Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0005291

Physical Location & Seq

Genomic Coordinates Reverse (-)

13569557 .. 13570565

Gene Structure 1009 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG116900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1009 bp

ATGCAGTCTCTGAAAGAGGCTCTCATCTCTCACGTTCAGTCCATAAAATCTGGTTTAACACTGGGCATTTTCACCTCCAACCAACTCATCCACCGTTACTCCAGACATGGCCTCATTCAAGACGCCCAGAAGCTGTTCGACGAAATGCCCCACCGGAACGTCTACTCTTGGAACGCCATAATCTCCACCCACATCAGATCACGCAACTTGCAACAAGCCCGGCAGCTATTCGACACCGCTTCTTTCAAAGATTTGGTCACTTACAACTCCATGCTCTCTGGCTACGCAAGCACAGAAGGTTACGAGGATTGTGCGATTGGGTTGTTTGCCGAAATGCAGTCGCTGGATGATCGGATTAGAGTTGATGAGGTTACTCTAACTACCATGCTTAACTTGAGTGCCAAGTTAGAGGTGGTTTGTTATGGAAAGCAGTTGCATTCGTGTACGGTGAGAACTGCCAATGATCTGAGTGGGTTTGCGGTGAGCTCTTTAATTGATATGTACTCTAAGTGCGGGTGTTTTCGTTATGCTTGGCGCGTGTTTAGTGGATATAGAGGGATGGTTGACTCGGTTTCGAAGAATGCAATGGTGGCAGCTTGTTGTAGAGAAGGAAAATTGGATATGGCGGTTGATCTTTTTTGGAGAGAACCGGAGATTAACGATACTGTTTCTTGGAACACAATGATTTCAGGGTATGTGCAGACTGGTTTTGTAGAGGAGGCATTGAATTTGTTTGTTCGCATGGCGGAAGATGGATTTCGATGGAATGAGCATACTTTTGCTAGTGTTTTGAGTGCTTGCTCTGGTTTGAGGAACTTCAAACTAGGAAAGGAAGTCCATGGTTGGGTGTTGAAGAATGGGATGAGTTCTAATCCGTTTATAAGTAGCGGCATTGTTGATGTCTATTGCAAGTGTGGAAATATGAGTTATGCAAAGTCAGTTCATGCAGCAATGGGAATTAGAAATTCGTTTTCAATCACTTCATTGATCTCGGGTCATACCTCTCAAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PfkB TB2_DP1_HVA22

Protein Analysis

336

Amino Acids

37.6

Weight (kDa)

7.58

Isoelectric Point (pI)

33.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	84 - 131	8.9e-06	PPR repeat family
PPR_2	PF13041	221 - 267	2.7e-11	PPR repeat family
PPR	PF01535	223 - 253	1.1e-09	PPR repeat

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005291)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G18840 AT3G18840
fragaria_vesca	FvH4_2g08350
malus_domestica	MD10G1080500.v1.1
prunus_persica	Prupe.8G101800_v2.0.a1
pyrus_communis	pycom10g06370
rosa_chinensis	RchiOBHm_Chr6g0263351
rosa_laevigata	RLG00000014350 RLG00000014352 RLG00000014358 RLG00000014361
rosa_multiflora	Rmu_sc0000565.1_g000003 Rmu_sc0000565.1_g000007 Rmu_sc0003785.1_g000002
rosa_roxburghii	Rroxscaffold_176G00431070 Rroxscaffold_7G00204480
rosa_rugosa	Rorug06G0004400 Rorug06G0004500 Rorug06G0004600 Rorug06G0004900
rosa_samantha	Rh6AG124100 Rh6BG118900 Rh6BG119400 Rh6CG116900 Rh6CG117400 Rh6DG105600 Rh6DG106100
rosa_wichuraiana	Rw6G010650 Rw6G010790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	881
AccI	GTMKAC	1 cut(s)	162
AccII	CGCG	1 cut(s)	537
AciI	CCGC	6 cut(s)	237, 479, 513, 626, 746, 888
AcsI	RAATTY	2 cut(s)	727, 964
AcyI	GRCGYC	1 cut(s)	123
AfaI	GTAC	2 cut(s)	445, 503
AfiI	CCNNNNNNNGG	1 cut(s)	844
AgsI	TTSAA	6 cut(s)	119, 247, 727, 820, 853, 975
AluBI	AGCT	4 cut(s)	133, 226, 486, 596
AluI	AGCT	4 cut(s)	133, 226, 486, 596
Alw21I	GWGCWC	1 cut(s)	488
Alw26I	GTCTC	1 cut(s)	12
AlwNI	CAGNNNCTG	3 cut(s)	10, 133, 343
Ama87I	CYCGRG	1 cut(s)	991
AoxI	GGCC	1 cut(s)	109
ApeKI	GCWGC	3 cut(s)	223, 593, 947
ApoI	RAATTY	2 cut(s)	727, 964
ArsI	GACNNNNNNTTYG	2 cut(s)	240, 272
Asp700I	GAANNNNTTC	1 cut(s)	134
AspLEI	GCGC	1 cut(s)	537
AsuC2I	CCSGG	1 cut(s)	220
AsuHPI	GGTGA	3 cut(s)	64, 460, 493
AsuII	TTCGAA	1 cut(s)	575
AvaI	CYCGRG	1 cut(s)	991
BanII	GRGCYC	1 cut(s)	488
Bbv12I	GWGCWC	1 cut(s)	488
BbvI	GCAGC	3 cut(s)	235, 605, 959
BccI	CCATC	3 cut(s)	553, 746, 756
BcgI	CGANNNNNNTGC	2 cut(s)	293, 327
BcnI	CCSGG	1 cut(s)	220
BcoDI	GTCTC	1 cut(s)	12
BfaI	CTAG	2 cut(s)	783, 824
BisI	GCNGC	4 cut(s)	224, 594, 889, 948
BlsI	GCNGC	4 cut(s)	225, 595, 890, 949
Bme1390I	CCNGG	1 cut(s)	220
BmeT110I	CYCGRG	1 cut(s)	991
BmrFI	CCNGG	1 cut(s)	220
BmrI	ACTGGG	1 cut(s)	71
BmuI	ACTGGG	1 cut(s)	71
BpmI	CTGGAG	1 cut(s)	85
Bpu14I	TTCGAA	1 cut(s)	575
BpuEI	CTTGAG	2 cut(s)	415, 990
BpuMI	CCSGG	1 cut(s)	220
BsaHI	GRCGYC	1 cut(s)	123
BsaJI	CCNNGG	1 cut(s)	838
BsaWI	WCCGGW	2 cut(s)	153, 649
BsaXI	ACNNNNNCTCC	2 cut(s)	83, 113
Bsc4I	CCNNNNNNNGG	1 cut(s)	844
Bse1I	ACTGG	2 cut(s)	66, 709
Bse3DI	GCAATG	2 cut(s)	591, 957
BseDI	CCNNGG	1 cut(s)	838
BseGI	GGATG	4 cut(s)	87, 352, 564, 867
BseLI	CCNNNNNNNGG	1 cut(s)	844
BseMI	GCAATG	2 cut(s)	591, 957
BseMII	CTCAG	1 cut(s)	458
BseNI	ACTGG	2 cut(s)	66, 709
BseRI	GAGGAG	1 cut(s)	731
BseXI	GCAGC	3 cut(s)	235, 605, 959
BsgI	GTGCAG	1 cut(s)	719
Bsh1236I	CGCG	1 cut(s)	537
BshFI	GGCC	1 cut(s)	111
BsiHKAI	GWGCWC	1 cut(s)	488
BsiHKCI	CYCGRG	1 cut(s)	991
BsiSI	CCGG	3 cut(s)	154, 220, 650
BslI	CCNNNNNNNGG	1 cut(s)	844
BsmAI	GTCTC	1 cut(s)	12
BsmI	GAATGC	2 cut(s)	436, 586
BsnI	GGCC	1 cut(s)	111
BsoBI	CYCGRG	1 cut(s)	991
Bsp119I	TTCGAA	1 cut(s)	575
Bsp1286I	GDGCHC	1 cut(s)	488
Bsp143I	GATC	5 cut(s)	197, 349, 463, 631, 987
Bsp19I	CCATGG	1 cut(s)	838
BspACI	CCGC	6 cut(s)	237, 479, 513, 626, 746, 888
BspANI	GGCC	1 cut(s)	111
BspCNI	CTCAG	1 cut(s)	459
BspFNI	CGCG	1 cut(s)	537
BspT104I	TTCGAA	1 cut(s)	575
BsrDI	GCAATG	2 cut(s)	591, 957
BsrI	ACTGG	2 cut(s)	66, 709
BssECI	CCNNGG	1 cut(s)	838
BssMI	GATC	5 cut(s)	197, 349, 463, 631, 987
BssNI	GRCGYC	1 cut(s)	123
BssT1I	CCWWGG	1 cut(s)	838
Bst4CI	ACNGT	3 cut(s)	95, 448, 667
BstACI	GRCGYC	1 cut(s)	123
BstBI	TTCGAA	1 cut(s)	575
BstC8I	GCNNGC	2 cut(s)	289, 799
BstDEI	CTNAG	2 cut(s)	467, 507
BstDSI	CCRYGG	1 cut(s)	838
BstF5I	GGATG	4 cut(s)	87, 352, 564, 867
BstFNI	CGCG	1 cut(s)	537
BstHHI	GCGC	1 cut(s)	537
BstKTI	GATC	5 cut(s)	200, 352, 466, 634, 990
BstMAI	GTCTC	1 cut(s)	12
BstMBI	GATC	5 cut(s)	197, 349, 463, 631, 987
BstMWI	GCNNNNNNNGC	2 cut(s)	288, 590
BstSCI	CCNGG	1 cut(s)	218
BstUI	CGCG	1 cut(s)	537
BstV1I	GCAGC	3 cut(s)	235, 605, 959
BsuRI	GGCC	1 cut(s)	111
BtgI	CCRYGG	1 cut(s)	838
BtsCI	GGATG	4 cut(s)	87, 352, 564, 867
BtsIMutI	CAGTG	1 cut(s)	59
Cac8I	GCNNGC	2 cut(s)	289, 799
CaiI	CAGNNNCTG	3 cut(s)	10, 133, 343
CfoI	GCGC	1 cut(s)	537
CseI	GACGC	1 cut(s)	131
Csp6I	GTAC	2 cut(s)	444, 502
CviAII	CATG	6 cut(s)	107, 271, 385, 742, 839, 944
CviJI	RGCY	8 cut(s)	20, 111, 133, 218, 226, 282, 486, 596
CviKI_1	RGCY	8 cut(s)	20, 111, 133, 218, 226, 282, 486, 596
CviQI	GTAC	2 cut(s)	444, 502
DdeI	CTNAG	2 cut(s)	467, 507
DpnI	GATC	5 cut(s)	199, 351, 465, 633, 989
DpnII	GATC	5 cut(s)	197, 349, 463, 631, 987
EciI	GGCGGA	1 cut(s)	761
Ecl136II	GAGCTC	1 cut(s)	486
Eco130I	CCWWGG	1 cut(s)	838
Eco24I	GRGCYC	1 cut(s)	488
Eco53kI	GAGCTC	1 cut(s)	486
Eco88I	CYCGRG	1 cut(s)	991
EcoICRI	GAGCTC	1 cut(s)	486
EcoT14I	CCWWGG	1 cut(s)	838
EcoT38I	GRGCYC	1 cut(s)	488
ErhI	CCWWGG	1 cut(s)	838
FaeI	CATG	6 cut(s)	110, 274, 388, 745, 842, 947
FatI	CATG	6 cut(s)	106, 270, 384, 741, 838, 943
FauI	CCCGC	1 cut(s)	506
FblI	GTMKAC	1 cut(s)	162
Fnu4HI	GCNGC	4 cut(s)	224, 594, 889, 948
FokI	GGATG	4 cut(s)	74, 359, 571, 874
FriOI	GRGCYC	1 cut(s)	488
Fsp4HI	GCNGC	4 cut(s)	224, 594, 889, 948
FspBI	CTAG	2 cut(s)	783, 824
GlaI	GCGC	1 cut(s)	536
GluI	GCNGC	4 cut(s)	224, 594, 889, 948
GsuI	CTGGAG	1 cut(s)	85
HaeIII	GGCC	1 cut(s)	111
HapII	CCGG	3 cut(s)	154, 220, 650
HgaI	GACGC	1 cut(s)	131
HhaI	GCGC	1 cut(s)	537
Hin1I	GRCGYC	1 cut(s)	123
Hin1II	CATG	6 cut(s)	110, 274, 388, 745, 842, 947
Hin6I	GCGC	1 cut(s)	535
HinP1I	GCGC	1 cut(s)	535
HincII	GTYRAC	1 cut(s)	565
HindII	GTYRAC	1 cut(s)	565
HinfI	GANTC	1 cut(s)	566
HpaII	CCGG	3 cut(s)	154, 220, 650
HphI	GGTGA	3 cut(s)	64, 460, 493
Hpy166II	GTNNAC	3 cut(s)	163, 444, 565
Hpy188I	TCNGA	4 cut(s)	12, 197, 354, 468
Hpy188III	TCNNGA	2 cut(s)	102, 119
Hpy8I	GTNNAC	3 cut(s)	163, 444, 565
Hpy99I	CGWCG	1 cut(s)	143
HpyAV	CCTTC	2 cut(s)	290, 602
HpyCH4III	ACNGT	3 cut(s)	95, 448, 667
HpyCH4IV	ACGT	2 cut(s)	33, 159
HpyCH4V	TGCA	9 cut(s)	4, 211, 337, 436, 584, 700, 909, 932, 947
HpyF10VI	GCNNNNNNNGC	2 cut(s)	288, 590
HpyF3I	CTNAG	2 cut(s)	467, 507
HpySE526I	ACGT	2 cut(s)	33, 159
Hsp92I	GRCGYC	1 cut(s)	123
Hsp92II	CATG	6 cut(s)	110, 274, 388, 745, 842, 947
HspAI	GCGC	1 cut(s)	535
Kzo9I	GATC	5 cut(s)	197, 349, 463, 631, 987
Lsp1109I	GCAGC	3 cut(s)	235, 605, 959
MaeI	CTAG	2 cut(s)	783, 824
MaeII	ACGT	2 cut(s)	33, 159
MaeIII	GTNAC	4 cut(s)	95, 256, 299, 370
MalI	GATC	5 cut(s)	199, 351, 465, 633, 989
MboI	GATC	5 cut(s)	197, 349, 463, 631, 987
MboII	GAAGA	3 cut(s)	589, 761, 865
MhlI	GDGCHC	1 cut(s)	488
MluCI	AATT	5 cut(s)	492, 614, 727, 957, 964
MlyI	GAGTC	1 cut(s)	560
MmeI	TCCRAC	1 cut(s)	102
MroXI	GAANNNNTTC	1 cut(s)	134
MseI	TTAA	4 cut(s)	56, 390, 491, 657
MspI	CCGG	3 cut(s)	154, 220, 650
MspR9I	CCNGG	1 cut(s)	220
Mva1269I	GAATGC	2 cut(s)	436, 586
MvnI	CGCG	1 cut(s)	537
MwoI	GCNNNNNNNGC	2 cut(s)	288, 590
NciI	CCSGG	1 cut(s)	220
NcoI	CCATGG	1 cut(s)	838
NdeII	GATC	5 cut(s)	197, 349, 463, 631, 987
NlaIII	CATG	6 cut(s)	110, 274, 388, 745, 842, 947
NmuCI	GTSAC	1 cut(s)	256
NspV	TTCGAA	1 cut(s)	575
PctI	GAATGC	2 cut(s)	436, 586
PdmI	GAANNNNTTC	1 cut(s)	134
PkrI	GCNGC	4 cut(s)	225, 595, 890, 949
PleI	GAGTC	1 cut(s)	560
PpsI	GAGTC	1 cut(s)	560
PsiI	TTATAA	1 cut(s)	881
Psp124BI	GAGCTC	1 cut(s)	488
PstNI	CAGNNNCTG	3 cut(s)	10, 133, 343
RsaI	GTAC	2 cut(s)	445, 503
RsaNI	GTAC	2 cut(s)	444, 502
SacI	GAGCTC	1 cut(s)	488
SaqAI	TTAA	4 cut(s)	56, 390, 491, 657
SatI	GCNGC	4 cut(s)	224, 594, 889, 948
Sau3AI	GATC	5 cut(s)	197, 349, 463, 631, 987
SchI	GAGTC	1 cut(s)	560
ScrFI	CCNGG	1 cut(s)	220
SduI	GDGCHC	1 cut(s)	488
SfuI	TTCGAA	1 cut(s)	575
SmlI	CTYRAG	2 cut(s)	394, 1005
SmoI	CTYRAG	2 cut(s)	394, 1005
Sse9I	AATT	5 cut(s)	492, 614, 727, 957, 964
SsiI	CCGC	6 cut(s)	237, 479, 513, 626, 746, 888
SspMI	CTAG	2 cut(s)	783, 824
SstI	GAGCTC	1 cut(s)	488
StyD4I	CCNGG	1 cut(s)	218
StyI	CCWWGG	1 cut(s)	838
TaaI	ACNGT	3 cut(s)	95, 448, 667
TaiI	ACGT	2 cut(s)	36, 162
TaqI	TCGA	4 cut(s)	138, 231, 575, 760
TasI	AATT	5 cut(s)	492, 614, 727, 957, 964
TatI	WGTACW	1 cut(s)	501
TauI	GCSGC	1 cut(s)	891
Tru1I	TTAA	4 cut(s)	56, 390, 491, 657
Tru9I	TTAA	4 cut(s)	56, 390, 491, 657
TscAI	CASTG	1 cut(s)	66
TseFI	GTSAC	1 cut(s)	256
TseI	GCWGC	3 cut(s)	223, 593, 947
Tsp45I	GTSAC	1 cut(s)	256
TspDTI	ATGAA	2 cut(s)	932, 972
TspGWI	ACGGA	1 cut(s)	864
TspRI	CASTG	1 cut(s)	66
XapI	RAATTY	2 cut(s)	727, 964
XcmI	CCANNNNNNNNNTGG	1 cut(s)	409
XmiI	GTMKAC	1 cut(s)	162
XmnI	GAANNNNTTC	1 cut(s)	134
XspI	CTAG	2 cut(s)	783, 824

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