Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0018648

Physical Location & Seq

Genomic Coordinates Forward (+)

55586657 .. 55587025

Gene Structure 369 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG369600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGAAAAGTAGAGGAATTAATCCTGATGTTGTCACCTATAACACGATGATTAATGGGTACAATCGGTTTAAGCTGATGGATGAGGCCGAGCGGTTGTTTGTGGCTTTGAAGGGAAAGAATATACAGCCCAATGTTATAAGTTATACTACCATGATTAAAGGGTATGTTTCTGTTGGGAGAGTGGATGATGGATTCAGGCTGTTTCAAGAGATGAAGTCTTTTGGTATTAAGCCTAATGATGTCACATTTTCGACTTTGTTGCCAGGGCTTTGCGATGCGGAGAAAAAGGATGAAGCTCAGAATATATTGAATGAGATGGTTGAGAGGCATATTGCTCCCAAGGATAATTCAATCTTCGAGAAACTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009451 GO:0009507 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009628 GO:0009987 GO:0016020 GO:0016070 GO:0016787 GO:0016788 GO:0031976 GO:0031984 GO:0034357 GO:0034641 GO:0042651 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0055035 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_2 PPR_3

Protein Analysis

122

Amino Acids

13.91

Weight (kDa)

7.8

Isoelectric Point (pI)

16.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 20	1.7e-06	PPR repeat family
PPR_3	PF13812	1 - 56	4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	4 - 33	1.8e-10	PPR repeat
PPR_2	PF13041	8 - 56	3.9e-16	PPR repeat family
PPR	PF01535	11 - 41	2.8e-07	PPR repeat
PPR_long	PF17177	26 - 116	2e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	32 - 87	1.4e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	39 - 72	2.5e-10	PPR repeat
PPR_2	PF13041	43 - 92	5.4e-19	PPR repeat family
PPR	PF01535	46 - 76	3.5e-09	PPR repeat
PPR_3	PF13812	66 - 113	1.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	75 - 107	6.6e-09	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: OG0018648)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000001159
rosa_multiflora	Rmu_sc0000694.1_g000012 Rmu_sc0032479.1_g000003
rosa_roxburghii	Rroxscaffold_3G00226020
rosa_samantha	Rh5BG354100 Rh5DG369600 Rh7AG445400 Rh7BG417700 Rh7DG434200
rosa_wichuraiana	Rw7G037020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	137
AccBSI	CCGCTC	1 cut(s)	91
AciI	CCGC	2 cut(s)	91, 278
AfaI	GTAC	1 cut(s)	59
AgsI	TTSAA	4 cut(s)	109, 206, 310, 351
AjnI	CCWGG	1 cut(s)	262
AluBI	AGCT	2 cut(s)	73, 296
AluI	AGCT	2 cut(s)	73, 296
AoxI	GGCC	1 cut(s)	84
AseI	ATTAAT	2 cut(s)	18, 51
AsuHPI	GGTGA	1 cut(s)	25
BccI	CCATC	3 cut(s)	70, 182, 310
BcgI	CGANNNNNNTGC	2 cut(s)	241, 275
BciT130I	CCWGG	1 cut(s)	264
Bme1390I	CCNGG	1 cut(s)	264
BmrFI	CCNGG	1 cut(s)	264
BmsI	GCATC	1 cut(s)	265
BsaJI	CCNNGG	2 cut(s)	263, 339
BseBI	CCWGG	1 cut(s)	264
BseDI	CCNNGG	2 cut(s)	263, 339
BseGI	GGATG	3 cut(s)	85, 190, 295
BseMII	CTCAG	1 cut(s)	311
BshFI	GGCC	1 cut(s)	86
BsnI	GGCC	1 cut(s)	86
BspACI	CCGC	2 cut(s)	91, 278
BspANI	GGCC	1 cut(s)	86
BspCNI	CTCAG	1 cut(s)	310
BsrBI	CCGCTC	1 cut(s)	91
BssECI	CCNNGG	2 cut(s)	263, 339
BssT1I	CCWWGG	1 cut(s)	339
Bst2UI	CCWGG	1 cut(s)	264
Bst4CI	ACNGT	1 cut(s)	366
BstDEI	CTNAG	1 cut(s)	297
BstF5I	GGATG	3 cut(s)	85, 190, 295
BstNI	CCWGG	1 cut(s)	264
BstSCI	CCNGG	1 cut(s)	262
BsuRI	GGCC	1 cut(s)	86
BtgZI	GCGATG	1 cut(s)	288
BtsCI	GGATG	3 cut(s)	85, 190, 295
Csp6I	GTAC	1 cut(s)	58
CviAII	CATG	1 cut(s)	151
CviJI	RGCY	8 cut(s)	73, 86, 104, 127, 199, 232, 268, 296
CviKI_1	RGCY	8 cut(s)	73, 86, 104, 127, 199, 232, 268, 296
CviQI	GTAC	1 cut(s)	58
DdeI	CTNAG	1 cut(s)	297
Eco130I	CCWWGG	1 cut(s)	339
EcoRII	CCWGG	1 cut(s)	262
EcoT14I	CCWWGG	1 cut(s)	339
ErhI	CCWWGG	1 cut(s)	339
FaeI	CATG	1 cut(s)	154
FaiI	YATR	8 cut(s)	39, 122, 137, 144, 152, 165, 305, 330
FatI	CATG	1 cut(s)	150
FokI	GGATG	3 cut(s)	92, 197, 302
HaeIII	GGCC	1 cut(s)	86
Hin1II	CATG	1 cut(s)	154
HinfI	GANTC	1 cut(s)	192
HphI	GGTGA	1 cut(s)	25
Hpy188I	TCNGA	1 cut(s)	300
Hpy188III	TCNNGA	3 cut(s)	23, 206, 358
HpyAV	CCTTC	1 cut(s)	103
HpyCH4III	ACNGT	1 cut(s)	366
HpyF3I	CTNAG	1 cut(s)	297
Hsp92II	CATG	1 cut(s)	154
LmnI	GCTCC	1 cut(s)	340
LpnPI	CCDG	4 cut(s)	36, 181, 249, 276
LweI	GCATC	1 cut(s)	265
MaeIII	GTNAC	2 cut(s)	31, 241
MbiI	CCGCTC	1 cut(s)	91
MboII	GAAGA	1 cut(s)	346
MluCI	AATT	2 cut(s)	15, 346
MnlI	CCTC	3 cut(s)	5, 76, 318
MseI	TTAA	5 cut(s)	18, 51, 69, 156, 228
MspR9I	CCNGG	1 cut(s)	264
MvaI	CCWGG	1 cut(s)	264
NlaIII	CATG	1 cut(s)	154
NmeAIII	GCCGAG	1 cut(s)	112
NmuCI	GTSAC	2 cut(s)	31, 241
PfeI	GAWTC	1 cut(s)	192
PshBI	ATTAAT	2 cut(s)	18, 51
PsiI	TTATAA	1 cut(s)	137
Psp6I	CCWGG	1 cut(s)	262
PspGI	CCWGG	1 cut(s)	262
RsaI	GTAC	1 cut(s)	59
RsaNI	GTAC	1 cut(s)	58
SaqAI	TTAA	5 cut(s)	18, 51, 69, 156, 228
ScrFI	CCNGG	1 cut(s)	264
SetI	ASST	3 cut(s)	38, 75, 298
SfaNI	GCATC	1 cut(s)	265
SgeI	CNNG	9 cut(s)	35, 55, 100, 163, 208, 218, 275, 276, 352
Sse9I	AATT	2 cut(s)	15, 346
SsiI	CCGC	2 cut(s)	91, 278
StyD4I	CCNGG	1 cut(s)	262
StyI	CCWWGG	1 cut(s)	339
TaaI	ACNGT	1 cut(s)	366
TaqI	TCGA	2 cut(s)	251, 357
TasI	AATT	2 cut(s)	15, 346
TfiI	GAWTC	1 cut(s)	192
Tru1I	TTAA	5 cut(s)	18, 51, 69, 156, 228
Tru9I	TTAA	5 cut(s)	18, 51, 69, 156, 228
TseFI	GTSAC	2 cut(s)	31, 241
Tsp45I	GTSAC	2 cut(s)	31, 241
TspDTI	ATGAA	3 cut(s)	17, 227, 306
VspI	ATTAAT	2 cut(s)	18, 51

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