Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0013658

Physical Location & Seq

Genomic Coordinates Forward (+)

59725600 .. 59728043

Gene Structure 2444 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG282300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1254 bp

ATGGAAGCCCTTCCATCCCTACAAACCCAGCGTCTTCTCATCAAGGACAACCCACTCAACCCTTCCCAGCAGAGACATGCCCGAATTGTTCAGACCCCAACGAAGGTCGCTGTGGCACACCAAGTGTTCGACGGAATGCCCCAGTCAGACACCTACGCTTGGAATAAGCTTATCCAAACCCATATCGCCAACAATGACTTCCACCACGCCGTCTCTACTTACCACCAAATGCTCCACCGCGGTGTTCGCCCAGATAGGCACACTCTGCCTCGTGCATTATCCGCTTCTCGCCTCTCGGCTGATCTATCTCTCGGCAAACAACTCCACGGCCATGCTCTGAAGTTCGGTTGCACGAATGACCGGTACGTCATTGCTGCTCTCATTGAGCTTTATGGGCGTCTTCAGAGCGTTGACACGGCGAAATGGGTGTATGATAAGTCCAATGTGAGGGATTTGGTGTCATGGACTATGATTGCTAGGTTGTACATTGCGGAAGGTGCGCCGAGAATGGCGCTTGATATGTTTGATAGAATGGTTGAGTCTGGAGCTGAGATAGATGCCGTGGCACTGGCGACGGCTGCTGGAGCTTGTGGCTTGTTGAAATCAATGACGGATGGAATGAAAGTCCACCGGGTTGCAAAAGAGCGGGGGTTGGAGTTTGATGTGTTGGTGAGCAATAGTCTCTCGAAAATGTACATTGATTGTGGCTGTGTAGAGGATGCTCGGGCGATTTTCGATCAGAGGCCTGCAAAAGATGTCATTTCGTGGACAGAGATGATTCGTGTCTATGTGAAGAAGGGAGGTTTCAATGAGGGTCTTAAATTGTTTCGGCAGATGATTGCAGATGGATTGAAACCGGATCAACTCTCGGTATCTAGCGTCCTCCCAGCCTGTGCAAGAGTGTCTGCCAATAAACAAGGGTACAGCTTACATGGACTAGGACACCTTGGAGTTGATTTGTTCCGCCAAATAGAGAAAGACTCGAGCATAAAGATTGATGAATTAACATATGCTGCTGTACTTCATGCTTGTGTTGCTGCACGAATGGTTGAGGAAGGGAAGTTTTACTTCAACTGTATAAAGACACCTACAGTTGCACACTGTGCTTTGTTAGTAGCTCTATTATCTCATTCTGGACTCTTTGATGAGGCAAGGAACTTCATATCAGAGAAAAGAATCGAAGGACATGCTGAGGTACTGAGAGCACTGCTGGATGGCTGTAGGATTCATAAGCAATTGATATTAGAGGAATGA

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

417

Amino Acids

46.43

Weight (kDa)

8.48

Isoelectric Point (pI)

35.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	50 - 88	1.2e-07	PPR repeat family
PPR_2	PF13041	251 - 300	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)
AasI	GACNNNNNNGTC	1 cut(s)	365
AccBSI	CCGCTC	1 cut(s)	646
AccII	CGCG	1 cut(s)	240
AciI	CCGC	6 cut(s)	238, 240, 282, 491, 646, 964
AclWI	GGATC	1 cut(s)	867
AcoI	YGGCCR	1 cut(s)	328
AcuI	CTGAAG	2 cut(s)	359, 386
AcyI	GRCGYC	1 cut(s)	397
AdeI	CACNNNGTG	2 cut(s)	124, 1103
AfaI	GTAC	6 cut(s)	365, 485, 695, 923, 1020, 1197
AfiI	CCNNNNNNNGG	3 cut(s)	103, 159, 447
AgeI	ACCGGT	1 cut(s)	360
AgsI	TTSAA	4 cut(s)	601, 808, 853, 1072
AjuI	GAANNNNNNNTTGG	2 cut(s)	182, 214
AleI	CACNNNNGTG	1 cut(s)	240
AluBI	AGCT	6 cut(s)	169, 388, 548, 587, 927, 1118
AluI	AGCT	6 cut(s)	169, 388, 548, 587, 927, 1118
Alw21I	GWGCWC	1 cut(s)	1207
Alw26I	GTCTC	3 cut(s)	67, 217, 686
AlwI	GGATC	1 cut(s)	867
Ama87I	CYCGRG	2 cut(s)	723, 982
AoxI	GGCC	2 cut(s)	328, 743
ApeKI	GCWGC	4 cut(s)	374, 578, 1013, 1037
ArsI	GACNNNNNNTTYG	2 cut(s)	16, 48
AsiGI	ACCGGT	1 cut(s)	360
Asp700I	GAANNNNTTC	1 cut(s)	9
AspLEI	GCGC	2 cut(s)	502, 514
AsuC2I	CCSGG	1 cut(s)	632
AsuHPI	GGTGA	1 cut(s)	682
AvaI	CYCGRG	2 cut(s)	723, 982
BauI	CACGAG	1 cut(s)	270
BbsI	GAAGAC	2 cut(s)	26, 392
Bbv12I	GWGCWC	1 cut(s)	1207
BbvCI	CCTCAGC	1 cut(s)	1191
BbvI	GCAGC	4 cut(s)	361, 565, 1000, 1024
BccI	CCATC	4 cut(s)	22, 608, 839, 1208
BceAI	ACGGC	5 cut(s)	194, 343, 432, 545, 591
BcgI	CGANNNNNNTGC	2 cut(s)	1169, 1203
BcnI	CCSGG	1 cut(s)	632
BcoDI	GTCTC	3 cut(s)	67, 217, 686
BfaI	CTAG	3 cut(s)	477, 876, 938
BfmI	CTRYAG	2 cut(s)	1089, 1219
BfoI	RGCGCY	1 cut(s)	515
BisI	GCNGC	4 cut(s)	375, 579, 1014, 1038
BlsI	GCNGC	4 cut(s)	376, 580, 1015, 1039
Bme1390I	CCNGG	1 cut(s)	632
BmeT110I	CYCGRG	2 cut(s)	723, 982
BmrFI	CCNGG	1 cut(s)	632
BmrI	ACTGGG	1 cut(s)	136
BmsI	GCATC	2 cut(s)	547, 709
BmuI	ACTGGG	1 cut(s)	136
BpiI	GAAGAC	2 cut(s)	26, 392
BplI	GAGNNNNNCTC	2 cut(s)	965, 997
BpmI	CTGGAG	2 cut(s)	564, 603
Bpu10I	CCTNAGC	1 cut(s)	1191
BpuMI	CCSGG	1 cut(s)	632
BsaHI	GRCGYC	1 cut(s)	397
BsaJI	CCNNGG	4 cut(s)	238, 325, 561, 946
BsaWI	WCCGGW	2 cut(s)	360, 856
Bsc4I	CCNNNNNNNGG	3 cut(s)	103, 159, 447
Bse118I	RCCGGY	1 cut(s)	360
Bse1I	ACTGG	2 cut(s)	142, 573
Bse3DI	GCAATG	2 cut(s)	369, 486
BseDI	CCNNGG	4 cut(s)	238, 325, 561, 946
BseGI	GGATG	4 cut(s)	14, 619, 724, 1219
BseLI	CCNNNNNNNGG	3 cut(s)	103, 159, 447
BseMI	GCAATG	2 cut(s)	369, 486
BseMII	CTCAG	3 cut(s)	540, 1182, 1190
BseNI	ACTGG	2 cut(s)	142, 573
BseXI	GCAGC	4 cut(s)	361, 565, 1000, 1024
BseYI	CCCAGC	3 cut(s)	27, 66, 886
BsgI	GTGCAG	1 cut(s)	1023
Bsh1236I	CGCG	1 cut(s)	240
BshFI	GGCC	2 cut(s)	330, 745
BshTI	ACCGGT	1 cut(s)	360
BsiHKAI	GWGCWC	1 cut(s)	1207
BsiHKCI	CYCGRG	2 cut(s)	723, 982
BsiSI	CCGG	3 cut(s)	361, 631, 857
BslI	CCNNNNNNNGG	3 cut(s)	103, 159, 447
BsmAI	GTCTC	3 cut(s)	67, 217, 686
BsmBI	CGTCTC	1 cut(s)	217
BsmI	GAATGC	1 cut(s)	141
BsnI	GGCC	2 cut(s)	330, 745
BsoBI	CYCGRG	2 cut(s)	723, 982
Bsp1286I	GDGCHC	1 cut(s)	1207
Bsp1407I	TGTACA	2 cut(s)	483, 693
Bsp143I	GATC	3 cut(s)	301, 736, 859
BspACI	CCGC	6 cut(s)	238, 240, 282, 491, 646, 964
BspANI	GGCC	2 cut(s)	330, 745
BspCNI	CTCAG	3 cut(s)	541, 1183, 1191
BspFNI	CGCG	1 cut(s)	240
BspPI	GGATC	1 cut(s)	867
BsrBI	CCGCTC	1 cut(s)	646
BsrDI	GCAATG	2 cut(s)	369, 486
BsrFI	RCCGGY	1 cut(s)	360
BsrGI	TGTACA	2 cut(s)	483, 693
BsrI	ACTGG	2 cut(s)	142, 573
BssAI	RCCGGY	1 cut(s)	360
BssECI	CCNNGG	4 cut(s)	238, 325, 561, 946
BssMI	GATC	3 cut(s)	301, 736, 859
BssNI	GRCGYC	1 cut(s)	397
BssSI	CACGAG	1 cut(s)	270
BssT1I	CCWWGG	1 cut(s)	946
Bst2BI	CACGAG	1 cut(s)	270
Bst4CI	ACNGT	3 cut(s)	1076, 1093, 1103
BstACI	GRCGYC	1 cut(s)	397
BstAPI	GCANNNNNTGC	2 cut(s)	265, 1103
BstAUI	TGTACA	2 cut(s)	483, 693
BstC8I	GCNNGC	1 cut(s)	747
BstDEI	CTNAG	3 cut(s)	549, 1191, 1199
BstDSI	CCRYGG	3 cut(s)	238, 325, 561
BstF5I	GGATG	4 cut(s)	14, 619, 724, 1219
BstFNI	CGCG	1 cut(s)	240
BstH2I	RGCGCY	1 cut(s)	515
BstHHI	GCGC	2 cut(s)	502, 514
BstKTI	GATC	3 cut(s)	304, 739, 862
BstMAI	GTCTC	3 cut(s)	67, 217, 686
BstMBI	GATC	3 cut(s)	301, 736, 859
BstMWI	GCNNNNNNNGC	9 cut(s)	246, 265, 281, 394, 497, 578, 584, 1034, 1103
BstNSI	RCATGY	2 cut(s)	80, 1190
BstSCI	CCNGG	1 cut(s)	630
BstSFI	CTRYAG	2 cut(s)	1089, 1219
BstUI	CGCG	1 cut(s)	240
BstV1I	GCAGC	4 cut(s)	361, 565, 1000, 1024
BstV2I	GAAGAC	2 cut(s)	26, 392
BsuRI	GGCC	2 cut(s)	330, 745
BtgI	CCRYGG	3 cut(s)	238, 325, 561
BtsCI	GGATG	4 cut(s)	14, 619, 724, 1219
BtsI	GCAGTG	1 cut(s)	1205
BtsIMutI	CAGTG	3 cut(s)	566, 1099, 1205
Cac8I	GCNNGC	1 cut(s)	747
CfoI	GCGC	2 cut(s)	502, 514
Cfr10I	RCCGGY	1 cut(s)	360
Cfr42I	CCGCGG	1 cut(s)	241
CseI	GACGC	3 cut(s)	20, 386, 868
Csp6I	GTAC	6 cut(s)	364, 484, 694, 922, 1019, 1196
CspAI	ACCGGT	1 cut(s)	360
CviAII	CATG	6 cut(s)	77, 332, 462, 932, 1025, 1187
CviQI	GTAC	6 cut(s)	364, 484, 694, 922, 1019, 1196
DdeI	CTNAG	3 cut(s)	549, 1191, 1199
DpnI	GATC	3 cut(s)	303, 738, 861
DpnII	GATC	3 cut(s)	301, 736, 859
DraIII	CACNNNGTG	2 cut(s)	124, 1103
DrdI	GACNNNNNNGTC	1 cut(s)	365
DseDI	GACNNNNNNGTC	1 cut(s)	365
EaeI	YGGCCR	1 cut(s)	328
EciI	GGCGGA	1 cut(s)	953
Eco130I	CCWWGG	1 cut(s)	946
Eco147I	AGGCCT	1 cut(s)	745
Eco57I	CTGAAG	2 cut(s)	359, 386
Eco88I	CYCGRG	2 cut(s)	723, 982
EcoT14I	CCWWGG	1 cut(s)	946
ErhI	CCWWGG	1 cut(s)	946
Esp3I	CGTCTC	1 cut(s)	217
FaeI	CATG	6 cut(s)	80, 335, 465, 935, 1028, 1190
FalI	AAGNNNNNCTT	2 cut(s)	1052, 1084
FatI	CATG	6 cut(s)	76, 331, 461, 931, 1024, 1186
FauI	CCCGC	1 cut(s)	639
FauNDI	CATATG	1 cut(s)	1009
Fnu4HI	GCNGC	4 cut(s)	375, 579, 1014, 1038
FokI	GGATG	3 cut(s)	626, 731, 1226
Fsp4HI	GCNGC	4 cut(s)	375, 579, 1014, 1038
FspBI	CTAG	3 cut(s)	477, 876, 938
GlaI	GCGC	2 cut(s)	501, 513
GluI	GCNGC	4 cut(s)	375, 579, 1014, 1038
GsaI	CCCAGC	3 cut(s)	31, 70, 890
GsuI	CTGGAG	2 cut(s)	564, 603
HaeII	RGCGCY	1 cut(s)	515
HaeIII	GGCC	2 cut(s)	330, 745
HapII	CCGG	3 cut(s)	361, 631, 857
HgaI	GACGC	3 cut(s)	20, 386, 868
HhaI	GCGC	2 cut(s)	502, 514
Hin1I	GRCGYC	1 cut(s)	397
Hin1II	CATG	6 cut(s)	80, 335, 465, 935, 1028, 1190
Hin6I	GCGC	2 cut(s)	500, 512
HinP1I	GCGC	2 cut(s)	500, 512
HincII	GTYRAC	1 cut(s)	412
HindII	GTYRAC	1 cut(s)	412
HindIII	AAGCTT	1 cut(s)	167
HinfI	GANTC	6 cut(s)	539, 778, 980, 1137, 1176, 1225
HpaII	CCGG	3 cut(s)	361, 631, 857
HphI	GGTGA	1 cut(s)	682
Hpy166II	GTNNAC	3 cut(s)	412, 628, 768
Hpy188I	TCNGA	6 cut(s)	93, 148, 339, 405, 741, 1168
Hpy188III	TCNNGA	3 cut(s)	543, 685, 1134
Hpy8I	GTNNAC	3 cut(s)	412, 628, 768
Hpy99I	CGWCG	2 cut(s)	134, 577
HpyAV	CCTTC	7 cut(s)	20, 72, 97, 488, 790, 1049, 1175
HpyCH4III	ACNGT	3 cut(s)	1076, 1093, 1103
HpyCH4IV	ACGT	1 cut(s)	366
HpyCH4V	TGCA	8 cut(s)	275, 351, 638, 749, 842, 896, 1040, 1097
HpyF10VI	GCNNNNNNNGC	9 cut(s)	246, 265, 281, 394, 497, 578, 584, 1034, 1103
HpyF3I	CTNAG	3 cut(s)	549, 1191, 1199
HpySE526I	ACGT	1 cut(s)	366
Hsp92I	GRCGYC	1 cut(s)	397
Hsp92II	CATG	6 cut(s)	80, 335, 465, 935, 1028, 1190
HspAI	GCGC	2 cut(s)	500, 512
KspI	CCGCGG	1 cut(s)	241
Kzo9I	GATC	3 cut(s)	301, 736, 859
LmnI	GCTCC	3 cut(s)	237, 545, 584
Lsp1109I	GCAGC	4 cut(s)	361, 565, 1000, 1024
LweI	GCATC	2 cut(s)	547, 709
MaeI	CTAG	3 cut(s)	477, 876, 938
MaeII	ACGT	1 cut(s)	366
MalI	GATC	3 cut(s)	303, 738, 861
MbiI	CCGCTC	1 cut(s)	646
MboI	GATC	3 cut(s)	301, 736, 859
MboII	GAAGA	3 cut(s)	26, 392, 805
MfeI	CAATTG	1 cut(s)	1235
MhlI	GDGCHC	1 cut(s)	1207
MluCI	AATT	4 cut(s)	84, 821, 1001, 1235
MlyI	GAGTC	3 cut(s)	548, 974, 1131
MmeI	TCCRAC	1 cut(s)	633
MroXI	GAANNNNTTC	1 cut(s)	9
MseI	TTAA	2 cut(s)	819, 1004
MslI	CAYNNNNRTG	3 cut(s)	240, 330, 1029
MspA1I	CMGCKG	1 cut(s)	240
MspI	CCGG	3 cut(s)	361, 631, 857
MspR9I	CCNGG	1 cut(s)	632
MunI	CAATTG	1 cut(s)	1235
Mva1269I	GAATGC	1 cut(s)	141
MvnI	CGCG	1 cut(s)	240
MwoI	GCNNNNNNNGC	9 cut(s)	246, 265, 281, 394, 497, 578, 584, 1034, 1103
NciI	CCSGG	1 cut(s)	632
NdeI	CATATG	1 cut(s)	1009
NdeII	GATC	3 cut(s)	301, 736, 859
NlaIII	CATG	6 cut(s)	80, 335, 465, 935, 1028, 1190
NmeAIII	GCCGAG	3 cut(s)	275, 291, 528
NspI	RCATGY	2 cut(s)	80, 1190
OliI	CACNNNNGTG	1 cut(s)	240
PaeR7I	CTCGAG	1 cut(s)	982
PceI	AGGCCT	1 cut(s)	745
PctI	GAATGC	1 cut(s)	141
PdmI	GAANNNNTTC	1 cut(s)	9
PfeI	GAWTC	3 cut(s)	778, 1176, 1225
PinAI	ACCGGT	1 cut(s)	360
PkrI	GCNGC	4 cut(s)	376, 580, 1015, 1039
PleI	GAGTC	3 cut(s)	547, 974, 1131
PpsI	GAGTC	3 cut(s)	547, 974, 1131
PspFI	CCCAGC	3 cut(s)	27, 66, 886
PspXI	VCTCGAGB	1 cut(s)	982
RsaI	GTAC	6 cut(s)	365, 485, 695, 923, 1020, 1197
RsaNI	GTAC	6 cut(s)	364, 484, 694, 922, 1019, 1196
RseI	CAYNNNNRTG	3 cut(s)	240, 330, 1029
SacII	CCGCGG	1 cut(s)	241
SaqAI	TTAA	2 cut(s)	819, 1004
SatI	GCNGC	4 cut(s)	375, 579, 1014, 1038
Sau3AI	GATC	3 cut(s)	301, 736, 859
SchI	GAGTC	3 cut(s)	548, 974, 1131
ScrFI	CCNGG	1 cut(s)	632
SduI	GDGCHC	1 cut(s)	1207
SfaNI	GCATC	2 cut(s)	547, 709
SfcI	CTRYAG	2 cut(s)	1089, 1219
Sfr274I	CTCGAG	1 cut(s)	982
Sfr303I	CCGCGG	1 cut(s)	241
SgrBI	CCGCGG	1 cut(s)	241
SlaI	CTCGAG	1 cut(s)	982
SmiMI	CAYNNNNRTG	3 cut(s)	240, 330, 1029
SmlI	CTYRAG	1 cut(s)	982
SmoI	CTYRAG	1 cut(s)	982
Sse9I	AATT	4 cut(s)	84, 821, 1001, 1235
SseBI	AGGCCT	1 cut(s)	745
SsiI	CCGC	6 cut(s)	238, 240, 282, 491, 646, 964
SspMI	CTAG	3 cut(s)	477, 876, 938
StuI	AGGCCT	1 cut(s)	745
StyD4I	CCNGG	1 cut(s)	630
StyI	CCWWGG	1 cut(s)	946
TaaI	ACNGT	3 cut(s)	1076, 1093, 1103
TaiI	ACGT	1 cut(s)	369
TaqI	TCGA	5 cut(s)	129, 686, 735, 983, 1179
TasI	AATT	4 cut(s)	84, 821, 1001, 1235
TatI	WGTACW	3 cut(s)	483, 693, 1018
TfiI	GAWTC	3 cut(s)	778, 1176, 1225
Tru1I	TTAA	2 cut(s)	819, 1004
Tru9I	TTAA	2 cut(s)	819, 1004
TscAI	CASTG	3 cut(s)	573, 1106, 1212
TseI	GCWGC	4 cut(s)	374, 578, 1013, 1037
TspDTI	ATGAA	5 cut(s)	635, 1013, 1014, 1150, 1217
TspGWI	ACGGA	2 cut(s)	147, 626
TspRI	CASTG	3 cut(s)	573, 1106, 1212
XceI	RCATGY	2 cut(s)	80, 1190
XhoI	CTCGAG	1 cut(s)	982
XmnI	GAANNNNTTC	1 cut(s)	9
XspI	CTAG	3 cut(s)	477, 876, 938

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