Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0004842

Physical Location & Seq

Genomic Coordinates Reverse (-)

21112684 .. 21122029

Gene Structure 9346 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG160900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1431 bp

ATGTCCAACTATTTCTCTCTATATAGAACACAAAGCTCTGATTTCATTACTCGTTTTATACACCACATTTCTCAAACCAAGAATCAAAGCGCCGTTAAGAAACTCCATGCTCAACTTCTAACAACAGGGTTGCTTATCATATCCCCTCATTTTCACGCTAAACTTATCCTCTCATACACCAAATGCCTTCCCCAACACAACCTCCAGACACTGACCCACTTCTTCAAATGCATGAAACCCAAAAGCGAATTACCATTCAATGTGTTAATGGCTGACTTCTGCCGAAATGGGTTCAGTTTTCTTGCTCTCAAAACCTTATCATTCATGCACAGTAGCGGCGTTCCTATAGATACGTATGCTTTGTGTAGTTCTTTAACTGCTGCATCTTCTATTAAAGATGTTGGCTTCGGTAGAAAGATACATGCCCATGTGGTAAAGTCAGGCTGGTGCTCCAGTGTTTTTGTTGGGAGTGCTCTGATTGACTTGTATGCCAAGTCATTGGTTATAGGAGATGCAGGCCAAGTGTTTGATGAAATGCCGCTGAGAAACACTGTTTGTGCAAACGCACTTTTATCAGGTTATGGTGATGCCAAGTTGTGGACAGAGGCAGTAGAATTGATCAGGAAGATGCCGGCACTGAGTTTGGAGTATGATCACTTCACATTGTCTGCGGCATTCCGTGCCTGTGCTGGGCTAGCTGCAGTTGAATTGGGTAGGCAGGTACATGGTTATTTGATGCGTTCGGTTTATGATGTGGGAAGTGATGTGTTTCTGCTGAGTTCATTGATTGAAATGTATGGTAAATGTGGGCTGGTAGCCAAGGCTCAGAAAGTTTTCAATTTTGATGGAAAAGGAGAGGGGAAAAGAGATGTGGTTATGTGGACTTCATTGCTTGGTGTGTGTGGTAGAAATGGATACTATAAAGAGGTACTTGAACTATTCAAAGATATGTTGATGGAAGGAATTAGCCCAGATGGGGTGGCATTTGTGACAGTCATCTCTGCTTGTGCTCGCACCGGTCAATTGCAGCTCGGCATTGAGTATTTTGAATCCATGGAACTCAAGTTCAGCTTGAAACCAGGTCCAGAACACTACAGCTGTCTAGTTGATTTGCTGTGTAGAGCTGGTGAATTGGGCAAGGCGTGGAAGCTCGTTGATGAGATGCTTAATAAAGGTCACAGCAGCTGCACTGTCCCTATGTGGGGAGCTTTGCTTAATGCTTGCAAAGATCAAGGTGATCTTGAATTGGGTAAACTGGCTGCTCAAAGGGCACTTGAGTTGAATCCTCATAATGATGGTATTTATGTTTTGCTATCAAAGTTATATGCCAGGTGCGGTATGTGGCACGAGATTAATCATTTGAGGGAATTAATGAAAGAAAAGGGGTTAAGGAAAGATGTCGGATATAGCCGGATTGAAGTCACAAATTGA

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

PPR PPR_2

Protein Analysis

476

Amino Acids

52.85

Weight (kDa)

8.59

Isoelectric Point (pI)

35.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	289 - 338	5.2e-10	PPR repeat family
PPR	PF01535	292 - 322	3.5e-07	PPR repeat
PPR_1	PF12854	359 - 388	8e-07	PPR repeat
E_motif	PF20431	413 - 473	3.7e-16	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0004842)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g10791
rosa_chinensis	RchiOBHm_Chr6g0268571 RchiOBHm_Chr6g0268611 RchiOBHm_Chr6g0268691 RchiOBHm_Chr6g0268791 RchiOBHm_Chr6g0268801
rosa_laevigata	RLG00000013896 RLG00000013900
rosa_multiflora	Rmu_sc0000869.1_g000012 Rmu_sc0005121.1_g000006 Rmu_sc0005125.1_g000014 Rmu_sc0006115.1_g000001
rosa_roxburghii	Rroxscaffold_4G00312470 Rroxscaffold_7G00199160 Rroxscaffold_7G00199690
rosa_rugosa	Rorug06G0043200
rosa_samantha	Rh6AG162800 Rh6AG163800 Rh6BG166900 Rh6BG167800 Rh6BG168400 Rh6CG160900 Rh6CG161400 Rh6CG162000 Rh6CG162600 Rh6DG152200 Rh6DG152900 Rh6DG153600 Rh6DG154200
rosa_wichuraiana	Rw0G004740 Rw6G014050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	709
AccB7I	CCANNNNNTGG	1 cut(s)	597
AciI	CCGC	4 cut(s)	336, 539, 671, 1335
AfaI	GTAC	2 cut(s)	723, 930
AfiI	CCNNNNNNNGG	5 cut(s)	597, 690, 976, 1201, 1202
AgeI	ACCGGT	1 cut(s)	1016
AjnI	CCWGG	2 cut(s)	1078, 1328
AloI	GAACNNNNNNTCC	2 cut(s)	1049, 1081
AluBI	AGCT	9 cut(s)	36, 698, 1030, 1071, 1098, 1124, 1150, 1185, 1208
AluI	AGCT	9 cut(s)	36, 698, 1030, 1071, 1098, 1124, 1150, 1185, 1208
Alw21I	GWGCWC	3 cut(s)	452, 475, 1012
AlwNI	CAGNNNCTG	2 cut(s)	211, 1185
AoxI	GGCC	1 cut(s)	517
ApeKI	GCWGC	6 cut(s)	380, 698, 1027, 1182, 1185, 1259
AseI	ATTAAT	2 cut(s)	1353, 1370
AsiGI	ACCGGT	1 cut(s)	1016
Asp700I	GAANNNNTTC	1 cut(s)	833
AspLEI	GCGC	1 cut(s)	92
AspS9I	GGNCC	1 cut(s)	1082
AsuHPI	GGTGA	3 cut(s)	596, 1139, 1247
AsuNHI	GCTAGC	1 cut(s)	694
AvaII	GGWCC	1 cut(s)	1082
BaeGI	GKGCMC	1 cut(s)	1273
BarI	GAAGNNNNNNTAC	2 cut(s)	641, 673
BauI	CACGAG	1 cut(s)	1346
Bbv12I	GWGCWC	3 cut(s)	452, 475, 1012
BbvI	GCAGC	6 cut(s)	367, 685, 1039, 1172, 1194, 1246
BccI	CCATC	4 cut(s)	839, 949, 968, 1289
BceAI	ACGGC	1 cut(s)	77
BciT130I	CCWGG	2 cut(s)	1080, 1330
BciVI	GTATCC	1 cut(s)	908
BclI	TGATCA	2 cut(s)	618, 652
BfaI	CTAG	2 cut(s)	695, 1103
BfmI	CTRYAG	3 cut(s)	345, 699, 1093
BfoI	RGCGCY	1 cut(s)	93
BfuAI	ACCTGC	1 cut(s)	709
BfuI	GTATCC	1 cut(s)	908
BisI	GCNGC	9 cut(s)	337, 381, 539, 672, 699, 1028, 1183, 1186, 1260
BlsI	GCNGC	9 cut(s)	338, 382, 540, 673, 700, 1029, 1184, 1187, 1261
Bme1390I	CCNGG	2 cut(s)	1080, 1330
Bme18I	GGWCC	1 cut(s)	1082
BmgT120I	GGNCC	1 cut(s)	1082
BmrFI	CCNGG	2 cut(s)	1080, 1330
BmsI	GCATC	6 cut(s)	392, 502, 577, 618, 726, 1152
BmtI	GCTAGC	1 cut(s)	698
BpmI	CTGGAG	2 cut(s)	188, 436
BpuEI	CTTGAG	2 cut(s)	1046, 1295
BsaAI	YACGTR	1 cut(s)	354
BsaJI	CCNNGG	2 cut(s)	819, 1053
BsaWI	WCCGGW	1 cut(s)	1016
BsaXI	ACNNNNNCTCC	2 cut(s)	186, 216
Bsc4I	CCNNNNNNNGG	5 cut(s)	597, 690, 976, 1201, 1202
Bse118I	RCCGGY	2 cut(s)	631, 1016
Bse1I	ACTGG	2 cut(s)	453, 1260
Bse3DI	GCAATG	1 cut(s)	887
BseBI	CCWGG	2 cut(s)	1080, 1330
BseDI	CCNNGG	2 cut(s)	819, 1053
BseLI	CCNNNNNNNGG	5 cut(s)	597, 690, 976, 1201, 1202
BseMI	GCAATG	1 cut(s)	887
BseMII	CTCAG	4 cut(s)	533, 629, 767, 839
BseNI	ACTGG	2 cut(s)	453, 1260
BseSI	GKGCMC	1 cut(s)	1273
BseXI	GCAGC	6 cut(s)	367, 685, 1039, 1172, 1194, 1246
BseYI	CCCAGC	1 cut(s)	689
BsgI	GTGCAG	1 cut(s)	1171
BshFI	GGCC	1 cut(s)	519
BshTI	ACCGGT	1 cut(s)	1016
BsiHKAI	GWGCWC	3 cut(s)	452, 475, 1012
BsiSI	CCGG	3 cut(s)	632, 1017, 1411
BslFI	GGGAC	1 cut(s)	1178
BslI	CCNNNNNNNGG	5 cut(s)	597, 690, 976, 1201, 1202
BsmFI	GGGAC	1 cut(s)	1178
BsmI	GAATGC	1 cut(s)	674
BsnI	GGCC	1 cut(s)	519
Bsp1286I	GDGCHC	4 cut(s)	452, 475, 1012, 1273
Bsp143I	GATC	4 cut(s)	618, 652, 1228, 1237
Bsp19I	CCATGG	1 cut(s)	1053
BspACI	CCGC	4 cut(s)	336, 539, 671, 1335
BspANI	GGCC	1 cut(s)	519
BspCNI	CTCAG	4 cut(s)	534, 630, 768, 838
BspMAI	CTGCAG	1 cut(s)	703
BspMI	ACCTGC	1 cut(s)	709
BspOI	GCTAGC	1 cut(s)	698
BsrDI	GCAATG	1 cut(s)	887
BsrFI	RCCGGY	2 cut(s)	631, 1016
BsrI	ACTGG	2 cut(s)	453, 1260
BssAI	RCCGGY	2 cut(s)	631, 1016
BssECI	CCNNGG	2 cut(s)	819, 1053
BssMI	GATC	4 cut(s)	618, 652, 1228, 1237
BssSI	CACGAG	1 cut(s)	1346
BssT1I	CCWWGG	2 cut(s)	819, 1053
Bst2BI	CACGAG	1 cut(s)	1346
Bst2UI	CCWGG	2 cut(s)	1080, 1330
Bst4CI	ACNGT	4 cut(s)	332, 553, 994, 1192
BstAPI	GCANNNNNTGC	1 cut(s)	680
BstBAI	YACGTR	1 cut(s)	354
BstC8I	GCNNGC	5 cut(s)	517, 633, 696, 1012, 1222
BstDEI	CTNAG	4 cut(s)	542, 638, 776, 825
BstDSI	CCRYGG	1 cut(s)	1053
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	1 cut(s)	92
BstKTI	GATC	4 cut(s)	621, 655, 1231, 1240
BstMBI	GATC	4 cut(s)	618, 652, 1228, 1237
BstMWI	GCNNNNNNNGC	3 cut(s)	680, 695, 1268
BstNI	CCWGG	2 cut(s)	1080, 1330
BstNSI	RCATGY	1 cut(s)	425
BstSCI	CCNGG	2 cut(s)	1078, 1328
BstSFI	CTRYAG	3 cut(s)	345, 699, 1093
BstSLI	GKGCMC	1 cut(s)	1273
BstSNI	TACGTA	1 cut(s)	354
BstV1I	GCAGC	6 cut(s)	367, 685, 1039, 1172, 1194, 1246
BstXI	CCANNNNNNTGG	1 cut(s)	499
BsuI	GTATCC	1 cut(s)	908
BsuRI	GGCC	1 cut(s)	519
BtgI	CCRYGG	1 cut(s)	1053
BtsIMutI	CAGTG	5 cut(s)	209, 460, 549, 635, 1188
BveI	ACCTGC	1 cut(s)	709
Cac8I	GCNNGC	5 cut(s)	517, 633, 696, 1012, 1222
CaiI	CAGNNNCTG	2 cut(s)	211, 1185
CfoI	GCGC	1 cut(s)	92
Cfr10I	RCCGGY	2 cut(s)	631, 1016
Cfr13I	GGNCC	1 cut(s)	1082
CsiI	ACCWGGT	1 cut(s)	1078
Csp6I	GTAC	2 cut(s)	722, 929
CspAI	ACCGGT	1 cut(s)	1016
CviAII	CATG	7 cut(s)	107, 232, 325, 422, 428, 725, 1054
CviQI	GTAC	2 cut(s)	722, 929
DdeI	CTNAG	4 cut(s)	542, 638, 776, 825
DpnI	GATC	4 cut(s)	620, 654, 1230, 1239
DpnII	GATC	4 cut(s)	618, 652, 1228, 1237
Eco105I	TACGTA	1 cut(s)	354
Eco130I	CCWWGG	2 cut(s)	819, 1053
Eco47I	GGWCC	1 cut(s)	1082
EcoRII	CCWGG	2 cut(s)	1078, 1328
EcoT14I	CCWWGG	2 cut(s)	819, 1053
EcoT22I	ATGCAT	1 cut(s)	233
ErhI	CCWWGG	2 cut(s)	819, 1053
FaeI	CATG	7 cut(s)	110, 235, 328, 425, 431, 728, 1057
FalI	AAGNNNNNCTT	6 cut(s)	915, 947, 1055, 1087, 1224, 1256
FaqI	GGGAC	1 cut(s)	1178
FatI	CATG	7 cut(s)	106, 231, 324, 421, 427, 724, 1053
FbaI	TGATCA	2 cut(s)	618, 652
Fnu4HI	GCNGC	9 cut(s)	337, 381, 539, 672, 699, 1028, 1183, 1186, 1260
Fsp4HI	GCNGC	9 cut(s)	337, 381, 539, 672, 699, 1028, 1183, 1186, 1260
FspBI	CTAG	2 cut(s)	695, 1103
GlaI	GCGC	1 cut(s)	91
GluI	GCNGC	9 cut(s)	337, 381, 539, 672, 699, 1028, 1183, 1186, 1260
GsaI	CCCAGC	1 cut(s)	693
GsuI	CTGGAG	2 cut(s)	188, 436
HaeII	RGCGCY	1 cut(s)	93
HaeIII	GGCC	1 cut(s)	519
HapII	CCGG	3 cut(s)	632, 1017, 1411
HhaI	GCGC	1 cut(s)	92
Hin1II	CATG	7 cut(s)	110, 235, 328, 425, 431, 728, 1057
Hin6I	GCGC	1 cut(s)	90
HinP1I	GCGC	1 cut(s)	90
HinfI	GANTC	3 cut(s)	82, 1049, 1282
HpaII	CCGG	3 cut(s)	632, 1017, 1411
HphI	GGTGA	3 cut(s)	596, 1139, 1247
Hpy166II	GTNNAC	3 cut(s)	600, 882, 1253
Hpy188I	TCNGA	4 cut(s)	40, 477, 828, 1403
Hpy188III	TCNNGA	4 cut(s)	205, 622, 1085, 1241
Hpy8I	GTNNAC	3 cut(s)	600, 882, 1253
HpyAV	CCTTC	2 cut(s)	197, 953
HpyCH4III	ACNGT	4 cut(s)	332, 553, 994, 1192
HpyCH4IV	ACGT	1 cut(s)	353
HpyCH4V	TGCA	9 cut(s)	231, 328, 383, 515, 560, 701, 1027, 1188, 1224
HpyF10VI	GCNNNNNNNGC	3 cut(s)	680, 695, 1268
HpyF3I	CTNAG	4 cut(s)	542, 638, 776, 825
HpySE526I	ACGT	1 cut(s)	353
Hsp92II	CATG	7 cut(s)	110, 235, 328, 425, 431, 728, 1057
HspAI	GCGC	1 cut(s)	90
KroI	GCCGGC	1 cut(s)	631
KroNI	GCCGGC	1 cut(s)	633
Ksp22I	TGATCA	2 cut(s)	618, 652
Kzo9I	GATC	4 cut(s)	618, 652, 1228, 1237
LmnI	GCTCC	2 cut(s)	455, 1205
Lsp1109I	GCAGC	6 cut(s)	367, 685, 1039, 1172, 1194, 1246
LweI	GCATC	6 cut(s)	392, 502, 577, 618, 726, 1152
MabI	ACCWGGT	1 cut(s)	1078
MaeI	CTAG	2 cut(s)	695, 1103
MaeII	ACGT	1 cut(s)	353
MaeIII	GTNAC	3 cut(s)	988, 1175, 1420
MalI	GATC	4 cut(s)	620, 654, 1230, 1239
MboI	GATC	4 cut(s)	618, 652, 1228, 1237
MboII	GAAGA	3 cut(s)	214, 378, 637
MfeI	CAATTG	1 cut(s)	1022
MhlI	GDGCHC	4 cut(s)	452, 475, 1012, 1273
MmeI	TCCRAC	2 cut(s)	30, 1381
MnlI	CCTC	8 cut(s)	156, 179, 212, 598, 850, 919, 1296, 1356
Mph1103I	ATGCAT	1 cut(s)	233
MroNI	GCCGGC	1 cut(s)	631
MroXI	GAANNNNTTC	1 cut(s)	833
MseI	TTAA	9 cut(s)	96, 266, 374, 393, 1167, 1215, 1353, 1370, 1388
MslI	CAYNNNNRTG	2 cut(s)	426, 1293
MspA1I	CMGCKG	3 cut(s)	541, 1098, 1185
MspI	CCGG	3 cut(s)	632, 1017, 1411
MspR9I	CCNGG	2 cut(s)	1080, 1330
MunI	CAATTG	1 cut(s)	1022
Mva1269I	GAATGC	1 cut(s)	674
MvaI	CCWGG	2 cut(s)	1080, 1330
MwoI	GCNNNNNNNGC	3 cut(s)	680, 695, 1268
NaeI	GCCGGC	1 cut(s)	633
NcoI	CCATGG	1 cut(s)	1053
NdeII	GATC	4 cut(s)	618, 652, 1228, 1237
NgoMIV	GCCGGC	1 cut(s)	631
NheI	GCTAGC	1 cut(s)	694
NlaIII	CATG	7 cut(s)	110, 235, 328, 425, 431, 728, 1057
NmeAIII	GCCGAG	1 cut(s)	1011
NmuCI	GTSAC	3 cut(s)	988, 1175, 1420
NsiI	ATGCAT	1 cut(s)	233
NspI	RCATGY	1 cut(s)	425
PctI	GAATGC	1 cut(s)	674
PdiI	GCCGGC	1 cut(s)	633
PdmI	GAANNNNTTC	1 cut(s)	833
PfeI	GAWTC	3 cut(s)	82, 1049, 1282
PflMI	CCANNNNNTGG	1 cut(s)	597
PinAI	ACCGGT	1 cut(s)	1016
PkrI	GCNGC	9 cut(s)	338, 382, 540, 673, 700, 1029, 1184, 1187, 1261
Ppu21I	YACGTR	1 cut(s)	354
PshBI	ATTAAT	2 cut(s)	1353, 1370
Psp6I	CCWGG	2 cut(s)	1078, 1328
PspFI	CCCAGC	1 cut(s)	689
PspGI	CCWGG	2 cut(s)	1078, 1328
PspPI	GGNCC	1 cut(s)	1082
PstI	CTGCAG	1 cut(s)	703
PstNI	CAGNNNCTG	2 cut(s)	211, 1185
PvuII	CAGCTG	2 cut(s)	1098, 1185
RsaI	GTAC	2 cut(s)	723, 930
RsaNI	GTAC	2 cut(s)	722, 929
RseI	CAYNNNNRTG	2 cut(s)	426, 1293
SaqAI	TTAA	9 cut(s)	96, 266, 374, 393, 1167, 1215, 1353, 1370, 1388
SatI	GCNGC	9 cut(s)	337, 381, 539, 672, 699, 1028, 1183, 1186, 1260
Sau3AI	GATC	4 cut(s)	618, 652, 1228, 1237
Sau96I	GGNCC	1 cut(s)	1082
ScrFI	CCNGG	2 cut(s)	1080, 1330
SduI	GDGCHC	4 cut(s)	452, 475, 1012, 1273
SexAI	ACCWGGT	1 cut(s)	1078
SfaNI	GCATC	6 cut(s)	392, 502, 577, 618, 726, 1152
SfcI	CTRYAG	3 cut(s)	345, 699, 1093
SinI	GGWCC	1 cut(s)	1082
SmiMI	CAYNNNNRTG	2 cut(s)	426, 1293
SmlI	CTYRAG	2 cut(s)	1061, 1274
SmoI	CTYRAG	2 cut(s)	1061, 1274
SnaBI	TACGTA	1 cut(s)	354
SsiI	CCGC	4 cut(s)	336, 539, 671, 1335
SspMI	CTAG	2 cut(s)	695, 1103
StyD4I	CCNGG	2 cut(s)	1078, 1328
StyI	CCWWGG	2 cut(s)	819, 1053
TaaI	ACNGT	4 cut(s)	332, 553, 994, 1192
TaiI	ACGT	1 cut(s)	356
TauI	GCSGC	3 cut(s)	339, 541, 674
TfiI	GAWTC	3 cut(s)	82, 1049, 1282
Tru1I	TTAA	9 cut(s)	96, 266, 374, 393, 1167, 1215, 1353, 1370, 1388
Tru9I	TTAA	9 cut(s)	96, 266, 374, 393, 1167, 1215, 1353, 1370, 1388
TscAI	CASTG	5 cut(s)	216, 460, 556, 642, 1195
TseFI	GTSAC	3 cut(s)	988, 1175, 1420
TseI	GCWGC	6 cut(s)	380, 698, 1027, 1182, 1185, 1259
Tsp45I	GTSAC	3 cut(s)	988, 1175, 1420
TspDTI	ATGAA	7 cut(s)	34, 248, 313, 546, 771, 876, 1388
TspGWI	ACGGA	1 cut(s)	668
TspRI	CASTG	5 cut(s)	216, 460, 556, 642, 1195
Van91I	CCANNNNNTGG	1 cut(s)	597
VpaK11BI	GGWCC	1 cut(s)	1082
VspI	ATTAAT	2 cut(s)	1353, 1370
XceI	RCATGY	1 cut(s)	425
XmnI	GAANNNNTTC	1 cut(s)	833
XspI	CTAG	2 cut(s)	695, 1103
Zsp2I	ATGCAT	1 cut(s)	233

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