Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0004713

Physical Location & Seq

Genomic Coordinates Reverse (-)

61202430 .. 61204825

Gene Structure 2396 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG395300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1353 bp

ATGTTGATTTTACCGCGGAGAGCTCGATGGTCATTTCGAGTTCTTCGATCATTTTCTTCCTCTGTTAGCATACCCATTGTAGCTTCATCAACCTCATCTCTGGGTTTCGACTCGTATTTTGAACCCAATACCAGTGACCAAGTATACTCCAACAACCGGAGAATAGGCCACTTTATAAAATCTGGGGATTTGAACAATGCACTCAACGTGTTCGATGAAATGCCTCAGTATGATGTTGTGACATATAACTTGCTTATTTCAGGGCATGGCCGATTTGGGCATCGAGAACAGGCTTTTCGGCTCTATACTGATATGGTTTCACAAGGAATTAGAGAAAGTGCGTCGACGTTTCCTTCTGTGTTGGGGACTTGTACTGATGCAGGGCTTTATAGAGAAGGGGTTCAAGTTCATTGCAGGGCGGTGTCTCTTGGGTTTAGCTTGAATATGTATGTGGGGAGCTCCCTGGTAGACCTTTACTTGCGTATGGGGCAAGACAATGTAGCTGTGAAGTTGTTTGATGAGTTGCAGGAGAGAAACTTGGCTGTATGGAATTTGTTGTTACGTGGGTTTTGTGAACTGGGTCGAGTGGATGAGCTGTTTGGGATGTATTATAGGATGAAGTTGGATGGTGTGGATCCAAATGGGCTTAGTTATTGTTATTGGATACGTGCGTGTAGCAATGGGAAGCTTTTGGATGAAGGAAAGCAGCTGCATTGTGGTGTTGTGAAGGAGGGATGGTTGGAATCGAATGTGTTTGTTGCCAATGCTCTGGTGGATTTGTACTCTGCTTGTGGGAGTTTGATTGATGCAAGAGAAGCATTTGAAGCTATTCCAGTGGAGGATGTGATTTCGTGGAATTCAATTATTTGGGTCTATACCGAAAATGGTTTGCTGCTTGATGGTCTTGAGTTATTTGCTAGGATGCAGTTTTGGGGGAAGAGGCCATCCATCCGTTCATTTGTTGGGTTTTTGAATTTGGCTAGTAGGATTCGGAATATTCAACTTGGGAAGCAGATACACTCTTATGTTGTGAAATCGGGTTTTGATCATGATGCGAGTTTTCATATTCAATCTGCTCTGATAGATATGTATGGGAAATGCAGTGACATTGAGAGGTCAGTGTTCATATATGAAAATGGTCGTGATAGAAATTTGGAGTGTTGCAACTCATTAATGACATCTTTGCTGCACTGTGGTGTTATTGAGGATGTGGTGGAGATGTTTGGTTTGATGGTTGATGAGGGAATTGGTCTTGATGAAGTTACTCTTTCTACGACACTAAAAGCTTTATCAATGCCAGGACTAGATACGGATTGCAGAACACTGGGTGGTGGATCTTGGGTTCTGATTTAA

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

450

Amino Acids

50.49

Weight (kDa)

5.29

Isoelectric Point (pI)

36.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	78 - 123	9.1e-09	PPR repeat family
PPR_2	PF13041	179 - 226	1.4e-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

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

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	3 cut(s)	629, 642, 1342
AcoI	YGGCCR	1 cut(s)	268
AcsI	RAATTY	4 cut(s)	550, 856, 973, 1150
AdeI	CACNNNGTG	1 cut(s)	1328
AfaI	GTAC	2 cut(s)	373, 782
AfiI	CCNNNNNNNGG	1 cut(s)	156
AflIII	ACRYGT	1 cut(s)	207
AgsI	TTSAA	9 cut(s)	122, 193, 404, 442, 824, 861, 973, 1001, 1070
AjnI	CCWGG	2 cut(s)	462, 1297
AleI	CACNNNNGTG	1 cut(s)	1194
AloI	GAACNNNNNNTCC	1 cut(s)	1326
Alw21I	GWGCWC	2 cut(s)	25, 461
Alw26I	GTCTC	1 cut(s)	429
AlwI	GGATC	3 cut(s)	629, 642, 1342
AoxI	GGCC	3 cut(s)	166, 268, 941
ApeKI	GCWGC	4 cut(s)	706, 709, 892, 1186
ApoI	RAATTY	4 cut(s)	550, 856, 973, 1150
ArsI	GACNNNNNNTTYG	2 cut(s)	101, 133
AseI	ATTAAT	1 cut(s)	1172
Asp700I	GAANNNNTTC	2 cut(s)	399, 828
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	4 cut(s)	696, 718, 879, 1173
BccI	CCATC	7 cut(s)	21, 620, 729, 893, 952, 956, 1225
BciT130I	CCWGG	2 cut(s)	464, 1299
BciVI	GTATCC	1 cut(s)	657
BclI	TGATCA	1 cut(s)	1045
BcoDI	GTCTC	1 cut(s)	429
BfaI	CTAG	3 cut(s)	918, 981, 1304
BfuI	GTATCC	1 cut(s)	657
BisI	GCNGC	4 cut(s)	707, 710, 893, 1187
BlsI	GCNGC	4 cut(s)	708, 711, 894, 1188
Bme1390I	CCNGG	2 cut(s)	464, 1299
BmiI	GGNNCC	1 cut(s)	636
BmrFI	CCNGG	2 cut(s)	464, 1299
BmrI	ACTGGG	2 cut(s)	587, 1334
BmsI	GCATC	5 cut(s)	289, 367, 796, 912, 1042
BmuI	ACTGGG	2 cut(s)	587, 1334
BpuEI	CTTGAG	1 cut(s)	926
BsaAI	YACGTR	2 cut(s)	563, 668
BsaJI	CCNNGG	2 cut(s)	14, 462
BsaWI	WCCGGW	1 cut(s)	156
BsaXI	ACNNNNNCTCC	2 cut(s)	722, 752
Bsc4I	CCNNNNNNNGG	1 cut(s)	156
Bse1I	ACTGG	4 cut(s)	132, 582, 833, 1329
Bse3DI	GCAATG	2 cut(s)	409, 685
BseBI	CCWGG	2 cut(s)	464, 1299
BseDI	CCNNGG	2 cut(s)	14, 462
BseLI	CCNNNNNNNGG	1 cut(s)	156
BseMI	GCAATG	2 cut(s)	409, 685
BseMII	CTCAG	1 cut(s)	239
BseNI	ACTGG	4 cut(s)	132, 582, 833, 1329
BseXI	GCAGC	4 cut(s)	696, 718, 879, 1173
BsgI	GTGCAG	1 cut(s)	1172
Bsh1236I	CGCG	1 cut(s)	16
BshFI	GGCC	3 cut(s)	168, 270, 943
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	4 cut(s)	47, 634, 1045, 1334
BspACI	CCGC	3 cut(s)	14, 16, 419
BspANI	GGCC	3 cut(s)	168, 270, 943
BspCNI	CTCAG	1 cut(s)	238
BspFNI	CGCG	1 cut(s)	16
BspHI	TCATGA	1 cut(s)	1048
BspLI	GGNNCC	1 cut(s)	636
BspPI	GGATC	3 cut(s)	629, 642, 1342
BsrDI	GCAATG	2 cut(s)	409, 685
BsrI	ACTGG	4 cut(s)	132, 582, 833, 1329
BssECI	CCNNGG	2 cut(s)	14, 462
BssMI	GATC	4 cut(s)	47, 634, 1045, 1334
BssNAI	GTATAC	1 cut(s)	145
Bst1107I	GTATAC	1 cut(s)	145
Bst2UI	CCWGG	2 cut(s)	464, 1299
Bst4CI	ACNGT	1 cut(s)	1193
Bst6I	CTCTTC	1 cut(s)	932
BstBAI	YACGTR	2 cut(s)	563, 668
BstDEI	CTNAG	2 cut(s)	225, 647
BstDSI	CCRYGG	1 cut(s)	14
BstFNI	CGCG	1 cut(s)	16
BstKTI	GATC	4 cut(s)	50, 637, 1048, 1337
BstMAI	GTCTC	1 cut(s)	429
BstMBI	GATC	4 cut(s)	47, 634, 1045, 1334
BstMWI	GCNNNNNNNGC	3 cut(s)	487, 815, 824
BstNI	CCWGG	2 cut(s)	464, 1299
BstSCI	CCNGG	2 cut(s)	462, 1297
BstUI	CGCG	1 cut(s)	16
BstV1I	GCAGC	4 cut(s)	696, 718, 879, 1173
BstX2I	RGATCY	2 cut(s)	634, 1334
BstXI	CCANNNNNNTGG	1 cut(s)	769
BstYI	RGATCY	2 cut(s)	634, 1334
BstZ17I	GTATAC	1 cut(s)	145
BsuI	GTATCC	1 cut(s)	657
BsuRI	GGCC	3 cut(s)	168, 270, 943
BtgI	CCRYGG	1 cut(s)	14
BtsI	GCAGTG	1 cut(s)	1108
BtsIMutI	CAGTG	6 cut(s)	139, 840, 1108, 1125, 1189, 1322
CciI	TCATGA	1 cut(s)	1048
Cfr42I	CCGCGG	1 cut(s)	17
CseI	GACGC	1 cut(s)	330
Csp6I	GTAC	2 cut(s)	372, 781
CviAII	CATG	2 cut(s)	266, 1049
CviQI	GTAC	2 cut(s)	372, 781
DdeI	CTNAG	2 cut(s)	225, 647
DpnI	GATC	4 cut(s)	49, 636, 1047, 1336
DpnII	GATC	4 cut(s)	47, 634, 1045, 1334
DraIII	CACNNNGTG	1 cut(s)	1328
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
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, 1297
EcoT38I	GRGCYC	2 cut(s)	25, 461
FaeI	CATG	2 cut(s)	269, 1052
FalI	AAGNNNNNCTT	2 cut(s)	1251, 1283
FaqI	GGGAC	1 cut(s)	379
FatI	CATG	2 cut(s)	265, 1048
FbaI	TGATCA	1 cut(s)	1045
FblI	GTMKAC	3 cut(s)	144, 344, 468
Fnu4HI	GCNGC	4 cut(s)	707, 710, 893, 1187
FriOI	GRGCYC	2 cut(s)	25, 461
Fsp4HI	GCNGC	4 cut(s)	707, 710, 893, 1187
FspBI	CTAG	3 cut(s)	918, 981, 1304
GluI	GCNGC	4 cut(s)	707, 710, 893, 1187
HaeIII	GGCC	3 cut(s)	168, 270, 943
HapII	CCGG	1 cut(s)	157
HgaI	GACGC	1 cut(s)	330
Hin1II	CATG	2 cut(s)	269, 1052
HincII	GTYRAC	1 cut(s)	345
HindII	GTYRAC	1 cut(s)	345
HindIII	AAGCTT	2 cut(s)	686, 1284
HinfI	GANTC	3 cut(s)	110, 743, 988
HpaII	CCGG	1 cut(s)	157
Hpy166II	GTNNAC	4 cut(s)	145, 345, 469, 575
Hpy188I	TCNGA	3 cut(s)	993, 1080, 1347
Hpy188III	TCNNGA	5 cut(s)	284, 905, 1049, 1142, 1253
Hpy8I	GTNNAC	4 cut(s)	145, 345, 469, 575
Hpy99I	CGWCG	2 cut(s)	346, 349
HpyAV	CCTTC	4 cut(s)	363, 389, 692, 721
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	2 cut(s)	225, 647
HpySE526I	ACGT	4 cut(s)	207, 347, 562, 667
Hsp92II	CATG	2 cut(s)	269, 1052
Ksp22I	TGATCA	1 cut(s)	1045
KspI	CCGCGG	1 cut(s)	17
Kzo9I	GATC	4 cut(s)	47, 634, 1045, 1334
LmnI	GCTCC	2 cut(s)	456, 464
Lsp1109I	GCAGC	4 cut(s)	696, 718, 879, 1173
LweI	GCATC	5 cut(s)	289, 367, 796, 912, 1042
MaeI	CTAG	3 cut(s)	918, 981, 1304
MaeII	ACGT	4 cut(s)	207, 347, 562, 667
MaeIII	GTNAC	5 cut(s)	134, 238, 558, 1103, 1261
MalI	GATC	4 cut(s)	49, 636, 1047, 1336
MboI	GATC	4 cut(s)	47, 634, 1045, 1334
MboII	GAAGA	3 cut(s)	35, 48, 949
MflI	RGATCY	2 cut(s)	634, 1334
MhlI	GDGCHC	2 cut(s)	25, 461
MluCI	AATT	7 cut(s)	327, 550, 856, 861, 973, 1150, 1245
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, 1107, 1198, 1234
MroXI	GAANNNNTTC	2 cut(s)	399, 828
MseI	TTAA	2 cut(s)	1172, 1351
MslI	CAYNNNNRTG	3 cut(s)	717, 1023, 1194
MspA1I	CMGCKG	2 cut(s)	16, 709
MspI	CCGG	1 cut(s)	157
MspR9I	CCNGG	2 cut(s)	464, 1299
MvaI	CCWGG	2 cut(s)	464, 1299
MvnI	CGCG	1 cut(s)	16
MwoI	GCNNNNNNNGC	3 cut(s)	487, 815, 824
NdeII	GATC	4 cut(s)	47, 634, 1045, 1334
NlaIII	CATG	2 cut(s)	269, 1052
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	1 cut(s)	43
PdmI	GAANNNNTTC	2 cut(s)	399, 828
PfeI	GAWTC	2 cut(s)	743, 988
PkrI	GCNGC	4 cut(s)	708, 711, 894, 1188
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, 1297
PspGI	CCWGG	2 cut(s)	462, 1297
PspN4I	GGNNCC	1 cut(s)	636
PsuI	RGATCY	2 cut(s)	634, 1334
PvuII	CAGCTG	1 cut(s)	709
RsaI	GTAC	2 cut(s)	373, 782
RsaNI	GTAC	2 cut(s)	372, 781
RseI	CAYNNNNRTG	3 cut(s)	717, 1023, 1194
SacI	GAGCTC	2 cut(s)	25, 461
SacII	CCGCGG	1 cut(s)	17
SalI	GTCGAC	1 cut(s)	343
SaqAI	TTAA	2 cut(s)	1172, 1351
SatI	GCNGC	4 cut(s)	707, 710, 893, 1187
Sau3AI	GATC	4 cut(s)	47, 634, 1045, 1334
SchI	GAGTC	1 cut(s)	104
ScrFI	CCNGG	2 cut(s)	464, 1299
SduI	GDGCHC	2 cut(s)	25, 461
SfaNI	GCATC	5 cut(s)	289, 367, 796, 912, 1042
Sfr303I	CCGCGG	1 cut(s)	17
SgrBI	CCGCGG	1 cut(s)	17
SgrDI	CGTCGACG	1 cut(s)	343
SmiMI	CAYNNNNRTG	3 cut(s)	717, 1023, 1194
SmlI	CTYRAG	1 cut(s)	905
SmoI	CTYRAG	1 cut(s)	905
Sse9I	AATT	7 cut(s)	327, 550, 856, 861, 973, 1150, 1245
SsiI	CCGC	3 cut(s)	14, 16, 419
SspI	AATATT	1 cut(s)	997
SspMI	CTAG	3 cut(s)	918, 981, 1304
SstI	GAGCTC	2 cut(s)	25, 461
StyD4I	CCNGG	2 cut(s)	462, 1297
TaaI	ACNGT	1 cut(s)	1193
TaiI	ACGT	4 cut(s)	210, 350, 565, 670
TaqI	TCGA	9 cut(s)	25, 37, 46, 108, 213, 283, 344, 583, 746
TasI	AATT	7 cut(s)	327, 550, 856, 861, 973, 1150, 1245
TatI	WGTACW	2 cut(s)	371, 780
TfiI	GAWTC	2 cut(s)	743, 988
Tru1I	TTAA	2 cut(s)	1172, 1351
Tru9I	TTAA	2 cut(s)	1172, 1351
TscAI	CASTG	6 cut(s)	139, 840, 1108, 1125, 1196, 1329
TseFI	GTSAC	3 cut(s)	134, 238, 1103
TseI	GCWGC	4 cut(s)	706, 709, 892, 1186
Tsp45I	GTSAC	3 cut(s)	134, 238, 1103
TspGWI	ACGGA	2 cut(s)	941, 1325
TspRI	CASTG	6 cut(s)	139, 840, 1108, 1125, 1196, 1329
VspI	ATTAAT	1 cut(s)	1172
XapI	RAATTY	4 cut(s)	550, 856, 973, 1150
XcmI	CCANNNNNNNNNTGG	1 cut(s)	769
XmiI	GTMKAC	3 cut(s)	144, 344, 468
XmnI	GAANNNNTTC	2 cut(s)	399, 828
XspI	CTAG	3 cut(s)	918, 981, 1304

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