Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Forward (+)

36289944 .. 36295130

Gene Structure 5187 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG177900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGGTGCTTCCACTAAAGCATCTCAGTAAGCAATCTTTTTTTAGGGTCTCAACTCTTGGACCTCCTGGAGAACCGTATGTTAAAAGAAGGCTAAGAATGCTCACATGCCTAATGTTCGGATGTCTTGCTGGCATCAGTTGTAATTGTAATTATCAAAGTCTAAGGGAGAGGTTCGGGGTGGCGCCGAATGTGTTTAGTTGTAATATATTGATCAAAGCATTGTGCAAGAGAAATGATTTAGAGACTGCACACCAGGTGCTCGACGAAATGCCTGCGATGGGATTTGTGCCCAATGTAGTGACTTTTACTACCATCTTGGGTGGTTATGTGTCGCGGCGAGATATGGTTGGTGCCAAGAGGGTGTTTGGTGAGATTTTGGACAGAGGGTGGTTTCCTGATGTGACTACATATACTATATTGATGGATGGGTATGTGAAGCAGGGGAAGCTGGTTGAGGCTATTAAGGTCATGGATGAGATGGAGGATAATGGGATTGGCGCCAATGAGGTTACTTATGGGGTTATGATTGAAGCTTATTGTAAGGCAAAGAAGTCGGGCGAAGCGGCTAATTTGCTTGATGATATGGTGCAGAAGAGGTATATACCGAGCTCGGCGCTCTGTTGTAAGGTGATTGATGTGTTGTGTTGCGAAGGGAAGGTGGAGGATGCTTGTGTACTGTGGAAGAGGCTTTTGAAGAAGAATTGCACGCCGGATAATGCCGTATTGGGCACGCTCATATACTGGCTTTGTAAGAAGAGAGAAGTGTGGGAAGCCAGGAAATTGTTTGATCAGTTTGAGACAAGTGAGGCTCCGGATGTCATGACTTACAACGTGCTTATTTCTGGGATGTGTGAAGTGGGGGAGTTGTGTGAGGCAGGGAGGTTATGCGATGACATGGTGGAGAAAGGATGTTCTCCGAATTCTTTTACATATAATGTATTGATCAAAGATATTTTTCTTCGGGGAAGAAAGAAAAATTTGCCAAATCGGGGAAGAAAGAAGAATTTGCCAAATCGGGGAAATTGA

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

Protein Analysis

341

Amino Acids

38.39

Weight (kDa)

8.71

Isoelectric Point (pI)

38.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	57 - 111	2.2e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	59 - 90	1.6e-08	PPR repeat
PPR_2	PF13041	62 - 109	7e-15	PPR repeat family
PPR_2	PF13041	97 - 146	3e-13	PPR repeat family
PPR_3	PF13812	121 - 180	2.2e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	129 - 161	2.9e-09	PPR repeat
PPR_2	PF13041	132 - 181	1.2e-16	PPR repeat family
PPR	PF01535	136 - 165	1.5e-08	PPR repeat
PPR_1	PF12854	164 - 196	3.9e-06	PPR repeat
PPR_2	PF13041	168 - 204	1.9e-06	PPR repeat family
PPR	PF01535	170 - 198	9.3e-06	PPR repeat
PPR_2	PF13041	271 - 316	2.7e-16	PPR repeat family
PPR_1	PF12854	271 - 300	1.7e-07	PPR repeat
PPR_3	PF13812	271 - 316	1.5e-08	Pentatricopeptide repeat domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000530)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca	FvH4_7g08341 FvH4_7g08360
malus_domestica	MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica	Prupe.2G106500_v2.0.a1
pyrus_communis	pycom02g20040
rosa_chinensis	RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata	RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora	Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii	Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa	Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha	Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana	Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	3 cut(s)	181, 350, 497
AccII	CGCG	1 cut(s)	334
AccIII	TCCGGA	1 cut(s)	811
AciI	CCGC	2 cut(s)	334, 563
AcsI	RAATTY	3 cut(s)	919, 976, 1003
AcyI	GRCGYC	2 cut(s)	182, 498
AdeI	CACNNNGTG	1 cut(s)	256
AfaI	GTAC	1 cut(s)	675
AfiI	CCNNNNNNNGG	3 cut(s)	278, 989, 1016
AgsI	TTSAA	2 cut(s)	530, 694
AjnI	CCWGG	3 cut(s)	64, 252, 773
AluBI	AGCT	3 cut(s)	448, 533, 609
AluI	AGCT	3 cut(s)	448, 533, 609
Alw21I	GWGCWC	2 cut(s)	261, 611
Alw26I	GTCTC	3 cut(s)	52, 236, 791
Aor13HI	TCCGGA	1 cut(s)	811
ApoI	RAATTY	3 cut(s)	919, 976, 1003
AspLEI	GCGC	3 cut(s)	184, 500, 616
AspS9I	GGNCC	1 cut(s)	59
AsuHPI	GGTGA	2 cut(s)	380, 640
AvaII	GGWCC	1 cut(s)	59
BaeGI	GKGCMC	2 cut(s)	291, 731
BanI	GGYRCC	3 cut(s)	181, 350, 497
BanII	GRGCYC	1 cut(s)	611
Bbv12I	GWGCWC	2 cut(s)	261, 611
BccI	CCATC	5 cut(s)	271, 320, 415, 419, 472
BceAI	ACGGC	1 cut(s)	704
BcgI	CGANNNNNNTGC	4 cut(s)	254, 288, 534, 568
BciT130I	CCWGG	3 cut(s)	66, 254, 775
BclI	TGATCA	3 cut(s)	210, 787, 942
BcoDI	GTCTC	3 cut(s)	52, 236, 791
BfoI	RGCGCY	3 cut(s)	185, 501, 617
BisI	GCNGC	2 cut(s)	335, 564
BlsI	GCNGC	2 cut(s)	336, 565
Bme1390I	CCNGG	3 cut(s)	66, 254, 775
Bme18I	GGWCC	1 cut(s)	59
BmgT120I	GGNCC	1 cut(s)	59
BmiI	GGNNCC	4 cut(s)	183, 352, 499, 810
BmrFI	CCNGG	3 cut(s)	66, 254, 775
BmsI	GCATC	3 cut(s)	28, 141, 655
BpmI	CTGGAG	1 cut(s)	87
BsaHI	GRCGYC	2 cut(s)	182, 498
BsaI	GGTCTC	1 cut(s)	52
BsaWI	WCCGGW	1 cut(s)	811
Bsc4I	CCNNNNNNNGG	3 cut(s)	278, 989, 1016
Bse1I	ACTGG	1 cut(s)	746
BseAI	TCCGGA	1 cut(s)	811
BseBI	CCWGG	3 cut(s)	66, 254, 775
BseGI	GGATG	7 cut(s)	125, 430, 478, 670, 820, 852, 914
BseLI	CCNNNNNNNGG	3 cut(s)	278, 989, 1016
BseMII	CTCAG	1 cut(s)	37
BseNI	ACTGG	1 cut(s)	746
BseSI	GKGCMC	2 cut(s)	291, 731
BsgI	GTGCAG	2 cut(s)	231, 608
Bsh1236I	CGCG	1 cut(s)	334
BshNI	GGYRCC	3 cut(s)	181, 350, 497
BsiHKAI	GWGCWC	2 cut(s)	261, 611
BsiSI	CCGG	2 cut(s)	710, 812
BslI	CCNNNNNNNGG	3 cut(s)	278, 989, 1016
BsmAI	GTCTC	3 cut(s)	52, 236, 791
BsmI	GAATGC	1 cut(s)	102
Bso31I	GGTCTC	1 cut(s)	52
Bsp1286I	GDGCHC	4 cut(s)	261, 291, 611, 731
Bsp13I	TCCGGA	1 cut(s)	811
Bsp143I	GATC	3 cut(s)	210, 787, 942
BspACI	CCGC	2 cut(s)	334, 563
BspCNI	CTCAG	1 cut(s)	36
BspEI	TCCGGA	1 cut(s)	811
BspFNI	CGCG	1 cut(s)	334
BspHI	TCATGA	1 cut(s)	819
BspLI	GGNNCC	4 cut(s)	183, 352, 499, 810
BspT107I	GGYRCC	3 cut(s)	181, 350, 497
BspTNI	GGTCTC	1 cut(s)	52
BsrI	ACTGG	1 cut(s)	746
BssMI	GATC	3 cut(s)	210, 787, 942
BssNI	GRCGYC	2 cut(s)	182, 498
Bst2UI	CCWGG	3 cut(s)	66, 254, 775
Bst4CI	ACNGT	2 cut(s)	75, 678
Bst6I	CTCTTC	3 cut(s)	587, 677, 749
BstACI	GRCGYC	2 cut(s)	182, 498
BstC8I	GCNNGC	4 cut(s)	130, 273, 707, 731
BstDEI	CTNAG	3 cut(s)	23, 92, 161
BstF5I	GGATG	7 cut(s)	125, 430, 478, 670, 820, 852, 914
BstFNI	CGCG	1 cut(s)	334
BstH2I	RGCGCY	3 cut(s)	185, 501, 617
BstHHI	GCGC	3 cut(s)	184, 500, 616
BstKTI	GATC	3 cut(s)	213, 790, 945
BstMAI	GTCTC	3 cut(s)	52, 236, 791
BstMBI	GATC	3 cut(s)	210, 787, 942
BstMWI	GCNNNNNNNGC	2 cut(s)	97, 445
BstNI	CCWGG	3 cut(s)	66, 254, 775
BstNSI	RCATGY	1 cut(s)	108
BstSCI	CCNGG	3 cut(s)	64, 252, 773
BstSLI	GKGCMC	2 cut(s)	291, 731
BstUI	CGCG	1 cut(s)	334
BtgZI	GCGATG	2 cut(s)	290, 903
BtsCI	GGATG	7 cut(s)	125, 430, 478, 670, 820, 852, 914
Cac8I	GCNNGC	4 cut(s)	130, 273, 707, 731
CciI	TCATGA	1 cut(s)	819
CfoI	GCGC	3 cut(s)	184, 500, 616
Cfr13I	GGNCC	1 cut(s)	59
CsiI	ACCWGGT	1 cut(s)	252
Csp6I	GTAC	1 cut(s)	674
CviAII	CATG	4 cut(s)	105, 469, 820, 895
CviQI	GTAC	1 cut(s)	674
DdeI	CTNAG	3 cut(s)	23, 92, 161
DinI	GGCGCC	2 cut(s)	183, 499
DpnI	GATC	3 cut(s)	212, 789, 944
DpnII	GATC	3 cut(s)	210, 787, 942
DraIII	CACNNNGTG	1 cut(s)	256
Eam1104I	CTCTTC	3 cut(s)	587, 677, 749
EarI	CTCTTC	3 cut(s)	587, 677, 749
Ecl136II	GAGCTC	1 cut(s)	609
Eco24I	GRGCYC	1 cut(s)	611
Eco31I	GGTCTC	1 cut(s)	52
Eco47I	GGWCC	1 cut(s)	59
Eco53kI	GAGCTC	1 cut(s)	609
EcoICRI	GAGCTC	1 cut(s)	609
EcoRI	GAATTC	1 cut(s)	919
EcoRII	CCWGG	3 cut(s)	64, 252, 773
EcoT38I	GRGCYC	1 cut(s)	611
EgeI	GGCGCC	2 cut(s)	183, 499
EheI	GGCGCC	2 cut(s)	183, 499
FaeI	CATG	4 cut(s)	108, 472, 823, 898
FatI	CATG	4 cut(s)	104, 468, 819, 894
FbaI	TGATCA	3 cut(s)	210, 787, 942
Fnu4HI	GCNGC	2 cut(s)	335, 564
FokI	GGATG	7 cut(s)	132, 437, 485, 677, 827, 859, 921
FriOI	GRGCYC	1 cut(s)	611
Fsp4HI	GCNGC	2 cut(s)	335, 564
GlaI	GCGC	3 cut(s)	183, 499, 615
GluI	GCNGC	2 cut(s)	335, 564
GsuI	CTGGAG	1 cut(s)	87
HaeII	RGCGCY	3 cut(s)	185, 501, 617
HapII	CCGG	2 cut(s)	710, 812
HhaI	GCGC	3 cut(s)	184, 500, 616
Hin1I	GRCGYC	2 cut(s)	182, 498
Hin1II	CATG	4 cut(s)	108, 472, 823, 898
Hin6I	GCGC	3 cut(s)	182, 498, 614
HinP1I	GCGC	3 cut(s)	182, 498, 614
HindIII	AAGCTT	1 cut(s)	531
HpaII	CCGG	2 cut(s)	710, 812
HphI	GGTGA	2 cut(s)	380, 640
Hpy166II	GTNNAC	1 cut(s)	674
Hpy188I	TCNGA	2 cut(s)	119, 918
Hpy188III	TCNNGA	3 cut(s)	395, 812, 820
Hpy8I	GTNNAC	1 cut(s)	674
Hpy99I	CGWCG	1 cut(s)	266
HpyAV	CCTTC	3 cut(s)	81, 644, 649
HpyCH4III	ACNGT	2 cut(s)	75, 678
HpyCH4IV	ACGT	1 cut(s)	831
HpyCH4V	TGCA	4 cut(s)	225, 248, 589, 705
HpyF10VI	GCNNNNNNNGC	2 cut(s)	97, 445
HpyF3I	CTNAG	3 cut(s)	23, 92, 161
HpySE526I	ACGT	1 cut(s)	831
Hsp92I	GRCGYC	2 cut(s)	182, 498
Hsp92II	CATG	4 cut(s)	108, 472, 823, 898
HspAI	GCGC	3 cut(s)	182, 498, 614
KasI	GGCGCC	2 cut(s)	181, 497
Kpn2I	TCCGGA	1 cut(s)	811
Ksp22I	TGATCA	3 cut(s)	210, 787, 942
Kzo9I	GATC	3 cut(s)	210, 787, 942
LmnI	GCTCC	1 cut(s)	814
LweI	GCATC	3 cut(s)	28, 141, 655
MabI	ACCWGGT	1 cut(s)	252
MaeII	ACGT	1 cut(s)	831
MaeIII	GTNAC	3 cut(s)	298, 400, 508
MalI	GATC	3 cut(s)	212, 789, 944
MboI	GATC	3 cut(s)	210, 787, 942
MboII	GAAGA	9 cut(s)	604, 694, 706, 709, 766, 950, 978, 1005, 1012
MhlI	GDGCHC	4 cut(s)	261, 291, 611, 731
MluCI	AATT	9 cut(s)	142, 148, 568, 700, 779, 919, 976, 1003, 1021
Mly113I	GGCGCC	2 cut(s)	182, 498
MroI	TCCGGA	1 cut(s)	811
MseI	TTAA	2 cut(s)	81, 462
MspI	CCGG	2 cut(s)	710, 812
MspR9I	CCNGG	3 cut(s)	66, 254, 775
Mva1269I	GAATGC	1 cut(s)	102
MvaI	CCWGG	3 cut(s)	66, 254, 775
MvnI	CGCG	1 cut(s)	334
MwoI	GCNNNNNNNGC	2 cut(s)	97, 445
NarI	GGCGCC	2 cut(s)	182, 498
NdeII	GATC	3 cut(s)	210, 787, 942
NlaIII	CATG	4 cut(s)	108, 472, 823, 898
NlaIV	GGNNCC	4 cut(s)	183, 352, 499, 810
NmeAIII	GCCGAG	1 cut(s)	590
NmuCI	GTSAC	2 cut(s)	298, 400
NspI	RCATGY	1 cut(s)	108
PagI	TCATGA	1 cut(s)	819
PctI	GAATGC	1 cut(s)	102
PfoI	TCCNGGA	1 cut(s)	64
PkrI	GCNGC	2 cut(s)	336, 565
PluTI	GGCGCC	2 cut(s)	185, 501
Psp124BI	GAGCTC	1 cut(s)	611
Psp6I	CCWGG	3 cut(s)	64, 252, 773
PspGI	CCWGG	3 cut(s)	64, 252, 773
PspN4I	GGNNCC	4 cut(s)	183, 352, 499, 810
PspPI	GGNCC	1 cut(s)	59
RsaI	GTAC	1 cut(s)	675
RsaNI	GTAC	1 cut(s)	674
SacI	GAGCTC	1 cut(s)	611
SaqAI	TTAA	2 cut(s)	81, 462
SatI	GCNGC	2 cut(s)	335, 564
Sau3AI	GATC	3 cut(s)	210, 787, 942
Sau96I	GGNCC	1 cut(s)	59
ScrFI	CCNGG	3 cut(s)	66, 254, 775
SduI	GDGCHC	4 cut(s)	261, 291, 611, 731
SexAI	ACCWGGT	1 cut(s)	252
SfaNI	GCATC	3 cut(s)	28, 141, 655
SfoI	GGCGCC	2 cut(s)	183, 499
SinI	GGWCC	1 cut(s)	59
Sse9I	AATT	9 cut(s)	142, 148, 568, 700, 779, 919, 976, 1003, 1021
SsiI	CCGC	2 cut(s)	334, 563
SspDI	GGCGCC	2 cut(s)	181, 497
SstI	GAGCTC	1 cut(s)	611
StyD4I	CCNGG	3 cut(s)	64, 252, 773
TaaI	ACNGT	2 cut(s)	75, 678
TaiI	ACGT	1 cut(s)	834
TaqI	TCGA	1 cut(s)	261
TasI	AATT	9 cut(s)	142, 148, 568, 700, 779, 919, 976, 1003, 1021
TatI	WGTACW	1 cut(s)	673
TauI	GCSGC	2 cut(s)	337, 566
Tru1I	TTAA	2 cut(s)	81, 462
Tru9I	TTAA	2 cut(s)	81, 462
TseFI	GTSAC	2 cut(s)	298, 400
Tsp45I	GTSAC	2 cut(s)	298, 400
VpaK11BI	GGWCC	1 cut(s)	59
XapI	RAATTY	3 cut(s)	919, 976, 1003
XceI	RCATGY	1 cut(s)	108

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