SfaNI	GCATC	1 cut(s)	536
Sfr303I	CCGCGG	1 cut(s)	663
SgrBI	CCGCGG	1 cut(s)	663
SinI	GGWCC	1 cut(s)	544
SmiMI	CAYNNNNRTG	1 cut(s)	66
SpeI	ACTAGT	1 cut(s)	218
Sse9I	AATT	8 cut(s)	94, 172, 306, 349, 465, 513, 570, 678
SsiI	CCGC	4 cut(s)	28, 640, 660, 662
SspMI	CTAG	3 cut(s)	219, 738, 790
StyD4I	CCNGG	1 cut(s)	79
TaaI	ACNGT	3 cut(s)	59, 167, 472
TaiI	ACGT	1 cut(s)	782
TaqI	TCGA	4 cut(s)	321, 438, 500, 731
TaqII	GACCGA	1 cut(s)	561
TasI	AATT	8 cut(s)	94, 172, 306, 349, 465, 513, 570, 678
TatI	WGTACW	4 cut(s)	212, 221, 472, 646
TauI	GCSGC	1 cut(s)	662
TfiI	GAWTC	2 cut(s)	636, 683
Tru1I	TTAA	3 cut(s)	50, 309, 606
Tru9I	TTAA	3 cut(s)	50, 309, 606
TscAI	CASTG	1 cut(s)	649
TseI	GCWGC	4 cut(s)	4, 133, 147, 260
TspDTI	ATGAA	1 cut(s)	477
TspRI	CASTG	1 cut(s)	649
VpaK11BI	GGWCC	1 cut(s)	544
XmnI	GAANNNNTTC	2 cut(s)	687, 707
XspI	CTAG	3 cut(s)	219, 738, 790
ZrmI	AGTACT	2 cut(s)	214, 223
Zsp2I	ATGCAT	1 cut(s)	709

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