Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0003945

Physical Location & Seq

Genomic Coordinates Forward (+)

19416887 .. 19417255

Gene Structure 369 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG211300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGGCTGATGCGTATGAGCTGTTGAAGGAGATGAGGAGGAAGGGTTGTGAGCCCAATGCAGGTTCGTATACGACTATGATTCAGGCGCTTTGCGGGGAGGAAAAGATGGAGGAGGCAATGAGGGTGTTTGTGGAGATGGAGATCAGTGGTTGTGAGGTTGATATTGTGACTTATACTACTTTGATTAGTGGATTTTATAAGTGGGGGAAGATTGTGAGGAGTTATGAGATTTTGGAAAGTATGATAAGGAAAGGTTTTACGCCGAGTCAGATGACATACTTGCAGATTATGTTGGCTCATGAGAAGAAGGAAGACTTGGAGGAGTGTATAATTGATGGGGCAGATGAGGAAGATTGGTTGCATGCCTGA

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

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

122

Amino Acids

14.09

Weight (kDa)

4.58

Isoelectric Point (pI)

41.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 31	9.6e-10	PPR repeat family
PPR_long	PF17177	3 - 93	1.9e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	7 - 52	5.4e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	14 - 47	2.2e-10	PPR repeat
PPR_2	PF13041	22 - 67	8.8e-16	PPR repeat family
PPR	PF01535	22 - 51	2e-07	PPR repeat
PPR_3	PF13812	41 - 97	1.6e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	50 - 81	1.5e-06	PPR repeat
PPR_2	PF13041	54 - 94	2.1e-08	PPR repeat family
PPR	PF01535	56 - 86	9.2e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0003945)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g05081
malus_domestica	MD10G1101700.v1.1
pyrus_communis	pycom09g04910 pycom15g38900
rosa_chinensis	RchiOBHm_Chr2g0123831 RchiOBHm_Chr4g0385181 RchiOBHm_Chr5g0064611
rosa_laevigata	RLG00000008165 RLG00000018415 RLG00000019614
rosa_multiflora	Rmu_sc0000571.1_g000023 Rmu_sc0001609.1_g000009 Rmu_sc0002893.1_g000021 Rmu_sc0003314.1_g000036 Rmu_sc0004010.1_g000014 Rmu_sc0008955.1_g000004 Rmu_sc0026245.1_g000002 Rmu_sc0027612.1_g000001
rosa_roxburghii	Rroxscaffold_5G00379810 Rroxscaffold_7G00189080
rosa_rugosa	Rorug03G0223000 Rorug06G0045100
rosa_samantha	Rh1CG355700 Rh1DG373200 Rh2BG315600 Rh3BG307100 Rh3CG368600 Rh3DG369600 Rh6BG404300 Rh6DG233700 Rh6DG396800 Rh6DG396900 Rh7AG211300 Rh7CG234500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	198
Acc36I	ACCTGC	1 cut(s)	50
AccI	GTMKAC	1 cut(s)	68
AciI	CCGC	1 cut(s)	93
AfiI	CCNNNNNNNGG	1 cut(s)	59
AgsI	TTSAA	1 cut(s)	25
AjuI	GAANNNNNNNTTGG	2 cut(s)	299, 331
AluBI	AGCT	1 cut(s)	19
AluI	AGCT	1 cut(s)	19
AspLEI	GCGC	1 cut(s)	88
BanII	GRGCYC	1 cut(s)	54
BbsI	GAAGAC	1 cut(s)	318
BccI	CCATC	3 cut(s)	100, 130, 329
BfoI	RGCGCY	1 cut(s)	89
BfuAI	ACCTGC	1 cut(s)	50
BpiI	GAAGAC	1 cut(s)	318
BsaBI	GATNNNNATC	1 cut(s)	140
BsaXI	ACNNNNNCTCC	2 cut(s)	28, 58
Bsc4I	CCNNNNNNNGG	1 cut(s)	59
Bse3DI	GCAATG	1 cut(s)	123
Bse8I	GATNNNNATC	1 cut(s)	140
BseJI	GATNNNNATC	1 cut(s)	140
BseLI	CCNNNNNNNGG	1 cut(s)	59
BseMI	GCAATG	1 cut(s)	123
BseRI	GAGGAG	4 cut(s)	49, 125, 232, 335
BslI	CCNNNNNNNGG	1 cut(s)	59
Bsp1286I	GDGCHC	1 cut(s)	54
Bsp143I	GATC	1 cut(s)	141
BspACI	CCGC	1 cut(s)	93
BspHI	TCATGA	1 cut(s)	298
BspMI	ACCTGC	1 cut(s)	50
BsrDI	GCAATG	1 cut(s)	123
BssMI	GATC	1 cut(s)	141
BssNAI	GTATAC	1 cut(s)	69
Bst1107I	GTATAC	1 cut(s)	69
BstC8I	GCNNGC	1 cut(s)	363
BstH2I	RGCGCY	1 cut(s)	89
BstHHI	GCGC	1 cut(s)	88
BstKTI	GATC	1 cut(s)	144
BstMBI	GATC	1 cut(s)	141
BstNSI	RCATGY	1 cut(s)	365
BstV2I	GAAGAC	1 cut(s)	318
BstZ17I	GTATAC	1 cut(s)	69
BtsIMutI	CAGTG	1 cut(s)	151
BveI	ACCTGC	1 cut(s)	50
Cac8I	GCNNGC	1 cut(s)	363
CciI	TCATGA	1 cut(s)	298
CfoI	GCGC	1 cut(s)	88
CviAII	CATG	2 cut(s)	299, 362
CviJI	RGCY	4 cut(s)	5, 19, 52, 296
CviKI_1	RGCY	4 cut(s)	5, 19, 52, 296
DpnI	GATC	1 cut(s)	143
DpnII	GATC	1 cut(s)	141
Eco24I	GRGCYC	1 cut(s)	54
EcoT38I	GRGCYC	1 cut(s)	54
FaeI	CATG	2 cut(s)	302, 365
FalI	AAGNNNNNCTT	2 cut(s)	299, 331
FatI	CATG	2 cut(s)	298, 361
FauI	CCCGC	1 cut(s)	86
FblI	GTMKAC	1 cut(s)	68
FriOI	GRGCYC	1 cut(s)	54
GlaI	GCGC	1 cut(s)	87
HaeII	RGCGCY	1 cut(s)	89
HhaI	GCGC	1 cut(s)	88
Hin1II	CATG	2 cut(s)	302, 365
Hin6I	GCGC	1 cut(s)	86
HinP1I	GCGC	1 cut(s)	86
HinfI	GANTC	2 cut(s)	79, 265
Hpy166II	GTNNAC	1 cut(s)	69
Hpy188I	TCNGA	1 cut(s)	270
Hpy188III	TCNNGA	1 cut(s)	299
Hpy8I	GTNNAC	1 cut(s)	69
HpyAV	CCTTC	3 cut(s)	19, 34, 301
HpyCH4V	TGCA	3 cut(s)	59, 283, 361
Hsp92II	CATG	2 cut(s)	302, 365
HspAI	GCGC	1 cut(s)	86
Kzo9I	GATC	1 cut(s)	141
LpnPI	CCDG	2 cut(s)	45, 68
MaeIII	GTNAC	1 cut(s)	166
MalI	GATC	1 cut(s)	143
MboI	GATC	1 cut(s)	141
MboII	GAAGA	4 cut(s)	220, 316, 323, 362
MhlI	GDGCHC	1 cut(s)	54
MluCI	AATT	1 cut(s)	330
MlyI	GAGTC	1 cut(s)	274
NdeII	GATC	1 cut(s)	141
NlaIII	CATG	2 cut(s)	302, 365
NmeAIII	GCCGAG	1 cut(s)	288
NmuCI	GTSAC	1 cut(s)	166
NspI	RCATGY	1 cut(s)	365
PaeI	GCATGC	1 cut(s)	365
PagI	TCATGA	1 cut(s)	298
PfeI	GAWTC	1 cut(s)	79
PleI	GAGTC	1 cut(s)	273
PpsI	GAGTC	1 cut(s)	273
PsiI	TTATAA	1 cut(s)	198
Sau3AI	GATC	1 cut(s)	141
SchI	GAGTC	1 cut(s)	274
SduI	GDGCHC	1 cut(s)	54
SetI	ASST	4 cut(s)	21, 64, 159, 256
SgeI	CNNG	7 cut(s)	72, 95, 106, 276, 292, 311, 328
SphI	GCATGC	1 cut(s)	365
Sse9I	AATT	1 cut(s)	330
SsiI	CCGC	1 cut(s)	93
TasI	AATT	1 cut(s)	330
TfiI	GAWTC	1 cut(s)	79
TscAI	CASTG	1 cut(s)	151
TseFI	GTSAC	1 cut(s)	166
Tsp45I	GTSAC	1 cut(s)	166
TspRI	CASTG	1 cut(s)	151
XceI	RCATGY	1 cut(s)	365
XmiI	GTMKAC	1 cut(s)	68

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