Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0015288

Physical Location & Seq

Genomic Coordinates Reverse (-)

8933149 .. 8934624

Gene Structure 1476 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG111600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1476 bp

ATGGTGAGAACCTCTTCCCTCACACCCAGAAGCAAATTCTTCTTAAGAAAACACAGAAAATGGCCAGTGTCACCCTACAACACCAAATGGCACAACCTCTTCAATCAACACCAAGCACTCCAAACCCTCAAACACTCCCCACTAAACCCACCCCAAAACCTTCTCTCCACACTCATCCACTCTTTCAAAACCTTCAACTCTGACCCAACCCCTGAAGCTTACGACTTTGTCCTCAAAACCCTAACTAAAACCTCACAACTGACCCACATCCCTTCTGTTCTTGACCGCCTTGAATCTGTAGAAAAATTCCACACACCCGAATCGATTTTCGCCAATCTGATTAGATTTTATGGCAGTGCCAATCGAATTGGGGATGCCATTGATGTTTTCTACAGGATTCCCAAGTTCAGGTGTGACCCTTCTGCGGTTTCACTCAATTCTTTGTTGTATGTGCTTTGTGGGAGTAGTGAAGGTCTTAAAATGGTGCCCCAGATTTTGTTGAGCAGCCGAGCTATGGGGATTAGGCTAGAAGAGTCGAGCTTTCGGATTTTAATCACTGCATTGTGTGGAATTGGAAGGGTTGGGTATGCCATTGAGATAATGAAGTGCATGATCAGAAATGGGTATGATTTGGATGTAAAGATTTGCTCTTTGGTGCTGTCATCATTGTGTGAGCAAAAGGGTTTAGCTGGTTTGGAGGTTGTGGGTTTTGTGGAAGAAATGAAGAGAGTTGGGTTTTGTGCTGGGATGATGGACTATTCAAATTTGATTAGGTTTTTGGTGAAAAAGGGGAAGGGTTTGGATGCTTTGAGGGTTTTGGGGAAGATGAAAGTGGAGGGAATGAAGCCTGATGTTGTTTGTTATACCATGGTTTTACATGGGGTTATTGCAGATGGGGATTACAAGAATGCGGATAAGGTGTTCGATGAATTGCTTGTGTTGGGTTTGGTTCCTGATGTTTATACTTACAATGTGTATATAAATGGGTTGTGTAAGCAGAACAATGTGGAAGCTGCAATAAAGATGATTACTTGTATGGAAGAGTTGGGGAGAAAGCCGAATTTGATTACTTATAACATGTTGTTGAAGGCGTTATGTAAGAATGGGGAGCTGGGTCGGGCGAAGGAGCTTGTGAGTGAGATGAACTTAAAGGGTGTTGGGGTAAACTTGCAGACACATAGAATTATGCTGGATGGTCTGTTTTGTAAAGGTGACATTGATGAAGCTTGTATCTTTATGGAGGAAATGTTGGATAAGTTTCTCTGTCGTTGTTGTTCGGCATATGATGATGTTATCTTTGGGTTGTGCCAGAGGGGTTTTGTTTGTAAAGCAATGGATTTGCTGCTGAAAATGGTTGACAAGAATGTTGCGCCTGGGGCAAGAACTTGGGAAGCACTACTTCTTAGCTCAGGAACTGGACCTTGCTTAGTAGAGACTACTTGGACTGGTTTAGTGAACCCAATTGAAGTCGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003725 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031053 GO:0031054 GO:0032296 GO:0034470 GO:0034641 GO:0034660 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 dsrm

Protein Analysis

491

Amino Acids

54.99

Weight (kDa)

8.5

Isoelectric Point (pI)

30.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	238 - 292	7.9e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	253 - 294	1.1e-07	PPR repeat family
PPR_3	PF13812	275 - 327	1.4e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	283 - 332	1.4e-13	PPR repeat family
PPR_3	PF13812	306 - 367	4.2e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	315 - 347	3.8e-09	PPR repeat
PPR_2	PF13041	318 - 367	5.5e-16	PPR repeat family
PPR_long	PF17177	326 - 428	9.4e-06	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	350 - 381	1.9e-10	PPR repeat
PPR_2	PF13041	353 - 400	7.3e-12	PPR repeat family
PPR	PF01535	356 - 386	7.7e-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: OG0015288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38420
fragaria_vesca	FvH4_6g10340
malus_domestica	MD04G1169100.v1.1 MD12G1182800.v1.1
prunus_persica	Prupe.6G287300_v2.0.a1
pyrus_communis	pycom04g14980 pycom12g17160
rosa_laevigata	RLG00000024949
rosa_multiflora	Rmu_sc0001521.1_g000049
rosa_roxburghii	Rroxscaffold_6G00418830
rosa_rugosa	Rorug03G0048500 Rorug03G0048700
rosa_samantha	Rh3BG110100 Rh3CG111600 Rh3DG111700
rosa_wichuraiana	Rw3G009060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1074
AccB1I	GGYRCC	1 cut(s)	484
AciI	CCGC	3 cut(s)	286, 425, 911
AcoI	YGGCCR	1 cut(s)	62
AcsI	RAATTY	4 cut(s)	35, 305, 763, 1060
AcuI	CTGAAG	1 cut(s)	234
AfiI	CCNNNNNNNGG	3 cut(s)	408, 424, 514
AflII	CTTAAG	1 cut(s)	43
AflIII	ACRYGT	1 cut(s)	1077
AgsI	TTSAA	7 cut(s)	103, 187, 196, 293, 762, 1087, 1466
AjnI	CCWGG	1 cut(s)	1372
AloI	GAACNNNNNNTCC	2 cut(s)	905, 937
AluBI	AGCT	9 cut(s)	218, 512, 540, 689, 1013, 1111, 1129, 1226, 1407
AluI	AGCT	9 cut(s)	218, 512, 540, 689, 1013, 1111, 1129, 1226, 1407
Alw26I	GTCTC	1 cut(s)	1427
AlwNI	CAGNNNCTG	1 cut(s)	1415
AoxI	GGCC	1 cut(s)	62
ApeKI	GCWGC	3 cut(s)	504, 1013, 1342
ApoI	RAATTY	4 cut(s)	35, 305, 763, 1060
Asp700I	GAANNNNTTC	1 cut(s)	13
AspLEI	GCGC	1 cut(s)	1372
AspS9I	GGNCC	1 cut(s)	1418
AsuHPI	GGTGA	4 cut(s)	16, 63, 793, 1223
AvaII	GGWCC	1 cut(s)	1418
BaeGI	GKGCMC	1 cut(s)	489
BalI	TGGCCA	1 cut(s)	64
BanI	GGYRCC	1 cut(s)	484
BbvI	GCAGC	3 cut(s)	516, 1000, 1329
BccI	CCATC	3 cut(s)	745, 887, 1187
BciT130I	CCWGG	1 cut(s)	1374
BclI	TGATCA	1 cut(s)	612
BcoDI	GTCTC	1 cut(s)	1427
BfaI	CTAG	1 cut(s)	527
BfmI	CTRYAG	2 cut(s)	297, 391
BfrI	CTTAAG	1 cut(s)	43
BisI	GCNGC	3 cut(s)	505, 1014, 1343
BlsI	GCNGC	3 cut(s)	506, 1015, 1344
Bme1390I	CCNGG	1 cut(s)	1374
Bme18I	GGWCC	1 cut(s)	1418
BmgT120I	GGNCC	1 cut(s)	1418
BmiI	GGNNCC	2 cut(s)	486, 951
BmrFI	CCNGG	1 cut(s)	1374
BmsI	GCATC	2 cut(s)	364, 793
Bpu10I	CCTNAGC	1 cut(s)	1408
Bsa29I	ATCGAT	1 cut(s)	323
BsaBI	GATNNNNATC	1 cut(s)	551
BsaJI	CCNNGG	2 cut(s)	867, 1373
BsaXI	ACNNNNNCTCC	4 cut(s)	149, 179, 1232, 1262
Bsc4I	CCNNNNNNNGG	3 cut(s)	408, 424, 514
Bse1I	ACTGG	3 cut(s)	65, 1420, 1450
Bse3DI	GCAATG	1 cut(s)	1338
Bse8I	GATNNNNATC	1 cut(s)	551
BseBI	CCWGG	1 cut(s)	1374
BseCI	ATCGAT	1 cut(s)	323
BseDI	CCNNGG	2 cut(s)	867, 1373
BseGI	GGATG	7 cut(s)	174, 267, 379, 640, 753, 808, 1198
BseJI	GATNNNNATC	1 cut(s)	551
BseLI	CCNNNNNNNGG	3 cut(s)	408, 424, 514
BseMI	GCAATG	1 cut(s)	1338
BseMII	CTCAG	1 cut(s)	1422
BseNI	ACTGG	3 cut(s)	65, 1420, 1450
BseSI	GKGCMC	1 cut(s)	489
BseXI	GCAGC	3 cut(s)	516, 1000, 1329
BseYI	CCCAGC	2 cut(s)	743, 1111
BshFI	GGCC	1 cut(s)	64
BshNI	GGYRCC	1 cut(s)	484
BshVI	ATCGAT	1 cut(s)	323
BslI	CCNNNNNNNGG	3 cut(s)	408, 424, 514
BsmAI	GTCTC	1 cut(s)	1427
BsmI	GAATGC	1 cut(s)	913
BsnI	GGCC	1 cut(s)	64
Bsp1286I	GDGCHC	1 cut(s)	489
Bsp143I	GATC	1 cut(s)	612
Bsp19I	CCATGG	1 cut(s)	867
BspACI	CCGC	3 cut(s)	286, 425, 911
BspANI	GGCC	1 cut(s)	64
BspCNI	CTCAG	1 cut(s)	1421
BspDI	ATCGAT	1 cut(s)	323
BspLI	GGNNCC	2 cut(s)	486, 951
BspT107I	GGYRCC	1 cut(s)	484
BspTI	CTTAAG	1 cut(s)	43
BsrDI	GCAATG	1 cut(s)	1338
BsrI	ACTGG	3 cut(s)	65, 1420, 1450
BssECI	CCNNGG	2 cut(s)	867, 1373
BssMI	GATC	1 cut(s)	612
BssT1I	CCWWGG	1 cut(s)	867
Bst2UI	CCWGG	1 cut(s)	1374
Bst6I	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
BstAFI	CTTAAG	1 cut(s)	43
BstDEI	CTNAG	3 cut(s)	1403, 1408, 1426
BstDSI	CCRYGG	1 cut(s)	867
BstF5I	GGATG	7 cut(s)	174, 267, 379, 640, 753, 808, 1198
BstHHI	GCGC	1 cut(s)	1372
BstKTI	GATC	1 cut(s)	615
BstMAI	GTCTC	1 cut(s)	1427
BstMBI	GATC	1 cut(s)	612
BstMWI	GCNNNNNNNGC	1 cut(s)	1376
BstNI	CCWGG	1 cut(s)	1374
BstNSI	RCATGY	1 cut(s)	1081
BstSCI	CCNGG	1 cut(s)	1372
BstSFI	CTRYAG	2 cut(s)	297, 391
BstSLI	GKGCMC	1 cut(s)	489
BstV1I	GCAGC	3 cut(s)	516, 1000, 1329
Bsu15I	ATCGAT	1 cut(s)	323
BsuRI	GGCC	1 cut(s)	64
BsuTUI	ATCGAT	1 cut(s)	323
BtgI	CCRYGG	1 cut(s)	867
BtsCI	GGATG	7 cut(s)	174, 267, 379, 640, 753, 808, 1198
BtsI	GCAGTG	2 cut(s)	361, 555
BtsIMutI	CAGTG	3 cut(s)	72, 361, 555
CaiI	CAGNNNCTG	1 cut(s)	1415
CfoI	GCGC	1 cut(s)	1372
Cfr13I	GGNCC	1 cut(s)	1418
ClaI	ATCGAT	1 cut(s)	323
CviAII	CATG	4 cut(s)	610, 868, 878, 1078
DdeI	CTNAG	3 cut(s)	1403, 1408, 1426
DpnI	GATC	1 cut(s)	614
DpnII	GATC	1 cut(s)	612
EaeI	YGGCCR	1 cut(s)	62
Eam1104I	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
EarI	CTCTTC	5 cut(s)	19, 104, 525, 719, 1035
Eco130I	CCWWGG	1 cut(s)	867
Eco47I	GGWCC	1 cut(s)	1418
Eco57I	CTGAAG	1 cut(s)	234
EcoRII	CCWGG	1 cut(s)	1372
EcoT14I	CCWWGG	1 cut(s)	867
ErhI	CCWWGG	1 cut(s)	867
FaeI	CATG	4 cut(s)	613, 871, 881, 1081
FalI	AAGNNNNNCTT	2 cut(s)	1383, 1415
FatI	CATG	4 cut(s)	609, 867, 877, 1077
FauNDI	CATATG	1 cut(s)	1282
FbaI	TGATCA	1 cut(s)	612
Fnu4HI	GCNGC	3 cut(s)	505, 1014, 1343
FokI	GGATG	7 cut(s)	161, 254, 386, 647, 760, 815, 1205
Fsp4HI	GCNGC	3 cut(s)	505, 1014, 1343
FspBI	CTAG	1 cut(s)	527
GlaI	GCGC	1 cut(s)	1371
GluI	GCNGC	3 cut(s)	505, 1014, 1343
GsaI	CCCAGC	2 cut(s)	747, 1115
HaeIII	GGCC	1 cut(s)	64
HhaI	GCGC	1 cut(s)	1372
Hin1II	CATG	4 cut(s)	613, 871, 881, 1081
Hin6I	GCGC	1 cut(s)	1370
HinP1I	GCGC	1 cut(s)	1370
HincII	GTYRAC	1 cut(s)	1357
HindII	GTYRAC	1 cut(s)	1357
HindIII	AAGCTT	2 cut(s)	216, 1224
HinfI	GANTC	4 cut(s)	293, 320, 397, 533
HphI	GGTGA	4 cut(s)	16, 63, 793, 1223
Hpy166II	GTNNAC	3 cut(s)	1165, 1357, 1456
Hpy188I	TCNGA	4 cut(s)	202, 339, 546, 617
Hpy188III	TCNNGA	3 cut(s)	281, 953, 1410
Hpy8I	GTNNAC	3 cut(s)	1165, 1357, 1456
HpyAV	CCTTC	9 cut(s)	170, 202, 282, 429, 464, 570, 787, 1081, 1117
HpyCH4V	TGCA	5 cut(s)	560, 609, 890, 1016, 1171
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1376
HpyF3I	CTNAG	3 cut(s)	1403, 1408, 1426
Hsp92II	CATG	4 cut(s)	613, 871, 881, 1081
HspAI	GCGC	1 cut(s)	1370
Ksp22I	TGATCA	1 cut(s)	612
Kzo9I	GATC	1 cut(s)	612
LmnI	GCTCC	2 cut(s)	1108, 1126
Lsp1109I	GCAGC	3 cut(s)	516, 1000, 1329
LweI	GCATC	2 cut(s)	364, 793
MaeI	CTAG	1 cut(s)	527
MaeIII	GTNAC	3 cut(s)	69, 413, 1211
MalI	GATC	1 cut(s)	614
MboI	GATC	1 cut(s)	612
MboII	GAAGA	8 cut(s)	6, 31, 91, 542, 728, 736, 835, 1052
MfeI	CAATTG	1 cut(s)	1461
MhlI	GDGCHC	1 cut(s)	489
MlsI	TGGCCA	1 cut(s)	64
MluNI	TGGCCA	1 cut(s)	64
MlyI	GAGTC	1 cut(s)	542
MmeI	TCCRAC	1 cut(s)	1230
Mox20I	TGGCCA	1 cut(s)	64
MroXI	GAANNNNTTC	1 cut(s)	13
MscI	TGGCCA	1 cut(s)	64
MseI	TTAA	4 cut(s)	44, 477, 551, 1148
MslI	CAYNNNNRTG	1 cut(s)	667
Msp20I	TGGCCA	1 cut(s)	64
MspCI	CTTAAG	1 cut(s)	43
MspR9I	CCNGG	1 cut(s)	1374
MunI	CAATTG	1 cut(s)	1461
Mva1269I	GAATGC	1 cut(s)	913
MvaI	CCWGG	1 cut(s)	1374
MwoI	GCNNNNNNNGC	1 cut(s)	1376
NcoI	CCATGG	1 cut(s)	867
NdeI	CATATG	1 cut(s)	1282
NdeII	GATC	1 cut(s)	612
NlaIII	CATG	4 cut(s)	613, 871, 881, 1081
NlaIV	GGNNCC	2 cut(s)	486, 951
NmeAIII	GCCGAG	1 cut(s)	533
NmuCI	GTSAC	3 cut(s)	69, 413, 1211
NspI	RCATGY	1 cut(s)	1081
PciI	ACATGT	1 cut(s)	1077
PctI	GAATGC	1 cut(s)	913
PdmI	GAANNNNTTC	1 cut(s)	13
PfeI	GAWTC	3 cut(s)	293, 320, 397
PflFI	GACNNNGTC	1 cut(s)	227
PkrI	GCNGC	3 cut(s)	506, 1015, 1344
PleI	GAGTC	1 cut(s)	541
PpsI	GAGTC	1 cut(s)	541
PscI	ACATGT	1 cut(s)	1077
PsiI	TTATAA	1 cut(s)	1074
Psp6I	CCWGG	1 cut(s)	1372
PspFI	CCCAGC	2 cut(s)	743, 1111
PspGI	CCWGG	1 cut(s)	1372
PspN4I	GGNNCC	2 cut(s)	486, 951
PspPI	GGNCC	1 cut(s)	1418
PstNI	CAGNNNCTG	1 cut(s)	1415
PsyI	GACNNNGTC	1 cut(s)	227
RseI	CAYNNNNRTG	1 cut(s)	667
SaqAI	TTAA	4 cut(s)	44, 477, 551, 1148
SatI	GCNGC	3 cut(s)	505, 1014, 1343
Sau3AI	GATC	1 cut(s)	612
Sau96I	GGNCC	1 cut(s)	1418
SchI	GAGTC	1 cut(s)	542
ScrFI	CCNGG	1 cut(s)	1374
SduI	GDGCHC	1 cut(s)	489
SfaNI	GCATC	2 cut(s)	364, 793
SfcI	CTRYAG	2 cut(s)	297, 391
SinI	GGWCC	1 cut(s)	1418
SmiMI	CAYNNNNRTG	1 cut(s)	667
SmlI	CTYRAG	1 cut(s)	43
SmoI	CTYRAG	1 cut(s)	43
SsiI	CCGC	3 cut(s)	286, 425, 911
SspMI	CTAG	1 cut(s)	527
StyD4I	CCNGG	1 cut(s)	1372
StyI	CCWWGG	1 cut(s)	867
TaqI	TCGA	5 cut(s)	323, 364, 536, 924, 1470
TfiI	GAWTC	3 cut(s)	293, 320, 397
Tru1I	TTAA	4 cut(s)	44, 477, 551, 1148
Tru9I	TTAA	4 cut(s)	44, 477, 551, 1148
TscAI	CASTG	3 cut(s)	72, 361, 562
TseFI	GTSAC	3 cut(s)	69, 413, 1211
TseI	GCWGC	3 cut(s)	504, 1013, 1342
Tsp45I	GTSAC	3 cut(s)	69, 413, 1211
TspDTI	ATGAA	7 cut(s)	617, 737, 842, 857, 942, 1157, 1236
TspRI	CASTG	3 cut(s)	72, 361, 562
Tth111I	GACNNNGTC	1 cut(s)	227
Vha464I	CTTAAG	1 cut(s)	43
VpaK11BI	GGWCC	1 cut(s)	1418
XapI	RAATTY	4 cut(s)	35, 305, 763, 1060
XceI	RCATGY	1 cut(s)	1081
XmnI	GAANNNNTTC	1 cut(s)	13
XspI	CTAG	1 cut(s)	527

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