Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0006745

Physical Location & Seq

Genomic Coordinates Forward (+)

55587080 .. 55587565

Gene Structure 486 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG369700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGATTAGGCTGCACATTCCGACAGAGGCTGGTCATTACGGTATCCTTATTGAGAACTTCTGCAAGGCTGGGGTGTATGATCGAGCAGTTCACTTGCTTGATAAGCTCATTGAGAAAGAAATTATTATGAGGCCCCAGAGTTCTATGGAATTGGAGGCTAGTGCTTACAACCCAATGATTGAGTATCCATGCAACCATGGGCAGACAGGTAAAGCTGAAGTCCTTTTCAGGCAGTTGATGAAAAAGGGAGTTCAGGATTCAGTTGCTTTCAATAATTTGATCCGTGGGCATGCTAAGGAAGGAAATTCTGATTCTGCTTTTGAGATTTTAAAGATTATGGGTAGAAGAGGGGTTCCTAGAGAAGCAGATTCCTACAAGCTGCTCATTAAGAGCTACATAAGTAAAGGTGAACCAGCTGATGCTAAAACAGCTTTGGACAGTATGATTGAAAATGGGCATGTTCCAGAATCATCACTATTCAGGTGA

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

161

Amino Acids

18.05

Weight (kDa)

7.02

Isoelectric Point (pI)

44.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	86 - 131	1.7e-08	PPR repeat family
PPR	PF01535	88 - 118	4.4e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0006745)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37230
fragaria_vesca	FvH4_5g34800
malus_domestica	MD08G1198800.v1.1 MD15G1385700.v1.1
prunus_persica	Prupe.1G532500_v2.0.a1
pyrus_communis	pycom08g17270 pycom15g34600
rosa_chinensis	RchiOBHm_Chr6g0274921
rosa_laevigata	RLG00000013509
rosa_multiflora	Rmu_co8266267.1_g000001 Rmu_sc0002311.1_g000019
rosa_roxburghii	Rroxscaffold_1G00028490 Rroxscaffold_7G00193820
rosa_rugosa	Rorug05G0270600 Rorug06G0086200
rosa_samantha	Rh5AG343600 Rh5BG354200 Rh5CG380200 Rh5DG369700 Rh6AG201000 Rh6BG204600 Rh6CG206000 Rh6DG196200
rosa_wichuraiana	Rw5G032350 Rw5G032460 Rw6G017490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	274
AcsI	RAATTY	1 cut(s)	304
AcuI	CTGAAG	1 cut(s)	237
AgsI	TTSAA	2 cut(s)	271, 449
AluBI	AGCT	6 cut(s)	106, 215, 379, 393, 416, 431
AluI	AGCT	6 cut(s)	106, 215, 379, 393, 416, 431
AlwI	GGATC	1 cut(s)	274
AlwNI	CAGNNNCTG	1 cut(s)	29
AoxI	GGCC	1 cut(s)	131
ApeKI	GCWGC	2 cut(s)	10, 379
ApoI	RAATTY	1 cut(s)	304
AspS9I	GGNCC	1 cut(s)	132
AsuHPI	GGTGA	1 cut(s)	419
BbvI	GCAGC	1 cut(s)	366
BciVI	GTATCC	2 cut(s)	53, 195
BfaI	CTAG	2 cut(s)	159, 357
BfuI	GTATCC	2 cut(s)	53, 195
BisI	GCNGC	2 cut(s)	11, 380
BlsI	GCNGC	2 cut(s)	12, 381
BmgT120I	GGNCC	1 cut(s)	132
BmiI	GGNNCC	2 cut(s)	134, 354
BmsI	GCATC	1 cut(s)	409
Bpu10I	CCTNAGC	1 cut(s)	294
BsaJI	CCNNGG	2 cut(s)	196, 283
BseDI	CCNNGG	2 cut(s)	196, 283
BseXI	GCAGC	1 cut(s)	366
BseYI	CCCAGC	1 cut(s)	68
BshFI	GGCC	1 cut(s)	133
BsnI	GGCC	1 cut(s)	133
Bsp143I	GATC	2 cut(s)	79, 279
Bsp19I	CCATGG	1 cut(s)	196
BspANI	GGCC	1 cut(s)	133
BspLI	GGNNCC	2 cut(s)	134, 354
BspPI	GGATC	1 cut(s)	274
BssECI	CCNNGG	2 cut(s)	196, 283
BssMI	GATC	2 cut(s)	79, 279
BssT1I	CCWWGG	1 cut(s)	196
Bst4CI	ACNGT	2 cut(s)	41, 440
Bst6I	CTCTTC	1 cut(s)	340
BstC8I	GCNNGC	1 cut(s)	291
BstDEI	CTNAG	1 cut(s)	294
BstDSI	CCRYGG	2 cut(s)	196, 283
BstKTI	GATC	2 cut(s)	82, 282
BstMBI	GATC	2 cut(s)	79, 279
BstMWI	GCNNNNNNNGC	2 cut(s)	103, 428
BstNSI	RCATGY	2 cut(s)	293, 461
BstV1I	GCAGC	1 cut(s)	366
BsuI	GTATCC	2 cut(s)	53, 195
BsuRI	GGCC	1 cut(s)	133
BtgI	CCRYGG	2 cut(s)	196, 283
Cac8I	GCNNGC	1 cut(s)	291
CaiI	CAGNNNCTG	1 cut(s)	29
Cfr13I	GGNCC	1 cut(s)	132
CviAII	CATG	4 cut(s)	189, 197, 290, 458
DdeI	CTNAG	1 cut(s)	294
DpnI	GATC	2 cut(s)	81, 281
DpnII	GATC	2 cut(s)	79, 279
DraI	TTTAAA	1 cut(s)	330
Eam1104I	CTCTTC	1 cut(s)	340
EarI	CTCTTC	1 cut(s)	340
Eco130I	CCWWGG	1 cut(s)	196
Eco57I	CTGAAG	1 cut(s)	237
EcoO109I	RGGNCCY	1 cut(s)	132
EcoT14I	CCWWGG	1 cut(s)	196
ErhI	CCWWGG	1 cut(s)	196
FaeI	CATG	4 cut(s)	192, 200, 293, 461
FatI	CATG	4 cut(s)	188, 196, 289, 457
Fnu4HI	GCNGC	2 cut(s)	11, 380
Fsp4HI	GCNGC	2 cut(s)	11, 380
FspBI	CTAG	2 cut(s)	159, 357
GluI	GCNGC	2 cut(s)	11, 380
GsaI	CCCAGC	1 cut(s)	72
HaeIII	GGCC	1 cut(s)	133
Hin1II	CATG	4 cut(s)	192, 200, 293, 461
HinfI	GANTC	4 cut(s)	257, 311, 368, 467
HphI	GGTGA	1 cut(s)	419
Hpy166II	GTNNAC	2 cut(s)	91, 410
Hpy188I	TCNGA	2 cut(s)	21, 310
Hpy188III	TCNNGA	2 cut(s)	254, 464
Hpy8I	GTNNAC	2 cut(s)	91, 410
HpyAV	CCTTC	1 cut(s)	293
HpyCH4III	ACNGT	2 cut(s)	41, 440
HpyCH4V	TGCA	3 cut(s)	13, 63, 192
HpyF10VI	GCNNNNNNNGC	2 cut(s)	103, 428
HpyF3I	CTNAG	1 cut(s)	294
Hsp92II	CATG	4 cut(s)	192, 200, 293, 461
Kzo9I	GATC	2 cut(s)	79, 279
LpnPI	CCDG	9 cut(s)	15, 54, 149, 192, 214, 239, 426, 466, 477
Lsp1109I	GCAGC	1 cut(s)	366
LweI	GCATC	1 cut(s)	409
MaeI	CTAG	2 cut(s)	159, 357
MalI	GATC	2 cut(s)	81, 281
MboI	GATC	2 cut(s)	79, 279
MboII	GAAGA	1 cut(s)	357
MluCI	AATT	4 cut(s)	120, 149, 274, 304
MmeI	TCCRAC	1 cut(s)	44
MnlI	CCTC	4 cut(s)	19, 123, 148, 341
MseI	TTAA	2 cut(s)	329, 387
MspA1I	CMGCKG	1 cut(s)	416
MwoI	GCNNNNNNNGC	2 cut(s)	103, 428
NcoI	CCATGG	1 cut(s)	196
NdeII	GATC	2 cut(s)	79, 279
NlaIII	CATG	4 cut(s)	192, 200, 293, 461
NlaIV	GGNNCC	2 cut(s)	134, 354
NspI	RCATGY	2 cut(s)	293, 461
PaeI	GCATGC	1 cut(s)	293
PfeI	GAWTC	4 cut(s)	257, 311, 368, 467
PkrI	GCNGC	2 cut(s)	12, 381
PspFI	CCCAGC	1 cut(s)	68
PspN4I	GGNNCC	2 cut(s)	134, 354
PspPI	GGNCC	1 cut(s)	132
PstNI	CAGNNNCTG	1 cut(s)	29
PvuII	CAGCTG	1 cut(s)	416
SaqAI	TTAA	2 cut(s)	329, 387
SatI	GCNGC	2 cut(s)	11, 380
Sau3AI	GATC	2 cut(s)	79, 279
Sau96I	GGNCC	1 cut(s)	132
SetI	ASST	9 cut(s)	108, 211, 217, 381, 395, 409, 418, 433, 485
SfaNI	GCATC	1 cut(s)	409
SphI	GCATGC	1 cut(s)	293
Sse9I	AATT	4 cut(s)	120, 149, 274, 304
SspMI	CTAG	2 cut(s)	159, 357
StyI	CCWWGG	1 cut(s)	196
TaaI	ACNGT	2 cut(s)	41, 440
TaqI	TCGA	1 cut(s)	82
TasI	AATT	4 cut(s)	120, 149, 274, 304
TfiI	GAWTC	4 cut(s)	257, 311, 368, 467
Tru1I	TTAA	2 cut(s)	329, 387
Tru9I	TTAA	2 cut(s)	329, 387
TseI	GCWGC	2 cut(s)	10, 379
TspDTI	ATGAA	1 cut(s)	254
TspGWI	ACGGA	1 cut(s)	272
XapI	RAATTY	1 cut(s)	304
XceI	RCATGY	2 cut(s)	293, 461
XspI	CTAG	2 cut(s)	159, 357

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