Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0004358

Physical Location & Seq

Genomic Coordinates Forward (+)

65638210 .. 65639079

Gene Structure 870 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0476800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGGCTCCAGACGTTGTTACTTTCACCTCTTTGATTCATGGACTTTGCAATTTAGGCCAGTGGAAAGAAGCTAAAAGGTTGTTTGATGCAATGTTAAGTAAAGGTATCTTTCCAGATGTCTTCACCTTTAATGTATTAGTTGATACATTCTGTAAGGAAGGGATGGTCGCGGAAGCCAACAGTGTGGTTCAAATGATGATTCAAAGAGGTATTAAGCCTGATACGATTACATACAGTTCCCTTATGGATGGTTACTGTTTGCGGGGAGAAATGGACGAAGCGAACAAAGTCTTTGATCTGATGATTAGCAAAGGCTCCATGGTTGATGTTTATAGTTATAGCATATTGATAAATGGATATTGCAAGAGTAAACAGGTCGACAAGGCTAAAAAGATTTTCAAGGAAATGTGTCGTATGGAACTAGTTCCGGATACAGTTACTTATACCACTCTTATTGATGGTCTTTGCAAAACAGGGAGAATTAAAGAAGCAGAAAAGTTGTTCTCTGAGATGCAAGGTTGTGGCCAAGTTCCAGATGTTCAAACTTATACTGTTAATTTACTTGATGGACTGTGTAACAAGCAACAACTCTCTAGGGCAGTTGAGTTGCTTAAAGAGATGGAAGCCAACAAATTGGAACTTGATATTGTAGTTTACAGTGTTGTTATTGAAGGTGTTTGCAAAGCTGGAAAAATTGAATCTGCAAGAGATCTCTTCTATGGTTTGTCAACAAAAGGAGTTCAGCCTGATGTGAGAACATACAATATAATGATTCATGGACTTTGTCATCAGGGCTTATTAATTGAAGCAGAAAAGTTAGTGAAAGAAAGGGACCAGGTTCTTCAGATGGTTGCACCTATAATAGTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0002376 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006464 GO:0006513 GO:0006807 GO:0006950 GO:0006952 GO:0006955 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0009653 GO:0009791 GO:0009965 GO:0009987 GO:0010016 GO:0010154 GO:0010162 GO:0010228 GO:0010390 GO:0010431 GO:0016043 GO:0016567 GO:0016569 GO:0016570 GO:0016574 GO:0019538 GO:0021700 GO:0022414 GO:0022611 GO:0032446 GO:0032501 GO:0032502 GO:0032504 GO:0033523 GO:0036211 GO:0042802 GO:0042803 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0045087 GO:0046983 GO:0048316 GO:0048366 GO:0048367 GO:0048608 GO:0048609 GO:0048731 GO:0048827 GO:0048856 GO:0050896 GO:0051276 GO:0061458 GO:0070647 GO:0071695 GO:0071704 GO:0071840 GO:0099402 GO:1901564 GO:1905392

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

289

Amino Acids

32.36

Weight (kDa)

5.57

Isoelectric Point (pI)

20.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	2 - 31	1.1e-10	PPR repeat
PPR_2	PF13041	3 - 52	2.5e-18	PPR repeat family
PPR_3	PF13812	3 - 51	1.4e-08	Pentatricopeptide repeat domain
PPR	PF01535	6 - 36	1.3e-08	PPR repeat
MRP-S27	PF10037	8 - 69	4.1e-08	Mitochondrial 28S ribosomal protein S27
PPR_1	PF12854	34 - 66	4.4e-10	PPR repeat
PPR_2	PF13041	38 - 86	9.3e-16	PPR repeat family
TPR_24	PF23276	43 - 136	1.4e-07	Fungal tetratrico peptide repeats
PPR_3	PF13812	61 - 120	6.1e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	69 - 101	2.9e-12	PPR repeat
PPR	PF01535	76 - 105	2.3e-08	PPR repeat
PPR_2	PF13041	77 - 122	5e-14	PPR repeat family
PPR_long	PF17177	91 - 230	8.5e-09	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	104 - 136	7.5e-11	PPR repeat
PPR	PF01535	111 - 139	6.5e-09	PPR repeat
PPR_2	PF13041	116 - 157	1e-15	PPR repeat family
PPR_1	PF12854	140 - 172	1.8e-15	PPR repeat
PPR_2	PF13041	143 - 185	8.1e-16	PPR repeat family
PPR	PF01535	146 - 175	1.4e-10	PPR repeat
TPR_24	PF23276	146 - 239	4.7e-08	Fungal tetratrico peptide repeats
PPR_2	PF13041	187 - 228	3.8e-08	PPR repeat family
PPR_3	PF13812	203 - 258	1.7e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	215 - 263	9.8e-15	PPR repeat family
PPR_1	PF12854	245 - 276	4.6e-11	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0004358)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55250 AT1G55250 AT1G55250 AT1G55250 AT1G55250
fragaria_vesca	FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811 FvH4_3g44811
malus_domestica	MD08G1205100.v1.1 MD15G1388900.v1.1
prunus_persica	Prupe.1G537100_v2.0.a1
pyrus_communis	pycom08g17730 pycom15g34870
rosa_chinensis	RchiOBHm_Chr5g0081511
rosa_laevigata	RLG00000036943
rosa_multiflora	Rmu_sc0007702.1_g000003
rosa_roxburghii	Rroxscaffold_1G00002040
rosa_rugosa	Rorug05G0476800
rosa_samantha	Rh5AG528300 Rh5BG553000 Rh5CG575900 Rh5DG563100
rosa_wichuraiana	Rw5G049140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	378
AccII	CGCG	1 cut(s)	170
AccIII	TCCGGA	1 cut(s)	427
AciI	CCGC	2 cut(s)	170, 262
AcoI	YGGCCR	1 cut(s)	523
AcuI	CTGAAG	1 cut(s)	827
AgsI	TTSAA	7 cut(s)	191, 203, 400, 542, 671, 698, 806
AhlI	ACTAGT	1 cut(s)	421
AjnI	CCWGG	1 cut(s)	834
AluBI	AGCT	2 cut(s)	71, 686
AluI	AGCT	2 cut(s)	71, 686
Aor13HI	TCCGGA	1 cut(s)	427
AoxI	GGCC	2 cut(s)	55, 523
AseI	ATTAAT	1 cut(s)	800
Asp700I	GAANNNNTTC	1 cut(s)	423
AspS9I	GGNCC	1 cut(s)	832
AsuHPI	GGTGA	2 cut(s)	16, 115
AvaII	GGWCC	1 cut(s)	832
BalI	TGGCCA	1 cut(s)	525
BbsI	GAAGAC	1 cut(s)	112
BccI	CCATC	6 cut(s)	157, 242, 452, 560, 613, 841
BciT130I	CCWGG	1 cut(s)	836
BciVI	GTATCC	1 cut(s)	424
BcuI	ACTAGT	1 cut(s)	421
BfaI	CTAG	2 cut(s)	422, 594
BfuI	GTATCC	1 cut(s)	424
BglII	AGATCT	1 cut(s)	709
Bme1390I	CCNGG	1 cut(s)	836
Bme18I	GGWCC	1 cut(s)	832
BmgT120I	GGNCC	1 cut(s)	832
BmiI	GGNNCC	3 cut(s)	6, 316, 833
BmrFI	CCNGG	1 cut(s)	836
BmsI	GCATC	2 cut(s)	76, 501
BpiI	GAAGAC	1 cut(s)	112
BsaJI	CCNNGG	1 cut(s)	318
BsaWI	WCCGGW	1 cut(s)	427
Bse1I	ACTGG	1 cut(s)	58
Bse3DI	GCAATG	1 cut(s)	96
BseAI	TCCGGA	1 cut(s)	427
BseBI	CCWGG	1 cut(s)	836
BseDI	CCNNGG	1 cut(s)	318
BseGI	GGATG	2 cut(s)	168, 253
BseMI	GCAATG	1 cut(s)	96
BseMII	CTCAG	1 cut(s)	498
BseNI	ACTGG	1 cut(s)	58
Bsh1236I	CGCG	1 cut(s)	170
BshFI	GGCC	2 cut(s)	57, 525
BsiSI	CCGG	1 cut(s)	428
BslFI	GGGAC	1 cut(s)	845
BsmFI	GGGAC	1 cut(s)	845
BsnI	GGCC	2 cut(s)	57, 525
Bsp13I	TCCGGA	1 cut(s)	427
Bsp143I	GATC	2 cut(s)	295, 709
Bsp19I	CCATGG	1 cut(s)	318
BspACI	CCGC	2 cut(s)	170, 262
BspANI	GGCC	2 cut(s)	57, 525
BspCNI	CTCAG	1 cut(s)	499
BspEI	TCCGGA	1 cut(s)	427
BspFNI	CGCG	1 cut(s)	170
BspLI	GGNNCC	3 cut(s)	6, 316, 833
BsrDI	GCAATG	1 cut(s)	96
BsrI	ACTGG	1 cut(s)	58
BssECI	CCNNGG	1 cut(s)	318
BssMI	GATC	2 cut(s)	295, 709
BssT1I	CCWWGG	1 cut(s)	318
Bst2UI	CCWGG	1 cut(s)	836
Bst4CI	ACNGT	7 cut(s)	182, 236, 257, 436, 553, 573, 659
Bst6I	CTCTTC	1 cut(s)	719
BstDEI	CTNAG	1 cut(s)	507
BstDSI	CCRYGG	1 cut(s)	318
BstF5I	GGATG	2 cut(s)	168, 253
BstFNI	CGCG	1 cut(s)	170
BstKTI	GATC	2 cut(s)	298, 712
BstMBI	GATC	2 cut(s)	295, 709
BstMWI	GCNNNNNNNGC	1 cut(s)	54
BstNI	CCWGG	1 cut(s)	836
BstSCI	CCNGG	1 cut(s)	834
BstUI	CGCG	1 cut(s)	170
BstV2I	GAAGAC	1 cut(s)	112
BstX2I	RGATCY	1 cut(s)	709
BstXI	CCANNNNNNTGG	2 cut(s)	184, 634
BstYI	RGATCY	1 cut(s)	709
BsuI	GTATCC	1 cut(s)	424
BsuRI	GGCC	2 cut(s)	57, 525
BtgI	CCRYGG	1 cut(s)	318
BtsCI	GGATG	2 cut(s)	168, 253
BtsIMutI	CAGTG	3 cut(s)	65, 187, 664
Cfr13I	GGNCC	1 cut(s)	832
CsiI	ACCWGGT	1 cut(s)	834
CspCI	CAANNNNNGTGG	2 cut(s)	436, 471
CviAII	CATG	3 cut(s)	38, 319, 776
DdeI	CTNAG	1 cut(s)	507
DpnI	GATC	2 cut(s)	297, 711
DpnII	GATC	2 cut(s)	295, 709
EaeI	YGGCCR	1 cut(s)	523
Eam1104I	CTCTTC	1 cut(s)	719
EarI	CTCTTC	1 cut(s)	719
Eco130I	CCWWGG	1 cut(s)	318
Eco47I	GGWCC	1 cut(s)	832
Eco57I	CTGAAG	1 cut(s)	827
EcoRII	CCWGG	1 cut(s)	834
EcoT14I	CCWWGG	1 cut(s)	318
ErhI	CCWWGG	1 cut(s)	318
FaeI	CATG	3 cut(s)	41, 322, 779
FaqI	GGGAC	1 cut(s)	845
FatI	CATG	3 cut(s)	37, 318, 775
FauI	CCCGC	1 cut(s)	255
FblI	GTMKAC	1 cut(s)	378
FokI	GGATG	2 cut(s)	175, 260
FspBI	CTAG	2 cut(s)	422, 594
HaeIII	GGCC	2 cut(s)	57, 525
HapII	CCGG	1 cut(s)	428
Hin1II	CATG	3 cut(s)	41, 322, 779
HincII	GTYRAC	2 cut(s)	379, 729
HindII	GTYRAC	2 cut(s)	379, 729
HinfI	GANTC	4 cut(s)	34, 199, 698, 772
HpaII	CCGG	1 cut(s)	428
HphI	GGTGA	2 cut(s)	16, 115
Hpy166II	GTNNAC	4 cut(s)	371, 379, 655, 729
Hpy188I	TCNGA	3 cut(s)	300, 508, 846
Hpy188III	TCNNGA	4 cut(s)	8, 113, 428, 533
Hpy8I	GTNNAC	4 cut(s)	371, 379, 655, 729
HpyAV	CCTTC	2 cut(s)	152, 665
HpyCH4III	ACNGT	7 cut(s)	182, 236, 257, 436, 553, 573, 659
HpyCH4IV	ACGT	1 cut(s)	12
HpyCH4V	TGCA	8 cut(s)	48, 89, 363, 468, 514, 681, 704, 854
HpyF10VI	GCNNNNNNNGC	1 cut(s)	54
HpyF3I	CTNAG	1 cut(s)	507
HpySE526I	ACGT	1 cut(s)	12
Hsp92II	CATG	3 cut(s)	41, 322, 779
Kpn2I	TCCGGA	1 cut(s)	427
Kzo9I	GATC	2 cut(s)	295, 709
LmnI	GCTCC	2 cut(s)	10, 320
LweI	GCATC	2 cut(s)	76, 501
MabI	ACCWGGT	1 cut(s)	834
MaeI	CTAG	2 cut(s)	422, 594
MaeII	ACGT	1 cut(s)	12
MaeIII	GTNAC	4 cut(s)	16, 251, 436, 575
MalI	GATC	2 cut(s)	297, 711
MboI	GATC	2 cut(s)	295, 709
MboII	GAAGA	3 cut(s)	112, 706, 833
MflI	RGATCY	1 cut(s)	709
MlsI	TGGCCA	1 cut(s)	525
MluCI	AATT	6 cut(s)	49, 480, 556, 632, 693, 801
MluNI	TGGCCA	1 cut(s)	525
MnlI	CCTC	2 cut(s)	37, 200
Mox20I	TGGCCA	1 cut(s)	525
MroI	TCCGGA	1 cut(s)	427
MroXI	GAANNNNTTC	1 cut(s)	423
MscI	TGGCCA	1 cut(s)	525
MseI	TTAA	7 cut(s)	95, 129, 213, 483, 555, 612, 800
Msp20I	TGGCCA	1 cut(s)	525
MspI	CCGG	1 cut(s)	428
MspR9I	CCNGG	1 cut(s)	836
MvaI	CCWGG	1 cut(s)	836
MvnI	CGCG	1 cut(s)	170
MwoI	GCNNNNNNNGC	1 cut(s)	54
NcoI	CCATGG	1 cut(s)	318
NdeII	GATC	2 cut(s)	295, 709
NlaIII	CATG	3 cut(s)	41, 322, 779
NlaIV	GGNNCC	3 cut(s)	6, 316, 833
PdmI	GAANNNNTTC	1 cut(s)	423
PfeI	GAWTC	4 cut(s)	34, 199, 698, 772
PflFI	GACNNNGTC	1 cut(s)	783
PshBI	ATTAAT	1 cut(s)	800
Psp6I	CCWGG	1 cut(s)	834
PspGI	CCWGG	1 cut(s)	834
PspN4I	GGNNCC	3 cut(s)	6, 316, 833
PspPI	GGNCC	1 cut(s)	832
PsuI	RGATCY	1 cut(s)	709
PsyI	GACNNNGTC	1 cut(s)	783
SalI	GTCGAC	1 cut(s)	377
SaqAI	TTAA	7 cut(s)	95, 129, 213, 483, 555, 612, 800
Sau3AI	GATC	2 cut(s)	295, 709
Sau96I	GGNCC	1 cut(s)	832
ScrFI	CCNGG	1 cut(s)	836
SexAI	ACCWGGT	1 cut(s)	834
SfaNI	GCATC	2 cut(s)	76, 501
SinI	GGWCC	1 cut(s)	832
SpeI	ACTAGT	1 cut(s)	421
Sse9I	AATT	6 cut(s)	49, 480, 556, 632, 693, 801
SsiI	CCGC	2 cut(s)	170, 262
SspMI	CTAG	2 cut(s)	422, 594
StyD4I	CCNGG	1 cut(s)	834
StyI	CCWWGG	1 cut(s)	318
TaaI	ACNGT	7 cut(s)	182, 236, 257, 436, 553, 573, 659
TaiI	ACGT	1 cut(s)	15
TaqI	TCGA	1 cut(s)	378
TasI	AATT	6 cut(s)	49, 480, 556, 632, 693, 801
TfiI	GAWTC	4 cut(s)	34, 199, 698, 772
Tru1I	TTAA	7 cut(s)	95, 129, 213, 483, 555, 612, 800
Tru9I	TTAA	7 cut(s)	95, 129, 213, 483, 555, 612, 800
TscAI	CASTG	3 cut(s)	65, 187, 664
TspDTI	ATGAA	2 cut(s)	26, 764
TspRI	CASTG	3 cut(s)	65, 187, 664
Tth111I	GACNNNGTC	1 cut(s)	783
VpaK11BI	GGWCC	1 cut(s)	832
VspI	ATTAAT	1 cut(s)	800
XmiI	GTMKAC	1 cut(s)	378
XmnI	GAANNNNTTC	1 cut(s)	423
XspI	CTAG	2 cut(s)	422, 594

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