Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Reverse (-)

42739800 .. 42748581

Gene Structure 8782 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG333800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 702 bp

ATGCCTCGGCAGCGGCATTGCTCCGATCTGAGACGTTTTCGACTCGCTGGCTCGTGCCCTATTGCGCAAAGCAGTGTCGTTTTGGACTTGCTGGTAAGTTCTTGCTGTGAATTGAAAAGTGCCGATGAGGCTTTTGAGTGCTTTAACTTGATGACGAGTGGAAATGTTATGCCTAAGACTGAGACTTGTAATGAATTGTTGAGTTTGTTTTCGAAATTGAATCGAACCGAGAGGGCTTGGGTTTTGTATGCTGACATGTTTGGGTTGAAGATCAAGTCCAGTGTTTGTACTTTTAACATCACGATTAATGTGTTGTGCAAAGAAGGAAAGTTGAACAAGGCAAAGGAGTTTCTTGGAGTTGGAGGGGCTCAGATGATTTTTGGTGCTATGAAAGGGAGAGGAGTTCAGCCGGATTCTTACACGTTTGGATTGCTTATTAGTGGGATGTGTAAGGAGAGAAGGCTTGATGAAGCGTCTGGTCTTTTTGATAAAATGCTGGAAATTGGGCTGCTTCCGAGTGCTGTTACTTATAACACCCTGATTGATGGTTATTGCAATAAGGGTGACCTGGACAGGGCTTTCGGTTATAGAGATGAGATGGAGAAGAAGGGTCAAGCTGAATTATTACTTCCAACCGGTTCCAATGCTCTTCATGACAGAACTGGGTTGAGAAGAGATTTGTGTCTCACTCAAGCCCTCTAA

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:0005737 GO:0005739 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:0044444 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

233

Amino Acids

25.82

Weight (kDa)

8.26

Isoelectric Point (pI)

39.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	58 - 107	6.9e-09	PPR repeat family
PPR_long	PF17177	74 - 203	5e-09	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	92 - 118	5.8e-06	PPR repeat
PPR_2	PF13041	123 - 151	1.9e-06	PPR repeat family
PPR_3	PF13812	126 - 185	3.9e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	133 - 165	2.3e-11	PPR repeat
PPR	PF01535	140 - 170	9.2e-07	PPR repeat
PPR_2	PF13041	145 - 186	8.1e-13	PPR repeat family
PPR_1	PF12854	169 - 201	5.4e-13	PPR repeat
PPR_2	PF13041	172 - 204	4e-10	PPR repeat family
PPR	PF01535	175 - 204	1.8e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0000571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15630
fragaria_vesca	FvH4_2g07360
malus_domestica	MD02G1234600.v1.1
prunus_persica	Prupe.8G019300_v2.0.a1
pyrus_communis	pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis	RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata	RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora	Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa	Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha	Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana	Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	531
Acc16I	TGCGCA	1 cut(s)	66
AciI	CCGC	1 cut(s)	13
AfaI	GTAC	1 cut(s)	289
AfiI	CCNNNNNNNGG	1 cut(s)	574
AflIII	ACRYGT	2 cut(s)	255, 420
AgeI	ACCGGT	1 cut(s)	635
AgsI	TTSAA	4 cut(s)	115, 220, 268, 334
AjnI	CCWGG	1 cut(s)	567
AluBI	AGCT	1 cut(s)	617
AluI	AGCT	1 cut(s)	617
Alw26I	GTCTC	3 cut(s)	25, 176, 689
ApeKI	GCWGC	2 cut(s)	10, 508
ArsI	GACNNNNNNTTYG	2 cut(s)	563, 595
AseI	ATTAAT	1 cut(s)	306
AsiGI	ACCGGT	1 cut(s)	635
AspLEI	GCGC	1 cut(s)	67
AsuHPI	GGTGA	1 cut(s)	575
AsuII	TTCGAA	1 cut(s)	212
BaeGI	GKGCMC	1 cut(s)	59
BanII	GRGCYC	1 cut(s)	370
BauI	CACGAG	1 cut(s)	52
BbvI	GCAGC	2 cut(s)	22, 495
BccI	CCATC	2 cut(s)	539, 592
BciT130I	CCWGG	1 cut(s)	569
BcoDI	GTCTC	3 cut(s)	25, 176, 689
BglI	GCCNNNNNGGC	1 cut(s)	128
BisI	GCNGC	3 cut(s)	11, 14, 509
BlsI	GCNGC	3 cut(s)	12, 15, 510
Bme1390I	CCNGG	1 cut(s)	569
BmiI	GGNNCC	1 cut(s)	640
BmrFI	CCNGG	1 cut(s)	569
BmrI	ACTGGG	1 cut(s)	672
BmuI	ACTGGG	1 cut(s)	672
Bpu14I	TTCGAA	1 cut(s)	212
BpuEI	CTTGAG	1 cut(s)	675
BsaJI	CCNNGG	1 cut(s)	5
BsaWI	WCCGGW	1 cut(s)	635
Bsc4I	CCNNNNNNNGG	1 cut(s)	574
Bse118I	RCCGGY	1 cut(s)	635
Bse1I	ACTGG	2 cut(s)	279, 667
Bse3DI	GCAATG	1 cut(s)	16
BseBI	CCWGG	1 cut(s)	569
BseDI	CCNNGG	1 cut(s)	5
BseGI	GGATG	1 cut(s)	450
BseLI	CCNNNNNNNGG	1 cut(s)	574
BseMI	GCAATG	1 cut(s)	16
BseMII	CTCAG	3 cut(s)	20, 171, 383
BseNI	ACTGG	2 cut(s)	279, 667
BseRI	GAGGAG	1 cut(s)	414
BseSI	GKGCMC	1 cut(s)	59
BseXI	GCAGC	2 cut(s)	22, 495
BshTI	ACCGGT	1 cut(s)	635
BsiSI	CCGG	2 cut(s)	410, 636
BslI	CCNNNNNNNGG	1 cut(s)	574
BsmAI	GTCTC	3 cut(s)	25, 176, 689
BsmBI	CGTCTC	1 cut(s)	25
Bsp119I	TTCGAA	1 cut(s)	212
Bsp1286I	GDGCHC	2 cut(s)	59, 370
Bsp143I	GATC	2 cut(s)	25, 270
BspACI	CCGC	1 cut(s)	13
BspCNI	CTCAG	3 cut(s)	21, 172, 382
BspHI	TCATGA	1 cut(s)	652
BspLI	GGNNCC	1 cut(s)	640
BspQI	GCTCTTC	1 cut(s)	654
BspT104I	TTCGAA	1 cut(s)	212
BsrDI	GCAATG	1 cut(s)	16
BsrFI	RCCGGY	1 cut(s)	635
BsrI	ACTGG	2 cut(s)	279, 667
BssAI	RCCGGY	1 cut(s)	635
BssECI	CCNNGG	1 cut(s)	5
BssMI	GATC	2 cut(s)	25, 270
BssSI	CACGAG	1 cut(s)	52
Bst2BI	CACGAG	1 cut(s)	52
Bst2UI	CCWGG	1 cut(s)	569
Bst6I	CTCTTC	2 cut(s)	654, 667
BstBI	TTCGAA	1 cut(s)	212
BstC8I	GCNNGC	1 cut(s)	49
BstDEI	CTNAG	4 cut(s)	29, 174, 180, 369
BstEII	GGTNACC	1 cut(s)	563
BstF5I	GGATG	1 cut(s)	450
BstHHI	GCGC	1 cut(s)	67
BstKTI	GATC	2 cut(s)	28, 273
BstMAI	GTCTC	3 cut(s)	25, 176, 689
BstMBI	GATC	2 cut(s)	25, 270
BstMWI	GCNNNNNNNGC	2 cut(s)	10, 128
BstNI	CCWGG	1 cut(s)	569
BstNSI	RCATGY	1 cut(s)	259
BstPI	GGTNACC	1 cut(s)	563
BstSCI	CCNGG	1 cut(s)	567
BstSLI	GKGCMC	1 cut(s)	59
BstV1I	GCAGC	2 cut(s)	22, 495
BtsCI	GGATG	1 cut(s)	450
BtsI	GCAGTG	1 cut(s)	79
BtsIMutI	CAGTG	2 cut(s)	79, 286
Cac8I	GCNNGC	1 cut(s)	49
CciI	TCATGA	1 cut(s)	652
CfoI	GCGC	1 cut(s)	67
Cfr10I	RCCGGY	1 cut(s)	635
CseI	GACGC	1 cut(s)	462
Csp6I	GTAC	1 cut(s)	288
CspAI	ACCGGT	1 cut(s)	635
CviAII	CATG	2 cut(s)	256, 653
CviQI	GTAC	1 cut(s)	288
DdeI	CTNAG	4 cut(s)	29, 174, 180, 369
DpnI	GATC	2 cut(s)	27, 272
DpnII	GATC	2 cut(s)	25, 270
Eam1104I	CTCTTC	2 cut(s)	654, 667
EarI	CTCTTC	2 cut(s)	654, 667
Eco24I	GRGCYC	1 cut(s)	370
Eco91I	GGTNACC	1 cut(s)	563
EcoO65I	GGTNACC	1 cut(s)	563
EcoRII	CCWGG	1 cut(s)	567
EcoT38I	GRGCYC	1 cut(s)	370
Esp3I	CGTCTC	1 cut(s)	25
FaeI	CATG	2 cut(s)	259, 656
FaiI	YATR	7 cut(s)	170, 249, 257, 389, 531, 588, 654
FatI	CATG	2 cut(s)	255, 652
Fnu4HI	GCNGC	3 cut(s)	11, 14, 509
FokI	GGATG	1 cut(s)	457
FriOI	GRGCYC	1 cut(s)	370
Fsp4HI	GCNGC	3 cut(s)	11, 14, 509
FspI	TGCGCA	1 cut(s)	66
GlaI	GCGC	1 cut(s)	66
GluI	GCNGC	3 cut(s)	11, 14, 509
HapII	CCGG	2 cut(s)	410, 636
HgaI	GACGC	1 cut(s)	462
HhaI	GCGC	1 cut(s)	67
Hin1II	CATG	2 cut(s)	259, 656
Hin6I	GCGC	1 cut(s)	65
HinP1I	GCGC	1 cut(s)	65
HinfI	GANTC	3 cut(s)	42, 220, 413
HpaII	CCGG	2 cut(s)	410, 636
HphI	GGTGA	1 cut(s)	575
Hpy188I	TCNGA	4 cut(s)	25, 30, 372, 516
Hpy188III	TCNNGA	2 cut(s)	301, 653
HpyAV	CCTTC	3 cut(s)	317, 453, 601
HpyCH4IV	ACGT	2 cut(s)	34, 422
HpyCH4V	TGCA	2 cut(s)	318, 555
HpyF10VI	GCNNNNNNNGC	2 cut(s)	10, 128
HpyF3I	CTNAG	4 cut(s)	29, 174, 180, 369
HpySE526I	ACGT	2 cut(s)	34, 422
Hsp92II	CATG	2 cut(s)	259, 656
HspAI	GCGC	1 cut(s)	65
Kzo9I	GATC	2 cut(s)	25, 270
LguI	GCTCTTC	1 cut(s)	654
LmnI	GCTCC	1 cut(s)	26
Lsp1109I	GCAGC	2 cut(s)	22, 495
MaeII	ACGT	2 cut(s)	34, 422
MaeIII	GTNAC	2 cut(s)	523, 563
MalI	GATC	2 cut(s)	27, 272
MboI	GATC	2 cut(s)	25, 270
MboII	GAAGA	4 cut(s)	280, 616, 641, 684
MhlI	GDGCHC	2 cut(s)	59, 370
MluCI	AATT	5 cut(s)	110, 194, 215, 501, 620
MlyI	GAGTC	1 cut(s)	36
MmeI	TCCRAC	2 cut(s)	340, 656
MnlI	CCTC	5 cut(s)	15, 121, 225, 356, 392
MseI	TTAA	3 cut(s)	144, 294, 306
MspA1I	CMGCKG	1 cut(s)	13
MspI	CCGG	2 cut(s)	410, 636
MspR9I	CCNGG	1 cut(s)	569
MvaI	CCWGG	1 cut(s)	569
MwoI	GCNNNNNNNGC	2 cut(s)	10, 128
NdeII	GATC	2 cut(s)	25, 270
NlaIII	CATG	2 cut(s)	259, 656
NlaIV	GGNNCC	1 cut(s)	640
NmuCI	GTSAC	1 cut(s)	563
NsbI	TGCGCA	1 cut(s)	66
NspI	RCATGY	1 cut(s)	259
NspV	TTCGAA	1 cut(s)	212
PagI	TCATGA	1 cut(s)	652
PciI	ACATGT	1 cut(s)	255
PciSI	GCTCTTC	1 cut(s)	654
PfeI	GAWTC	2 cut(s)	220, 413
PinAI	ACCGGT	1 cut(s)	635
PkrI	GCNGC	3 cut(s)	12, 15, 510
PleI	GAGTC	1 cut(s)	36
PpsI	GAGTC	1 cut(s)	36
PscI	ACATGT	1 cut(s)	255
PshBI	ATTAAT	1 cut(s)	306
PsiI	TTATAA	1 cut(s)	531
Psp6I	CCWGG	1 cut(s)	567
PspEI	GGTNACC	1 cut(s)	563
PspGI	CCWGG	1 cut(s)	567
PspN4I	GGNNCC	1 cut(s)	640
RsaI	GTAC	1 cut(s)	289
RsaNI	GTAC	1 cut(s)	288
SapI	GCTCTTC	1 cut(s)	654
SaqAI	TTAA	3 cut(s)	144, 294, 306
SatI	GCNGC	3 cut(s)	11, 14, 509
Sau3AI	GATC	2 cut(s)	25, 270
SchI	GAGTC	1 cut(s)	36
ScrFI	CCNGG	1 cut(s)	569
SduI	GDGCHC	2 cut(s)	59, 370
SetI	ASST	4 cut(s)	37, 425, 570, 619
SfuI	TTCGAA	1 cut(s)	212
SmlI	CTYRAG	1 cut(s)	690
SmoI	CTYRAG	1 cut(s)	690
Sse9I	AATT	5 cut(s)	110, 194, 215, 501, 620
SsiI	CCGC	1 cut(s)	13
StyD4I	CCNGG	1 cut(s)	567
TaiI	ACGT	2 cut(s)	37, 425
TaqI	TCGA	3 cut(s)	40, 212, 223
TasI	AATT	5 cut(s)	110, 194, 215, 501, 620
TatI	WGTACW	1 cut(s)	287
TauI	GCSGC	1 cut(s)	16
TfiI	GAWTC	2 cut(s)	220, 413
Tru1I	TTAA	3 cut(s)	144, 294, 306
Tru9I	TTAA	3 cut(s)	144, 294, 306
TscAI	CASTG	2 cut(s)	79, 286
TseFI	GTSAC	1 cut(s)	563
TseI	GCWGC	2 cut(s)	10, 508
Tsp45I	GTSAC	1 cut(s)	563
TspDTI	ATGAA	4 cut(s)	207, 404, 483, 641
TspRI	CASTG	2 cut(s)	79, 286
VspI	ATTAAT	1 cut(s)	306
XceI	RCATGY	1 cut(s)	259

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