Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0007498

Physical Location & Seq

Genomic Coordinates Reverse (-)

10433325 .. 10435067

Gene Structure 1743 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG057900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1743 bp

ATGGCATCAACCACCTTCCCCAAACCGAACCCAATCCCAATCGAACCCGACCCGCCACCGCCCAACTCCGCCGACCCTCTTGCAATCTACGCCCAAGCCATCAAAACCCACAACGCCGACCGTTCCCTCCACAACCACCTCATCACTCTCTGCTCCAAATCCAACCTCACCTCCTTCTCTCTCCGCCTCTTCAACCAAATCCCATCACCCAACGTCGTCTCATGGACGGCCTTGATCTCATCCCACTCCACCACCCTCGCCGCCCTCCGCCACTTCGTCTCCATGCTCTGCCACCCCACCTTCCCCAACCAGCGCACAATAGCCACCCTCTTCAAAACCTGCGCTTCTCTCTCGTCTCTCTCCTTCGGTCTCTCCCTCCACTCACTCTCCCTCAAGCTCGGTATCTCCGCCGAACCGTATTCGGGTTCCGCCCTCATACACTTCTACTCCAAATGTGGGATGCCGGTTTATGCCCAGAAGGTGCTCGATGAAATTCCCCACAAGGATGCTGTCTGCTATGGCGCGGTGATTGTTGGGCTGGCGCAGAACTCCAGGCCCATTGATGCGCTTTTGGCTTTCGCTGACATGAAATGTAGAGATGTTGGGTCGAGTATGTATACTGTTTCGGGTGCATTGAGGGCCGCGGCGGAGCTTGCTGCTTTGGAGCAATGTAGGATCTTACACACACATGCTGTTGTTACGGGGCTTGATGCGAATGTGGTTGTGGGGACTGCTTTGTTGGATGCGTATGGGAAGTCCGGGATTGTGTCTGATGCTAGGCAGGTTTTCGATGAGAATTTGCTGGTGATGAGTCTTGTGGGATGCAATGCAATGCTGGCGGCGTATGCGCAACAGGGGGATAAGAATTCAGCGGTCGAGCTTTTTAATGCAATGGAAGCTCGAGGGCTTGTACCGGATGAATATAGCTTCTTAGCGATTTTGACATGCCTTGGCAATGCAGGTTTGGTTTTGGAAACGGATTGGTGGTTGAACAGGATGAAGGCTGATTACGGGTTGGAACCAGCACTTGAGCATTATACTTGTCTGGTTGGTGCAATGGGCCGAGCTGGTCAGTTGGAAGATGCTGAAAGGGCTGCAATGACGATGCCTATTGTGCCTGATGCTGCAGTGTGGCGAACATTGCTAACATGTGCAGCTTATCATAAATCACCCGACTTGGCTAGGTCCATGGCTAAACGGTTATTGGAAATTGATCCGCAGGACGATTCAGCTTATGTTATTGTTGCAAATGTGTTATCATCCGCAGGAAAGTGGGATGAAGTTGCAGAAGTTAGGAAGATGATGAAAGATAGGAGGGTGAAGAAGGAAGGAGGTAGGAGTTGGATTGAAGTGCGAGGAAAAGTTCATGTGTTTTTGGCTGGGGACAGAAGGCATCAAAGAATAGATGAGATATACGCAAAGTTGGCAGAATTGATGGAGGGGATAGAAAAATTAGGGTATGTGCCGTTGCAGAATGAGATGCTGCATGGGGTTGGGGAACAAGAGAAAAAGGAAGCCCTATGGTATCACAGTGAGAAGCTGGCTGTAGCATTTGGGGTGGTAAGTGGTGCTGCACCCCCCGGGAAGCCATTAAGGATTGTGAAGAATTTGAGGATTTGCAGAGATTGTCACGAGGCTTTTAAATATTTGTGTAGGTTGTTGGAGAGGGAAATCATTGTGAGGGATGTAAACCGATACCATATATTTTCAAATGGTAGCTGTAGTTGTGGAGAGATGTGGTAG

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

580

Amino Acids

63.65

Weight (kDa)

7.02

Isoelectric Point (pI)

36.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	272 - 317	1.1e-09	PPR repeat family
E_motif	PF20431	392 - 450	2.3e-17	E motif
DYW_deaminase	PF14432	486 - 580	1.2e-33	DYW family of nucleic acid deaminases

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007498)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g04611
malus_domestica	MD13G1221300.v1.1 MD13G1221400.v1.1 MD13G1221500.v1.1
prunus_persica	Prupe.1G048200_v2.0.a1
pyrus_communis	pycom13g19580
rosa_chinensis	RchiOBHm_Chr4g0395381
rosa_laevigata	RLG00000002110 RLG00000009627
rosa_multiflora	Rmu_sc0002791.1_g000013 Rmu_sc0005834.1_g000011 Rmu_sc0010817.1_g000019
rosa_roxburghii	Rroxscaffold_3G00237650 Rroxscaffold_5G00340340
rosa_rugosa	Rorug03G0358000
rosa_samantha	Rh4BG057900 Rh4CG063400 Rh4DG054500 Rh4DG085800 Rh7AG345000 Rh7CG362400 Rh7DG342600
rosa_wichuraiana	Rw0G003280 Rw0G007680 Rw4G004740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	849
Acc36I	ACCTGC	3 cut(s)	347, 772, 950
AccI	GTMKAC	1 cut(s)	617
AccII	CGCG	2 cut(s)	524, 644
AclWI	GGATC	2 cut(s)	683, 1208
AcsI	RAATTY	4 cut(s)	492, 796, 865, 1606
AfaI	GTAC	1 cut(s)	912
AfiI	CCNNNNNNNGG	2 cut(s)	422, 456
AflIII	ACRYGT	1 cut(s)	1148
AgsI	TTSAA	5 cut(s)	193, 334, 991, 1349, 1710
AjnI	CCWGG	1 cut(s)	551
Alw21I	GWGCWC	1 cut(s)	486
Alw26I	GTCTC	4 cut(s)	223, 283, 360, 374
AlwI	GGATC	2 cut(s)	683, 1208
Ama87I	CYCGRG	2 cut(s)	900, 1580
AoxI	GGCC	4 cut(s)	228, 554, 639, 1060
ApeKI	GCWGC	6 cut(s)	656, 1094, 1124, 1154, 1483, 1571
ApoI	RAATTY	4 cut(s)	492, 796, 865, 1606
AspLEI	GCGC	6 cut(s)	315, 344, 524, 544, 568, 850
AspS9I	GGNCC	4 cut(s)	555, 639, 1060, 1185
AsuC2I	CCSGG	3 cut(s)	760, 1581, 1582
AsuHPI	GGTGA	6 cut(s)	160, 198, 538, 817, 1161, 1330
AvaI	CYCGRG	2 cut(s)	900, 1580
AvaII	GGWCC	1 cut(s)	1185
BarI	GAAGNNNNNNTAC	2 cut(s)	992, 1024
BauI	CACGAG	1 cut(s)	1631
Bbv12I	GWGCWC	1 cut(s)	486
BbvI	GCAGC	6 cut(s)	643, 1081, 1111, 1166, 1470, 1558
BccI	CCATC	3 cut(s)	107, 211, 1429
BceAI	ACGGC	2 cut(s)	243, 1450
BcgI	CGANNNNNNTGC	2 cut(s)	62, 96
BciT130I	CCWGG	1 cut(s)	553
BcnI	CCSGG	3 cut(s)	760, 1581, 1582
BcoDI	GTCTC	4 cut(s)	223, 283, 360, 374
BfaI	CTAG	2 cut(s)	777, 1182
BfmI	CTRYAG	3 cut(s)	1125, 1545, 1720
BfuAI	ACCTGC	3 cut(s)	347, 772, 950
Bme1390I	CCNGG	4 cut(s)	553, 760, 1581, 1582
Bme18I	GGWCC	1 cut(s)	1185
BmeT110I	CYCGRG	2 cut(s)	900, 1580
BmgT120I	GGNCC	4 cut(s)	555, 639, 1060, 1185
BmiI	GGNNCC	2 cut(s)	427, 1020
BmrFI	CCNGG	4 cut(s)	553, 760, 1581, 1582
BpmI	CTGGAG	1 cut(s)	535
BpuEI	CTTGAG	2 cut(s)	377, 1049
BpuMI	CCSGG	3 cut(s)	760, 1581, 1582
BsaI	GGTCTC	1 cut(s)	374
BsaJI	CCNNGG	5 cut(s)	642, 949, 1188, 1579, 1580
BsaWI	WCCGGW	1 cut(s)	913
BsaXI	ACNNNNNCTCC	8 cut(s)	155, 185, 263, 293, 371, 401, 431, 461
Bsc4I	CCNNNNNNNGG	2 cut(s)	422, 456
Bse118I	RCCGGY	1 cut(s)	463
Bse3DI	GCAATG	8 cut(s)	674, 832, 837, 897, 961, 1062, 1104, 1139
BseBI	CCWGG	1 cut(s)	553
BseDI	CCNNGG	5 cut(s)	642, 949, 1188, 1579, 1580
BseLI	CCNNNNNNNGG	2 cut(s)	422, 456
BseMI	GCAATG	8 cut(s)	674, 832, 837, 897, 961, 1062, 1104, 1139
BseXI	GCAGC	6 cut(s)	643, 1081, 1111, 1166, 1470, 1558
BseYI	CCCAGC	1 cut(s)	1379
BsgI	GTGCAG	2 cut(s)	1173, 1557
Bsh1236I	CGCG	2 cut(s)	524, 644
Bsh1285I	CGRYCG	2 cut(s)	121, 876
BshFI	GGCC	4 cut(s)	230, 556, 641, 1062
BsiEI	CGRYCG	2 cut(s)	121, 876
BsiHKAI	GWGCWC	1 cut(s)	486
BsiHKCI	CYCGRG	2 cut(s)	900, 1580
BsiSI	CCGG	4 cut(s)	464, 759, 914, 1581
BslFI	GGGAC	2 cut(s)	742, 1397
BslI	CCNNNNNNNGG	2 cut(s)	422, 456
BsmAI	GTCTC	4 cut(s)	223, 283, 360, 374
BsmBI	CGTCTC	3 cut(s)	223, 283, 360
BsmFI	GGGAC	2 cut(s)	742, 1397
BsnI	GGCC	4 cut(s)	230, 556, 641, 1062
Bso31I	GGTCTC	1 cut(s)	374
BsoBI	CYCGRG	2 cut(s)	900, 1580
Bsp1286I	GDGCHC	1 cut(s)	486
Bsp143I	GATC	3 cut(s)	234, 675, 1213
Bsp19I	CCATGG	1 cut(s)	1188
BspANI	GGCC	4 cut(s)	230, 556, 641, 1062
BspFNI	CGCG	2 cut(s)	524, 644
BspLI	GGNNCC	2 cut(s)	427, 1020
BspMAI	CTGCAG	1 cut(s)	1129
BspMI	ACCTGC	3 cut(s)	347, 772, 950
BspPI	GGATC	2 cut(s)	683, 1208
BspTNI	GGTCTC	1 cut(s)	374
BsrDI	GCAATG	8 cut(s)	674, 832, 837, 897, 961, 1062, 1104, 1139
BsrFI	RCCGGY	1 cut(s)	463
BssAI	RCCGGY	1 cut(s)	463
BssECI	CCNNGG	5 cut(s)	642, 949, 1188, 1579, 1580
BssMI	GATC	3 cut(s)	234, 675, 1213
BssNAI	GTATAC	1 cut(s)	618
BssSI	CACGAG	1 cut(s)	1631
BssT1I	CCWWGG	2 cut(s)	949, 1188
Bst1107I	GTATAC	1 cut(s)	618
Bst2BI	CACGAG	1 cut(s)	1631
Bst2UI	CCWGG	1 cut(s)	553
Bst4CI	ACNGT	5 cut(s)	122, 417, 622, 1200, 1532
Bst6I	CTCTTC	2 cut(s)	194, 335
BstC8I	GCNNGC	4 cut(s)	540, 654, 837, 1542
BstDEI	CTNAG	1 cut(s)	931
BstDSI	CCRYGG	2 cut(s)	642, 1188
BstFNI	CGCG	2 cut(s)	524, 644
BstHHI	GCGC	6 cut(s)	315, 344, 524, 544, 568, 850
BstKTI	GATC	3 cut(s)	237, 678, 1216
BstMAI	GTCTC	4 cut(s)	223, 283, 360, 374
BstMBI	GATC	3 cut(s)	234, 675, 1213
BstMCI	CGRYCG	2 cut(s)	121, 876
BstNI	CCWGG	1 cut(s)	553
BstNSI	RCATGY	3 cut(s)	692, 948, 1152
BstSCI	CCNGG	4 cut(s)	551, 758, 1579, 1580
BstSFI	CTRYAG	3 cut(s)	1125, 1545, 1720
BstUI	CGCG	2 cut(s)	524, 644
BstV1I	GCAGC	6 cut(s)	643, 1081, 1111, 1166, 1470, 1558
BstX2I	RGATCY	1 cut(s)	675
BstYI	RGATCY	1 cut(s)	675
BstZ17I	GTATAC	1 cut(s)	618
BsuRI	GGCC	4 cut(s)	230, 556, 641, 1062
BtgI	CCRYGG	2 cut(s)	642, 1188
BtsI	GCAGTG	1 cut(s)	1134
BtsIMutI	CAGTG	2 cut(s)	1134, 1537
BveI	ACCTGC	3 cut(s)	347, 772, 950
Cac8I	GCNNGC	4 cut(s)	540, 654, 837, 1542
CfoI	GCGC	6 cut(s)	315, 344, 524, 544, 568, 850
Cfr10I	RCCGGY	1 cut(s)	463
Cfr13I	GGNCC	4 cut(s)	555, 639, 1060, 1185
Cfr42I	CCGCGG	1 cut(s)	645
Cfr9I	CCCGGG	1 cut(s)	1580
Csp6I	GTAC	1 cut(s)	911
CviAII	CATG	9 cut(s)	222, 283, 586, 689, 945, 1149, 1189, 1367, 1487
CviQI	GTAC	1 cut(s)	911
DdeI	CTNAG	1 cut(s)	931
DpnI	GATC	3 cut(s)	236, 677, 1215
DpnII	GATC	3 cut(s)	234, 675, 1213
DraI	TTTAAA	1 cut(s)	1642
Eam1104I	CTCTTC	2 cut(s)	194, 335
EarI	CTCTTC	2 cut(s)	194, 335
EciI	GGCGGA	6 cut(s)	58, 173, 257, 397, 418, 662
Eco130I	CCWWGG	2 cut(s)	949, 1188
Eco31I	GGTCTC	1 cut(s)	374
Eco47I	GGWCC	1 cut(s)	1185
Eco88I	CYCGRG	2 cut(s)	900, 1580
EcoRI	GAATTC	1 cut(s)	865
EcoRII	CCWGG	1 cut(s)	551
EcoT14I	CCWWGG	2 cut(s)	949, 1188
ErhI	CCWWGG	2 cut(s)	949, 1188
Esp3I	CGTCTC	3 cut(s)	223, 283, 360
FaeI	CATG	9 cut(s)	225, 286, 589, 692, 948, 1152, 1192, 1370, 1490
FaqI	GGGAC	2 cut(s)	742, 1397
FatI	CATG	9 cut(s)	221, 282, 585, 688, 944, 1148, 1188, 1366, 1486
FauI	CCCGC	1 cut(s)	60
FblI	GTMKAC	1 cut(s)	617
FspBI	CTAG	2 cut(s)	777, 1182
FspI	TGCGCA	1 cut(s)	849
GlaI	GCGC	6 cut(s)	314, 343, 523, 543, 567, 849
GsaI	CCCAGC	1 cut(s)	1383
GsuI	CTGGAG	1 cut(s)	535
HaeIII	GGCC	4 cut(s)	230, 556, 641, 1062
HapII	CCGG	4 cut(s)	464, 759, 914, 1581
HhaI	GCGC	6 cut(s)	315, 344, 524, 544, 568, 850
Hin1II	CATG	9 cut(s)	225, 286, 589, 692, 948, 1152, 1192, 1370, 1490
Hin6I	GCGC	6 cut(s)	313, 342, 522, 542, 566, 848
HinP1I	GCGC	6 cut(s)	313, 342, 522, 542, 566, 848
HinfI	GANTC	2 cut(s)	811, 1226
HpaII	CCGG	4 cut(s)	464, 759, 914, 1581
HphI	GGTGA	6 cut(s)	160, 198, 538, 817, 1161, 1330
Hpy166II	GTNNAC	2 cut(s)	618, 1690
Hpy188I	TCNGA	1 cut(s)	772
Hpy188III	TCNNGA	1 cut(s)	1631
Hpy8I	GTNNAC	2 cut(s)	618, 1690
Hpy99I	CGWCG	1 cut(s)	218
HpyAV	CCTTC	9 cut(s)	25, 184, 310, 373, 472, 994, 1318, 1322, 1383
HpyCH4III	ACNGT	5 cut(s)	122, 417, 622, 1200, 1532
HpyCH4IV	ACGT	1 cut(s)	213
HpyF3I	CTNAG	1 cut(s)	931
HpySE526I	ACGT	1 cut(s)	213
Hsp92II	CATG	9 cut(s)	225, 286, 589, 692, 948, 1152, 1192, 1370, 1490
HspAI	GCGC	6 cut(s)	313, 342, 522, 542, 566, 848
KspI	CCGCGG	1 cut(s)	645
Kzo9I	GATC	3 cut(s)	234, 675, 1213
LmnI	GCTCC	3 cut(s)	158, 649, 664
Lsp1109I	GCAGC	6 cut(s)	643, 1081, 1111, 1166, 1470, 1558
MaeI	CTAG	2 cut(s)	777, 1182
MaeII	ACGT	1 cut(s)	213
MaeIII	GTNAC	2 cut(s)	697, 1628
MalI	GATC	3 cut(s)	236, 677, 1215
MboI	GATC	3 cut(s)	234, 675, 1213
MboII	GAAGA	6 cut(s)	181, 322, 1091, 1309, 1333, 1615
MflI	RGATCY	1 cut(s)	675
MhlI	GDGCHC	1 cut(s)	486
MluCI	AATT	7 cut(s)	492, 796, 865, 1209, 1430, 1451, 1606
MlyI	GAGTC	1 cut(s)	820
MmeI	TCCRAC	6 cut(s)	186, 720, 996, 1056, 1322, 1641
MseI	TTAA	3 cut(s)	885, 1592, 1641
MslI	CAYNNNNRTG	2 cut(s)	504, 687
MspA1I	CMGCKG	2 cut(s)	644, 872
MspI	CCGG	4 cut(s)	464, 759, 914, 1581
MspR9I	CCNGG	4 cut(s)	553, 760, 1581, 1582
MvaI	CCWGG	1 cut(s)	553
MvnI	CGCG	2 cut(s)	524, 644
NciI	CCSGG	3 cut(s)	760, 1581, 1582
NcoI	CCATGG	1 cut(s)	1188
NdeII	GATC	3 cut(s)	234, 675, 1213
NlaIII	CATG	9 cut(s)	225, 286, 589, 692, 948, 1152, 1192, 1370, 1490
NlaIV	GGNNCC	2 cut(s)	427, 1020
NmeAIII	GCCGAG	1 cut(s)	1088
NmuCI	GTSAC	1 cut(s)	1628
NsbI	TGCGCA	1 cut(s)	849
NspI	RCATGY	3 cut(s)	692, 948, 1152
PaeR7I	CTCGAG	1 cut(s)	900
PciI	ACATGT	1 cut(s)	1148
PfeI	GAWTC	1 cut(s)	1226
PfoI	TCCNGGA	1 cut(s)	758
PleI	GAGTC	1 cut(s)	819
PpsI	GAGTC	1 cut(s)	819
PscI	ACATGT	1 cut(s)	1148
Psp6I	CCWGG	1 cut(s)	551
PspFI	CCCAGC	1 cut(s)	1379
PspGI	CCWGG	1 cut(s)	551
PspN4I	GGNNCC	2 cut(s)	427, 1020
PspPI	GGNCC	4 cut(s)	555, 639, 1060, 1185
PspXI	VCTCGAGB	1 cut(s)	900
PstI	CTGCAG	1 cut(s)	1129
PsuI	RGATCY	1 cut(s)	675
RsaI	GTAC	1 cut(s)	912
RsaNI	GTAC	1 cut(s)	911
RseI	CAYNNNNRTG	2 cut(s)	504, 687
SacII	CCGCGG	1 cut(s)	645
SaqAI	TTAA	3 cut(s)	885, 1592, 1641
Sau3AI	GATC	3 cut(s)	234, 675, 1213
Sau96I	GGNCC	4 cut(s)	555, 639, 1060, 1185
SchI	GAGTC	1 cut(s)	820
ScrFI	CCNGG	4 cut(s)	553, 760, 1581, 1582
SduI	GDGCHC	1 cut(s)	486
SfcI	CTRYAG	3 cut(s)	1125, 1545, 1720
Sfr274I	CTCGAG	1 cut(s)	900
Sfr303I	CCGCGG	1 cut(s)	645
SgrBI	CCGCGG	1 cut(s)	645
SinI	GGWCC	1 cut(s)	1185
SlaI	CTCGAG	1 cut(s)	900
SmaI	CCCGGG	1 cut(s)	1582
SmiMI	CAYNNNNRTG	2 cut(s)	504, 687
SmlI	CTYRAG	3 cut(s)	392, 900, 1028
SmoI	CTYRAG	3 cut(s)	392, 900, 1028
Sse9I	AATT	7 cut(s)	492, 796, 865, 1209, 1430, 1451, 1606
SspI	AATATT	1 cut(s)	1646
SspMI	CTAG	2 cut(s)	777, 1182
StyD4I	CCNGG	4 cut(s)	551, 758, 1579, 1580
StyI	CCWWGG	2 cut(s)	949, 1188
TaaI	ACNGT	5 cut(s)	122, 417, 622, 1200, 1532
TaiI	ACGT	1 cut(s)	216
TaqI	TCGA	6 cut(s)	42, 486, 608, 789, 876, 901
TaqII	GACCGA	1 cut(s)	356
TasI	AATT	7 cut(s)	492, 796, 865, 1209, 1430, 1451, 1606
TauI	GCSGC	4 cut(s)	263, 644, 647, 842
TfiI	GAWTC	1 cut(s)	1226
Tru1I	TTAA	3 cut(s)	885, 1592, 1641
Tru9I	TTAA	3 cut(s)	885, 1592, 1641
TscAI	CASTG	2 cut(s)	1134, 1537
TseFI	GTSAC	1 cut(s)	1628
TseI	GCWGC	6 cut(s)	656, 1094, 1124, 1154, 1483, 1571
Tsp45I	GTSAC	1 cut(s)	1628
TspDTI	ATGAA	7 cut(s)	504, 602, 933, 1013, 1293, 1319, 1355
TspGWI	ACGGA	1 cut(s)	992
TspMI	CCCGGG	1 cut(s)	1580
TspRI	CASTG	2 cut(s)	1134, 1537
VpaK11BI	GGWCC	1 cut(s)	1185
XapI	RAATTY	4 cut(s)	492, 796, 865, 1606
XceI	RCATGY	3 cut(s)	692, 948, 1152
XhoI	CTCGAG	1 cut(s)	900
XmaI	CCCGGG	1 cut(s)	1580
XmiI	GTMKAC	1 cut(s)	617
XspI	CTAG	2 cut(s)	777, 1182

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