Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0012695

Physical Location & Seq

Genomic Coordinates Reverse (-)

19017327 .. 19034915

Gene Structure 17589 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG208200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGAGAAGTGCTGGGGAGAGCGCGAACCAGTTTGCATTTGCAAGTGTCATCAGAGCTTGTGCGGTTCTTGGGTCGGTTGAGACTGGGAGGCAGCTGCATTCTCTTGCTTTGAAATTGGGCTTGGCTTGTGAGCTGTTTGTGGGTAGTAACTTGGCGGATATGTATTCGAATTGTGGGTTCATGGTTGAGGCTTGTAAGGTTTTCGAGGCAATGGCGAGTAAGGATGCTGTGTCGTGGACTTCGATGATTGATGGGTATGCAAAGAGTTGGGATTTTGAGTCAGCTTTACTGAGTTATCAGAGGATGATTAATGATGGGATTGGAGTAGATAAATATGTTGTTTCTAGTGCATTGAGTGCTTGTTCTGCACCGAAGGCTTGTCAGTTTGGAAAGTGTGTTCATTCGACGGTTGTGAAGTTAGGATTGGAAGTAGAGGTTGCTGTGGGAAATGCTCTGGTTGATATGTACTCGAAATCAGGTGATATGGAGAGTGCTTTAAATGTGTTTCGGGTTGACCCTGAGAGTAGAAATATTGTGTCGTATTCCTCTCTGATCAATGGTTATGTCGAGATGGATGAAATCGAGAAGGCTTTTAGTGTGTTTGTTGACTTACAGAGGGGGAGAGTTGAGCCTAATCAGTTCACTTTCTCTAGCTTGATCAAGGCTTGTGCCAACCAAGCTGCACTTGAACAAGGGATCCAACTTCATGCTCAGTTGATGAGTGGAAAAGCAACTTCTGGTTCTGGAAATGATGGAGCTTCACAAAGTGCTGAAAGTGGCAGCGAGGGTTCATCAGATGGAAGCGCGGAGAATGGTAACCACCAGGAGTATGGTGCAAACAAGAAGGGAAGCTTTGACAAGATGCTTGCAGATGGAGCAAATGCACAAAATAACACAGCTTTAGTGCCTGGGAAGCCTGTAGTTTCTTTGCCTGCAACTAGTCTGAATATGGGAATGGACTTGTGGAATGCATCCCCCGCTGGTGCTGGAACTGCAAAAATGAGAGGAAATCAATCTGGAGCCCCATCCGCTGTCGGTGGTGACCATTGGATTCAGGGAGCTTTGGACGGTGGCTTGGATATTCCACACAGTGATAAGAGGTTTGCTGGTTTCTCCAAGGACAACAAGCAGCTTGATGCTGAGGTACATCGCAAGTATATCTATGGTGGCCATGTTGCTGCATAA

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

DYW_deaminase PPR PPR_2

Protein Analysis

394

Amino Acids

41.46

Weight (kDa)

5.33

Isoelectric Point (pI)

33.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	77 - 107	4.4e-06	PPR repeat
PPR_long	PF17177	83 - 227	3.1e-06	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	176 - 225	1.2e-13	PPR repeat family
PPR_3	PF13812	177 - 225	3.1e-06	Pentatricopeptide repeat domain

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: OG0012695)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr6g0312351
rosa_laevigata	RLG00000000806 RLG00000006339 RLG00000008831 RLG00000009044 RLG00000013629 RLG00000014584 RLG00000024875 RLG00000028857 RLG00000033409
rosa_roxburghii	Rroxscaffold_2G00155440
rosa_samantha	Rh1BG165800 Rh1DG034700 Rh1DG196400 Rh2BG154200 Rh3AG184100 Rh3BG211700 Rh3CG208200 Rh6AG512300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	23, 806
AciI	CCGC	5 cut(s)	62, 155, 806, 978, 1029
AclWI	GGATC	2 cut(s)	691, 704
AcoI	YGGCCR	1 cut(s)	1168
AdeI	CACNNNGTG	2 cut(s)	767, 1091
AfaI	GTAC	2 cut(s)	467, 1146
AgsI	TTSAA	2 cut(s)	112, 689
AhlI	ACTAGT	1 cut(s)	938
AjnI	CCWGG	2 cut(s)	822, 907
AjuI	GAANNNNNNNTTGG	4 cut(s)	104, 136, 407, 439
AloI	GAACNNNNNNTCC	4 cut(s)	381, 413, 681, 713
Alw26I	GTCTC	1 cut(s)	74
AlwI	GGATC	2 cut(s)	691, 704
AoxI	GGCC	1 cut(s)	1168
ApeKI	GCWGC	6 cut(s)	91, 94, 680, 780, 1129, 1178
AseI	ATTAAT	1 cut(s)	309
AspLEI	GCGC	2 cut(s)	23, 806
AsuHPI	GGTGA	2 cut(s)	491, 1052
AsuII	TTCGAA	1 cut(s)	167
BalI	TGGCCA	1 cut(s)	1170
BamHI	GGATCC	1 cut(s)	696
BanII	GRGCYC	1 cut(s)	1024
BbvCI	CCTCAGC	1 cut(s)	1140
BbvI	GCAGC	6 cut(s)	81, 103, 667, 792, 1141, 1165
BccI	CCATC	7 cut(s)	245, 308, 565, 746, 791, 866, 1033
BciT130I	CCWGG	2 cut(s)	824, 909
BclI	TGATCA	2 cut(s)	552, 657
BcoDI	GTCTC	1 cut(s)	74
BcuI	ACTAGT	1 cut(s)	938
BfaI	CTAG	3 cut(s)	345, 651, 939
BfmI	CTRYAG	1 cut(s)	918
BisI	GCNGC	6 cut(s)	92, 95, 681, 781, 1130, 1179
BlsI	GCNGC	6 cut(s)	93, 96, 682, 782, 1131, 1180
Bme1390I	CCNGG	2 cut(s)	824, 909
BmiI	GGNNCC	2 cut(s)	698, 1021
BmrFI	CCNGG	2 cut(s)	824, 909
BmrI	ACTGGG	1 cut(s)	93
BmsI	GCATC	4 cut(s)	214, 852, 980, 1126
BmuI	ACTGGG	1 cut(s)	93
BpmI	CTGGAG	1 cut(s)	1038
Bpu10I	CCTNAGC	1 cut(s)	1140
Bpu14I	TTCGAA	1 cut(s)	167
BsaJI	CCNNGG	2 cut(s)	908, 1116
Bse1I	ACTGG	2 cut(s)	28, 88
Bse3DI	GCAATG	1 cut(s)	216
BseBI	CCWGG	2 cut(s)	824, 909
BseDI	CCNNGG	2 cut(s)	908, 1116
BseGI	GGATG	5 cut(s)	229, 309, 580, 971, 1025
BseMI	GCAATG	1 cut(s)	216
BseMII	CTCAG	4 cut(s)	281, 510, 725, 1131
BseNI	ACTGG	2 cut(s)	28, 88
BseXI	GCAGC	6 cut(s)	81, 103, 667, 792, 1141, 1165
BseYI	CCCAGC	1 cut(s)	11
BsgI	GTGCAG	2 cut(s)	351, 666
Bsh1236I	CGCG	2 cut(s)	23, 806
BshFI	GGCC	1 cut(s)	1170
BsmAI	GTCTC	1 cut(s)	74
BsmI	GAATGC	2 cut(s)	97, 973
BsnI	GGCC	1 cut(s)	1170
Bsp119I	TTCGAA	1 cut(s)	167
Bsp1286I	GDGCHC	1 cut(s)	1024
Bsp143I	GATC	3 cut(s)	552, 657, 696
BspACI	CCGC	5 cut(s)	62, 155, 806, 978, 1029
BspANI	GGCC	1 cut(s)	1170
BspCNI	CTCAG	4 cut(s)	282, 511, 724, 1132
BspFNI	CGCG	2 cut(s)	23, 806
BspLI	GGNNCC	2 cut(s)	698, 1021
BspPI	GGATC	2 cut(s)	691, 704
BspT104I	TTCGAA	1 cut(s)	167
BsrDI	GCAATG	1 cut(s)	216
BsrI	ACTGG	2 cut(s)	28, 88
BssECI	CCNNGG	2 cut(s)	908, 1116
BssMI	GATC	3 cut(s)	552, 657, 696
BssT1I	CCWWGG	1 cut(s)	1116
Bst2UI	CCWGG	2 cut(s)	824, 909
Bst4CI	ACNGT	3 cut(s)	409, 1070, 1091
BstAPI	GCANNNNNTGC	1 cut(s)	356
BstBI	TTCGAA	1 cut(s)	167
BstC8I	GCNNGC	2 cut(s)	867, 933
BstDEI	CTNAG	4 cut(s)	290, 519, 711, 1140
BstEII	GGTNACC	2 cut(s)	815, 1040
BstF5I	GGATG	5 cut(s)	229, 309, 580, 971, 1025
BstFNI	CGCG	2 cut(s)	23, 806
BstHHI	GCGC	2 cut(s)	23, 806
BstKTI	GATC	3 cut(s)	555, 660, 699
BstMAI	GTCTC	1 cut(s)	74
BstMBI	GATC	3 cut(s)	552, 657, 696
BstMWI	GCNNNNNNNGC	9 cut(s)	356, 365, 374, 677, 875, 913, 977, 992, 1028
BstNI	CCWGG	2 cut(s)	824, 909
BstPI	GGTNACC	2 cut(s)	815, 1040
BstSCI	CCNGG	2 cut(s)	822, 907
BstSFI	CTRYAG	1 cut(s)	918
BstUI	CGCG	2 cut(s)	23, 806
BstV1I	GCAGC	6 cut(s)	81, 103, 667, 792, 1141, 1165
BstX2I	RGATCY	1 cut(s)	696
BstXI	CCANNNNNNTGG	1 cut(s)	830
BstYI	RGATCY	1 cut(s)	696
BsuRI	GGCC	1 cut(s)	1170
BtgZI	GCGATG	1 cut(s)	1133
BtsCI	GGATG	5 cut(s)	229, 309, 580, 971, 1025
BtsIMutI	CAGTG	1 cut(s)	1096
Cac8I	GCNNGC	2 cut(s)	867, 933
CfoI	GCGC	2 cut(s)	23, 806
Csp6I	GTAC	2 cut(s)	466, 1145
CviAII	CATG	3 cut(s)	181, 707, 1172
CviQI	GTAC	2 cut(s)	466, 1145
DdeI	CTNAG	4 cut(s)	290, 519, 711, 1140
DpnI	GATC	3 cut(s)	554, 659, 698
DpnII	GATC	3 cut(s)	552, 657, 696
DraI	TTTAAA	1 cut(s)	498
DraIII	CACNNNGTG	2 cut(s)	767, 1091
EaeI	YGGCCR	1 cut(s)	1168
EciI	GGCGGA	1 cut(s)	170
Eco130I	CCWWGG	1 cut(s)	1116
Eco24I	GRGCYC	1 cut(s)	1024
Eco91I	GGTNACC	2 cut(s)	815, 1040
EcoO65I	GGTNACC	2 cut(s)	815, 1040
EcoRII	CCWGG	2 cut(s)	822, 907
EcoT14I	CCWWGG	1 cut(s)	1116
EcoT22I	ATGCAT	1 cut(s)	973
EcoT38I	GRGCYC	1 cut(s)	1024
ErhI	CCWWGG	1 cut(s)	1116
FaeI	CATG	3 cut(s)	184, 710, 1175
FalI	AAGNNNNNCTT	4 cut(s)	669, 701, 836, 868
FatI	CATG	3 cut(s)	180, 706, 1171
FauI	CCCGC	1 cut(s)	985
FbaI	TGATCA	2 cut(s)	552, 657
Fnu4HI	GCNGC	6 cut(s)	92, 95, 681, 781, 1130, 1179
FokI	GGATG	5 cut(s)	236, 316, 587, 958, 1012
FriOI	GRGCYC	1 cut(s)	1024
Fsp4HI	GCNGC	6 cut(s)	92, 95, 681, 781, 1130, 1179
FspBI	CTAG	3 cut(s)	345, 651, 939
GlaI	GCGC	2 cut(s)	22, 805
GluI	GCNGC	6 cut(s)	92, 95, 681, 781, 1130, 1179
GsaI	CCCAGC	1 cut(s)	15
GsuI	CTGGAG	1 cut(s)	1038
HaeIII	GGCC	1 cut(s)	1170
HhaI	GCGC	2 cut(s)	23, 806
Hin1II	CATG	3 cut(s)	184, 710, 1175
Hin6I	GCGC	2 cut(s)	21, 804
HinP1I	GCGC	2 cut(s)	21, 804
HincII	GTYRAC	2 cut(s)	514, 607
HindII	GTYRAC	2 cut(s)	514, 607
HindIII	AAGCTT	1 cut(s)	850
HinfI	GANTC	2 cut(s)	278, 1051
HphI	GGTGA	2 cut(s)	491, 1052
Hpy166II	GTNNAC	4 cut(s)	237, 514, 607, 642
Hpy188I	TCNGA	5 cut(s)	53, 300, 552, 796, 945
Hpy188III	TCNNGA	4 cut(s)	568, 583, 744, 1017
Hpy8I	GTNNAC	4 cut(s)	237, 514, 607, 642
Hpy99I	CGWCG	1 cut(s)	409
HpyAV	CCTTC	3 cut(s)	367, 580, 838
HpyCH4III	ACNGT	3 cut(s)	409, 1070, 1091
HpyF10VI	GCNNNNNNNGC	9 cut(s)	356, 365, 374, 677, 875, 913, 977, 992, 1028
HpyF3I	CTNAG	4 cut(s)	290, 519, 711, 1140
Hsp92II	CATG	3 cut(s)	184, 710, 1175
HspAI	GCGC	2 cut(s)	21, 804
Ksp22I	TGATCA	2 cut(s)	552, 657
Kzo9I	GATC	3 cut(s)	552, 657, 696
LmnI	GCTCC	4 cut(s)	755, 875, 1019, 1058
Lsp1109I	GCAGC	6 cut(s)	81, 103, 667, 792, 1141, 1165
LweI	GCATC	4 cut(s)	214, 852, 980, 1126
MaeI	CTAG	3 cut(s)	345, 651, 939
MaeIII	GTNAC	3 cut(s)	146, 815, 1040
MalI	GATC	3 cut(s)	554, 659, 698
MboI	GATC	3 cut(s)	552, 657, 696
MflI	RGATCY	1 cut(s)	696
MhlI	GDGCHC	1 cut(s)	1024
MlsI	TGGCCA	1 cut(s)	1170
MluCI	AATT	2 cut(s)	113, 169
MluNI	TGGCCA	1 cut(s)	1170
MlyI	GAGTC	1 cut(s)	287
MmeI	TCCRAC	1 cut(s)	724
Mox20I	TGGCCA	1 cut(s)	1170
Mph1103I	ATGCAT	1 cut(s)	973
MscI	TGGCCA	1 cut(s)	1170
MseI	TTAA	2 cut(s)	309, 497
Msp20I	TGGCCA	1 cut(s)	1170
MspA1I	CMGCKG	3 cut(s)	94, 980, 1031
MspR9I	CCNGG	2 cut(s)	824, 909
Mva1269I	GAATGC	2 cut(s)	97, 973
MvaI	CCWGG	2 cut(s)	824, 909
MvnI	CGCG	2 cut(s)	23, 806
MwoI	GCNNNNNNNGC	9 cut(s)	356, 365, 374, 677, 875, 913, 977, 992, 1028
NdeII	GATC	3 cut(s)	552, 657, 696
NlaIII	CATG	3 cut(s)	184, 710, 1175
NlaIV	GGNNCC	2 cut(s)	698, 1021
NmuCI	GTSAC	1 cut(s)	1040
NsiI	ATGCAT	1 cut(s)	973
NspV	TTCGAA	1 cut(s)	167
PcsI	WCGNNNNNNNCGW	1 cut(s)	239
PctI	GAATGC	2 cut(s)	97, 973
PfeI	GAWTC	1 cut(s)	1051
PkrI	GCNGC	6 cut(s)	93, 96, 682, 782, 1131, 1180
PleI	GAGTC	1 cut(s)	286
PpsI	GAGTC	1 cut(s)	286
PshBI	ATTAAT	1 cut(s)	309
Psp6I	CCWGG	2 cut(s)	822, 907
PspEI	GGTNACC	2 cut(s)	815, 1040
PspFI	CCCAGC	1 cut(s)	11
PspGI	CCWGG	2 cut(s)	822, 907
PspN4I	GGNNCC	2 cut(s)	698, 1021
PsuI	RGATCY	1 cut(s)	696
PvuII	CAGCTG	1 cut(s)	94
RsaI	GTAC	2 cut(s)	467, 1146
RsaNI	GTAC	2 cut(s)	466, 1145
SaqAI	TTAA	2 cut(s)	309, 497
SatI	GCNGC	6 cut(s)	92, 95, 681, 781, 1130, 1179
Sau3AI	GATC	3 cut(s)	552, 657, 696
SchI	GAGTC	1 cut(s)	287
ScrFI	CCNGG	2 cut(s)	824, 909
SduI	GDGCHC	1 cut(s)	1024
SfaNI	GCATC	4 cut(s)	214, 852, 980, 1126
SfcI	CTRYAG	1 cut(s)	918
SfuI	TTCGAA	1 cut(s)	167
SpeI	ACTAGT	1 cut(s)	938
Sse9I	AATT	2 cut(s)	113, 169
SsiI	CCGC	5 cut(s)	62, 155, 806, 978, 1029
SspI	AATATT	1 cut(s)	532
SspMI	CTAG	3 cut(s)	345, 651, 939
StyD4I	CCNGG	2 cut(s)	822, 907
StyI	CCWWGG	1 cut(s)	1116
TaaI	ACNGT	3 cut(s)	409, 1070, 1091
TaqI	TCGA	7 cut(s)	167, 204, 242, 404, 470, 567, 582
TasI	AATT	2 cut(s)	113, 169
TatI	WGTACW	1 cut(s)	465
TfiI	GAWTC	1 cut(s)	1051
Tru1I	TTAA	2 cut(s)	309, 497
Tru9I	TTAA	2 cut(s)	309, 497
TscAI	CASTG	1 cut(s)	1096
TseFI	GTSAC	1 cut(s)	1040
TseI	GCWGC	6 cut(s)	91, 94, 680, 780, 1129, 1178
Tsp45I	GTSAC	1 cut(s)	1040
TspDTI	ATGAA	5 cut(s)	169, 389, 591, 695, 780
TspRI	CASTG	1 cut(s)	1096
VspI	ATTAAT	1 cut(s)	309
XcmI	CCANNNNNNNNNTGG	1 cut(s)	827
XspI	CTAG	3 cut(s)	345, 651, 939
Zsp2I	ATGCAT	1 cut(s)	973

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