Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0008613

Physical Location & Seq

Genomic Coordinates Forward (+)

54099504 .. 54100345

Gene Structure 842 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG283900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGAGAGAAAATGGGTGTTTGCCCAACATTACGACATATAATGAGTTATTGGATGGTCTGTTCAAGGTGAACAGATTCGAAGAAGCATTTGGACTTGTCAGGGAGATAGATGAAAAAGGGACTGAAACTGAATTTGGTAACATACAACACCATTTTGAATGGTTTTTGTCGCGCCGTGATGACCAACGAGGCTATGCAGGTCTAGACCAGGCCGTGGTTTATCTTGATAAGATGATAAGGGAAGGTATCTACCCCAACATTGGCACATGGAATGTGTTGGTGCGGTGCTTCTTTAGCAGCTTAGGTCATTTGGGGCCAATCTACATACTGGATGATATTCTTCGTGAAGATGAAATGACAGATGCTAATCTTAACATAAGCGTCTGCCGTGGCATCCTGTTTACTTTCCTATGGCATGAGCAAGCCCGAGGACTAACAGCACGGTATAACACTGAACAGCATAAGGGTGCAAAGGCCGGTGCACCCGTGCACCAGGCTAGCTTGGAAGGTGCTCATACATTGAAATCCTGTTACCTGTGA

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 PPR_long

Protein Analysis

179

Amino Acids

20.51

Weight (kDa)

5.47

Isoelectric Point (pI)

39.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	4 - 35	6.1e-07	PPR repeat
PPR_2	PF13041	8 - 42	3.4e-06	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008613)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48810
fragaria_vesca	FvH4_4g20630
malus_domestica	MD13G1149200.v1.1
prunus_persica	Prupe.1G113200_v2.0.a1
pyrus_communis	pycom13g12840
rosa_chinensis	RchiOBHm_Chr4g0425991 RchiOBHm_Chr4g0426031
rosa_laevigata	RLG00000007323 RLG00000007325
rosa_multiflora	Rmu_ssc0000281.1_g000016 Rmu_ssc0000281.1_g000018 Rmu_ssc0000281.1_g000020
rosa_roxburghii	Rroxscaffold_5G00368000
rosa_rugosa	Rorug04G0207900 Rorug04G0208100
rosa_samantha	Rh4AG264900 Rh4BG270800 Rh4BG271100 Rh4CG283400 Rh4CG283700 Rh4CG283900 Rh4DG267400
rosa_wichuraiana	Rw4G022880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	188
AccB7I	CCANNNNNTGG	1 cut(s)	214
AccII	CGCG	1 cut(s)	172
AciI	CCGC	1 cut(s)	283
AcsI	RAATTY	1 cut(s)	131
AfiI	CCNNNNNNNGG	2 cut(s)	214, 260
AgsI	TTSAA	3 cut(s)	64, 158, 523
AjnI	CCWGG	2 cut(s)	207, 492
AjuI	GAANNNNNNNTTGG	4 cut(s)	72, 104, 117, 149
AloI	GAACNNNNNNTCC	2 cut(s)	44, 76
AluBI	AGCT	2 cut(s)	300, 501
AluI	AGCT	2 cut(s)	300, 501
Alw21I	GWGCWC	3 cut(s)	484, 492, 514
Alw44I	GTGCAC	2 cut(s)	480, 488
Ama87I	CYCGRG	1 cut(s)	426
AoxI	GGCC	3 cut(s)	210, 314, 474
ApaLI	GTGCAC	2 cut(s)	480, 488
ApeKI	GCWGC	1 cut(s)	297
ApoI	RAATTY	1 cut(s)	131
Asp700I	GAANNNNTTC	1 cut(s)	74
AspLEI	GCGC	1 cut(s)	174
AspS9I	GGNCC	1 cut(s)	314
AsuHPI	GGTGA	1 cut(s)	79
AsuII	TTCGAA	1 cut(s)	78
AsuNHI	GCTAGC	1 cut(s)	497
AvaI	CYCGRG	1 cut(s)	426
BaeGI	GKGCMC	2 cut(s)	484, 492
Bbv12I	GWGCWC	3 cut(s)	484, 492, 514
BbvI	GCAGC	1 cut(s)	309
BccI	CCATC	1 cut(s)	47
BceAI	ACGGC	3 cut(s)	159, 197, 372
BciT130I	CCWGG	2 cut(s)	209, 494
BfaI	CTAG	2 cut(s)	203, 498
BfuAI	ACCTGC	1 cut(s)	188
BisI	GCNGC	1 cut(s)	298
BlsI	GCNGC	1 cut(s)	299
Bme1390I	CCNGG	2 cut(s)	209, 494
BmeT110I	CYCGRG	1 cut(s)	426
BmgT120I	GGNCC	1 cut(s)	314
BmiI	GGNNCC	1 cut(s)	315
BmrFI	CCNGG	2 cut(s)	209, 494
BmsI	GCATC	2 cut(s)	352, 402
BmtI	GCTAGC	1 cut(s)	501
Bpu10I	CCTNAGC	1 cut(s)	301
Bpu14I	TTCGAA	1 cut(s)	78
BsaBI	GATNNNNATC	1 cut(s)	366
BsaJI	CCNNGG	3 cut(s)	213, 388, 427
Bsc4I	CCNNNNNNNGG	2 cut(s)	214, 260
Bse118I	RCCGGY	1 cut(s)	476
Bse1I	ACTGG	1 cut(s)	333
Bse8I	GATNNNNATC	1 cut(s)	366
BseBI	CCWGG	2 cut(s)	209, 494
BseDI	CCNNGG	3 cut(s)	213, 388, 427
BseGI	GGATG	3 cut(s)	58, 337, 393
BseJI	GATNNNNATC	1 cut(s)	366
BseLI	CCNNNNNNNGG	2 cut(s)	214, 260
BseNI	ACTGG	1 cut(s)	333
BseSI	GKGCMC	2 cut(s)	484, 492
BseXI	GCAGC	1 cut(s)	309
Bsh1236I	CGCG	1 cut(s)	172
BshFI	GGCC	3 cut(s)	212, 316, 476
BsiHKAI	GWGCWC	3 cut(s)	484, 492, 514
BsiHKCI	CYCGRG	1 cut(s)	426
BsiSI	CCGG	1 cut(s)	477
BslFI	GGGAC	1 cut(s)	133
BslI	CCNNNNNNNGG	2 cut(s)	214, 260
BsmFI	GGGAC	1 cut(s)	133
BsnI	GGCC	3 cut(s)	212, 316, 476
BsoBI	CYCGRG	1 cut(s)	426
Bsp119I	TTCGAA	1 cut(s)	78
Bsp1286I	GDGCHC	3 cut(s)	484, 492, 514
BspACI	CCGC	1 cut(s)	283
BspANI	GGCC	3 cut(s)	212, 316, 476
BspFNI	CGCG	1 cut(s)	172
BspLI	GGNNCC	1 cut(s)	315
BspMI	ACCTGC	1 cut(s)	188
BspOI	GCTAGC	1 cut(s)	501
BspT104I	TTCGAA	1 cut(s)	78
BsrFI	RCCGGY	1 cut(s)	476
BsrI	ACTGG	1 cut(s)	333
BssAI	RCCGGY	1 cut(s)	476
BssECI	CCNNGG	3 cut(s)	213, 388, 427
Bst2UI	CCWGG	2 cut(s)	209, 494
Bst4CI	ACNGT	1 cut(s)	444
BstBI	TTCGAA	1 cut(s)	78
BstC8I	GCNNGC	2 cut(s)	423, 499
BstDEI	CTNAG	1 cut(s)	301
BstDSI	CCRYGG	2 cut(s)	213, 388
BstF5I	GGATG	3 cut(s)	58, 337, 393
BstFNI	CGCG	1 cut(s)	172
BstHHI	GCGC	1 cut(s)	174
BstMWI	GCNNNNNNNGC	1 cut(s)	294
BstNI	CCWGG	2 cut(s)	209, 494
BstSCI	CCNGG	2 cut(s)	207, 492
BstSLI	GKGCMC	2 cut(s)	484, 492
BstUI	CGCG	1 cut(s)	172
BstV1I	GCAGC	1 cut(s)	309
BsuRI	GGCC	3 cut(s)	212, 316, 476
BtgI	CCRYGG	2 cut(s)	213, 388
BtsCI	GGATG	3 cut(s)	58, 337, 393
BtsIMutI	CAGTG	1 cut(s)	450
BveI	ACCTGC	1 cut(s)	188
Cac8I	GCNNGC	2 cut(s)	423, 499
CfoI	GCGC	1 cut(s)	174
Cfr10I	RCCGGY	1 cut(s)	476
Cfr13I	GGNCC	1 cut(s)	314
CseI	GACGC	1 cut(s)	370
CviAII	CATG	2 cut(s)	267, 416
CviJI	RGCY	8 cut(s)	192, 212, 300, 316, 425, 476, 497, 501
CviKI_1	RGCY	8 cut(s)	192, 212, 300, 316, 425, 476, 497, 501
DdeI	CTNAG	1 cut(s)	301
Eco88I	CYCGRG	1 cut(s)	426
EcoRII	CCWGG	2 cut(s)	207, 492
FaeI	CATG	2 cut(s)	270, 419
FaqI	GGGAC	1 cut(s)	133
FatI	CATG	2 cut(s)	266, 415
Fnu4HI	GCNGC	1 cut(s)	298
FokI	GGATG	3 cut(s)	65, 344, 380
Fsp4HI	GCNGC	1 cut(s)	298
FspBI	CTAG	2 cut(s)	203, 498
GlaI	GCGC	1 cut(s)	173
GluI	GCNGC	1 cut(s)	298
HaeIII	GGCC	3 cut(s)	212, 316, 476
HapII	CCGG	1 cut(s)	477
HgaI	GACGC	1 cut(s)	370
HhaI	GCGC	1 cut(s)	174
Hin1II	CATG	2 cut(s)	270, 419
Hin6I	GCGC	1 cut(s)	172
HinP1I	GCGC	1 cut(s)	172
HinfI	GANTC	1 cut(s)	75
HpaII	CCGG	1 cut(s)	477
HphI	GGTGA	1 cut(s)	79
Hpy166II	GTNNAC	4 cut(s)	70, 402, 482, 490
Hpy188III	TCNNGA	3 cut(s)	203, 224, 344
Hpy8I	GTNNAC	4 cut(s)	70, 402, 482, 490
HpyAV	CCTTC	2 cut(s)	236, 500
HpyCH4III	ACNGT	1 cut(s)	444
HpyCH4V	TGCA	4 cut(s)	197, 470, 482, 490
HpyF10VI	GCNNNNNNNGC	1 cut(s)	294
HpyF3I	CTNAG	1 cut(s)	301
Hsp92II	CATG	2 cut(s)	270, 419
HspAI	GCGC	1 cut(s)	172
LpnPI	CCDG	9 cut(s)	85, 183, 194, 221, 314, 410, 479, 490, 506
Lsp1109I	GCAGC	1 cut(s)	309
LweI	GCATC	2 cut(s)	352, 402
MaeI	CTAG	2 cut(s)	203, 498
MaeIII	GTNAC	2 cut(s)	137, 530
MboII	GAAGA	3 cut(s)	92, 332, 359
MhlI	GDGCHC	3 cut(s)	484, 492, 514
MluCI	AATT	1 cut(s)	131
MnlI	CCTC	2 cut(s)	182, 422
MroXI	GAANNNNTTC	1 cut(s)	74
MseI	TTAA	1 cut(s)	372
MslI	CAYNNNNRTG	1 cut(s)	465
MspI	CCGG	1 cut(s)	477
MspR9I	CCNGG	2 cut(s)	209, 494
MvaI	CCWGG	2 cut(s)	209, 494
MvnI	CGCG	1 cut(s)	172
MwoI	GCNNNNNNNGC	1 cut(s)	294
NheI	GCTAGC	1 cut(s)	497
NlaIII	CATG	2 cut(s)	270, 419
NlaIV	GGNNCC	1 cut(s)	315
NspV	TTCGAA	1 cut(s)	78
PdmI	GAANNNNTTC	1 cut(s)	74
PfeI	GAWTC	1 cut(s)	75
PflMI	CCANNNNNTGG	1 cut(s)	214
PkrI	GCNGC	1 cut(s)	299
Psp6I	CCWGG	2 cut(s)	207, 492
PspGI	CCWGG	2 cut(s)	207, 492
PspN4I	GGNNCC	1 cut(s)	315
PspPI	GGNCC	1 cut(s)	314
RseI	CAYNNNNRTG	1 cut(s)	465
SaqAI	TTAA	1 cut(s)	372
SatI	GCNGC	1 cut(s)	298
Sau96I	GGNCC	1 cut(s)	314
ScrFI	CCNGG	2 cut(s)	209, 494
SduI	GDGCHC	3 cut(s)	484, 492, 514
SetI	ASST	8 cut(s)	69, 202, 247, 302, 307, 503, 511, 537
SfaNI	GCATC	2 cut(s)	352, 402
SfuI	TTCGAA	1 cut(s)	78
SmiMI	CAYNNNNRTG	1 cut(s)	465
Sse9I	AATT	1 cut(s)	131
SsiI	CCGC	1 cut(s)	283
SspMI	CTAG	2 cut(s)	203, 498
StyD4I	CCNGG	2 cut(s)	207, 492
TaaI	ACNGT	1 cut(s)	444
TaqI	TCGA	1 cut(s)	78
TasI	AATT	1 cut(s)	131
TfiI	GAWTC	1 cut(s)	75
Tru1I	TTAA	1 cut(s)	372
Tru9I	TTAA	1 cut(s)	372
TscAI	CASTG	1 cut(s)	457
TseI	GCWGC	1 cut(s)	297
TspDTI	ATGAA	2 cut(s)	126, 366
TspRI	CASTG	1 cut(s)	457
Van91I	CCANNNNNTGG	1 cut(s)	214
VneI	GTGCAC	2 cut(s)	480, 488
XapI	RAATTY	1 cut(s)	131
XbaI	TCTAGA	1 cut(s)	202
XmnI	GAANNNNTTC	1 cut(s)	74
XspI	CTAG	2 cut(s)	203, 498

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