Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0015461

Physical Location & Seq

Genomic Coordinates Forward (+)

10314470 .. 10315840

Gene Structure 1371 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG115200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1371 bp

ATGGGAAAGATGTCCCCCTCAGTACGTTCACTAGTCTCAACCTCCCTCATCAGAAAGCCACCTTCTTTATCCCCATCTCATAAACCCCATAACTCTCAGACCCACCTCACCAGAAAAACCCCACCTCAAAATTCCGGCAAAACCCAACTCCAAACCCAGACCAAAAACCCATTCACCTCCCCAAACCTCTCAGACGCCAAAAGGGTCTTCAACTCCATCGCCACCGCAACAAAAACCCCTCTCGATCTTCGCGTCCACAACGCCCTCCTCCAATCCTACGCCGCAATCTCCACCGTCAACGACTCCATCGCTCTCTTCAACCACATGATCAAAACCCAACCCGCATTCTCGCCGGACCGGTCCACCTACCACATCTTGCTCGCCCAGTCCTGCACCGTACCCGATCAGACCCTCCAATCTGTTCACCAAGTCCTCAACTTTATGCTCAACAATGGCTTCCACCCAGATAAGGTCACCACCGACATTGCCGTCCGGTCACTCTGCTTGGCCGGACACGTCGACGAGGCAGTGCAAGTGATGAAGCAAATGTCGTTGAAAAACGCGGTACCGGATACTTATACTTACAATTTTCTTGTCAAGTGTCTCTGCAAGTCGAGAGTTTTGAGTACTGTTAAAGAGTTTATTGACGATATGCGAAAGTCTTTCGATTTGAAGCCGGATTTGGTTACTTATACGATTATGATTGACAATGTAGCTAATAGCAAGAATTTACGTGAGGCTAGCCGATTAGTGAAGGAGTTAGATAAGGAGGGGTTTAAGCCGGATTGCTATGTTTACAATACGATTATGAAAGGCTATTGTATGCTGAGTAAGGGTAATGAGGTGGTTCAGGTGTTGAAGGACATGCAGGAGAATGGAGTGGAGCCTGATTTTGTTACATATAATACTCTGATTTTTGGGTTGTCGAAGTGTGGCAGGGTTATGGAGGCGAAGAATTATTTGCGGATCATGGTGGACATGGGGCATTTCCCCAACGAGGTGACTTATACTTCATTGATGAATGGATTGTGTCGGAAGGGGGATGCATTGGGTGCAGTGGCATTGTTGGAGGAGATGCAAGCGCAGGGGTGCAGCCCGAATGAGTGCACCTATAATACCTTGCTTCATGGGTTGTGTAAGGGAAGGTTGTTAGAGAAAGGGCTGGAATTGTATGGACTGATGAAAAAAGATGGGATGAAGCTTGACACGGCTTCGTATAGTACACTTGTGAGGACACTTTGTAGGGCAGGCAGGGTTGCAGACGCTTATGGAGTGTTTGATTATGCAGTTGAGAGTAAGAGCTTAACAAATGTTTCTGCTTACTTGACTTTGGAAAGTACAGTTAAGCAGCTTAAGAAAGCACGACCTTGA

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_1 PPR_2 PPR_3

Protein Analysis

456

Amino Acids

50.77

Weight (kDa)

9.12

Isoelectric Point (pI)

33.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	151 - 184	6.2e-06	PPR repeat
PPR_2	PF13041	166 - 204	4.5e-09	PPR repeat family
PPR_3	PF13812	222 - 273	1.7e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	226 - 274	2.3e-11	PPR repeat family
PPR_3	PF13812	249 - 305	7.6e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	261 - 310	8.1e-14	PPR repeat family
PPR_1	PF12854	292 - 324	2e-09	PPR repeat
PPR_2	PF13041	296 - 345	1.4e-14	PPR repeat family
PPR_long	PF17177	301 - 431	6.6e-11	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	324 - 376	2e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	327 - 360	9.5e-11	PPR repeat
PPR_2	PF13041	331 - 380	2.8e-18	PPR repeat family
PPR	PF01535	334 - 364	1.6e-07	PPR repeat
PPR_1	PF12854	363 - 394	2.1e-08	PPR repeat
PPR_2	PF13041	369 - 415	1.2e-11	PPR repeat family
PPR	PF01535	370 - 398	6.3e-07	PPR repeat
PPR_1	PF12854	397 - 428	3.7e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0015461)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17670 AT2G17670
fragaria_vesca	FvH4_1g10671
malus_domestica	MD02G1120600.v1.1
prunus_persica	Prupe.7G178400_v2.0.a1
rosa_laevigata	RLG00000016739
rosa_multiflora	Rmu_co8429607.1_g000001 Rmu_sc0000974.1_g000027 Rmu_sc0008442.1_g000010
rosa_roxburghii	Rroxscaffold_6G00394240
rosa_rugosa	Rorug02G0068500
rosa_samantha	Rh2AG115200 Rh2BG118100 Rh2CG119700 Rh2DG119400
rosa_wichuraiana	Rw2G009000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	488
Acc65I	GGTACC	1 cut(s)	565
AccB1I	GGYRCC	1 cut(s)	565
AccI	GTMKAC	1 cut(s)	519
AccII	CGCG	2 cut(s)	252, 563
AciI	CCGC	5 cut(s)	225, 282, 342, 563, 964
AclWI	GGATC	1 cut(s)	974
AcoI	YGGCCR	1 cut(s)	507
AcsI	RAATTY	2 cut(s)	130, 727
AcyI	GRCGYC	1 cut(s)	195
AfaI	GTAC	6 cut(s)	24, 399, 567, 628, 1222, 1339
AfiI	CCNNNNNNNGG	2 cut(s)	469, 997
AflII	CTTAAG	1 cut(s)	1352
AflIII	ACRYGT	1 cut(s)	514
AgeI	ACCGGT	1 cut(s)	357
AgsI	TTSAA	5 cut(s)	211, 319, 556, 673, 859
AhlI	ACTAGT	1 cut(s)	31
AjiI	CACGTC	1 cut(s)	517
AjuI	GAANNNNNNNTTGG	6 cut(s)	155, 187, 191, 223, 665, 697
AluBI	AGCT	4 cut(s)	716, 1201, 1302, 1351
AluI	AGCT	4 cut(s)	716, 1201, 1302, 1351
Alw21I	GWGCWC	1 cut(s)	1109
Alw26I	GTCTC	2 cut(s)	40, 608
Alw44I	GTGCAC	1 cut(s)	1105
AlwI	GGATC	1 cut(s)	974
AoxI	GGCC	1 cut(s)	507
ApaLI	GTGCAC	1 cut(s)	1105
ApeKI	GCWGC	2 cut(s)	1092, 1348
ApoI	RAATTY	2 cut(s)	130, 727
AsiGI	ACCGGT	1 cut(s)	357
Asp718I	GGTACC	1 cut(s)	565
AspLEI	GCGC	1 cut(s)	1084
AspS9I	GGNCC	2 cut(s)	355, 360
AsuHPI	GGTGA	5 cut(s)	100, 166, 416, 466, 1012
AsuNHI	GCTAGC	1 cut(s)	740
AvaII	GGWCC	2 cut(s)	355, 360
BaeGI	GKGCMC	1 cut(s)	1109
BanI	GGYRCC	1 cut(s)	565
BbsI	GAAGAC	1 cut(s)	199
Bbv12I	GWGCWC	1 cut(s)	1109
BbvI	GCAGC	2 cut(s)	1104, 1360
BccI	CCATC	4 cut(s)	82, 224, 314, 1184
BceAI	ACGGC	2 cut(s)	473, 1224
BciVI	GTATCC	1 cut(s)	565
BclI	TGATCA	1 cut(s)	327
BcoDI	GTCTC	2 cut(s)	40, 608
BcuI	ACTAGT	1 cut(s)	31
BfaI	CTAG	2 cut(s)	32, 741
BfrI	CTTAAG	1 cut(s)	1352
BfuI	GTATCC	1 cut(s)	565
BisI	GCNGC	3 cut(s)	282, 1093, 1349
BlsI	GCNGC	3 cut(s)	283, 1094, 1350
BmcAI	AGTACT	1 cut(s)	628
Bme18I	GGWCC	2 cut(s)	355, 360
BmgBI	CACGTC	1 cut(s)	517
BmgT120I	GGNCC	2 cut(s)	355, 360
BmiI	GGNNCC	2 cut(s)	567, 885
BmrI	ACTGGG	1 cut(s)	379
BmsI	GCATC	2 cut(s)	1033, 1065
BmtI	GCTAGC	1 cut(s)	744
BmuI	ACTGGG	1 cut(s)	379
BpiI	GAAGAC	1 cut(s)	199
BsaAI	YACGTR	1 cut(s)	734
BsaHI	GRCGYC	1 cut(s)	195
BsaWI	WCCGGW	3 cut(s)	357, 492, 568
Bsc4I	CCNNNNNNNGG	2 cut(s)	469, 997
Bse118I	RCCGGY	1 cut(s)	357
Bse1I	ACTGG	1 cut(s)	385
Bse3DI	GCAATG	1 cut(s)	483
BseGI	GGATG	2 cut(s)	1048, 1200
BseLI	CCNNNNNNNGG	2 cut(s)	469, 997
BseMI	GCAATG	1 cut(s)	483
BseMII	CTCAG	4 cut(s)	33, 110, 204, 818
BseNI	ACTGG	1 cut(s)	385
BseRI	GAGGAG	2 cut(s)	257, 1085
BseSI	GKGCMC	1 cut(s)	1109
BseXI	GCAGC	2 cut(s)	1104, 1360
BsgI	GTGCAG	3 cut(s)	376, 1074, 1111
Bsh1236I	CGCG	2 cut(s)	252, 563
BshFI	GGCC	1 cut(s)	509
BshNI	GGYRCC	1 cut(s)	565
BshTI	ACCGGT	1 cut(s)	357
BsiHKAI	GWGCWC	1 cut(s)	1109
BsiSI	CCGG	8 cut(s)	135, 353, 358, 493, 510, 569, 677, 782
BslI	CCNNNNNNNGG	2 cut(s)	469, 997
BsmAI	GTCTC	2 cut(s)	40, 608
BsmI	GAATGC	1 cut(s)	344
BsnI	GGCC	1 cut(s)	509
Bsp1286I	GDGCHC	1 cut(s)	1109
Bsp143I	GATC	4 cut(s)	244, 327, 403, 966
BspACI	CCGC	5 cut(s)	225, 282, 342, 563, 964
BspANI	GGCC	1 cut(s)	509
BspCNI	CTCAG	4 cut(s)	32, 109, 203, 819
BspFNI	CGCG	2 cut(s)	252, 563
BspLI	GGNNCC	2 cut(s)	567, 885
BspOI	GCTAGC	1 cut(s)	744
BspPI	GGATC	1 cut(s)	974
BspT107I	GGYRCC	1 cut(s)	565
BspTI	CTTAAG	1 cut(s)	1352
BsrDI	GCAATG	1 cut(s)	483
BsrFI	RCCGGY	1 cut(s)	357
BsrI	ACTGG	1 cut(s)	385
BssAI	RCCGGY	1 cut(s)	357
BssMI	GATC	4 cut(s)	244, 327, 403, 966
BssNI	GRCGYC	1 cut(s)	195
Bst4CI	ACNGT	4 cut(s)	295, 397, 631, 1342
Bst6I	CTCTTC	1 cut(s)	320
BstACI	GRCGYC	1 cut(s)	195
BstAFI	CTTAAG	1 cut(s)	1352
BstAPI	GCANNNNNTGC	1 cut(s)	1052
BstBAI	YACGTR	1 cut(s)	734
BstC8I	GCNNGC	4 cut(s)	381, 742, 1080, 1249
BstDEI	CTNAG	4 cut(s)	19, 96, 190, 827
BstEII	GGTNACC	1 cut(s)	472
BstF5I	GGATG	2 cut(s)	1048, 1200
BstFNI	CGCG	2 cut(s)	252, 563
BstHHI	GCGC	1 cut(s)	1084
BstKTI	GATC	4 cut(s)	247, 330, 406, 969
BstMAI	GTCTC	2 cut(s)	40, 608
BstMBI	GATC	4 cut(s)	244, 327, 403, 966
BstMWI	GCNNNNNNNGC	1 cut(s)	1052
BstNSI	RCATGY	1 cut(s)	868
BstPI	GGTNACC	1 cut(s)	472
BstSLI	GKGCMC	1 cut(s)	1109
BstUI	CGCG	2 cut(s)	252, 563
BstV1I	GCAGC	2 cut(s)	1104, 1360
BstV2I	GAAGAC	1 cut(s)	199
BsuI	GTATCC	1 cut(s)	565
BsuRI	GGCC	1 cut(s)	509
BtgZI	GCGATG	2 cut(s)	202, 292
BtrI	CACGTC	1 cut(s)	517
BtsCI	GGATG	2 cut(s)	1048, 1200
BtsI	GCAGTG	2 cut(s)	534, 1062
BtsIMutI	CAGTG	2 cut(s)	534, 1062
Cac8I	GCNNGC	4 cut(s)	381, 742, 1080, 1249
CfoI	GCGC	1 cut(s)	1084
Cfr10I	RCCGGY	1 cut(s)	357
Cfr13I	GGNCC	2 cut(s)	355, 360
CpoI	CGGWCCG	1 cut(s)	355
CseI	GACGC	3 cut(s)	203, 241, 1271
Csp6I	GTAC	6 cut(s)	23, 398, 566, 627, 1221, 1338
CspAI	ACCGGT	1 cut(s)	357
CspCI	CAANNNNNGTGG	2 cut(s)	466, 501
CspI	CGGWCCG	1 cut(s)	355
CviAII	CATG	5 cut(s)	325, 865, 970, 979, 1127
CviQI	GTAC	6 cut(s)	23, 398, 566, 627, 1221, 1338
DdeI	CTNAG	4 cut(s)	19, 96, 190, 827
DpnI	GATC	4 cut(s)	246, 329, 405, 968
DpnII	GATC	4 cut(s)	244, 327, 403, 966
DrdI	GACNNNNNNGTC	1 cut(s)	488
DseDI	GACNNNNNNGTC	1 cut(s)	488
EaeI	YGGCCR	1 cut(s)	507
Eam1104I	CTCTTC	1 cut(s)	320
EarI	CTCTTC	1 cut(s)	320
Eco47I	GGWCC	2 cut(s)	355, 360
Eco91I	GGTNACC	1 cut(s)	472
EcoO65I	GGTNACC	1 cut(s)	472
EcoT22I	ATGCAT	1 cut(s)	1048
FaeI	CATG	5 cut(s)	328, 868, 973, 982, 1130
FatI	CATG	5 cut(s)	324, 864, 969, 978, 1126
FauI	CCCGC	1 cut(s)	349
FbaI	TGATCA	1 cut(s)	327
FblI	GTMKAC	1 cut(s)	519
Fnu4HI	GCNGC	3 cut(s)	282, 1093, 1349
FokI	GGATG	2 cut(s)	1055, 1207
Fsp4HI	GCNGC	3 cut(s)	282, 1093, 1349
FspBI	CTAG	2 cut(s)	32, 741
GlaI	GCGC	1 cut(s)	1083
GluI	GCNGC	3 cut(s)	282, 1093, 1349
HaeIII	GGCC	1 cut(s)	509
HapII	CCGG	8 cut(s)	135, 353, 358, 493, 510, 569, 677, 782
HgaI	GACGC	3 cut(s)	203, 241, 1271
HhaI	GCGC	1 cut(s)	1084
Hin1I	GRCGYC	1 cut(s)	195
Hin1II	CATG	5 cut(s)	328, 868, 973, 982, 1130
Hin6I	GCGC	1 cut(s)	1082
HinP1I	GCGC	1 cut(s)	1082
HincII	GTYRAC	2 cut(s)	298, 520
HindII	GTYRAC	2 cut(s)	298, 520
HindIII	AAGCTT	1 cut(s)	1199
HinfI	GANTC	1 cut(s)	302
HpaII	CCGG	8 cut(s)	135, 353, 358, 493, 510, 569, 677, 782
HphI	GGTGA	5 cut(s)	100, 166, 416, 466, 1012
Hpy188I	TCNGA	6 cut(s)	53, 99, 193, 408, 912, 1035
Hpy188III	TCNNGA	2 cut(s)	242, 615
Hpy99I	CGWCG	2 cut(s)	521, 524
HpyAV	CCTTC	5 cut(s)	72, 748, 853, 1030, 1137
HpyCH4III	ACNGT	4 cut(s)	295, 397, 631, 1342
HpyCH4IV	ACGT	3 cut(s)	25, 516, 733
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1052
HpyF3I	CTNAG	4 cut(s)	19, 96, 190, 827
HpySE526I	ACGT	3 cut(s)	25, 516, 733
Hsp92I	GRCGYC	1 cut(s)	195
Hsp92II	CATG	5 cut(s)	328, 868, 973, 982, 1130
HspAI	GCGC	1 cut(s)	1082
KpnI	GGTACC	1 cut(s)	569
Ksp22I	TGATCA	1 cut(s)	327
Kzo9I	GATC	4 cut(s)	244, 327, 403, 966
LmnI	GCTCC	1 cut(s)	883
Lsp1109I	GCAGC	2 cut(s)	1104, 1360
LweI	GCATC	2 cut(s)	1033, 1065
MaeI	CTAG	2 cut(s)	32, 741
MaeII	ACGT	3 cut(s)	25, 516, 733
MaeIII	GTNAC	5 cut(s)	472, 495, 685, 895, 1000
MalI	GATC	4 cut(s)	246, 329, 405, 968
MboI	GATC	4 cut(s)	244, 327, 403, 966
MboII	GAAGA	4 cut(s)	199, 239, 307, 964
MhlI	GDGCHC	1 cut(s)	1109
MluCI	AATT	5 cut(s)	130, 586, 727, 955, 1166
MlyI	GAGTC	1 cut(s)	296
MmeI	TCCRAC	2 cut(s)	1013, 1047
Mph1103I	ATGCAT	1 cut(s)	1048
MseI	TTAA	5 cut(s)	633, 777, 1304, 1344, 1353
MspCI	CTTAAG	1 cut(s)	1352
MspI	CCGG	8 cut(s)	135, 353, 358, 493, 510, 569, 677, 782
Mva1269I	GAATGC	1 cut(s)	344
MvnI	CGCG	2 cut(s)	252, 563
MwoI	GCNNNNNNNGC	1 cut(s)	1052
NdeII	GATC	4 cut(s)	244, 327, 403, 966
NheI	GCTAGC	1 cut(s)	740
NlaIII	CATG	5 cut(s)	328, 868, 973, 982, 1130
NlaIV	GGNNCC	2 cut(s)	567, 885
NmuCI	GTSAC	3 cut(s)	472, 495, 1000
NsiI	ATGCAT	1 cut(s)	1048
NspI	RCATGY	1 cut(s)	868
PcsI	WCGNNNNNNNCGW	1 cut(s)	249
PctI	GAATGC	1 cut(s)	344
PinAI	ACCGGT	1 cut(s)	357
PkrI	GCNGC	3 cut(s)	283, 1094, 1350
PleI	GAGTC	1 cut(s)	296
PpsI	GAGTC	1 cut(s)	296
Ppu21I	YACGTR	1 cut(s)	734
PspEI	GGTNACC	1 cut(s)	472
PspN4I	GGNNCC	2 cut(s)	567, 885
PspPI	GGNCC	2 cut(s)	355, 360
RsaI	GTAC	6 cut(s)	24, 399, 567, 628, 1222, 1339
RsaNI	GTAC	6 cut(s)	23, 398, 566, 627, 1221, 1338
Rsr2I	CGGWCCG	1 cut(s)	355
RsrII	CGGWCCG	1 cut(s)	355
SalI	GTCGAC	1 cut(s)	518
SaqAI	TTAA	5 cut(s)	633, 777, 1304, 1344, 1353
SatI	GCNGC	3 cut(s)	282, 1093, 1349
Sau3AI	GATC	4 cut(s)	244, 327, 403, 966
Sau96I	GGNCC	2 cut(s)	355, 360
ScaI	AGTACT	1 cut(s)	628
SchI	GAGTC	1 cut(s)	296
SduI	GDGCHC	1 cut(s)	1109
SfaNI	GCATC	2 cut(s)	1033, 1065
SgrDI	CGTCGACG	1 cut(s)	518
SinI	GGWCC	2 cut(s)	355, 360
SmlI	CTYRAG	1 cut(s)	1352
SmoI	CTYRAG	1 cut(s)	1352
SpeI	ACTAGT	1 cut(s)	31
Sse9I	AATT	5 cut(s)	130, 586, 727, 955, 1166
SsiI	CCGC	5 cut(s)	225, 282, 342, 563, 964
SspMI	CTAG	2 cut(s)	32, 741
TaaI	ACNGT	4 cut(s)	295, 397, 631, 1342
TaiI	ACGT	3 cut(s)	28, 519, 736
TaqI	TCGA	5 cut(s)	243, 519, 614, 666, 926
TasI	AATT	5 cut(s)	130, 586, 727, 955, 1166
TatI	WGTACW	3 cut(s)	626, 1220, 1337
TauI	GCSGC	1 cut(s)	284
Tru1I	TTAA	5 cut(s)	633, 777, 1304, 1344, 1353
Tru9I	TTAA	5 cut(s)	633, 777, 1304, 1344, 1353
TscAI	CASTG	2 cut(s)	534, 1062
TseFI	GTSAC	3 cut(s)	472, 495, 1000
TseI	GCWGC	2 cut(s)	1092, 1348
Tsp45I	GTSAC	3 cut(s)	472, 495, 1000
TspDTI	ATGAA	7 cut(s)	554, 824, 1002, 1034, 1115, 1196, 1211
TspRI	CASTG	2 cut(s)	534, 1062
Vha464I	CTTAAG	1 cut(s)	1352
VneI	GTGCAC	1 cut(s)	1105
VpaK11BI	GGWCC	2 cut(s)	355, 360
XapI	RAATTY	2 cut(s)	130, 727
XceI	RCATGY	1 cut(s)	868
XmiI	GTMKAC	1 cut(s)	519
XspI	CTAG	2 cut(s)	32, 741
ZrmI	AGTACT	1 cut(s)	628
Zsp2I	ATGCAT	1 cut(s)	1048

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