Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0004713

Physical Location & Seq

Genomic Coordinates Reverse (-)

69530610 .. 69532174

Gene Structure 1565 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG388300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1542 bp

ATGTTGATTTTACCGCGGAGAGCTCGATGGTCATTTCGAGTTCTTCGATCATTTTCTTCCTCTGTTAGCATACCCATTGTAGCTTCATCAACCTCATCTCTGGGTTTCGACTCGTATTTTGAACCCAATACCAGTGACCAAGTATACTCCAACAACCGGAGAATAGGCCACTTTATAAAATCTGGGGATTTGAACAATGCACTCAACGTGTTCGATGAAATGCCTCGGTATGATGTTGTGACATATAACTTGCTTATTTCAGGGCATGGCCGATTTGGGCGTCGAGAACAGGCTTTTCGGCTCTATACTGATATGGTTTCACAAGGAATTAGAGAAAGTGCGTCGACGTTTTCTTCTGTGTTGGGGACTTGTACTGATGCAGGGCTTTATAGAGAAGGGGTTCAAGTTCAGTGCAGGGCGGTGTCTCTTGGGTTTAGCTTGAATATGTATGTGGGGAGCTCCCTGGTAGACCTTTACTTGCGTATGGGGCAAGACAATGTAGCTGTGAAGTTGTTTGATGAGTTGCAGGAGAGAAACTTGGCTGTATGGAATTTGTTGTTACGTGGGTTTTGTGAACTGGGTCGAGTGGATGAGCTGTTTGGGATGTATTATAGGATGAAGTTGGATGGTGTGGATCCAAATGGGCTTAGTTATTGTTATTGGATACGTGCGTGTAGCAATGGGAAGCTTTTGGATGAAGGAAAGCAGCTGCATTGTGGTGTTGTGAAGGAGGGATGGTTGGAATCAAATGTGTTTGTTGCCAATGCTCTGGTGGATTTGTACTCTGCTTGTGGGAGTTTGATTGATGCAAGAGAAGCATTTGAAGCTATTCCAGTGGAGGATGTGATTTCGTGGAATTCGATTATTTGGGTCTATACCGAAAATGGTTTGCTGCTTGATGGTCTTGAGTTATTTGCTAGGATGCAGTTTTGGGGGAAGAGGCCATCCATCCGTTCATTTGTTGGGTTTTTGAATTTGGCTAGTAGGATTCAGAATATTCAACTTGGGAAGCAGATACACTCTTATGTTGTGAAATCGGGTTTTGATCATGATGCAAGTTTTCATATTCAATCTGCTCTGATAGATATGTATGGGAAATGCAGTGACATTGAGAGTTCAGTGTTCATATATGAAAATGGTCGTGATAGAAATGTGGAGTGTTGCAACTCATTAATGACATCTTTGCTGCACTGTGGTGTTATTGAGGATGTGGTGGAGATGTTTGGTTTGATGGTTGATGAGGGAATTGGTCTTGATGAAGTTACTCTTTCTACGACACTAAAAGCTTTATCAGTATCTGCTTTTGCAAGTTTAGGCAGCTGCAAATTGCTTCATTGTTGTGCAGTAAAGTCAGGTTTTGAATCTGATATTGCTGTTTCGTGTTCACTAATCGAAGCATATGCAAGATGTGGTCATGTCAAGCTTTCCTGCCAGGTTTTTGATGAACTCCCTTCACCAAATGTCATCTGTTTTACATCGATTATCCATGGATATGCCCGAAATGGAATGGGAGGAAATGGTGGCAAAGGGTTTGAAACCTGA

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

Glyco_hydro_28 PPR PPR_2

Protein Analysis

513

Amino Acids

56.97

Weight (kDa)

5.48

Isoelectric Point (pI)

36.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	78 - 124	5.3e-10	PPR repeat family
PPR_2	PF13041	179 - 226	1.6e-07	PPR repeat family

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: OG0004713)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23450 AT1G23460 AT1G23460 AT1G70500
fragaria_vesca	FvH4_4g32840 FvH4_4g32840 FvH4_4g32850
malus_domestica	MD13G1094200.v1.1 MD16G1095500.v1.1
prunus_persica	Prupe.1G251100_v2.0.a1
pyrus_communis	pycom13g08210 pycom16g08140
rosa_chinensis	RchiOBHm_Chr4g0401991 RchiOBHm_Chr4g0441851 RchiOBHm_Chr4g0441861
rosa_laevigata	RLG00000006060
rosa_multiflora	Rmu_co8498447.1_g000001 Rmu_sc0008316.1_g000007 Rmu_sc0008316.1_g000008
rosa_roxburghii	Rroxscaffold_5G00382680
rosa_rugosa	Rorug04G0336700
rosa_samantha	Rh4AG388200 Rh4AG388300 Rh4BG401800 Rh4BG401900 Rh4CG416900 Rh4CG417000 Rh4DG395200 Rh4DG395300
rosa_wichuraiana	Rw4G033510 Rw4G033520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	176
AccI	GTMKAC	3 cut(s)	144, 344, 468
AccII	CGCG	1 cut(s)	16
AciI	CCGC	3 cut(s)	14, 16, 419
AclWI	GGATC	2 cut(s)	629, 642
AcoI	YGGCCR	1 cut(s)	268
AcsI	RAATTY	3 cut(s)	550, 856, 973
AcyI	GRCGYC	1 cut(s)	280
AfaI	GTAC	2 cut(s)	373, 782
AfiI	CCNNNNNNNGG	1 cut(s)	156
AflIII	ACRYGT	1 cut(s)	207
AjnI	CCWGG	2 cut(s)	462, 1431
AleI	CACNNNNGTG	1 cut(s)	1194
Alw21I	GWGCWC	2 cut(s)	25, 461
Alw26I	GTCTC	1 cut(s)	429
AlwI	GGATC	2 cut(s)	629, 642
AlwNI	CAGNNNCTG	1 cut(s)	1298
AoxI	GGCC	3 cut(s)	166, 268, 941
ApeKI	GCWGC	6 cut(s)	706, 709, 892, 1186, 1317, 1320
ApoI	RAATTY	3 cut(s)	550, 856, 973
ArsI	GACNNNNNNTTYG	2 cut(s)	101, 133
AseI	ATTAAT	1 cut(s)	1172
Asp700I	GAANNNNTTC	2 cut(s)	399, 828
AsuHPI	GGTGA	1 cut(s)	1446
BaeI	ACNNNNGTAYC	2 cut(s)	656, 689
BamHI	GGATCC	1 cut(s)	634
BanII	GRGCYC	2 cut(s)	25, 461
Bbv12I	GWGCWC	2 cut(s)	25, 461
BbvI	GCAGC	6 cut(s)	696, 718, 879, 1173, 1307, 1329
BccI	CCATC	7 cut(s)	21, 620, 729, 893, 952, 956, 1225
BcgI	CGANNNNNNTGC	2 cut(s)	1382, 1416
BciT130I	CCWGG	2 cut(s)	464, 1433
BciVI	GTATCC	1 cut(s)	657
BclI	TGATCA	1 cut(s)	1045
BcoDI	GTCTC	1 cut(s)	429
BfaI	CTAG	2 cut(s)	918, 981
BfuI	GTATCC	1 cut(s)	657
BisI	GCNGC	6 cut(s)	707, 710, 893, 1187, 1318, 1321
BlsI	GCNGC	6 cut(s)	708, 711, 894, 1188, 1319, 1322
Bme1390I	CCNGG	2 cut(s)	464, 1433
BmiI	GGNNCC	1 cut(s)	636
BmrFI	CCNGG	2 cut(s)	464, 1433
BmrI	ACTGGG	1 cut(s)	587
BmsI	GCATC	4 cut(s)	367, 796, 912, 1042
BmuI	ACTGGG	1 cut(s)	587
BpuEI	CTTGAG	1 cut(s)	926
Bsa29I	ATCGAT	1 cut(s)	1478
BsaAI	YACGTR	2 cut(s)	563, 668
BsaHI	GRCGYC	1 cut(s)	280
BsaJI	CCNNGG	4 cut(s)	14, 224, 462, 1486
BsaWI	WCCGGW	1 cut(s)	156
BsaXI	ACNNNNNCTCC	2 cut(s)	722, 752
Bsc4I	CCNNNNNNNGG	1 cut(s)	156
Bse1I	ACTGG	3 cut(s)	132, 582, 833
Bse3DI	GCAATG	1 cut(s)	685
BseBI	CCWGG	2 cut(s)	464, 1433
BseCI	ATCGAT	1 cut(s)	1478
BseDI	CCNNGG	4 cut(s)	14, 224, 462, 1486
BseLI	CCNNNNNNNGG	1 cut(s)	156
BseMI	GCAATG	1 cut(s)	685
BseNI	ACTGG	3 cut(s)	132, 582, 833
BseXI	GCAGC	6 cut(s)	696, 718, 879, 1173, 1307, 1329
BsgI	GTGCAG	3 cut(s)	433, 1172, 1362
Bsh1236I	CGCG	1 cut(s)	16
BshFI	GGCC	3 cut(s)	168, 270, 943
BshVI	ATCGAT	1 cut(s)	1478
BsiHKAI	GWGCWC	2 cut(s)	25, 461
BsiSI	CCGG	1 cut(s)	157
BslFI	GGGAC	1 cut(s)	379
BslI	CCNNNNNNNGG	1 cut(s)	156
BsmAI	GTCTC	1 cut(s)	429
BsmFI	GGGAC	1 cut(s)	379
BsnI	GGCC	3 cut(s)	168, 270, 943
Bsp1286I	GDGCHC	2 cut(s)	25, 461
Bsp143I	GATC	3 cut(s)	47, 634, 1045
Bsp19I	CCATGG	1 cut(s)	1486
BspACI	CCGC	3 cut(s)	14, 16, 419
BspANI	GGCC	3 cut(s)	168, 270, 943
BspDI	ATCGAT	1 cut(s)	1478
BspFNI	CGCG	1 cut(s)	16
BspHI	TCATGA	1 cut(s)	1048
BspLI	GGNNCC	1 cut(s)	636
BspPI	GGATC	2 cut(s)	629, 642
BsrDI	GCAATG	1 cut(s)	685
BsrI	ACTGG	3 cut(s)	132, 582, 833
BssECI	CCNNGG	4 cut(s)	14, 224, 462, 1486
BssMI	GATC	3 cut(s)	47, 634, 1045
BssNAI	GTATAC	1 cut(s)	145
BssNI	GRCGYC	1 cut(s)	280
BssT1I	CCWWGG	1 cut(s)	1486
Bst1107I	GTATAC	1 cut(s)	145
Bst2UI	CCWGG	2 cut(s)	464, 1433
Bst4CI	ACNGT	1 cut(s)	1193
Bst6I	CTCTTC	1 cut(s)	932
BstACI	GRCGYC	1 cut(s)	280
BstBAI	YACGTR	2 cut(s)	563, 668
BstDEI	CTNAG	1 cut(s)	647
BstDSI	CCRYGG	2 cut(s)	14, 1486
BstFNI	CGCG	1 cut(s)	16
BstKTI	GATC	3 cut(s)	50, 637, 1048
BstMAI	GTCTC	1 cut(s)	429
BstMBI	GATC	3 cut(s)	47, 634, 1045
BstMWI	GCNNNNNNNGC	3 cut(s)	487, 815, 824
BstNI	CCWGG	2 cut(s)	464, 1433
BstSCI	CCNGG	2 cut(s)	462, 1431
BstUI	CGCG	1 cut(s)	16
BstV1I	GCAGC	6 cut(s)	696, 718, 879, 1173, 1307, 1329
BstX2I	RGATCY	1 cut(s)	634
BstXI	CCANNNNNNTGG	1 cut(s)	769
BstYI	RGATCY	1 cut(s)	634
BstZ17I	GTATAC	1 cut(s)	145
Bsu15I	ATCGAT	1 cut(s)	1478
BsuI	GTATCC	1 cut(s)	657
BsuRI	GGCC	3 cut(s)	168, 270, 943
BsuTUI	ATCGAT	1 cut(s)	1478
BtgI	CCRYGG	2 cut(s)	14, 1486
BtsI	GCAGTG	1 cut(s)	1108
BtsIMutI	CAGTG	6 cut(s)	139, 416, 840, 1108, 1125, 1189
CaiI	CAGNNNCTG	1 cut(s)	1298
CciI	TCATGA	1 cut(s)	1048
Cfr42I	CCGCGG	1 cut(s)	17
ClaI	ATCGAT	1 cut(s)	1478
CseI	GACGC	2 cut(s)	269, 330
Csp6I	GTAC	2 cut(s)	372, 781
CviAII	CATG	4 cut(s)	266, 1049, 1415, 1487
CviQI	GTAC	2 cut(s)	372, 781
DdeI	CTNAG	1 cut(s)	647
DpnI	GATC	3 cut(s)	49, 636, 1047
DpnII	GATC	3 cut(s)	47, 634, 1045
EaeI	YGGCCR	1 cut(s)	268
Eam1104I	CTCTTC	1 cut(s)	932
EarI	CTCTTC	1 cut(s)	932
Ecl136II	GAGCTC	2 cut(s)	23, 459
Eco130I	CCWWGG	1 cut(s)	1486
Eco24I	GRGCYC	2 cut(s)	25, 461
Eco53kI	GAGCTC	2 cut(s)	23, 459
EcoICRI	GAGCTC	2 cut(s)	23, 459
EcoRI	GAATTC	1 cut(s)	856
EcoRII	CCWGG	2 cut(s)	462, 1431
EcoT14I	CCWWGG	1 cut(s)	1486
EcoT38I	GRGCYC	2 cut(s)	25, 461
ErhI	CCWWGG	1 cut(s)	1486
FaeI	CATG	4 cut(s)	269, 1052, 1418, 1490
FalI	AAGNNNNNCTT	2 cut(s)	1251, 1283
FaqI	GGGAC	1 cut(s)	379
FatI	CATG	4 cut(s)	265, 1048, 1414, 1486
FauNDI	CATATG	1 cut(s)	1399
FbaI	TGATCA	1 cut(s)	1045
FblI	GTMKAC	3 cut(s)	144, 344, 468
Fnu4HI	GCNGC	6 cut(s)	707, 710, 893, 1187, 1318, 1321
FriOI	GRGCYC	2 cut(s)	25, 461
Fsp4HI	GCNGC	6 cut(s)	707, 710, 893, 1187, 1318, 1321
FspBI	CTAG	2 cut(s)	918, 981
GluI	GCNGC	6 cut(s)	707, 710, 893, 1187, 1318, 1321
HaeIII	GGCC	3 cut(s)	168, 270, 943
HapII	CCGG	1 cut(s)	157
HgaI	GACGC	2 cut(s)	269, 330
Hin1I	GRCGYC	1 cut(s)	280
Hin1II	CATG	4 cut(s)	269, 1052, 1418, 1490
HincII	GTYRAC	1 cut(s)	345
HindII	GTYRAC	1 cut(s)	345
HindIII	AAGCTT	3 cut(s)	686, 1284, 1421
HinfI	GANTC	4 cut(s)	110, 743, 988, 1361
HpaII	CCGG	1 cut(s)	157
HphI	GGTGA	1 cut(s)	1446
Hpy166II	GTNNAC	5 cut(s)	145, 345, 469, 575, 1385
Hpy188I	TCNGA	3 cut(s)	993, 1080, 1366
Hpy188III	TCNNGA	5 cut(s)	284, 905, 1049, 1142, 1253
Hpy8I	GTNNAC	5 cut(s)	145, 345, 469, 575, 1385
Hpy99I	CGWCG	3 cut(s)	285, 346, 349
HpyAV	CCTTC	4 cut(s)	389, 692, 721, 1461
HpyCH4III	ACNGT	1 cut(s)	1193
HpyCH4IV	ACGT	4 cut(s)	207, 347, 562, 667
HpyF10VI	GCNNNNNNNGC	3 cut(s)	487, 815, 824
HpyF3I	CTNAG	1 cut(s)	647
HpySE526I	ACGT	4 cut(s)	207, 347, 562, 667
Hsp92I	GRCGYC	1 cut(s)	280
Hsp92II	CATG	4 cut(s)	269, 1052, 1418, 1490
Ksp22I	TGATCA	1 cut(s)	1045
KspI	CCGCGG	1 cut(s)	17
Kzo9I	GATC	3 cut(s)	47, 634, 1045
LmnI	GCTCC	2 cut(s)	456, 464
Lsp1109I	GCAGC	6 cut(s)	696, 718, 879, 1173, 1307, 1329
LweI	GCATC	4 cut(s)	367, 796, 912, 1042
MaeI	CTAG	2 cut(s)	918, 981
MaeII	ACGT	4 cut(s)	207, 347, 562, 667
MaeIII	GTNAC	5 cut(s)	134, 238, 558, 1103, 1261
MalI	GATC	3 cut(s)	49, 636, 1047
MboI	GATC	3 cut(s)	47, 634, 1045
MboII	GAAGA	4 cut(s)	35, 48, 345, 949
MflI	RGATCY	1 cut(s)	634
MhlI	GDGCHC	2 cut(s)	25, 461
MluCI	AATT	6 cut(s)	327, 550, 856, 973, 1245, 1325
MlyI	GAGTC	1 cut(s)	104
MmeI	TCCRAC	3 cut(s)	174, 603, 720
MnlI	CCTC	9 cut(s)	70, 103, 234, 724, 832, 933, 1198, 1234, 1505
MroXI	GAANNNNTTC	2 cut(s)	399, 828
MseI	TTAA	1 cut(s)	1172
MslI	CAYNNNNRTG	5 cut(s)	717, 1023, 1194, 1338, 1491
MspA1I	CMGCKG	3 cut(s)	16, 709, 1320
MspI	CCGG	1 cut(s)	157
MspR9I	CCNGG	2 cut(s)	464, 1433
MvaI	CCWGG	2 cut(s)	464, 1433
MvnI	CGCG	1 cut(s)	16
MwoI	GCNNNNNNNGC	3 cut(s)	487, 815, 824
NcoI	CCATGG	1 cut(s)	1486
NdeI	CATATG	1 cut(s)	1399
NdeII	GATC	3 cut(s)	47, 634, 1045
NlaIII	CATG	4 cut(s)	269, 1052, 1418, 1490
NlaIV	GGNNCC	1 cut(s)	636
NmuCI	GTSAC	3 cut(s)	134, 238, 1103
OliI	CACNNNNGTG	1 cut(s)	1194
PagI	TCATGA	1 cut(s)	1048
PcsI	WCGNNNNNNNCGW	2 cut(s)	43, 857
PdmI	GAANNNNTTC	2 cut(s)	399, 828
PfeI	GAWTC	3 cut(s)	743, 988, 1361
PkrI	GCNGC	6 cut(s)	708, 711, 894, 1188, 1319, 1322
PleI	GAGTC	1 cut(s)	104
PpsI	GAGTC	1 cut(s)	104
Ppu21I	YACGTR	2 cut(s)	563, 668
PshBI	ATTAAT	1 cut(s)	1172
PsiI	TTATAA	1 cut(s)	176
Psp124BI	GAGCTC	2 cut(s)	25, 461
Psp6I	CCWGG	2 cut(s)	462, 1431
PspGI	CCWGG	2 cut(s)	462, 1431
PspN4I	GGNNCC	1 cut(s)	636
PstNI	CAGNNNCTG	1 cut(s)	1298
PsuI	RGATCY	1 cut(s)	634
PvuII	CAGCTG	2 cut(s)	709, 1320
RsaI	GTAC	2 cut(s)	373, 782
RsaNI	GTAC	2 cut(s)	372, 781
RseI	CAYNNNNRTG	5 cut(s)	717, 1023, 1194, 1338, 1491
SacI	GAGCTC	2 cut(s)	25, 461
SacII	CCGCGG	1 cut(s)	17
SalI	GTCGAC	1 cut(s)	343
SaqAI	TTAA	1 cut(s)	1172
SatI	GCNGC	6 cut(s)	707, 710, 893, 1187, 1318, 1321
Sau3AI	GATC	3 cut(s)	47, 634, 1045
SchI	GAGTC	1 cut(s)	104
ScrFI	CCNGG	2 cut(s)	464, 1433
SduI	GDGCHC	2 cut(s)	25, 461
SfaNI	GCATC	4 cut(s)	367, 796, 912, 1042
Sfr303I	CCGCGG	1 cut(s)	17
SgrBI	CCGCGG	1 cut(s)	17
SgrDI	CGTCGACG	1 cut(s)	343
SmiMI	CAYNNNNRTG	5 cut(s)	717, 1023, 1194, 1338, 1491
SmlI	CTYRAG	1 cut(s)	905
SmoI	CTYRAG	1 cut(s)	905
Sse9I	AATT	6 cut(s)	327, 550, 856, 973, 1245, 1325
SsiI	CCGC	3 cut(s)	14, 16, 419
SspI	AATATT	1 cut(s)	997
SspMI	CTAG	2 cut(s)	918, 981
SstI	GAGCTC	2 cut(s)	25, 461
StyD4I	CCNGG	2 cut(s)	462, 1431
StyI	CCWWGG	1 cut(s)	1486
TaaI	ACNGT	1 cut(s)	1193
TaiI	ACGT	4 cut(s)	210, 350, 565, 670
TasI	AATT	6 cut(s)	327, 550, 856, 973, 1245, 1325
TatI	WGTACW	2 cut(s)	371, 780
TfiI	GAWTC	3 cut(s)	743, 988, 1361
Tru1I	TTAA	1 cut(s)	1172
Tru9I	TTAA	1 cut(s)	1172
TscAI	CASTG	6 cut(s)	139, 416, 840, 1108, 1125, 1196
TseFI	GTSAC	3 cut(s)	134, 238, 1103
TseI	GCWGC	6 cut(s)	706, 709, 892, 1186, 1317, 1320
Tsp45I	GTSAC	3 cut(s)	134, 238, 1103
TspGWI	ACGGA	1 cut(s)	941
TspRI	CASTG	6 cut(s)	139, 416, 840, 1108, 1125, 1196
VspI	ATTAAT	1 cut(s)	1172
XapI	RAATTY	3 cut(s)	550, 856, 973
XcmI	CCANNNNNNNNNTGG	1 cut(s)	769
XmiI	GTMKAC	3 cut(s)	144, 344, 468
XmnI	GAANNNNTTC	2 cut(s)	399, 828
XspI	CTAG	2 cut(s)	918, 981

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