Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0014514

Physical Location & Seq

Genomic Coordinates Reverse (-)

62555227 .. 62556255

Gene Structure 1029 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG454000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGAGAAAGGCAAGAGCAGTGTTTGAGGAAATTCCCGACAAGACTATTGTGTCTTGGACAGCAATGGTTTCAGGGTACACTCGAATCGGGTGTTATGGGGATGCTTTGGATATTTTTCGACGAATGCAAATGCTGGGTATTGAGCCTGATGAGATCAGTGTTGTTGCTGTTTTGCCAGCATGCTCACAGCTTGGAGCTCTTGAGGTTGGGAAATGGATTCACAGGTACTCGGATAAAAAGCGGCTACTACAGTCGGTGTCTGTGTGCAATGCCCTGATTGAAATGTATGTCAAATGCGGTTGCATTGATCAAGCTTGGCAGTTGTTTGATCAGATGTTGGAGAGGGATGTGATTTCTTGGAGTACCATGATTGCCGGACTGGCGAATAATGGTAAAGCTCGCGAAGCAGTTGAGCTCTTTCAAGAGATGCAGAGAGCGAAGATTGAACCCAATGGGATTACATTTCTTGGTCTTTTATCAGCCTGCAGCCATGCTGGTTTATGGAAGGAGGGACTCGAGTATTTTGACTCTATGAGAGATGAGTATAAAATAGAGCCAGGAATTGAGCATTATGGTTGTTTAGTTGATCTTCTGGGACGTGCCGGGCACCTTGATCAGGCTCTCGACAAAATAAAGCAGATGCCAATGAAGCCAGACTCAAAGATTTGGGGCTCCTTGTTAAGCTCTTGCAGGACTTATTGCAATCTTGAGATTGCTCTAGATGCAATGGAGCAACTTCAAGAGCTTGAACCAGATGATGCAGGAAACTATGTACTACTTTCCAATATATATGCAGACCTGGGGAGGTGGGAGGATGTGTCGAGGATGAGGAAACTCATAAGAAGCAAAAGCATGAAGAAAACCCCAGGTTGCAGTTTGATCGAGGTTAACAATGCAGTTTTAGAATTCGTATCAGGGGATGATACAAAACCATTTGCAAAAGACATATTTTCCATGCTAGAGCTGCTGGTTTCACACCAAAGCATACCAGGTGATAACATTGAAGCTGTGTCAGAGGATTGCTGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

342

Amino Acids

38.43

Weight (kDa)

4.98

Isoelectric Point (pI)

43.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	15 - 61	7.8e-07	PPR repeat family
PPR	PF01535	17 - 47	8.3e-07	PPR repeat
PPR_2	PF13041	85 - 116	9.2e-07	PPR repeat family
PPR	PF01535	88 - 116	9.6e-06	PPR repeat
PPR_1	PF12854	113 - 144	8.8e-07	PPR repeat
PPR_3	PF13812	113 - 162	9.5e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	115 - 163	1.3e-12	PPR repeat family
PPR	PF01535	118 - 147	4.3e-08	PPR repeat
E_motif	PF20431	233 - 295	4.6e-24	E motif

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014514)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G20540 AT2G20540
fragaria_vesca	FvH4_2g36320
malus_domestica	MD15G1099800.v1.1
prunus_persica	Prupe.1G454600_v2.0.a1
pyrus_communis	pycom15g09180
rosa_chinensis	RchiOBHm_Chr6g0305561
rosa_laevigata	RLG00000010877
rosa_multiflora	Rmu_co8430547.1_g000001 Rmu_sc0000841.1_g000002 Rmu_sc0001153.1_g000005
rosa_roxburghii	Rroxscaffold_7G00162590
rosa_rugosa	Rorug06G0341700
rosa_samantha	Rh6AG453700 Rh6BG447900 Rh6DG454000
rosa_wichuraiana	Rw6G039540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	49
AccB1I	GGYRCC	1 cut(s)	606
AccII	CGCG	1 cut(s)	402
AciI	CCGC	2 cut(s)	241, 297
AcsI	RAATTY	2 cut(s)	30, 905
AfaI	GTAC	4 cut(s)	77, 227, 364, 774
AfiI	CCNNNNNNNGG	1 cut(s)	616
AgsI	TTSAA	6 cut(s)	281, 422, 446, 740, 749, 1004
AjiI	CACGTC	1 cut(s)	599
AjnI	CCWGG	4 cut(s)	556, 798, 865, 988
AluBI	AGCT	9 cut(s)	190, 197, 314, 398, 415, 684, 745, 964, 1007
AluI	AGCT	9 cut(s)	190, 197, 314, 398, 415, 684, 745, 964, 1007
Alw21I	GWGCWC	2 cut(s)	199, 417
Ama87I	CYCGRG	1 cut(s)	515
ApeKI	GCWGC	3 cut(s)	486, 964, 1023
ApoI	RAATTY	2 cut(s)	30, 905
AsuC2I	CCSGG	1 cut(s)	604
AsuHPI	GGTGA	1 cut(s)	1004
AvaI	CYCGRG	1 cut(s)	515
BaeGI	GKGCMC	1 cut(s)	609
BanI	GGYRCC	1 cut(s)	606
BanII	GRGCYC	3 cut(s)	199, 417, 674
Bbv12I	GWGCWC	2 cut(s)	199, 417
BbvI	GCAGC	3 cut(s)	498, 951, 1010
BcgI	CGANNNNNNTGC	2 cut(s)	862, 896
BciT130I	CCWGG	4 cut(s)	558, 800, 867, 990
BclI	TGATCA	3 cut(s)	307, 328, 613
BcnI	CCSGG	1 cut(s)	604
BfaI	CTAG	2 cut(s)	719, 959
BfmI	CTRYAG	2 cut(s)	248, 484
BglI	GCCNNNNNGGC	1 cut(s)	380
BisI	GCNGC	4 cut(s)	242, 487, 965, 1024
BlsI	GCNGC	4 cut(s)	243, 488, 966, 1025
Bme1390I	CCNGG	5 cut(s)	558, 604, 800, 867, 990
BmeT110I	CYCGRG	1 cut(s)	515
BmgBI	CACGTC	1 cut(s)	599
BmiI	GGNNCC	2 cut(s)	608, 673
BmrFI	CCNGG	5 cut(s)	558, 604, 800, 867, 990
BmsI	GCATC	5 cut(s)	91, 417, 630, 712, 748
BpuEI	CTTGAG	2 cut(s)	221, 728
BpuMI	CCSGG	1 cut(s)	604
BsaJI	CCNNGG	2 cut(s)	799, 865
BsaXI	ACNNNNNCTCC	2 cut(s)	803, 833
Bsc4I	CCNNNNNNNGG	1 cut(s)	616
Bse1I	ACTGG	1 cut(s)	384
Bse3DI	GCAATG	3 cut(s)	69, 274, 732
BseBI	CCWGG	4 cut(s)	558, 800, 867, 990
BseDI	CCNNGG	2 cut(s)	799, 865
BseGI	GGATG	5 cut(s)	106, 352, 820, 831, 925
BseLI	CCNNNNNNNGG	1 cut(s)	616
BseMI	GCAATG	3 cut(s)	69, 274, 732
BseNI	ACTGG	1 cut(s)	384
BseSI	GKGCMC	1 cut(s)	609
BseXI	GCAGC	3 cut(s)	498, 951, 1010
BseYI	CCCAGC	1 cut(s)	133
Bsh1236I	CGCG	1 cut(s)	402
BshNI	GGYRCC	1 cut(s)	606
BsiHKAI	GWGCWC	2 cut(s)	199, 417
BsiHKCI	CYCGRG	1 cut(s)	515
BsiSI	CCGG	2 cut(s)	375, 603
BslFI	GGGAC	2 cut(s)	525, 609
BslI	CCNNNNNNNGG	1 cut(s)	616
BsmFI	GGGAC	2 cut(s)	525, 609
BsmI	GAATGC	1 cut(s)	129
BsoBI	CYCGRG	1 cut(s)	515
Bsp1286I	GDGCHC	4 cut(s)	199, 417, 609, 674
Bsp143I	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
Bsp68I	TCGCGA	1 cut(s)	402
BspACI	CCGC	2 cut(s)	241, 297
BspFNI	CGCG	1 cut(s)	402
BspLI	GGNNCC	2 cut(s)	608, 673
BspMAI	CTGCAG	1 cut(s)	488
BspT107I	GGYRCC	1 cut(s)	606
BsrDI	GCAATG	3 cut(s)	69, 274, 732
BsrI	ACTGG	1 cut(s)	384
BssECI	CCNNGG	2 cut(s)	799, 865
BssMI	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
Bst2UI	CCWGG	4 cut(s)	558, 800, 867, 990
Bst4CI	ACNGT	1 cut(s)	252
BstC8I	GCNNGC	4 cut(s)	177, 181, 400, 484
BstENI	CCTNNNNNAGG	1 cut(s)	614
BstF5I	GGATG	5 cut(s)	106, 352, 820, 831, 925
BstFNI	CGCG	1 cut(s)	402
BstKTI	GATC	6 cut(s)	156, 310, 331, 589, 616, 882
BstMBI	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
BstMWI	GCNNNNNNNGC	5 cut(s)	380, 404, 649, 722, 964
BstNI	CCWGG	4 cut(s)	558, 800, 867, 990
BstNSI	RCATGY	1 cut(s)	183
BstSCI	CCNGG	5 cut(s)	556, 602, 798, 865, 988
BstSFI	CTRYAG	2 cut(s)	248, 484
BstSLI	GKGCMC	1 cut(s)	609
BstUI	CGCG	1 cut(s)	402
BstV1I	GCAGC	3 cut(s)	498, 951, 1010
BtrI	CACGTC	1 cut(s)	599
BtsCI	GGATG	5 cut(s)	106, 352, 820, 831, 925
BtsI	GCAGTG	1 cut(s)	24
BtsIMutI	CAGTG	2 cut(s)	24, 163
BtuMI	TCGCGA	1 cut(s)	402
Cac8I	GCNNGC	4 cut(s)	177, 181, 400, 484
CsiI	ACCWGGT	1 cut(s)	988
Csp6I	GTAC	4 cut(s)	76, 226, 363, 773
CviAII	CATG	5 cut(s)	180, 367, 491, 853, 955
CviQI	GTAC	4 cut(s)	76, 226, 363, 773
DpnI	GATC	6 cut(s)	155, 309, 330, 588, 615, 881
DpnII	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
DrdI	GACNNNNNNGTC	1 cut(s)	49
DseDI	GACNNNNNNGTC	1 cut(s)	49
Ecl136II	GAGCTC	2 cut(s)	197, 415
Eco24I	GRGCYC	3 cut(s)	199, 417, 674
Eco53kI	GAGCTC	2 cut(s)	197, 415
Eco88I	CYCGRG	1 cut(s)	515
EcoICRI	GAGCTC	2 cut(s)	197, 415
EcoNI	CCTNNNNNAGG	1 cut(s)	614
EcoRI	GAATTC	1 cut(s)	905
EcoRII	CCWGG	4 cut(s)	556, 798, 865, 988
EcoT38I	GRGCYC	3 cut(s)	199, 417, 674
FaeI	CATG	5 cut(s)	183, 370, 494, 856, 958
FaqI	GGGAC	2 cut(s)	525, 609
FatI	CATG	5 cut(s)	179, 366, 490, 852, 954
FbaI	TGATCA	3 cut(s)	307, 328, 613
Fnu4HI	GCNGC	4 cut(s)	242, 487, 965, 1024
FokI	GGATG	5 cut(s)	113, 359, 827, 838, 932
FriOI	GRGCYC	3 cut(s)	199, 417, 674
Fsp4HI	GCNGC	4 cut(s)	242, 487, 965, 1024
FspBI	CTAG	2 cut(s)	719, 959
GluI	GCNGC	4 cut(s)	242, 487, 965, 1024
GsaI	CCCAGC	1 cut(s)	137
HapII	CCGG	2 cut(s)	375, 603
Hin1II	CATG	5 cut(s)	183, 370, 494, 856, 958
HincII	GTYRAC	1 cut(s)	889
HindII	GTYRAC	1 cut(s)	889
HindIII	AAGCTT	1 cut(s)	312
HinfI	GANTC	5 cut(s)	84, 217, 513, 527, 656
HpaI	GTTAAC	1 cut(s)	889
HpaII	CCGG	2 cut(s)	375, 603
HphI	GGTGA	1 cut(s)	1004
Hpy166II	GTNNAC	2 cut(s)	78, 889
Hpy188I	TCNGA	3 cut(s)	232, 333, 1015
Hpy188III	TCNNGA	8 cut(s)	35, 200, 401, 422, 623, 707, 719, 740
Hpy8I	GTNNAC	2 cut(s)	78, 889
Hpy99I	CGWCG	1 cut(s)	123
HpyAV	CCTTC	1 cut(s)	499
HpyCH4III	ACNGT	1 cut(s)	252
HpyCH4IV	ACGT	1 cut(s)	598
HpyF10VI	GCNNNNNNNGC	5 cut(s)	380, 404, 649, 722, 964
HpySE526I	ACGT	1 cut(s)	598
Hsp92II	CATG	5 cut(s)	183, 370, 494, 856, 958
Ksp22I	TGATCA	3 cut(s)	307, 328, 613
KspAI	GTTAAC	1 cut(s)	889
Kzo9I	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
LmnI	GCTCC	3 cut(s)	194, 677, 730
Lsp1109I	GCAGC	3 cut(s)	498, 951, 1010
LweI	GCATC	5 cut(s)	91, 417, 630, 712, 748
MabI	ACCWGGT	1 cut(s)	988
MaeI	CTAG	2 cut(s)	719, 959
MaeII	ACGT	1 cut(s)	598
MalI	GATC	6 cut(s)	155, 309, 330, 588, 615, 881
MboI	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
MboII	GAAGA	3 cut(s)	451, 581, 868
MhlI	GDGCHC	4 cut(s)	199, 417, 609, 674
MluCI	AATT	3 cut(s)	30, 561, 905
MlyI	GAGTC	3 cut(s)	507, 521, 650
MmeI	TCCRAC	1 cut(s)	318
MseI	TTAA	2 cut(s)	680, 888
MspI	CCGG	2 cut(s)	375, 603
MspR9I	CCNGG	5 cut(s)	558, 604, 800, 867, 990
Mva1269I	GAATGC	1 cut(s)	129
MvaI	CCWGG	4 cut(s)	558, 800, 867, 990
MvnI	CGCG	1 cut(s)	402
MwoI	GCNNNNNNNGC	5 cut(s)	380, 404, 649, 722, 964
NciI	CCSGG	1 cut(s)	604
NdeII	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
NlaIII	CATG	5 cut(s)	183, 370, 494, 856, 958
NlaIV	GGNNCC	2 cut(s)	608, 673
NruI	TCGCGA	1 cut(s)	402
NspI	RCATGY	1 cut(s)	183
PaeI	GCATGC	1 cut(s)	183
PaeR7I	CTCGAG	1 cut(s)	515
PctI	GAATGC	1 cut(s)	129
PfeI	GAWTC	2 cut(s)	84, 217
PkrI	GCNGC	4 cut(s)	243, 488, 966, 1025
PleI	GAGTC	3 cut(s)	507, 521, 650
PpsI	GAGTC	3 cut(s)	507, 521, 650
Psp124BI	GAGCTC	2 cut(s)	199, 417
Psp6I	CCWGG	4 cut(s)	556, 798, 865, 988
PspFI	CCCAGC	1 cut(s)	133
PspGI	CCWGG	4 cut(s)	556, 798, 865, 988
PspN4I	GGNNCC	2 cut(s)	608, 673
PspXI	VCTCGAGB	1 cut(s)	515
PstI	CTGCAG	1 cut(s)	488
RruI	TCGCGA	1 cut(s)	402
RsaI	GTAC	4 cut(s)	77, 227, 364, 774
RsaNI	GTAC	4 cut(s)	76, 226, 363, 773
SacI	GAGCTC	2 cut(s)	199, 417
SaqAI	TTAA	2 cut(s)	680, 888
SatI	GCNGC	4 cut(s)	242, 487, 965, 1024
Sau3AI	GATC	6 cut(s)	153, 307, 328, 586, 613, 879
SchI	GAGTC	3 cut(s)	507, 521, 650
ScrFI	CCNGG	5 cut(s)	558, 604, 800, 867, 990
SduI	GDGCHC	4 cut(s)	199, 417, 609, 674
SexAI	ACCWGGT	1 cut(s)	988
SfaNI	GCATC	5 cut(s)	91, 417, 630, 712, 748
SfcI	CTRYAG	2 cut(s)	248, 484
Sfr274I	CTCGAG	1 cut(s)	515
SlaI	CTCGAG	1 cut(s)	515
SmlI	CTYRAG	3 cut(s)	200, 515, 707
SmoI	CTYRAG	3 cut(s)	200, 515, 707
SphI	GCATGC	1 cut(s)	183
Sse9I	AATT	3 cut(s)	30, 561, 905
SsiI	CCGC	2 cut(s)	241, 297
SspMI	CTAG	2 cut(s)	719, 959
SstI	GAGCTC	2 cut(s)	199, 417
StyD4I	CCNGG	5 cut(s)	556, 602, 798, 865, 988
TaaI	ACNGT	1 cut(s)	252
TaiI	ACGT	1 cut(s)	601
TaqI	TCGA	6 cut(s)	82, 118, 516, 624, 821, 882
TasI	AATT	3 cut(s)	30, 561, 905
TatI	WGTACW	1 cut(s)	772
TauI	GCSGC	1 cut(s)	244
TfiI	GAWTC	2 cut(s)	84, 217
Tru1I	TTAA	2 cut(s)	680, 888
Tru9I	TTAA	2 cut(s)	680, 888
TscAI	CASTG	2 cut(s)	24, 163
TseI	GCWGC	3 cut(s)	486, 964, 1023
TspDTI	ATGAA	2 cut(s)	662, 869
TspRI	CASTG	2 cut(s)	24, 163
XagI	CCTNNNNNAGG	1 cut(s)	614
XapI	RAATTY	2 cut(s)	30, 905
XbaI	TCTAGA	1 cut(s)	718
XceI	RCATGY	1 cut(s)	183
XhoI	CTCGAG	1 cut(s)	515
XspI	CTAG	2 cut(s)	719, 959

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