Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0013658

Physical Location & Seq

Genomic Coordinates Forward (+)

50638147 .. 50640641

Gene Structure 2495 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG285000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGAAGCCCTCCCATCAATACAAACCCAGCGCCTTCTCATCAAGGACAACCCACTCAACCCTTCCCCGCAGAGACATGTTCAGACCCCGACGAAGGTCGCTGTGGCACACCAAGTGTTCGACGGAGTGCCCCAGTCAGACACCTACGCTTGGAATAAGCTTATCCAAACCCATATCGCCAGCAATGACTTCCACCACGCCGTCTCTACTTACCGCCAAATGCTCCACCGCGGTGTTCGCCCAGATAGGCACACTCTGCCTCGTGCATTATCCGCTTCTCGCCTCTCGGCTGATCTATCTCTCGGCAAACAACTCCACGGCCATGCTCTGAAGTTCAGTTGCACGAATGACCGGTATGTTATTGCTGCTCTTATTGAGCTTTATGGGCGTCTTCAGAGCGTTGACACGGCCAAATGGGTGTTTGATAAGTCCAATGTGAAGGATTTGGTGTCATGGACTATGATTGCTAGGTTGTACATTGCGGAAGGTAAGCCGAGAATGGCGCTTGATATGTTCGATGGAATGGTTGAGTCTGGAGCTGAGATAGATGCCGTGGCACTGGCGACGGCTGCTGGAGCTTGTGGCTTGTTGGAATCGATGACGGATGGAATGAAAGTCCAGCGGGTTGCAAAAGAGCGGGGGTTGGAGTTTGATGTGTTGGTGAGCAATAGCCTCTCGAAAATGTACATTGATTGTGGCTTTGTAGAGGATGCTCGGGCGATTTTCGATCAGAGGCCTGCAAAAGATGTCATTTCGTGGACAGAGATGATTCGTGTCTATGTGAAGAAGGGAGGTTTCAATGAGGGTCTTAAATTGTTTCGGCAGATGATTGCAGATGGACTGAAACCGGATCAACTCTCGGTATCTAGCGTCCTCCCAGCCTGTGCAAGAGTGTCTGCCAATAAACAAGGGTACAGCTTACATGGACAAGGACACCTTGGAGTTGATTTGTTCCGCCAAATAGAGAAAGACTCGAGCATAAAGATTGATGAATTAACATATGCTGCTGTACTTCATGCTTGTGTTGCTGCACGAATGGTTGAGGAAGGGAAGTTTTACTTCAACTGTATAAAGACACCTACAGTTGCACACTGTGCTTTGTTAGTAGCTCTTTTATCTCATTCTGGACTCTTTGATGAGGCAAGGAACTTCATATCAGAGAAAAGAATTGAAGGACATGCTGAGGTACTGAGAGCACTGCTAGATGGCTGTAGGATTCATAAGCAATTGATATTAGAGGAATGA

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

414

Amino Acids

46.01

Weight (kDa)

8.06

Isoelectric Point (pI)

36.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	47 - 85	4.6e-07	PPR repeat family
PPR_2	PF13041	248 - 297	1e-08	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: OG0013658)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g22160 FvH4_4g22160
malus_domestica	MD00G1011100.v1.1 MD00G1167900.v1.1 MD02G1251400.v1.1 MD11G1025800.v1.1 MD12G1177100.v1.1
prunus_persica	Prupe.1G211300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0428391
rosa_laevigata	RLG00000007155
rosa_multiflora	Rmu_sc0004698.1_g000005
rosa_roxburghii	Rroxscaffold_5G00370060
rosa_rugosa	Rorug04G0225200
rosa_samantha	Rh4AG282300 Rh4BG287900 Rh4CG303700 Rh4DG285000
rosa_wichuraiana	Rw4G024500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	637
AccII	CGCG	1 cut(s)	231
AciI	CCGC	9 cut(s)	68, 214, 229, 231, 273, 482, 622, 637, 955
AclWI	GGATC	1 cut(s)	858
AcoI	YGGCCR	2 cut(s)	319, 408
AcuI	CTGAAG	2 cut(s)	350, 377
AcyI	GRCGYC	1 cut(s)	388
AdeI	CACNNNGTG	2 cut(s)	115, 1094
AfaI	GTAC	5 cut(s)	476, 686, 914, 1011, 1188
AfiI	CCNNNNNNNGG	2 cut(s)	94, 150
AflIII	ACRYGT	1 cut(s)	76
AgeI	ACCGGT	1 cut(s)	351
AgsI	TTSAA	3 cut(s)	799, 1063, 1172
AleI	CACNNNNGTG	1 cut(s)	231
AluBI	AGCT	6 cut(s)	160, 379, 539, 578, 918, 1109
AluI	AGCT	6 cut(s)	160, 379, 539, 578, 918, 1109
Alw21I	GWGCWC	1 cut(s)	1198
Alw26I	GTCTC	2 cut(s)	67, 208
AlwI	GGATC	1 cut(s)	858
Ama87I	CYCGRG	2 cut(s)	714, 973
AoxI	GGCC	3 cut(s)	319, 408, 734
ApeKI	GCWGC	4 cut(s)	365, 569, 1004, 1028
AsiGI	ACCGGT	1 cut(s)	351
AspLEI	GCGC	2 cut(s)	33, 505
AsuHPI	GGTGA	1 cut(s)	673
AvaI	CYCGRG	2 cut(s)	714, 973
BaeGI	GKGCMC	1 cut(s)	132
BauI	CACGAG	1 cut(s)	261
BbsI	GAAGAC	1 cut(s)	383
Bbv12I	GWGCWC	1 cut(s)	1198
BbvCI	CCTCAGC	1 cut(s)	1182
BbvI	GCAGC	4 cut(s)	352, 556, 991, 1015
BccI	CCATC	5 cut(s)	22, 512, 599, 830, 1199
BceAI	ACGGC	5 cut(s)	185, 334, 423, 536, 582
BcoDI	GTCTC	2 cut(s)	67, 208
BfaI	CTAG	3 cut(s)	468, 867, 1202
BfmI	CTRYAG	2 cut(s)	1080, 1210
BfoI	RGCGCY	2 cut(s)	34, 506
BisI	GCNGC	4 cut(s)	366, 570, 1005, 1029
BlsI	GCNGC	4 cut(s)	367, 571, 1006, 1030
BmeT110I	CYCGRG	2 cut(s)	714, 973
BmrI	ACTGGG	1 cut(s)	127
BmsI	GCATC	2 cut(s)	538, 700
BmuI	ACTGGG	1 cut(s)	127
BoxI	GACNNNNGTC	1 cut(s)	95
BpiI	GAAGAC	1 cut(s)	383
BplI	GAGNNNNNCTC	2 cut(s)	956, 988
BpmI	CTGGAG	2 cut(s)	555, 594
Bpu10I	CCTNAGC	1 cut(s)	1182
Bsa29I	ATCGAT	1 cut(s)	596
BsaHI	GRCGYC	1 cut(s)	388
BsaJI	CCNNGG	4 cut(s)	229, 316, 552, 937
BsaWI	WCCGGW	2 cut(s)	351, 847
Bsc4I	CCNNNNNNNGG	2 cut(s)	94, 150
Bse118I	RCCGGY	1 cut(s)	351
Bse1I	ACTGG	2 cut(s)	133, 564
Bse3DI	GCAATG	2 cut(s)	190, 477
BseCI	ATCGAT	1 cut(s)	596
BseDI	CCNNGG	4 cut(s)	229, 316, 552, 937
BseGI	GGATG	2 cut(s)	610, 715
BseLI	CCNNNNNNNGG	2 cut(s)	94, 150
BseMI	GCAATG	2 cut(s)	190, 477
BseMII	CTCAG	3 cut(s)	531, 1173, 1181
BseNI	ACTGG	2 cut(s)	133, 564
BseSI	GKGCMC	1 cut(s)	132
BseXI	GCAGC	4 cut(s)	352, 556, 991, 1015
BseYI	CCCAGC	2 cut(s)	27, 877
BsgI	GTGCAG	1 cut(s)	1014
Bsh1236I	CGCG	1 cut(s)	231
BshFI	GGCC	3 cut(s)	321, 410, 736
BshTI	ACCGGT	1 cut(s)	351
BshVI	ATCGAT	1 cut(s)	596
BsiHKAI	GWGCWC	1 cut(s)	1198
BsiHKCI	CYCGRG	2 cut(s)	714, 973
BsiSI	CCGG	2 cut(s)	352, 848
BslI	CCNNNNNNNGG	2 cut(s)	94, 150
BsmAI	GTCTC	2 cut(s)	67, 208
BsmBI	CGTCTC	1 cut(s)	208
BsnI	GGCC	3 cut(s)	321, 410, 736
BsoBI	CYCGRG	2 cut(s)	714, 973
Bsp1286I	GDGCHC	2 cut(s)	132, 1198
Bsp1407I	TGTACA	2 cut(s)	474, 684
Bsp143I	GATC	3 cut(s)	292, 727, 850
BspACI	CCGC	9 cut(s)	68, 214, 229, 231, 273, 482, 622, 637, 955
BspANI	GGCC	3 cut(s)	321, 410, 736
BspCNI	CTCAG	3 cut(s)	532, 1174, 1182
BspDI	ATCGAT	1 cut(s)	596
BspFNI	CGCG	1 cut(s)	231
BspPI	GGATC	1 cut(s)	858
BsrBI	CCGCTC	1 cut(s)	637
BsrDI	GCAATG	2 cut(s)	190, 477
BsrFI	RCCGGY	1 cut(s)	351
BsrGI	TGTACA	2 cut(s)	474, 684
BsrI	ACTGG	2 cut(s)	133, 564
BssAI	RCCGGY	1 cut(s)	351
BssECI	CCNNGG	4 cut(s)	229, 316, 552, 937
BssMI	GATC	3 cut(s)	292, 727, 850
BssNI	GRCGYC	1 cut(s)	388
BssSI	CACGAG	1 cut(s)	261
BssT1I	CCWWGG	1 cut(s)	937
Bst2BI	CACGAG	1 cut(s)	261
Bst4CI	ACNGT	3 cut(s)	1067, 1084, 1094
BstACI	GRCGYC	1 cut(s)	388
BstAPI	GCANNNNNTGC	2 cut(s)	256, 1094
BstAUI	TGTACA	2 cut(s)	474, 684
BstC8I	GCNNGC	2 cut(s)	181, 738
BstDEI	CTNAG	3 cut(s)	540, 1182, 1190
BstDSI	CCRYGG	3 cut(s)	229, 316, 552
BstF5I	GGATG	2 cut(s)	610, 715
BstFNI	CGCG	1 cut(s)	231
BstH2I	RGCGCY	2 cut(s)	34, 506
BstHHI	GCGC	2 cut(s)	33, 505
BstKTI	GATC	3 cut(s)	295, 730, 853
BstMAI	GTCTC	2 cut(s)	67, 208
BstMBI	GATC	3 cut(s)	292, 727, 850
BstMWI	GCNNNNNNNGC	8 cut(s)	237, 256, 272, 385, 569, 575, 1025, 1094
BstNSI	RCATGY	2 cut(s)	80, 1181
BstPAI	GACNNNNGTC	1 cut(s)	95
BstSFI	CTRYAG	2 cut(s)	1080, 1210
BstSLI	GKGCMC	1 cut(s)	132
BstUI	CGCG	1 cut(s)	231
BstV1I	GCAGC	4 cut(s)	352, 556, 991, 1015
BstV2I	GAAGAC	1 cut(s)	383
Bsu15I	ATCGAT	1 cut(s)	596
BsuRI	GGCC	3 cut(s)	321, 410, 736
BsuTUI	ATCGAT	1 cut(s)	596
BtgI	CCRYGG	3 cut(s)	229, 316, 552
BtsCI	GGATG	2 cut(s)	610, 715
BtsI	GCAGTG	1 cut(s)	1196
BtsIMutI	CAGTG	3 cut(s)	557, 1090, 1196
Cac8I	GCNNGC	2 cut(s)	181, 738
CfoI	GCGC	2 cut(s)	33, 505
Cfr10I	RCCGGY	1 cut(s)	351
Cfr42I	CCGCGG	1 cut(s)	232
ClaI	ATCGAT	1 cut(s)	596
CseI	GACGC	2 cut(s)	377, 859
Csp6I	GTAC	5 cut(s)	475, 685, 913, 1010, 1187
CspAI	ACCGGT	1 cut(s)	351
CviAII	CATG	6 cut(s)	77, 323, 453, 923, 1016, 1178
CviQI	GTAC	5 cut(s)	475, 685, 913, 1010, 1187
DdeI	CTNAG	3 cut(s)	540, 1182, 1190
DpnI	GATC	3 cut(s)	294, 729, 852
DpnII	GATC	3 cut(s)	292, 727, 850
DraIII	CACNNNGTG	2 cut(s)	115, 1094
EaeI	YGGCCR	2 cut(s)	319, 408
EciI	GGCGGA	1 cut(s)	944
Eco130I	CCWWGG	1 cut(s)	937
Eco147I	AGGCCT	1 cut(s)	736
Eco57I	CTGAAG	2 cut(s)	350, 377
Eco88I	CYCGRG	2 cut(s)	714, 973
EcoT14I	CCWWGG	1 cut(s)	937
ErhI	CCWWGG	1 cut(s)	937
Esp3I	CGTCTC	1 cut(s)	208
FaeI	CATG	6 cut(s)	80, 326, 456, 926, 1019, 1181
FalI	AAGNNNNNCTT	4 cut(s)	921, 953, 1043, 1075
FatI	CATG	6 cut(s)	76, 322, 452, 922, 1015, 1177
FauI	CCCGC	3 cut(s)	75, 615, 630
FauNDI	CATATG	1 cut(s)	1000
Fnu4HI	GCNGC	4 cut(s)	366, 570, 1005, 1029
FokI	GGATG	2 cut(s)	617, 722
Fsp4HI	GCNGC	4 cut(s)	366, 570, 1005, 1029
FspBI	CTAG	3 cut(s)	468, 867, 1202
GlaI	GCGC	2 cut(s)	32, 504
GluI	GCNGC	4 cut(s)	366, 570, 1005, 1029
GsaI	CCCAGC	2 cut(s)	31, 881
GsuI	CTGGAG	2 cut(s)	555, 594
HaeII	RGCGCY	2 cut(s)	34, 506
HaeIII	GGCC	3 cut(s)	321, 410, 736
HapII	CCGG	2 cut(s)	352, 848
HgaI	GACGC	2 cut(s)	377, 859
HhaI	GCGC	2 cut(s)	33, 505
Hin1I	GRCGYC	1 cut(s)	388
Hin1II	CATG	6 cut(s)	80, 326, 456, 926, 1019, 1181
Hin6I	GCGC	2 cut(s)	31, 503
HinP1I	GCGC	2 cut(s)	31, 503
HincII	GTYRAC	1 cut(s)	403
HindII	GTYRAC	1 cut(s)	403
HindIII	AAGCTT	1 cut(s)	158
HinfI	GANTC	6 cut(s)	530, 593, 769, 971, 1128, 1216
HpaII	CCGG	2 cut(s)	352, 848
HphI	GGTGA	1 cut(s)	673
Hpy166II	GTNNAC	2 cut(s)	403, 759
Hpy188I	TCNGA	6 cut(s)	84, 139, 330, 396, 732, 1159
Hpy188III	TCNNGA	3 cut(s)	534, 676, 1125
Hpy8I	GTNNAC	2 cut(s)	403, 759
Hpy99I	CGWCG	3 cut(s)	94, 125, 568
HpyAV	CCTTC	8 cut(s)	44, 72, 88, 433, 479, 781, 1040, 1166
HpyCH4III	ACNGT	3 cut(s)	1067, 1084, 1094
HpyCH4V	TGCA	8 cut(s)	266, 342, 629, 740, 833, 887, 1031, 1088
HpyF10VI	GCNNNNNNNGC	8 cut(s)	237, 256, 272, 385, 569, 575, 1025, 1094
HpyF3I	CTNAG	3 cut(s)	540, 1182, 1190
Hsp92I	GRCGYC	1 cut(s)	388
Hsp92II	CATG	6 cut(s)	80, 326, 456, 926, 1019, 1181
HspAI	GCGC	2 cut(s)	31, 503
KspI	CCGCGG	1 cut(s)	232
Kzo9I	GATC	3 cut(s)	292, 727, 850
LmnI	GCTCC	3 cut(s)	228, 536, 575
Lsp1109I	GCAGC	4 cut(s)	352, 556, 991, 1015
LweI	GCATC	2 cut(s)	538, 700
MaeI	CTAG	3 cut(s)	468, 867, 1202
MalI	GATC	3 cut(s)	294, 729, 852
MbiI	CCGCTC	1 cut(s)	637
MboI	GATC	3 cut(s)	292, 727, 850
MboII	GAAGA	2 cut(s)	383, 796
MfeI	CAATTG	1 cut(s)	1226
MhlI	GDGCHC	2 cut(s)	132, 1198
MluCI	AATT	4 cut(s)	812, 992, 1167, 1226
MlyI	GAGTC	3 cut(s)	539, 965, 1122
MmeI	TCCRAC	2 cut(s)	570, 624
MseI	TTAA	2 cut(s)	810, 995
MslI	CAYNNNNRTG	3 cut(s)	231, 321, 1020
MspA1I	CMGCKG	2 cut(s)	231, 622
MspI	CCGG	2 cut(s)	352, 848
MunI	CAATTG	1 cut(s)	1226
MvnI	CGCG	1 cut(s)	231
MwoI	GCNNNNNNNGC	8 cut(s)	237, 256, 272, 385, 569, 575, 1025, 1094
NdeI	CATATG	1 cut(s)	1000
NdeII	GATC	3 cut(s)	292, 727, 850
NlaIII	CATG	6 cut(s)	80, 326, 456, 926, 1019, 1181
NmeAIII	GCCGAG	3 cut(s)	266, 282, 519
NspI	RCATGY	2 cut(s)	80, 1181
OliI	CACNNNNGTG	1 cut(s)	231
PaeR7I	CTCGAG	1 cut(s)	973
PceI	AGGCCT	1 cut(s)	736
PciI	ACATGT	1 cut(s)	76
PfeI	GAWTC	3 cut(s)	593, 769, 1216
PinAI	ACCGGT	1 cut(s)	351
PkrI	GCNGC	4 cut(s)	367, 571, 1006, 1030
PleI	GAGTC	3 cut(s)	538, 965, 1122
PpsI	GAGTC	3 cut(s)	538, 965, 1122
PscI	ACATGT	1 cut(s)	76
PshAI	GACNNNNGTC	1 cut(s)	95
PspFI	CCCAGC	2 cut(s)	27, 877
PspXI	VCTCGAGB	1 cut(s)	973
RsaI	GTAC	5 cut(s)	476, 686, 914, 1011, 1188
RsaNI	GTAC	5 cut(s)	475, 685, 913, 1010, 1187
RseI	CAYNNNNRTG	3 cut(s)	231, 321, 1020
SacII	CCGCGG	1 cut(s)	232
SaqAI	TTAA	2 cut(s)	810, 995
SatI	GCNGC	4 cut(s)	366, 570, 1005, 1029
Sau3AI	GATC	3 cut(s)	292, 727, 850
SchI	GAGTC	3 cut(s)	539, 965, 1122
SduI	GDGCHC	2 cut(s)	132, 1198
SfaNI	GCATC	2 cut(s)	538, 700
SfcI	CTRYAG	2 cut(s)	1080, 1210
Sfr274I	CTCGAG	1 cut(s)	973
Sfr303I	CCGCGG	1 cut(s)	232
SgrBI	CCGCGG	1 cut(s)	232
SlaI	CTCGAG	1 cut(s)	973
SmiMI	CAYNNNNRTG	3 cut(s)	231, 321, 1020
SmlI	CTYRAG	1 cut(s)	973
SmoI	CTYRAG	1 cut(s)	973
Sse9I	AATT	4 cut(s)	812, 992, 1167, 1226
SseBI	AGGCCT	1 cut(s)	736
SsiI	CCGC	9 cut(s)	68, 214, 229, 231, 273, 482, 622, 637, 955
SspMI	CTAG	3 cut(s)	468, 867, 1202
StuI	AGGCCT	1 cut(s)	736
StyI	CCWWGG	1 cut(s)	937
TaaI	ACNGT	3 cut(s)	1067, 1084, 1094
TaqI	TCGA	6 cut(s)	120, 516, 596, 677, 726, 974
TasI	AATT	4 cut(s)	812, 992, 1167, 1226
TatI	WGTACW	3 cut(s)	474, 684, 1009
TfiI	GAWTC	3 cut(s)	593, 769, 1216
Tru1I	TTAA	2 cut(s)	810, 995
Tru9I	TTAA	2 cut(s)	810, 995
TscAI	CASTG	3 cut(s)	564, 1097, 1203
TseI	GCWGC	4 cut(s)	365, 569, 1004, 1028
TspDTI	ATGAA	5 cut(s)	626, 1004, 1005, 1141, 1208
TspGWI	ACGGA	2 cut(s)	138, 617
TspRI	CASTG	3 cut(s)	564, 1097, 1203
XceI	RCATGY	2 cut(s)	80, 1181
XhoI	CTCGAG	1 cut(s)	973
XspI	CTAG	3 cut(s)	468, 867, 1202

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