Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

31825932 .. 31827632

Gene Structure 1701 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG181800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1701 bp

ATGGCGTTTCACGGCGCTTCATGCCGTGTCCTATCATCGCTGCCATCTCTCAGCAGCAGAGCCAGGTACTACCCAATGCTTCACCTTCATTCACCAATTTCTTCGTCTCTCTTTTCAACTCTTAATGCTCAATCCCAACATGAATATGTCAAATTCAATCCCAACCAGTCTTCTTCTCATGACGAACCTTCTGTTCTTCACCAGCTCTCTGTTCTGTTACCAATCCCCCATCAAATTTTACCTCCAAAACAATTTGACCCCACTGATTTGAATAAGAAGGTAGAATCTGTTAGGGCTGTGGATGGGTTTTTAATGCCCGACGAGAAATTACGTGGGGTTTTTCTTCAGAAATTGAAGGGTATAGCTGTAATTGAGCATGCGCTCGACAATGTTGGTGTGGATTTGAGCGTTGATGTTGTTGCACAAGTAGTGAATAGAGGTTGTTTAGGCGGTGAAGCAATGCTTGTGTTTTTTAATTGGGCGATTAAGAAGCCAAATGTAGCTAAGCATGTTCATACATACCATATAATCCTCAAAGCATTGGGTAGAAGAAAGTTCTTTAATTATATGATGCAAGTTTTGAATGACATGAGGAGCCAAGACATACGTCTCGATTTGGAGACTGTGTCGATTGTGATGGATAGTTTTGTGAGGGCTGGACATGTCTCGAAAGCAATCCAAGTGTTCCGAAACTCGGCAGAGTTTGGGTTGGATTGCGATACTGAGTGTCTGAATGTGCTTCTGCAGTGTCTGTGTCAGCGGTCTCATGTAGTGGCTGCAAATTCGTTTCTTAATTCTGTGAAGGGGAAAGTGCGATTCAATGGCACTACGTATAACATTGTTATTGGTGGGTGGTCGAAATATGGTAGAGTTGGTGAGATGGAGAGGACTTTGGAAGCAATGGTAGCAGATGGGTTTAGTCCTGATAGTGCAACTTTCAGTTACATTCTTGAGGGTCTAGGAAGAGCTGATCGGATTGACGATGCAGTTGAGATTTTTGAGAGCATGAAGGGGAAAGGTTGCGTGCCAGACACCATTACATACAATGCAATGATCTCTAACTTCATCTCTGTTGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGCGATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCCGGAAAGTGGCGGATGCACTGGAGATGTTTGATGAGATGTTAAGTCGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCCTATGTAGCTATGGTCCACCATATGCTGCTATGATGATTTACCAGAAAGCAAGAAAGGTCGGATGTAGAATATCATTGACTGCTTATAAGCTATTGCTTATGCGCCTTTCTAGATTTGGTAAATGTGGAATGTTGCTAAACATTTGGGAAGAGATGCAGGAATGTGGATATGCTTCTGATATCGAAGTTTATGAGTATGTAATCAGTGGACTTTGCAACATTGGGCAGCTAGAAAATGCTGTACTTGTCATGGAAGAGTCTCTACGAAAAGGTTTTTGCCCAAGCAGGCTTACCTATAGCAAACTAAGTAACAAACTTCTTGCTTCAAATAAGTTAGAGAGGGCTTATAAGCTATACTTGAAGATTAAAGCTGCTCGTCGTTTTGACAAGACACACAGAATTTGGCGTGCTAGGGGATGGCATTTCTGA

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

566

Amino Acids

63.63

Weight (kDa)

8.86

Isoelectric Point (pI)

36.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	243 - 371	8.8e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	277 - 321	6.6e-08	PPR repeat family
PPR_3	PF13812	298 - 354	6.9e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	304 - 337	3.2e-06	PPR repeat
PPR_2	PF13041	316 - 355	2.2e-09	PPR repeat family
PPR_long	PF17177	324 - 422	1.1e-07	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	343 - 392	7.3e-11	PPR repeat family
PPR_1	PF12854	376 - 406	1.2e-06	PPR repeat
PPR_2	PF13041	378 - 426	1.5e-10	PPR repeat family
PPR	PF01535	382 - 411	7.9e-06	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)	1359, 1620
AciI	CCGC	3 cut(s)	450, 760, 1190
AclWI	GGATC	1 cut(s)	1124
AcsI	RAATTY	4 cut(s)	152, 234, 781, 1671
AcuI	CTGAAG	1 cut(s)	329
AfaI	GTAC	2 cut(s)	68, 1515
AfiI	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
AflIII	ACRYGT	1 cut(s)	661
AgsI	TTSAA	9 cut(s)	117, 157, 271, 355, 583, 820, 1105, 1599, 1633
AjnI	CCWGG	1 cut(s)	62
AluBI	AGCT	9 cut(s)	205, 365, 503, 968, 1281, 1363, 1501, 1624, 1643
AluI	AGCT	9 cut(s)	205, 365, 503, 968, 1281, 1363, 1501, 1624, 1643
Alw26I	GTCTC	6 cut(s)	111, 614, 614, 670, 768, 1536
AlwI	GGATC	1 cut(s)	1124
AlwNI	CAGNNNCTG	1 cut(s)	751
ApeKI	GCWGC	6 cut(s)	40, 54, 776, 1298, 1498, 1643
ApoI	RAATTY	4 cut(s)	152, 234, 781, 1671
AspLEI	GCGC	3 cut(s)	17, 382, 1377
AspS9I	GGNCC	1 cut(s)	1286
AsuC2I	CCSGG	1 cut(s)	1180
AsuHPI	GGTGA	5 cut(s)	74, 84, 191, 464, 887
AvaII	GGWCC	1 cut(s)	1286
BarI	GAAGNNNNNNTAC	2 cut(s)	1518, 1550
BbsI	GAAGAC	1 cut(s)	162
BbvI	GCAGC	6 cut(s)	27, 66, 763, 1285, 1510, 1630
BccI	CCATC	7 cut(s)	52, 237, 296, 631, 874, 905, 1683
BceAI	ACGGC	2 cut(s)	9, 28
BciT130I	CCWGG	1 cut(s)	64
BcnI	CCSGG	1 cut(s)	1180
BcoDI	GTCTC	6 cut(s)	111, 614, 614, 670, 768, 1536
BfaI	CTAG	4 cut(s)	959, 1383, 1502, 1683
BfmI	CTRYAG	2 cut(s)	743, 1567
BfoI	RGCGCY	1 cut(s)	18
BisI	GCNGC	6 cut(s)	41, 55, 777, 1299, 1499, 1644
BlpI	GCTNAGC	1 cut(s)	504
BlsI	GCNGC	6 cut(s)	42, 56, 778, 1300, 1500, 1645
Bme1390I	CCNGG	2 cut(s)	64, 1180
Bme18I	GGWCC	1 cut(s)	1286
BmgT120I	GGNCC	1 cut(s)	1286
BmiI	GGNNCC	2 cut(s)	596, 1269
BmrFI	CCNGG	2 cut(s)	64, 1180
BmsI	GCATC	4 cut(s)	561, 973, 1183, 1416
BoxI	GACNNNNGTC	1 cut(s)	606
BpiI	GAAGAC	1 cut(s)	162
BpmI	CTGGAG	1 cut(s)	1220
Bpu1102I	GCTNAGC	1 cut(s)	504
BpuEI	CTTGAG	1 cut(s)	971
BpuMI	CCSGG	1 cut(s)	1180
BsaAI	YACGTR	2 cut(s)	332, 831
BsaI	GGTCTC	1 cut(s)	768
BsaXI	ACNNNNNCTCC	2 cut(s)	611, 641
Bsc4I	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
Bse1I	ACTGG	2 cut(s)	166, 1203
Bse3DI	GCAATG	3 cut(s)	465, 906, 1056
BseBI	CCWGG	1 cut(s)	64
BseGI	GGATG	4 cut(s)	307, 1198, 1340, 1694
BseLI	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
BseMI	GCAATG	3 cut(s)	465, 906, 1056
BseMII	CTCAG	2 cut(s)	64, 714
BseNI	ACTGG	2 cut(s)	166, 1203
BseRI	GAGGAG	1 cut(s)	607
BseXI	GCAGC	6 cut(s)	27, 66, 763, 1285, 1510, 1630
BsiSI	CCGG	1 cut(s)	1180
BslFI	GGGAC	1 cut(s)	1261
BslI	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
BsmAI	GTCTC	6 cut(s)	111, 614, 614, 670, 768, 1536
BsmBI	CGTCTC	2 cut(s)	111, 614
BsmFI	GGGAC	1 cut(s)	1261
Bso31I	GGTCTC	1 cut(s)	768
Bsp143I	GATC	3 cut(s)	970, 1053, 1129
Bsp1720I	GCTNAGC	1 cut(s)	504
BspACI	CCGC	3 cut(s)	450, 760, 1190
BspCNI	CTCAG	2 cut(s)	63, 715
BspHI	TCATGA	1 cut(s)	178
BspLI	GGNNCC	2 cut(s)	596, 1269
BspMAI	CTGCAG	1 cut(s)	747
BspPI	GGATC	1 cut(s)	1124
BspQI	GCTCTTC	1 cut(s)	958
BspTNI	GGTCTC	1 cut(s)	768
BsrDI	GCAATG	3 cut(s)	465, 906, 1056
BsrI	ACTGG	2 cut(s)	166, 1203
BssMI	GATC	3 cut(s)	970, 1053, 1129
Bst2UI	CCWGG	1 cut(s)	64
Bst4CI	ACNGT	1 cut(s)	625
Bst6I	CTCTTC	3 cut(s)	958, 1416, 1521
BstBAI	YACGTR	2 cut(s)	332, 831
BstC8I	GCNNGC	5 cut(s)	378, 1025, 1126, 1559, 1680
BstDEI	CTNAG	4 cut(s)	50, 504, 723, 1577
BstF5I	GGATG	4 cut(s)	307, 1198, 1340, 1694
BstH2I	RGCGCY	1 cut(s)	18
BstHHI	GCGC	3 cut(s)	17, 382, 1377
BstKTI	GATC	3 cut(s)	973, 1056, 1132
BstMAI	GTCTC	6 cut(s)	111, 614, 614, 670, 768, 1536
BstMBI	GATC	3 cut(s)	970, 1053, 1129
BstMWI	GCNNNNNNNGC	2 cut(s)	21, 905
BstNI	CCWGG	1 cut(s)	64
BstNSI	RCATGY	3 cut(s)	380, 512, 665
BstPAI	GACNNNNGTC	1 cut(s)	606
BstSCI	CCNGG	2 cut(s)	62, 1178
BstSFI	CTRYAG	2 cut(s)	743, 1567
BstSNI	TACGTA	1 cut(s)	831
BstV1I	GCAGC	6 cut(s)	27, 66, 763, 1285, 1510, 1630
BstV2I	GAAGAC	1 cut(s)	162
BtgZI	GCGATG	1 cut(s)	21
BtsCI	GGATG	4 cut(s)	307, 1198, 1340, 1694
BtsI	GCAGTG	1 cut(s)	752
BtsIMutI	CAGTG	4 cut(s)	261, 752, 1196, 1483
Cac8I	GCNNGC	5 cut(s)	378, 1025, 1126, 1559, 1680
CaiI	CAGNNNCTG	1 cut(s)	751
CciI	TCATGA	1 cut(s)	178
CfoI	GCGC	3 cut(s)	17, 382, 1377
Cfr13I	GGNCC	1 cut(s)	1286
Csp6I	GTAC	2 cut(s)	67, 1514
CviQI	GTAC	2 cut(s)	67, 1514
DdeI	CTNAG	4 cut(s)	50, 504, 723, 1577
DpnI	GATC	3 cut(s)	972, 1055, 1131
DpnII	GATC	3 cut(s)	970, 1053, 1129
Eam1104I	CTCTTC	3 cut(s)	958, 1416, 1521
EarI	CTCTTC	3 cut(s)	958, 1416, 1521
EciI	GGCGGA	1 cut(s)	1205
Eco105I	TACGTA	1 cut(s)	831
Eco31I	GGTCTC	1 cut(s)	768
Eco32I	GATATC	1 cut(s)	1453
Eco47I	GGWCC	1 cut(s)	1286
Eco57I	CTGAAG	1 cut(s)	329
EcoRII	CCWGG	1 cut(s)	62
EcoRV	GATATC	1 cut(s)	1453
Esp3I	CGTCTC	2 cut(s)	111, 614
FalI	AAGNNNNNCTT	4 cut(s)	447, 479, 1613, 1645
FaqI	GGGAC	1 cut(s)	1261
FauNDI	CATATG	1 cut(s)	1294
Fnu4HI	GCNGC	6 cut(s)	41, 55, 777, 1299, 1499, 1644
FokI	GGATG	3 cut(s)	314, 1205, 1347
Fsp4HI	GCNGC	6 cut(s)	41, 55, 777, 1299, 1499, 1644
FspBI	CTAG	4 cut(s)	959, 1383, 1502, 1683
GlaI	GCGC	3 cut(s)	16, 381, 1376
GluI	GCNGC	6 cut(s)	41, 55, 777, 1299, 1499, 1644
GsuI	CTGGAG	1 cut(s)	1220
HaeII	RGCGCY	1 cut(s)	18
HapII	CCGG	1 cut(s)	1180
HhaI	GCGC	3 cut(s)	17, 382, 1377
Hin6I	GCGC	3 cut(s)	15, 380, 1375
HinP1I	GCGC	3 cut(s)	15, 380, 1375
HinfI	GANTC	3 cut(s)	284, 816, 1529
HpaII	CCGG	1 cut(s)	1180
HphI	GGTGA	5 cut(s)	74, 84, 191, 464, 887
Hpy166II	GTNNAC	3 cut(s)	1096, 1289, 1481
Hpy188I	TCNGA	7 cut(s)	348, 689, 732, 975, 1334, 1450, 1700
Hpy188III	TCNNGA	7 cut(s)	179, 611, 667, 923, 950, 1105, 1383
Hpy8I	GTNNAC	3 cut(s)	1096, 1289, 1481
Hpy99I	CGWCG	2 cut(s)	323, 1653
HpyAV	CCTTC	6 cut(s)	95, 198, 271, 349, 796, 1003
HpyCH4III	ACNGT	1 cut(s)	625
HpyCH4IV	ACGT	3 cut(s)	331, 607, 830
HpyF10VI	GCNNNNNNNGC	2 cut(s)	21, 905
HpyF3I	CTNAG	4 cut(s)	50, 504, 723, 1577
HpySE526I	ACGT	3 cut(s)	331, 607, 830
HspAI	GCGC	3 cut(s)	15, 380, 1375
Kzo9I	GATC	3 cut(s)	970, 1053, 1129
LguI	GCTCTTC	1 cut(s)	958
LmnI	GCTCC	1 cut(s)	594
Lsp1109I	GCAGC	6 cut(s)	27, 66, 763, 1285, 1510, 1630
LweI	GCATC	4 cut(s)	561, 973, 1183, 1416
MaeI	CTAG	4 cut(s)	959, 1383, 1502, 1683
MaeII	ACGT	3 cut(s)	331, 607, 830
MaeIII	GTNAC	3 cut(s)	216, 941, 1580
MalI	GATC	3 cut(s)	972, 1055, 1131
MboI	GATC	3 cut(s)	970, 1053, 1129
MlyI	GAGTC	1 cut(s)	1538
MmeI	TCCRAC	2 cut(s)	690, 1312
MseI	TTAA	9 cut(s)	123, 311, 474, 486, 561, 792, 1173, 1220, 1638
MslI	CAYNNNNRTG	1 cut(s)	144
MspA1I	CMGCKG	1 cut(s)	760
MspI	CCGG	1 cut(s)	1180
MspR9I	CCNGG	2 cut(s)	64, 1180
MvaI	CCWGG	1 cut(s)	64
MwoI	GCNNNNNNNGC	2 cut(s)	21, 905
NciI	CCSGG	1 cut(s)	1180
NdeI	CATATG	1 cut(s)	1294
NdeII	GATC	3 cut(s)	970, 1053, 1129
NlaIV	GGNNCC	2 cut(s)	596, 1269
NmeAIII	GCCGAG	1 cut(s)	674
NspI	RCATGY	3 cut(s)	380, 512, 665
PaeI	GCATGC	1 cut(s)	380
PagI	TCATGA	1 cut(s)	178
PciI	ACATGT	1 cut(s)	661
PciSI	GCTCTTC	1 cut(s)	958
PfeI	GAWTC	2 cut(s)	284, 816
PflFI	GACNNNGTC	1 cut(s)	625
PkrI	GCNGC	6 cut(s)	42, 56, 778, 1300, 1500, 1645
PleI	GAGTC	1 cut(s)	1537
PpsI	GAGTC	1 cut(s)	1537
Ppu21I	YACGTR	2 cut(s)	332, 831
PscI	ACATGT	1 cut(s)	661
PshAI	GACNNNNGTC	1 cut(s)	606
PsiI	TTATAA	2 cut(s)	1359, 1620
Psp6I	CCWGG	1 cut(s)	62
PspGI	CCWGG	1 cut(s)	62
PspN4I	GGNNCC	2 cut(s)	596, 1269
PspPI	GGNCC	1 cut(s)	1286
PstI	CTGCAG	1 cut(s)	747
PstNI	CAGNNNCTG	1 cut(s)	751
PsyI	GACNNNGTC	1 cut(s)	625
RsaI	GTAC	2 cut(s)	68, 1515
RsaNI	GTAC	2 cut(s)	67, 1514
RseI	CAYNNNNRTG	1 cut(s)	144
SapI	GCTCTTC	1 cut(s)	958
SaqAI	TTAA	9 cut(s)	123, 311, 474, 486, 561, 792, 1173, 1220, 1638
SatI	GCNGC	6 cut(s)	41, 55, 777, 1299, 1499, 1644
Sau3AI	GATC	3 cut(s)	970, 1053, 1129
Sau96I	GGNCC	1 cut(s)	1286
SchI	GAGTC	1 cut(s)	1538
ScrFI	CCNGG	2 cut(s)	64, 1180
SfaNI	GCATC	4 cut(s)	561, 973, 1183, 1416
SfcI	CTRYAG	2 cut(s)	743, 1567
SinI	GGWCC	1 cut(s)	1286
SmiMI	CAYNNNNRTG	1 cut(s)	144
SmlI	CTYRAG	1 cut(s)	950
SmoI	CTYRAG	1 cut(s)	950
SnaBI	TACGTA	1 cut(s)	831
SphI	GCATGC	1 cut(s)	380
SsiI	CCGC	3 cut(s)	450, 760, 1190
SspI	AATATT	1 cut(s)	1081
SspMI	CTAG	4 cut(s)	959, 1383, 1502, 1683
StyD4I	CCNGG	2 cut(s)	62, 1178
TaaI	ACNGT	1 cut(s)	625
TaiI	ACGT	3 cut(s)	334, 610, 833
TaqI	TCGA	8 cut(s)	384, 612, 629, 668, 857, 1115, 1225, 1455
TatI	WGTACW	1 cut(s)	1513
TfiI	GAWTC	2 cut(s)	284, 816
Tru1I	TTAA	9 cut(s)	123, 311, 474, 486, 561, 792, 1173, 1220, 1638
Tru9I	TTAA	9 cut(s)	123, 311, 474, 486, 561, 792, 1173, 1220, 1638
TscAI	CASTG	4 cut(s)	268, 752, 1203, 1483
TseI	GCWGC	6 cut(s)	40, 54, 776, 1298, 1498, 1643
TspDTI	ATGAA	7 cut(s)	9, 77, 156, 503, 1022, 1054, 1101
TspRI	CASTG	4 cut(s)	268, 752, 1203, 1483
Tth111I	GACNNNGTC	1 cut(s)	625
VpaK11BI	GGWCC	1 cut(s)	1286
XapI	RAATTY	4 cut(s)	152, 234, 781, 1671
XbaI	TCTAGA	1 cut(s)	1382
XceI	RCATGY	3 cut(s)	380, 512, 665
XspI	CTAG	4 cut(s)	959, 1383, 1502, 1683

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