Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

30631928 .. 30633169

Gene Structure 1242 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG174300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1242 bp

ATGCTTGTGTTTTTTAATTGGGCGATTAAGAAGCCAAATGTAGCTAAGCATGTTCATACATACCATATAATCCTCAAAGCATTGGGTAGAAGAAAGTTCTTTAATTATATGATGCAAGTTTTGAATGACATGAGGAGCCAAGACATACGTCTCGATTTGGAGACTGTGTCGATTGTGATGGATAGTTTTGTGAGGGCTGGACATGTCTCGAAAGCAATCCAAGTGTTCCGAAACTCGGCAGAGTTTGGGTTGGATTGCGATACTGAGTGTCTGAATGTGCTTCTGCAGTGTCTGTGTCAACGGTCTCATGTAGTGGCTGCAAATTCGTTTCTTAATTCTGTGAAGGGGAAAGTGCGATTCAATGGCACTACGTATAATATTGTTATTGGTGGGTGGTCAAAATATGGTAGAGTTGGTGAGATGGAGAGGACTTTGGAAGCAATGGTAGCAGATGGGTTTAGTCCTGATAGTGCAACTTTCAGTTACATTCTTGAGGGTCTAGGAAGAGCTGATCGGATTGACGATGCAGTTGAGATTTTTGAGAGCATGAAGGGGAAAGGTTGCATGCCAGACACCATTACATACAATGCAATGATCTCTAACTTCATCTCTGTTGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGTGATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCGGGAAAGTGGCGGATGCACTGGAGATGTTTGATGAGATGTTAAGTCGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCCTATGTAGCTATGGTCCACCATATGCTGCTATGATGATTTACCAGAAAGCAAGAAAGGTCGGATGTAGAATATCATTGACTGCTTATAAGCTATTGCTTATGCGCCTTTCTAGATTTGGTAAATGTGGAATGTTGCTAAACATTTGGGAAGAGATGGAGGAATGTGGATATGCTTCTGATATCGAAGTTTATGAGTATGTAATCAGTGGACTTTGCAACATTGGGCAGCTTGAAAATGCTGTACTTGTCATGGAAGAGTCTCTACGAAAAGGTTTTTGCCCAAGCAGGCTTACCTATAGCAAACTAAGTAACAAACTTCTTGCTTCAAATAAGTTAGAGAGGGCTTATAAGCTATACTTGAAGATTAAAGCTGCTCGTCGTTTTGACAAGACACAGAGAATTTGGCGTGCTAGGGGATGGCATTTCTGA

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 PPR_3

Protein Analysis

413

Amino Acids

46.81

Weight (kDa)

8.9

Isoelectric Point (pI)

35.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	90 - 218	4.6e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	124 - 168	4.3e-08	PPR repeat family
PPR_3	PF13812	145 - 201	3e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	151 - 184	2.1e-06	PPR repeat
PPR_2	PF13041	163 - 202	1.3e-09	PPR repeat family
PPR_long	PF17177	171 - 269	3.8e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	190 - 239	4.9e-11	PPR repeat family
PPR_1	PF12854	223 - 253	2e-08	PPR repeat
PPR_2	PF13041	225 - 273	2.2e-11	PPR repeat family
PPR	PF01535	229 - 258	6.2e-07	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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43820
fragaria_vesca	FvH4_5g24880 FvH4_5g25350 FvH4_5g25520
malus_domestica	MD16G1284000.v1.1
prunus_persica	Prupe.5G009500_v2.0.a1
pyrus_communis	pycom16g26010
rosa_chinensis	RchiOBHm_Chr6g0271861 RchiOBHm_Chr6g0271871 RchiOBHm_Chr6g0271981 RchiOBHm_Chr7g0215761 RchiOBHm_Chr7g0215771 RchiOBHm_Chr7g0215901 RchiOBHm_Chr7g0217231 RchiOBHm_Chr7g0219831
rosa_laevigata	RLG00000002611 RLG00000002625 RLG00000013566
rosa_multiflora	Rmu_sc0000055.1_g000008 Rmu_sc0000055.1_g000009 Rmu_sc0000516.1_g000005 Rmu_sc0000516.1_g000006 Rmu_sc0004379.1_g000016 Rmu_sc0006240.1_g000009 Rmu_sc0007857.1_g000006 Rmu_sc0016364.1_g000002 Rmu_sc0016407.1_g000001 Rmu_sc0023052.1_g000001
rosa_roxburghii	Rroxscaffold_2G00114980 Rroxscaffold_3G00243850 Rroxscaffold_5G00342010 Rroxscaffold_7G00186190
rosa_rugosa	Rorug06G0064100 Rorug07G0156600 Rorug07G0157900 Rorug07G0158000
rosa_samantha	Rh1BG116200 Rh6AG181800 Rh6BG185400 Rh6CG182900 Rh6CG183200 Rh6DG174300 Rh6DG174600 Rh7AG294600 Rh7AG306400 Rh7AG306500 Rh7BG286400 Rh7CG314600 Rh7CG325500 Rh7DG296900 Rh7DG299400 Rh7DG306200
rosa_wichuraiana	Rw6G015640 Rw7G026030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	900, 1161
AciI	CCGC	1 cut(s)	731
AclWI	GGATC	1 cut(s)	665
AcsI	RAATTY	2 cut(s)	322, 1212
AfaI	GTAC	1 cut(s)	1056
AfiI	CCNNNNNNNGG	2 cut(s)	235, 785
AflIII	ACRYGT	1 cut(s)	202
AgsI	TTSAA	6 cut(s)	124, 361, 646, 1046, 1140, 1174
AluBI	AGCT	7 cut(s)	44, 509, 822, 904, 1042, 1165, 1184
AluI	AGCT	7 cut(s)	44, 509, 822, 904, 1042, 1165, 1184
Alw26I	GTCTC	5 cut(s)	155, 155, 211, 309, 1077
AlwI	GGATC	1 cut(s)	665
AlwNI	CAGNNNCTG	1 cut(s)	292
ApeKI	GCWGC	4 cut(s)	317, 839, 1039, 1184
ApoI	RAATTY	2 cut(s)	322, 1212
AspLEI	GCGC	1 cut(s)	918
AspS9I	GGNCC	1 cut(s)	827
AsuC2I	CCSGG	1 cut(s)	721
AsuHPI	GGTGA	1 cut(s)	428
AvaII	GGWCC	1 cut(s)	827
BarI	GAAGNNNNNNTAC	2 cut(s)	1059, 1091
BbvI	GCAGC	4 cut(s)	304, 826, 1051, 1171
BccI	CCATC	5 cut(s)	172, 415, 446, 961, 1224
BcnI	CCSGG	1 cut(s)	721
BcoDI	GTCTC	5 cut(s)	155, 155, 211, 309, 1077
BfaI	CTAG	3 cut(s)	500, 924, 1224
BfmI	CTRYAG	2 cut(s)	284, 1108
BisI	GCNGC	4 cut(s)	318, 840, 1040, 1185
BlpI	GCTNAGC	1 cut(s)	45
BlsI	GCNGC	4 cut(s)	319, 841, 1041, 1186
Bme1390I	CCNGG	1 cut(s)	721
Bme18I	GGWCC	1 cut(s)	827
BmgT120I	GGNCC	1 cut(s)	827
BmiI	GGNNCC	2 cut(s)	137, 810
BmrFI	CCNGG	1 cut(s)	721
BmsI	GCATC	3 cut(s)	102, 514, 724
BoxI	GACNNNNGTC	1 cut(s)	147
BpmI	CTGGAG	1 cut(s)	761
Bpu1102I	GCTNAGC	1 cut(s)	45
BpuEI	CTTGAG	1 cut(s)	512
BpuMI	CCSGG	1 cut(s)	721
BsaAI	YACGTR	1 cut(s)	372
BsaI	GGTCTC	1 cut(s)	309
BsaXI	ACNNNNNCTCC	2 cut(s)	152, 182
Bsc4I	CCNNNNNNNGG	2 cut(s)	235, 785
Bse1I	ACTGG	1 cut(s)	744
Bse3DI	GCAATG	2 cut(s)	447, 597
BseGI	GGATG	3 cut(s)	739, 881, 1235
BseLI	CCNNNNNNNGG	2 cut(s)	235, 785
BseMI	GCAATG	2 cut(s)	447, 597
BseMII	CTCAG	1 cut(s)	255
BseNI	ACTGG	1 cut(s)	744
BseRI	GAGGAG	1 cut(s)	148
BseXI	GCAGC	4 cut(s)	304, 826, 1051, 1171
BsiSI	CCGG	1 cut(s)	720
BslFI	GGGAC	1 cut(s)	802
BslI	CCNNNNNNNGG	2 cut(s)	235, 785
BsmAI	GTCTC	5 cut(s)	155, 155, 211, 309, 1077
BsmBI	CGTCTC	1 cut(s)	155
BsmFI	GGGAC	1 cut(s)	802
Bso31I	GGTCTC	1 cut(s)	309
Bsp143I	GATC	3 cut(s)	511, 594, 670
Bsp1720I	GCTNAGC	1 cut(s)	45
BspACI	CCGC	1 cut(s)	731
BspCNI	CTCAG	1 cut(s)	256
BspLI	GGNNCC	2 cut(s)	137, 810
BspMAI	CTGCAG	1 cut(s)	288
BspPI	GGATC	1 cut(s)	665
BspQI	GCTCTTC	1 cut(s)	499
BspTNI	GGTCTC	1 cut(s)	309
BsrDI	GCAATG	2 cut(s)	447, 597
BsrI	ACTGG	1 cut(s)	744
BssMI	GATC	3 cut(s)	511, 594, 670
Bst4CI	ACNGT	2 cut(s)	166, 303
Bst6I	CTCTTC	3 cut(s)	499, 957, 1062
BstBAI	YACGTR	1 cut(s)	372
BstC8I	GCNNGC	3 cut(s)	566, 1100, 1221
BstDEI	CTNAG	3 cut(s)	45, 264, 1118
BstF5I	GGATG	3 cut(s)	739, 881, 1235
BstHHI	GCGC	1 cut(s)	918
BstKTI	GATC	3 cut(s)	514, 597, 673
BstMAI	GTCTC	5 cut(s)	155, 155, 211, 309, 1077
BstMBI	GATC	3 cut(s)	511, 594, 670
BstMWI	GCNNNNNNNGC	1 cut(s)	446
BstNSI	RCATGY	3 cut(s)	53, 206, 568
BstPAI	GACNNNNGTC	1 cut(s)	147
BstSCI	CCNGG	1 cut(s)	719
BstSFI	CTRYAG	2 cut(s)	284, 1108
BstSNI	TACGTA	1 cut(s)	372
BstV1I	GCAGC	4 cut(s)	304, 826, 1051, 1171
BtsCI	GGATG	3 cut(s)	739, 881, 1235
BtsI	GCAGTG	1 cut(s)	293
BtsIMutI	CAGTG	3 cut(s)	293, 737, 1024
Cac8I	GCNNGC	3 cut(s)	566, 1100, 1221
CaiI	CAGNNNCTG	1 cut(s)	292
CfoI	GCGC	1 cut(s)	918
Cfr13I	GGNCC	1 cut(s)	827
Csp6I	GTAC	1 cut(s)	1055
CviAII	CATG	7 cut(s)	50, 130, 203, 308, 547, 565, 1063
CviQI	GTAC	1 cut(s)	1055
DdeI	CTNAG	3 cut(s)	45, 264, 1118
DpnI	GATC	3 cut(s)	513, 596, 672
DpnII	GATC	3 cut(s)	511, 594, 670
Eam1104I	CTCTTC	3 cut(s)	499, 957, 1062
EarI	CTCTTC	3 cut(s)	499, 957, 1062
EciI	GGCGGA	1 cut(s)	746
Eco105I	TACGTA	1 cut(s)	372
Eco31I	GGTCTC	1 cut(s)	309
Eco32I	GATATC	1 cut(s)	994
Eco47I	GGWCC	1 cut(s)	827
EcoRV	GATATC	1 cut(s)	994
Esp3I	CGTCTC	1 cut(s)	155
FaeI	CATG	7 cut(s)	53, 133, 206, 311, 550, 568, 1066
FalI	AAGNNNNNCTT	2 cut(s)	1154, 1186
FaqI	GGGAC	1 cut(s)	802
FatI	CATG	7 cut(s)	49, 129, 202, 307, 546, 564, 1062
FauNDI	CATATG	1 cut(s)	835
Fnu4HI	GCNGC	4 cut(s)	318, 840, 1040, 1185
FokI	GGATG	2 cut(s)	746, 888
Fsp4HI	GCNGC	4 cut(s)	318, 840, 1040, 1185
FspBI	CTAG	3 cut(s)	500, 924, 1224
GlaI	GCGC	1 cut(s)	917
GluI	GCNGC	4 cut(s)	318, 840, 1040, 1185
GsuI	CTGGAG	1 cut(s)	761
HapII	CCGG	1 cut(s)	720
HhaI	GCGC	1 cut(s)	918
Hin1II	CATG	7 cut(s)	53, 133, 206, 311, 550, 568, 1066
Hin6I	GCGC	1 cut(s)	916
HinP1I	GCGC	1 cut(s)	916
HincII	GTYRAC	1 cut(s)	299
HindII	GTYRAC	1 cut(s)	299
HinfI	GANTC	2 cut(s)	357, 1070
HpaII	CCGG	1 cut(s)	720
HphI	GGTGA	1 cut(s)	428
Hpy166II	GTNNAC	4 cut(s)	299, 637, 830, 1022
Hpy188I	TCNGA	6 cut(s)	230, 273, 516, 875, 991, 1241
Hpy188III	TCNNGA	6 cut(s)	152, 208, 464, 491, 646, 924
Hpy8I	GTNNAC	4 cut(s)	299, 637, 830, 1022
Hpy99I	CGWCG	1 cut(s)	1194
HpyAV	CCTTC	2 cut(s)	337, 544
HpyCH4III	ACNGT	2 cut(s)	166, 303
HpyCH4IV	ACGT	2 cut(s)	148, 371
HpyCH4V	TGCA	9 cut(s)	115, 286, 320, 473, 527, 564, 590, 737, 1029
HpyF10VI	GCNNNNNNNGC	1 cut(s)	446
HpyF3I	CTNAG	3 cut(s)	45, 264, 1118
HpySE526I	ACGT	2 cut(s)	148, 371
Hsp92II	CATG	7 cut(s)	53, 133, 206, 311, 550, 568, 1066
HspAI	GCGC	1 cut(s)	916
Kzo9I	GATC	3 cut(s)	511, 594, 670
LguI	GCTCTTC	1 cut(s)	499
LmnI	GCTCC	1 cut(s)	135
LpnPI	CCDG	8 cut(s)	183, 477, 582, 690, 725, 733, 869, 1084
Lsp1109I	GCAGC	4 cut(s)	304, 826, 1051, 1171
LweI	GCATC	3 cut(s)	102, 514, 724
MaeI	CTAG	3 cut(s)	500, 924, 1224
MaeII	ACGT	2 cut(s)	148, 371
MaeIII	GTNAC	2 cut(s)	482, 1121
MalI	GATC	3 cut(s)	513, 596, 672
MboI	GATC	3 cut(s)	511, 594, 670
MboII	GAAGA	5 cut(s)	102, 516, 974, 1079, 1186
MluCI	AATT	6 cut(s)	16, 103, 322, 334, 695, 1212
MlyI	GAGTC	1 cut(s)	1079
MmeI	TCCRAC	2 cut(s)	231, 853
MnlI	CCTC	9 cut(s)	83, 126, 186, 420, 487, 761, 808, 964, 1146
MseI	TTAA	7 cut(s)	15, 27, 102, 333, 714, 761, 1179
MspI	CCGG	1 cut(s)	720
MspR9I	CCNGG	1 cut(s)	721
MwoI	GCNNNNNNNGC	1 cut(s)	446
NciI	CCSGG	1 cut(s)	721
NdeI	CATATG	1 cut(s)	835
NdeII	GATC	3 cut(s)	511, 594, 670
NlaIII	CATG	7 cut(s)	53, 133, 206, 311, 550, 568, 1066
NlaIV	GGNNCC	2 cut(s)	137, 810
NmeAIII	GCCGAG	1 cut(s)	215
NspI	RCATGY	3 cut(s)	53, 206, 568
PaeI	GCATGC	1 cut(s)	568
PciI	ACATGT	1 cut(s)	202
PciSI	GCTCTTC	1 cut(s)	499
PfeI	GAWTC	1 cut(s)	357
PflFI	GACNNNGTC	1 cut(s)	166
PkrI	GCNGC	4 cut(s)	319, 841, 1041, 1186
PleI	GAGTC	1 cut(s)	1078
PpsI	GAGTC	1 cut(s)	1078
Ppu21I	YACGTR	1 cut(s)	372
PscI	ACATGT	1 cut(s)	202
PshAI	GACNNNNGTC	1 cut(s)	147
PsiI	TTATAA	2 cut(s)	900, 1161
PspN4I	GGNNCC	2 cut(s)	137, 810
PspPI	GGNCC	1 cut(s)	827
PstI	CTGCAG	1 cut(s)	288
PstNI	CAGNNNCTG	1 cut(s)	292
PsyI	GACNNNGTC	1 cut(s)	166
RsaI	GTAC	1 cut(s)	1056
RsaNI	GTAC	1 cut(s)	1055
SapI	GCTCTTC	1 cut(s)	499
SaqAI	TTAA	7 cut(s)	15, 27, 102, 333, 714, 761, 1179
SatI	GCNGC	4 cut(s)	318, 840, 1040, 1185
Sau3AI	GATC	3 cut(s)	511, 594, 670
Sau96I	GGNCC	1 cut(s)	827
SchI	GAGTC	1 cut(s)	1079
ScrFI	CCNGG	1 cut(s)	721
SfaNI	GCATC	3 cut(s)	102, 514, 724
SfcI	CTRYAG	2 cut(s)	284, 1108
SinI	GGWCC	1 cut(s)	827
SmlI	CTYRAG	1 cut(s)	491
SmoI	CTYRAG	1 cut(s)	491
SnaBI	TACGTA	1 cut(s)	372
SphI	GCATGC	1 cut(s)	568
Sse9I	AATT	6 cut(s)	16, 103, 322, 334, 695, 1212
SsiI	CCGC	1 cut(s)	731
SspI	AATATT	2 cut(s)	379, 622
SspMI	CTAG	3 cut(s)	500, 924, 1224
StyD4I	CCNGG	1 cut(s)	719
TaaI	ACNGT	2 cut(s)	166, 303
TaiI	ACGT	2 cut(s)	151, 374
TaqI	TCGA	6 cut(s)	153, 170, 209, 656, 766, 996
TasI	AATT	6 cut(s)	16, 103, 322, 334, 695, 1212
TatI	WGTACW	1 cut(s)	1054
TfiI	GAWTC	1 cut(s)	357
Tru1I	TTAA	7 cut(s)	15, 27, 102, 333, 714, 761, 1179
Tru9I	TTAA	7 cut(s)	15, 27, 102, 333, 714, 761, 1179
TscAI	CASTG	3 cut(s)	293, 744, 1024
TseI	GCWGC	4 cut(s)	317, 839, 1039, 1184
TspDTI	ATGAA	4 cut(s)	44, 563, 595, 642
TspRI	CASTG	3 cut(s)	293, 744, 1024
Tth111I	GACNNNGTC	1 cut(s)	166
VpaK11BI	GGWCC	1 cut(s)	827
XapI	RAATTY	2 cut(s)	322, 1212
XbaI	TCTAGA	1 cut(s)	923
XceI	RCATGY	3 cut(s)	53, 206, 568
XspI	CTAG	3 cut(s)	500, 924, 1224

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