Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0015422

Physical Location & Seq

Genomic Coordinates Forward (+)

45866574 .. 45870576

Gene Structure 4003 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00424720.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1536 bp

ATGCTGGAGTCGGGTTTTTATCGATTTGATAAAGCTACTTTGACTTGCATTATAGCGGGTTTTGATGGGGTGGAGTGTTGTTACCTGAACAAGATGATGCATGGTTTGGTGGTTTTGAATGGGTTTGAGAGGGAAACTGAAGTGGGGAATGCTTTGATAACATCGTATTGTAAATGTGGGTGTTTTGGCTCAGCAAGACGGGTTTTCGATGAGATGTTTGAGAGGAATGTGATTACATGGACAGCGATGATTTCGGGCCTTGCACAGAATGGTTTCTATGTTGAGAGCTTGAAGGTGTTTGCGGAGATGCGGAGTGGTGTGGTGGAACCGAATGCTATGACGTTTTTGGGCTCACTCATGGCGTGTTCTGGATTGCAGGCGATAAGGGCGGGGTGTCAAATTCATGGACTTGTATGGAAATTGGGAGTTCAATCAGACCTGTGCATTGTGAGTTCATTGATGGACATGTACTCAAAATGCGGTAGTGTGGAAGATGCATGGGGAATTTTTGAGTCCACCGAAGAACTTGATGAGGTTTCCATGACTGTTATCCTTGTGGGACTTGCACAGAATGGGTTTGAGACTGAAGCTATCCAGATTTTTGTGAAAATGATGAAGGCAGGGATTGAAATTGACCCGGACATGGTTTCAGCAGTTCTTGGGGTATTTGGTGTTGATACTTCTTTAGGCCTGGGAAAGCAACTCCACTCTTTAATTGTCAAAAAGAATTTTGGTTATAACTCTTTTGTTACAAATGGGCTTATAAATATGTATTCCAAGTGTGGAGAGCTGGAGGATTCGGCGAAAGTGTTCACTCGAATGCCTCAAAGGAACTTGGTTTCATGGAATTCAATGATTGCAGCTTTTGCACGTCATGGAGATGGCTCCAAAGCATTCCAATTGTATGAAAAGATGCAAATGGAAGGCGTACGACCAACAGACATTACATTTCTGTCTCTACTTCATGCTTGTAGCCATGTTGGGTTGATCGAAAGGGGCATGGAGTTTCTGAACTCCATGAAAGAAGAACATGGGATGAGTCCAAGGCCAGAACACTATGCTTGTATTGTTGACATGTTAGGTCGGGCAGGACTTCTAACTGAGGCTAAAAATTTCATTAAGGAACTGACTGAGAATCCTGGTGTACTTGTTTGGCAAGCATTGCTTGGTGCTTGTAGCATTCATGGTAATTCTGACATCGGTAAATATGCTGCAGATCAGTTGTTTTTGGCAGCACCGCAGAGTCCTGCACCATATGTTTTGCTTGCTAATATATATTCTTCTGAAGGAAGGTGGAAAGACAGAGCAAAGACTATTAAGGGGATGAAGGAGATGGGGGTGGCAAAAGAAACGGGTATTAGTTGGATTGAAATTGAAAAGAAGGTTCAGAGCTTTGTTGTTGGTGATAAAATGCATCCACAGGCAGAGATCATTTATAGGGTTTTGGCAGAATTGCTTAGACTTATGAAAGATGAAGGATACGTACCGGATGAGAGGTTTTTGCTCTATTACTTAGATCAAGATGAAAAGAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase DnaJ Fer4_15 PPR PPR_2

Protein Analysis

511

Amino Acids

56.82

Weight (kDa)

5.39

Isoelectric Point (pI)

42.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	75 - 115	5.1e-07	PPR repeat family
PPR	PF01535	78 - 105	1.2e-06	PPR repeat
PPR_3	PF13812	277 - 324	3.3e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	278 - 325	6e-13	PPR repeat family
PPR	PF01535	280 - 310	1.5e-08	PPR repeat
E_motif	PF20431	395 - 457	5.4e-14	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: OG0015422)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05340
fragaria_vesca	FvH4_6g05850
malus_domestica	MD12G1219000.v1.1
prunus_persica	Prupe.6G325500_v2.0.a1
pyrus_communis	pycom12g20470
rosa_chinensis	RchiOBHm_Chr3g0454801
rosa_laevigata	RLG00000025406
rosa_multiflora	Rmu_sc0001792.1_g000013 Rmu_sc0013126.1_g000006
rosa_roxburghii	Rroxscaffold_6G00424720
rosa_rugosa	Rorug03G0002600
rosa_samantha	Rh3AG062600 Rh3BG064500 Rh3CG063400 Rh3DG064300
rosa_wichuraiana	Rw3G004880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	738, 764
AciI	CCGC	6 cut(s)	56, 302, 310, 389, 480, 1238
AcsI	RAATTY	5 cut(s)	399, 504, 727, 847, 1111
AcuI	CTGAAG	3 cut(s)	159, 606, 1305
AfaI	GTAC	4 cut(s)	470, 930, 1146, 1485
AfiI	CCNNNNNNNGG	1 cut(s)	643
AflIII	ACRYGT	2 cut(s)	465, 1074
AgsI	TTSAA	7 cut(s)	118, 292, 431, 629, 852, 1370, 1376
AjiI	CACGTC	1 cut(s)	872
AjnI	CCWGG	2 cut(s)	690, 1138
AluBI	AGCT	6 cut(s)	35, 288, 590, 790, 863, 1392
AluI	AGCT	6 cut(s)	35, 288, 590, 790, 863, 1392
Alw26I	GTCTC	2 cut(s)	575, 960
AoxI	GGCC	3 cut(s)	256, 688, 1046
ApeKI	GCWGC	3 cut(s)	860, 1211, 1232
ApoI	RAATTY	5 cut(s)	399, 504, 727, 847, 1111
Asp700I	GAANNNNTTC	2 cut(s)	272, 809
AspS9I	GGNCC	1 cut(s)	256
AsuC2I	CCSGG	1 cut(s)	638
AsuHPI	GGTGA	1 cut(s)	1415
BanII	GRGCYC	1 cut(s)	353
BarI	GAAGNNNNNNTAC	2 cut(s)	1467, 1499
BbvI	GCAGC	3 cut(s)	872, 1198, 1244
BccI	CCATC	4 cut(s)	59, 454, 875, 1327
BciT130I	CCWGG	2 cut(s)	692, 1140
BciVI	GTATCC	1 cut(s)	1472
BcnI	CCSGG	1 cut(s)	638
BcoDI	GTCTC	2 cut(s)	575, 960
BfmI	CTRYAG	1 cut(s)	1212
BfuI	GTATCC	1 cut(s)	1472
BisI	GCNGC	3 cut(s)	861, 1212, 1233
BlpI	GCTNAGC	1 cut(s)	190
BlsI	GCNGC	3 cut(s)	862, 1213, 1234
Bme1390I	CCNGG	3 cut(s)	638, 692, 1140
BmgBI	CACGTC	1 cut(s)	872
BmgT120I	GGNCC	1 cut(s)	256
BmiI	GGNNCC	2 cut(s)	327, 886
BmrFI	CCNGG	3 cut(s)	638, 692, 1140
BmsI	GCATC	5 cut(s)	87, 297, 484, 903, 1423
BpmI	CTGGAG	2 cut(s)	26, 812
Bpu1102I	GCTNAGC	1 cut(s)	190
BpuMI	CCSGG	1 cut(s)	638
Bsa29I	ATCGAT	1 cut(s)	22
BsaAI	YACGTR	1 cut(s)	1483
BsaJI	CCNNGG	2 cut(s)	691, 1043
BsaWI	WCCGGW	1 cut(s)	1486
Bsc4I	CCNNNNNNNGG	1 cut(s)	643
Bse3DI	GCAATG	1 cut(s)	1160
BseBI	CCWGG	2 cut(s)	692, 1140
BseCI	ATCGAT	1 cut(s)	22
BseDI	CCNNGG	2 cut(s)	691, 1043
BseGI	GGATG	4 cut(s)	1041, 1329, 1414, 1495
BseLI	CCNNNNNNNGG	1 cut(s)	643
BseMI	GCAATG	1 cut(s)	1160
BseMII	CTCAG	3 cut(s)	204, 1092, 1122
BseXI	GCAGC	3 cut(s)	872, 1198, 1244
BsgI	GTGCAG	1 cut(s)	1233
BshFI	GGCC	3 cut(s)	258, 690, 1048
BshVI	ATCGAT	1 cut(s)	22
BsiSI	CCGG	2 cut(s)	638, 1487
BsiWI	CGTACG	1 cut(s)	928
BslFI	GGGAC	1 cut(s)	573
BslI	CCNNNNNNNGG	1 cut(s)	643
BsmAI	GTCTC	2 cut(s)	575, 960
BsmFI	GGGAC	1 cut(s)	573
BsmI	GAATGC	5 cut(s)	154, 337, 825, 893, 1179
BsnI	GGCC	3 cut(s)	258, 690, 1048
Bsp1286I	GDGCHC	1 cut(s)	353
Bsp143I	GATC	4 cut(s)	987, 1216, 1428, 1516
Bsp1720I	GCTNAGC	1 cut(s)	190
BspACI	CCGC	6 cut(s)	56, 302, 310, 389, 480, 1238
BspANI	GGCC	3 cut(s)	258, 690, 1048
BspCNI	CTCAG	3 cut(s)	203, 1093, 1123
BspDI	ATCGAT	1 cut(s)	22
BspLI	GGNNCC	2 cut(s)	327, 886
BspMAI	CTGCAG	1 cut(s)	1216
BsrDI	GCAATG	1 cut(s)	1160
BssECI	CCNNGG	2 cut(s)	691, 1043
BssMI	GATC	4 cut(s)	987, 1216, 1428, 1516
BssT1I	CCWWGG	1 cut(s)	1043
Bst2UI	CCWGG	2 cut(s)	692, 1140
Bst4CI	ACNGT	1 cut(s)	547
BstAPI	GCANNNNNTGC	2 cut(s)	866, 1162
BstBAI	YACGTR	1 cut(s)	1483
BstC8I	GCNNGC	3 cut(s)	378, 1158, 1266
BstDEI	CTNAG	5 cut(s)	190, 1101, 1131, 1457, 1513
BstF5I	GGATG	4 cut(s)	1041, 1329, 1414, 1495
BstKTI	GATC	4 cut(s)	990, 1219, 1431, 1519
BstMAI	GTCTC	2 cut(s)	575, 960
BstMBI	GATC	4 cut(s)	987, 1216, 1428, 1516
BstMWI	GCNNNNNNNGC	3 cut(s)	386, 866, 1162
BstNI	CCWGG	2 cut(s)	692, 1140
BstNSI	RCATGY	2 cut(s)	469, 1078
BstSCI	CCNGG	3 cut(s)	636, 690, 1138
BstSFI	CTRYAG	1 cut(s)	1212
BstSNI	TACGTA	1 cut(s)	1483
BstV1I	GCAGC	3 cut(s)	872, 1198, 1244
Bsu15I	ATCGAT	1 cut(s)	22
BsuI	GTATCC	1 cut(s)	1472
BsuRI	GGCC	3 cut(s)	258, 690, 1048
BsuTUI	ATCGAT	1 cut(s)	22
BtgZI	GCGATG	1 cut(s)	260
BtrI	CACGTC	1 cut(s)	872
BtsCI	GGATG	4 cut(s)	1041, 1329, 1414, 1495
Cac8I	GCNNGC	3 cut(s)	378, 1158, 1266
Cfr13I	GGNCC	1 cut(s)	256
ClaI	ATCGAT	1 cut(s)	22
Csp6I	GTAC	4 cut(s)	469, 929, 1145, 1484
CviQI	GTAC	4 cut(s)	469, 929, 1145, 1484
DdeI	CTNAG	5 cut(s)	190, 1101, 1131, 1457, 1513
DpnI	GATC	4 cut(s)	989, 1218, 1430, 1518
DpnII	GATC	4 cut(s)	987, 1216, 1428, 1516
Eco105I	TACGTA	1 cut(s)	1483
Eco130I	CCWWGG	1 cut(s)	1043
Eco147I	AGGCCT	1 cut(s)	690
Eco24I	GRGCYC	1 cut(s)	353
Eco57I	CTGAAG	3 cut(s)	159, 606, 1305
EcoRI	GAATTC	1 cut(s)	847
EcoRII	CCWGG	2 cut(s)	690, 1138
EcoT14I	CCWWGG	1 cut(s)	1043
EcoT22I	ATGCAT	3 cut(s)	102, 499, 1416
EcoT38I	GRGCYC	1 cut(s)	353
ErhI	CCWWGG	1 cut(s)	1043
FalI	AAGNNNNNCTT	2 cut(s)	1149, 1181
FaqI	GGGAC	1 cut(s)	573
FauI	CCCGC	2 cut(s)	49, 382
FauNDI	CATATG	1 cut(s)	1255
Fnu4HI	GCNGC	3 cut(s)	861, 1212, 1233
FokI	GGATG	4 cut(s)	1048, 1336, 1401, 1502
FriOI	GRGCYC	1 cut(s)	353
Fsp4HI	GCNGC	3 cut(s)	861, 1212, 1233
GluI	GCNGC	3 cut(s)	861, 1212, 1233
GsuI	CTGGAG	2 cut(s)	26, 812
HaeIII	GGCC	3 cut(s)	258, 690, 1048
HapII	CCGG	2 cut(s)	638, 1487
HincII	GTYRAC	1 cut(s)	1072
HindII	GTYRAC	1 cut(s)	1072
HinfI	GANTC	6 cut(s)	8, 512, 797, 1039, 1135, 1243
HpaII	CCGG	2 cut(s)	638, 1487
HphI	GGTGA	1 cut(s)	1415
Hpy166II	GTNNAC	4 cut(s)	516, 813, 1072, 1145
Hpy188I	TCNGA	5 cut(s)	436, 1011, 1195, 1285, 1389
Hpy188III	TCNNGA	3 cut(s)	369, 595, 1520
Hpy8I	GTNNAC	4 cut(s)	516, 813, 1072, 1145
HpyAV	CCTTC	8 cut(s)	286, 610, 917, 1280, 1284, 1321, 1375, 1469
HpyCH4III	ACNGT	1 cut(s)	547
HpyCH4IV	ACGT	3 cut(s)	341, 871, 1482
HpyF10VI	GCNNNNNNNGC	3 cut(s)	386, 866, 1162
HpyF3I	CTNAG	5 cut(s)	190, 1101, 1131, 1457, 1513
HpySE526I	ACGT	3 cut(s)	341, 871, 1482
Kzo9I	GATC	4 cut(s)	987, 1216, 1428, 1516
LmnI	GCTCC	1 cut(s)	890
Lsp1109I	GCAGC	3 cut(s)	872, 1198, 1244
LweI	GCATC	5 cut(s)	87, 297, 484, 903, 1423
MaeII	ACGT	3 cut(s)	341, 871, 1482
MaeIII	GTNAC	2 cut(s)	80, 748
MalI	GATC	4 cut(s)	989, 1218, 1430, 1518
MboI	GATC	4 cut(s)	987, 1216, 1428, 1516
MboII	GAAGA	4 cut(s)	503, 533, 1037, 1272
MfeI	CAATTG	1 cut(s)	899
MhlI	GDGCHC	1 cut(s)	353
MlyI	GAGTC	4 cut(s)	17, 521, 1048, 1252
MmeI	TCCRAC	1 cut(s)	1343
MnlI	CCTC	7 cut(s)	123, 216, 526, 787, 834, 1096, 1488
Mph1103I	ATGCAT	3 cut(s)	102, 499, 1416
MroXI	GAANNNNTTC	2 cut(s)	272, 809
MseI	TTAA	3 cut(s)	713, 1119, 1317
MslI	CAYNNNNRTG	2 cut(s)	818, 879
MspI	CCGG	2 cut(s)	638, 1487
MspR9I	CCNGG	3 cut(s)	638, 692, 1140
MunI	CAATTG	1 cut(s)	899
Mva1269I	GAATGC	5 cut(s)	154, 337, 825, 893, 1179
MvaI	CCWGG	2 cut(s)	692, 1140
MwoI	GCNNNNNNNGC	3 cut(s)	386, 866, 1162
NciI	CCSGG	1 cut(s)	638
NdeI	CATATG	1 cut(s)	1255
NdeII	GATC	4 cut(s)	987, 1216, 1428, 1516
NlaIV	GGNNCC	2 cut(s)	327, 886
NsiI	ATGCAT	3 cut(s)	102, 499, 1416
NspI	RCATGY	2 cut(s)	469, 1078
PceI	AGGCCT	1 cut(s)	690
PciI	ACATGT	2 cut(s)	465, 1074
PctI	GAATGC	5 cut(s)	154, 337, 825, 893, 1179
PdmI	GAANNNNTTC	2 cut(s)	272, 809
PfeI	GAWTC	2 cut(s)	797, 1135
Pfl23II	CGTACG	1 cut(s)	928
PkrI	GCNGC	3 cut(s)	862, 1213, 1234
PleI	GAGTC	4 cut(s)	16, 520, 1047, 1251
PpsI	GAGTC	4 cut(s)	16, 520, 1047, 1251
Ppu21I	YACGTR	1 cut(s)	1483
PscI	ACATGT	2 cut(s)	465, 1074
PsiI	TTATAA	2 cut(s)	738, 764
Psp6I	CCWGG	2 cut(s)	690, 1138
PspGI	CCWGG	2 cut(s)	690, 1138
PspLI	CGTACG	1 cut(s)	928
PspN4I	GGNNCC	2 cut(s)	327, 886
PspPI	GGNCC	1 cut(s)	256
PstI	CTGCAG	1 cut(s)	1216
RsaI	GTAC	4 cut(s)	470, 930, 1146, 1485
RsaNI	GTAC	4 cut(s)	469, 929, 1145, 1484
RseI	CAYNNNNRTG	2 cut(s)	818, 879
SaqAI	TTAA	3 cut(s)	713, 1119, 1317
SatI	GCNGC	3 cut(s)	861, 1212, 1233
Sau3AI	GATC	4 cut(s)	987, 1216, 1428, 1516
Sau96I	GGNCC	1 cut(s)	256
SchI	GAGTC	4 cut(s)	17, 521, 1048, 1252
ScrFI	CCNGG	3 cut(s)	638, 692, 1140
SduI	GDGCHC	1 cut(s)	353
SfaNI	GCATC	5 cut(s)	87, 297, 484, 903, 1423
SfcI	CTRYAG	1 cut(s)	1212
SmiMI	CAYNNNNRTG	2 cut(s)	818, 879
SnaBI	TACGTA	1 cut(s)	1483
SseBI	AGGCCT	1 cut(s)	690
SsiI	CCGC	6 cut(s)	56, 302, 310, 389, 480, 1238
StuI	AGGCCT	1 cut(s)	690
StyD4I	CCNGG	3 cut(s)	636, 690, 1138
StyI	CCWWGG	1 cut(s)	1043
TaaI	ACNGT	1 cut(s)	547
TaiI	ACGT	3 cut(s)	344, 874, 1485
TaqI	TCGA	4 cut(s)	22, 207, 817, 990
TatI	WGTACW	2 cut(s)	468, 1144
TfiI	GAWTC	2 cut(s)	797, 1135
Tru1I	TTAA	3 cut(s)	713, 1119, 1317
Tru9I	TTAA	3 cut(s)	713, 1119, 1317
TseI	GCWGC	3 cut(s)	860, 1211, 1232
XapI	RAATTY	5 cut(s)	399, 504, 727, 847, 1111
XceI	RCATGY	2 cut(s)	469, 1078
XmnI	GAANNNNTTC	2 cut(s)	272, 809
Zsp2I	ATGCAT	3 cut(s)	102, 499, 1416

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