Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001126

Physical Location & Seq

Genomic Coordinates Reverse (-)

25487144 .. 25487740

Gene Structure 597 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG257000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 597 bp

ATGGTCCACACCCATCACCTCAAAACTGGGTTCTTCTCCGACGTCTACGCAGCCACCGCTCTCACGAATGCTTCCATGAAGCTCAACCTCTTGGACAATGCACTCAAAGTGTTCGATGAAATGCCTCACCGAAACTTGGCACCCGTAAACACTGTGATTTCCTGGTTGTTGCATAATGGACATCGCAGAGAGGCTTTAAAGGTGTGCAAGAGCGTTGGTTTTGGAGGGCTCAGGTTGAATTCGGTTATTATAGCTAGTGTGTTTTCGGCGTGTGACAATGCGAAGCAGGGGGTGGGAATGGATTGCGTGGCGGTGAAGCTCGGGGTTAAGAGTGATGTTTATGTTGCTACCTCAGCTGTGAGTATGTATTGGAGCTATGGGGAGTTGGCTATGGTTTCTGCTGCAAAGTTGTTTGAACATATGCCTGTCAAGAATGTGGTGAGCTATAATGATTTTATAACAAGGCTTTTACAGAATGGGGTTCCAAGGGTGGTGTTGGATGTGTTTAAGAAAATGAGAGCATGTAGAGGTGAAAATCCGAATTCAGTGACATTGGTTTCGGTTCTTTCTGCTTGTGCTAGTGTTTTGTATCTCTAA

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_2

Protein Analysis

198

Amino Acids

21.64

Weight (kDa)

9.26

Isoelectric Point (pI)

25.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	144 - 193	1.8e-06	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001126)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G02750
fragaria_vesca	FvH4_4g31750 FvH4_4g31750 FvH4_4g31750
malus_domestica	MD16G1077500.v1.1
prunus_persica	Prupe.1G269600_v2.0.a1
pyrus_communis	pycom16g06680
rosa_chinensis	RchiOBHm_Chr3g0480041 RchiOBHm_Chr4g0440351 RchiOBHm_Chr5g0020671 RchiOBHm_Chr5g0027821 RchiOBHm_Chr5g0045351 RchiOBHm_Chr5g0062441 RchiOBHm_Chr6g0278731
rosa_laevigata	RLG00000006189 RLG00000009789 RLG00000009916 RLG00000013392 RLG00000013526 RLG00000013972 RLG00000020257 RLG00000031746 RLG00000031753 RLG00000033045 RLG00000033161
rosa_multiflora	Rmu_co8052728.1_g000001 Rmu_sc0001159.1_g000033 Rmu_sc0001685.1_g000045 Rmu_sc0003684.1_g000002 Rmu_sc0004520.1_g000016 Rmu_sc0012764.1_g000009 Rmu_sc0017399.1_g000002
rosa_roxburghii	Rroxscaffold_5G00343960 Rroxscaffold_5G00381230
rosa_rugosa	Rorug02G0009200 Rorug04G0056800 Rorug04G0056900 Rorug04G0325800 Rorug04G0335700
rosa_samantha	Rh2BG469200 Rh3CG261100 Rh3DG257000 Rh4AG376800 Rh4BG090100 Rh4BG389800 Rh4CG404600 Rh4DG383500 Rh5AG303800 Rh5AG409600 Rh5BG076900 Rh5BG193800 Rh5BG193900 Rh5BG199300 Rh5CG163100 Rh5CG214100 Rh5DG322500 Rh7BG133700
rosa_wichuraiana	Rw4G032260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	458
AatII	GACGTC	1 cut(s)	45
AccB1I	GGYRCC	1 cut(s)	139
AccBSI	CCGCTC	1 cut(s)	59
AccI	GTMKAC	1 cut(s)	45
AciI	CCGC	2 cut(s)	57, 311
AcsI	RAATTY	2 cut(s)	238, 541
AcyI	GRCGYC	1 cut(s)	42
AfiI	CCNNNNNNNGG	1 cut(s)	136
AgsI	TTSAA	2 cut(s)	238, 416
AjnI	CCWGG	1 cut(s)	161
AluBI	AGCT	6 cut(s)	82, 254, 319, 356, 375, 444
AluI	AGCT	6 cut(s)	82, 254, 319, 356, 375, 444
Ama87I	CYCGRG	1 cut(s)	320
ApeKI	GCWGC	2 cut(s)	50, 401
ApoI	RAATTY	2 cut(s)	238, 541
ArsI	GACNNNNNNTTYG	2 cut(s)	541, 573
AspS9I	GGNCC	1 cut(s)	4
AsuHPI	GGTGA	5 cut(s)	8, 119, 325, 451, 542
AvaI	CYCGRG	1 cut(s)	320
AvaII	GGWCC	1 cut(s)	4
BanI	GGYRCC	1 cut(s)	139
BanII	GRGCYC	1 cut(s)	231
BbvCI	CCTCAGC	1 cut(s)	352
BbvI	GCAGC	2 cut(s)	62, 388
BccI	CCATC	1 cut(s)	21
BciT130I	CCWGG	1 cut(s)	163
BfaI	CTAG	2 cut(s)	255, 579
BisI	GCNGC	2 cut(s)	51, 402
BlsI	GCNGC	2 cut(s)	52, 403
Bme1390I	CCNGG	1 cut(s)	163
Bme18I	GGWCC	1 cut(s)	4
BmeT110I	CYCGRG	1 cut(s)	320
BmgT120I	GGNCC	1 cut(s)	4
BmiI	GGNNCC	2 cut(s)	141, 483
BmrFI	CCNGG	1 cut(s)	163
BmrI	ACTGGG	1 cut(s)	36
BmuI	ACTGGG	1 cut(s)	36
Bpu10I	CCTNAGC	2 cut(s)	230, 352
BsaHI	GRCGYC	1 cut(s)	42
BsaJI	CCNNGG	1 cut(s)	485
Bsc4I	CCNNNNNNNGG	1 cut(s)	136
Bse1I	ACTGG	1 cut(s)	31
BseBI	CCWGG	1 cut(s)	163
BseDI	CCNNGG	1 cut(s)	485
BseGI	GGATG	1 cut(s)	505
BseLI	CCNNNNNNNGG	1 cut(s)	136
BseMII	CTCAG	2 cut(s)	244, 366
BseNI	ACTGG	1 cut(s)	31
BseXI	GCAGC	2 cut(s)	62, 388
BshNI	GGYRCC	1 cut(s)	139
BsiHKCI	CYCGRG	1 cut(s)	320
BslI	CCNNNNNNNGG	1 cut(s)	136
BsmI	GAATGC	1 cut(s)	73
BsoBI	CYCGRG	1 cut(s)	320
Bsp1286I	GDGCHC	1 cut(s)	231
BspACI	CCGC	2 cut(s)	57, 311
BspCNI	CTCAG	2 cut(s)	243, 365
BspLI	GGNNCC	2 cut(s)	141, 483
BspT107I	GGYRCC	1 cut(s)	139
BsrBI	CCGCTC	1 cut(s)	59
BsrI	ACTGG	1 cut(s)	31
BssECI	CCNNGG	1 cut(s)	485
BssNI	GRCGYC	1 cut(s)	42
BssT1I	CCWWGG	1 cut(s)	485
Bst2UI	CCWGG	1 cut(s)	163
Bst4CI	ACNGT	1 cut(s)	154
BstACI	GRCGYC	1 cut(s)	42
BstDEI	CTNAG	2 cut(s)	230, 352
BstF5I	GGATG	1 cut(s)	505
BstMWI	GCNNNNNNNGC	2 cut(s)	56, 353
BstNI	CCWGG	1 cut(s)	163
BstNSI	RCATGY	1 cut(s)	525
BstSCI	CCNGG	1 cut(s)	161
BstV1I	GCAGC	2 cut(s)	62, 388
BtgZI	GCGATG	1 cut(s)	167
BtsCI	GGATG	1 cut(s)	505
BtsIMutI	CAGTG	2 cut(s)	150, 552
Cfr13I	GGNCC	1 cut(s)	4
CviAII	CATG	2 cut(s)	76, 522
DdeI	CTNAG	2 cut(s)	230, 352
DraI	TTTAAA	1 cut(s)	198
Eco130I	CCWWGG	1 cut(s)	485
Eco24I	GRGCYC	1 cut(s)	231
Eco47I	GGWCC	1 cut(s)	4
Eco88I	CYCGRG	1 cut(s)	320
EcoRI	GAATTC	2 cut(s)	238, 541
EcoRII	CCWGG	1 cut(s)	161
EcoT14I	CCWWGG	1 cut(s)	485
EcoT38I	GRGCYC	1 cut(s)	231
ErhI	CCWWGG	1 cut(s)	485
FaeI	CATG	2 cut(s)	79, 525
FatI	CATG	2 cut(s)	75, 521
FauNDI	CATATG	1 cut(s)	420
FblI	GTMKAC	1 cut(s)	45
Fnu4HI	GCNGC	2 cut(s)	51, 402
FokI	GGATG	1 cut(s)	512
FriOI	GRGCYC	1 cut(s)	231
Fsp4HI	GCNGC	2 cut(s)	51, 402
FspBI	CTAG	2 cut(s)	255, 579
GluI	GCNGC	2 cut(s)	51, 402
Hin1I	GRCGYC	1 cut(s)	42
Hin1II	CATG	2 cut(s)	79, 525
HphI	GGTGA	5 cut(s)	8, 119, 325, 451, 542
Hpy166II	GTNNAC	3 cut(s)	7, 46, 148
Hpy188I	TCNGA	2 cut(s)	40, 540
Hpy188III	TCNNGA	2 cut(s)	64, 430
Hpy8I	GTNNAC	3 cut(s)	7, 46, 148
Hpy99I	CGWCG	1 cut(s)	44
HpyCH4III	ACNGT	1 cut(s)	154
HpyCH4IV	ACGT	1 cut(s)	42
HpyCH4V	TGCA	4 cut(s)	101, 172, 207, 404
HpyF10VI	GCNNNNNNNGC	2 cut(s)	56, 353
HpyF3I	CTNAG	2 cut(s)	230, 352
HpySE526I	ACGT	1 cut(s)	42
Hsp92I	GRCGYC	1 cut(s)	42
Hsp92II	CATG	2 cut(s)	79, 525
LmnI	GCTCC	1 cut(s)	372
LpnPI	CCDG	6 cut(s)	12, 148, 175, 217, 272, 438
Lsp1109I	GCAGC	2 cut(s)	62, 388
MaeI	CTAG	2 cut(s)	255, 579
MaeII	ACGT	1 cut(s)	42
MaeIII	GTNAC	2 cut(s)	272, 547
MbiI	CCGCTC	1 cut(s)	59
MboII	GAAGA	1 cut(s)	25
MhlI	GDGCHC	1 cut(s)	231
MluCI	AATT	2 cut(s)	238, 541
MmeI	TCCRAC	2 cut(s)	63, 477
MnlI	CCTC	7 cut(s)	29, 98, 135, 184, 218, 361, 521
MseI	TTAA	3 cut(s)	197, 327, 507
MspA1I	CMGCKG	1 cut(s)	356
MspR9I	CCNGG	1 cut(s)	163
Mva1269I	GAATGC	1 cut(s)	73
MvaI	CCWGG	1 cut(s)	163
MwoI	GCNNNNNNNGC	2 cut(s)	56, 353
NdeI	CATATG	1 cut(s)	420
NlaIII	CATG	2 cut(s)	79, 525
NlaIV	GGNNCC	2 cut(s)	141, 483
NmuCI	GTSAC	2 cut(s)	272, 547
NspI	RCATGY	1 cut(s)	525
PctI	GAATGC	1 cut(s)	73
PkrI	GCNGC	2 cut(s)	52, 403
PsiI	TTATAA	1 cut(s)	458
Psp6I	CCWGG	1 cut(s)	161
PspGI	CCWGG	1 cut(s)	161
PspN4I	GGNNCC	2 cut(s)	141, 483
PspPI	GGNCC	1 cut(s)	4
PvuII	CAGCTG	1 cut(s)	356
SaqAI	TTAA	3 cut(s)	197, 327, 507
SatI	GCNGC	2 cut(s)	51, 402
Sau96I	GGNCC	1 cut(s)	4
ScrFI	CCNGG	1 cut(s)	163
SduI	GDGCHC	1 cut(s)	231
SinI	GGWCC	1 cut(s)	4
Sse9I	AATT	2 cut(s)	238, 541
SsiI	CCGC	2 cut(s)	57, 311
SspMI	CTAG	2 cut(s)	255, 579
StyD4I	CCNGG	1 cut(s)	161
StyI	CCWWGG	1 cut(s)	485
TaaI	ACNGT	1 cut(s)	154
TaiI	ACGT	1 cut(s)	45
TaqI	TCGA	1 cut(s)	114
TasI	AATT	2 cut(s)	238, 541
Tru1I	TTAA	3 cut(s)	197, 327, 507
Tru9I	TTAA	3 cut(s)	197, 327, 507
TscAI	CASTG	2 cut(s)	157, 552
TseFI	GTSAC	2 cut(s)	272, 547
TseI	GCWGC	2 cut(s)	50, 401
Tsp45I	GTSAC	2 cut(s)	272, 547
TspDTI	ATGAA	2 cut(s)	92, 132
TspRI	CASTG	2 cut(s)	157, 552
VpaK11BI	GGWCC	1 cut(s)	4
XapI	RAATTY	2 cut(s)	238, 541
XceI	RCATGY	1 cut(s)	525
XmiI	GTMKAC	1 cut(s)	45
XspI	CTAG	2 cut(s)	255, 579
ZraI	GACGTC	1 cut(s)	43

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