Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0009624

Physical Location & Seq

Genomic Coordinates Forward (+)

37870687 .. 37872668

Gene Structure 1982 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00029320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1503 bp

ATGAGGAGGTTCCGAAAACCAAAGCTGATACCTTTACTGGAGCAAAAGCCTCCAACACTCCCACAGCTCTCTCCAATCCCAAACCCATCTCTCCCAAAACCCCCACAACACCCATCACCACCACCTTCCCCAATCCTCACTCTCTCCCACACCTCAAACCACACCCACCTCCTCACCTTCATCAAAACCCACATCAAAAACCCACCCCTCTCCCCCAAAACCCTCCTCCATTTCCTCAAGTCCAAGCTCCACCACCACCCCACCTTCACCCATTTCGACTTCCACGTCTTCAACTGGGCCTCCTCCGTCGACTCCTTCCGCCACGACCACTCCACCTTCGAATGGATGGTCTGCACTCTCGCAACCACCGACCGCTTCGCCGAGCTGGGCCATCTCATCGGTTTCATGGTTTCGAACCCATGCCCTTGTTCCGATGGTATTTTCTCTTGCCCCAGAACAGAACCCATTTTCAAATTTGCGATTAGTGCTTATTGTAGAGTAGGGAGATTGGATGATGCTGTTGGTGCTTTTGATTCCATGAGGAAATTGATTGATGGGAAGCCTAGTGTTGTGGTTTATAACATTGTGATTAATGGGTTTGTGAAATGTGGGGCATATGATAAGGCTTTGGGGTTTTATGAGAAGATGGTTAGGGATAGAGTTAAGGCTGATGTGTTTACTTTTAATATTTTGATTACTGGTTATTGTCGAAATTCGCAATTTGGGTTGGCTTTGGAGTTGTTTAAGGAGATGAGGGAGAAGGGGTGTAGTCCCAATGTGGTGAGTTTCAATACTTTGATTAAGGGGTTCTTTAGGGAGAGGAAGTTTGAGGATGGGATTGAGATGGCTTATGAGATGATTGAGTTTGGGTGCAAGTTTTCGAGTGTGACTTGTGAGATTTTGGTTGATGGACTTTGTAGAGAAGGTCGGGTTGAGGAGGCGTGTGAGCTGTTGATTGATTTTTCGAGGAAAGGAGTGTTGCCTAGGTTGTATGATTATTATGGTCTTGTTGAAGTGCTTTGTGGGAAAAGAAATTCGGGGAGAGCGTTGGAGGTTGTGGGTTTGAGGAGGTCAGCGAAGATTGATGAAGCTTTAGAACTGATGGAAAGGATGCTTGAAGAGGGTATGGTTCCAGATCTTGTGACTTTTAATTGCCTCCTTCAAGATCTTTGCAATTTGGGGAGAACTGAGGAAGCTGATAACCTTAGGTTGTTGTCTTCGAGTAAAGGCTTGGAGCTGGACGGCATGGCGTATACCATTTTGGTGTCTGGGTATTCAAGAGAAGGGAAAAAGAAGGAGGTGAAAGTGGTGGTGGATGAGATGCTGGACATGGGATTTATACCTGATCTTGCTACATATAATAGCAAGATTGGTTTTGATGGCCAGGGGTCCAAACGAAGCCCTGTTCCCAGCCTTTGCCTCAAAGGTTCAAGTCTTCAAGACACCACCCCCACTTATAGGCCCAGTGGTGCTGTCAAGAACGATAGGATCCTTCTGATGTGA

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

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

500

Amino Acids

56.31

Weight (kDa)

8.37

Isoelectric Point (pI)

40.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	188 - 237	1.3e-16	PPR repeat family
PPR	PF01535	191 - 220	1.3e-06	PPR repeat
PPR_3	PF13812	214 - 268	5.5e-14	Pentatricopeptide repeat domain
PPR_1	PF12854	221 - 252	1.7e-09	PPR repeat
PPR_2	PF13041	224 - 271	1e-18	PPR repeat family
PPR	PF01535	226 - 256	1.1e-09	PPR repeat
PPR_1	PF12854	254 - 286	2.7e-07	PPR repeat
PPR_2	PF13041	258 - 307	7e-12	PPR repeat family
PPR_1	PF12854	290 - 318	4.4e-07	PPR repeat
PPR_2	PF13041	357 - 392	1e-06	PPR repeat family
PPR_3	PF13812	408 - 458	6e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	417 - 455	3.7e-06	PPR repeat family

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: OG0009624)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36240
fragaria_vesca	FvH4_6g18780
prunus_persica	Prupe.7G109800_v2.0.a1
pyrus_communis	pycom04g01140 pycom15g30020
rosa_chinensis	RchiOBHm_Chr3g0473791
rosa_laevigata	RLG00000015254 RLG00000023984
rosa_multiflora	Rmu_co8122080.1_g000001 Rmu_sc0001293.1_g000012 Rmu_sc0007035.1_g000006 Rmu_sc0007035.1_g000008
rosa_roxburghii	Rroxscaffold_1G00029320 Rroxscaffold_6G00407800
rosa_rugosa	Rorug03G0135500
rosa_samantha	Rh3BG214200 Rh3BG214500 Rh3CG210900 Rh3CG211100 Rh3DG210100 Rh3DG210300
rosa_wichuraiana	Rw3G017010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	579
AasI	GACNNNNNNGTC	1 cut(s)	284
AccI	GTMKAC	2 cut(s)	309, 1253
AciI	CCGC	2 cut(s)	319, 373
AclWI	GGATC	2 cut(s)	1483, 1496
AcoI	YGGCCR	1 cut(s)	1381
AcsI	RAATTY	3 cut(s)	473, 712, 1033
AfiI	CCNNNNNNNGG	2 cut(s)	342, 1458
AgsI	TTSAA	9 cut(s)	292, 472, 790, 1013, 1118, 1163, 1278, 1431, 1439
AjiI	CACGTC	1 cut(s)	286
AjnI	CCWGG	1 cut(s)	1383
AluBI	AGCT	8 cut(s)	25, 67, 247, 385, 949, 1091, 1196, 1237
AluI	AGCT	8 cut(s)	25, 67, 247, 385, 949, 1091, 1196, 1237
AlwI	GGATC	2 cut(s)	1483, 1496
AoxI	GGCC	4 cut(s)	297, 388, 1381, 1460
ApoI	RAATTY	3 cut(s)	473, 712, 1033
ArsI	GACNNNNNNTTYG	2 cut(s)	333, 365
AseI	ATTAAT	1 cut(s)	591
AspA2I	CCTAGG	1 cut(s)	983
AspS9I	GGNCC	4 cut(s)	297, 388, 1389, 1461
AsuHPI	GGTGA	5 cut(s)	108, 166, 259, 793, 1312
AsuII	TTCGAA	2 cut(s)	339, 413
AvaII	GGWCC	1 cut(s)	1389
AvrII	CCTAGG	1 cut(s)	983
AxyI	CCTNAGG	1 cut(s)	1205
BalI	TGGCCA	1 cut(s)	1383
BamHI	GGATCC	1 cut(s)	1488
BbsI	GAAGAC	3 cut(s)	280, 1209, 1427
BceAI	ACGGC	1 cut(s)	1258
BciT130I	CCWGG	1 cut(s)	1385
BfaI	CTAG	2 cut(s)	564, 984
BglII	AGATCT	2 cut(s)	1135, 1165
BlnI	CCTAGG	1 cut(s)	983
Bme1390I	CCNGG	1 cut(s)	1385
Bme18I	GGWCC	1 cut(s)	1389
BmgBI	CACGTC	1 cut(s)	286
BmgT120I	GGNCC	4 cut(s)	297, 388, 1389, 1461
BmiI	GGNNCC	4 cut(s)	11, 1131, 1390, 1490
BmrFI	CCNGG	1 cut(s)	1385
BmrI	ACTGGG	2 cut(s)	304, 1458
BmsI	GCATC	3 cut(s)	505, 1101, 1311
BmuI	ACTGGG	2 cut(s)	304, 1458
BpiI	GAAGAC	3 cut(s)	280, 1209, 1427
BpmI	CTGGAG	1 cut(s)	59
Bpu14I	TTCGAA	2 cut(s)	339, 413
BpuEI	CTTGAG	1 cut(s)	221
BsaJI	CCNNGG	2 cut(s)	983, 1384
BsaXI	ACNNNNNCTCC	8 cut(s)	284, 314, 314, 344, 749, 779, 809, 839
Bsc4I	CCNNNNNNNGG	2 cut(s)	342, 1458
Bse1I	ACTGG	4 cut(s)	42, 299, 703, 1464
Bse21I	CCTNAGG	1 cut(s)	1205
BseBI	CCWGG	1 cut(s)	1385
BseDI	CCNNGG	2 cut(s)	983, 1384
BseGI	GGATG	5 cut(s)	351, 517, 838, 1116, 1321
BseLI	CCNNNNNNNGG	2 cut(s)	342, 1458
BseMII	CTCAG	1 cut(s)	1179
BseNI	ACTGG	4 cut(s)	42, 299, 703, 1464
BseRI	GAGGAG	6 cut(s)	19, 161, 215, 292, 950, 1081
BseYI	CCCAGC	2 cut(s)	385, 1409
BsgI	GTGCAG	1 cut(s)	337
Bsh1285I	CGRYCG	1 cut(s)	373
BshFI	GGCC	4 cut(s)	299, 390, 1383, 1462
BsiEI	CGRYCG	1 cut(s)	373
BslFI	GGGAC	1 cut(s)	756
BslI	CCNNNNNNNGG	2 cut(s)	342, 1458
BsmFI	GGGAC	1 cut(s)	756
BsnI	GGCC	4 cut(s)	299, 390, 1383, 1462
Bsp119I	TTCGAA	2 cut(s)	339, 413
Bsp143I	GATC	4 cut(s)	1135, 1165, 1345, 1488
BspACI	CCGC	2 cut(s)	319, 373
BspANI	GGCC	4 cut(s)	299, 390, 1383, 1462
BspCNI	CTCAG	1 cut(s)	1180
BspLI	GGNNCC	4 cut(s)	11, 1131, 1390, 1490
BspPI	GGATC	2 cut(s)	1483, 1496
BspT104I	TTCGAA	2 cut(s)	339, 413
BsrI	ACTGG	4 cut(s)	42, 299, 703, 1464
BssECI	CCNNGG	2 cut(s)	983, 1384
BssMI	GATC	4 cut(s)	1135, 1165, 1345, 1488
BssNAI	GTATAC	1 cut(s)	1254
BssT1I	CCWWGG	1 cut(s)	983
Bst1107I	GTATAC	1 cut(s)	1254
Bst2UI	CCWGG	1 cut(s)	1385
Bst6I	CTCTTC	1 cut(s)	1113
BstBI	TTCGAA	2 cut(s)	339, 413
BstDEI	CTNAG	2 cut(s)	1188, 1205
BstF5I	GGATG	5 cut(s)	351, 517, 838, 1116, 1321
BstKTI	GATC	4 cut(s)	1138, 1168, 1348, 1491
BstMBI	GATC	4 cut(s)	1135, 1165, 1345, 1488
BstMCI	CGRYCG	1 cut(s)	373
BstMWI	GCNNNNNNNGC	2 cut(s)	485, 524
BstNI	CCWGG	1 cut(s)	1385
BstSCI	CCNGG	1 cut(s)	1383
BstV2I	GAAGAC	3 cut(s)	280, 1209, 1427
BstX2I	RGATCY	3 cut(s)	1135, 1165, 1488
BstYI	RGATCY	3 cut(s)	1135, 1165, 1488
BstZ17I	GTATAC	1 cut(s)	1254
Bsu36I	CCTNAGG	1 cut(s)	1205
BsuRI	GGCC	4 cut(s)	299, 390, 1383, 1462
BtrI	CACGTC	1 cut(s)	286
BtsCI	GGATG	5 cut(s)	351, 517, 838, 1116, 1321
BtsIMutI	CAGTG	1 cut(s)	1471
Cfr13I	GGNCC	4 cut(s)	297, 388, 1389, 1461
CviAII	CATG	5 cut(s)	406, 420, 538, 1246, 1330
DdeI	CTNAG	2 cut(s)	1188, 1205
DpnI	GATC	4 cut(s)	1137, 1167, 1347, 1490
DpnII	GATC	4 cut(s)	1135, 1165, 1345, 1488
DrdI	GACNNNNNNGTC	1 cut(s)	284
DseDI	GACNNNNNNGTC	1 cut(s)	284
EaeI	YGGCCR	1 cut(s)	1381
Eam1104I	CTCTTC	1 cut(s)	1113
EarI	CTCTTC	1 cut(s)	1113
EciI	GGCGGA	1 cut(s)	308
Eco130I	CCWWGG	1 cut(s)	983
Eco47I	GGWCC	1 cut(s)	1389
Eco81I	CCTNAGG	1 cut(s)	1205
EcoRII	CCWGG	1 cut(s)	1383
EcoT14I	CCWWGG	1 cut(s)	983
ErhI	CCWWGG	1 cut(s)	983
FaeI	CATG	5 cut(s)	409, 423, 541, 1249, 1333
FalI	AAGNNNNNCTT	2 cut(s)	794, 826
FaqI	GGGAC	1 cut(s)	756
FatI	CATG	5 cut(s)	405, 419, 537, 1245, 1329
FauNDI	CATATG	1 cut(s)	616
FblI	GTMKAC	2 cut(s)	309, 1253
FokI	GGATG	5 cut(s)	358, 524, 845, 1123, 1328
FspBI	CTAG	2 cut(s)	564, 984
GsaI	CCCAGC	2 cut(s)	389, 1413
GsuI	CTGGAG	1 cut(s)	59
HaeIII	GGCC	4 cut(s)	299, 390, 1383, 1462
Hin1II	CATG	5 cut(s)	409, 423, 541, 1249, 1333
HincII	GTYRAC	1 cut(s)	310
HindII	GTYRAC	1 cut(s)	310
HindIII	AAGCTT	1 cut(s)	1089
HinfI	GANTC	2 cut(s)	311, 533
HphI	GGTGA	5 cut(s)	108, 166, 259, 793, 1312
Hpy166II	GTNNAC	3 cut(s)	310, 678, 1254
Hpy188I	TCNGA	3 cut(s)	14, 433, 1497
Hpy188III	TCNNGA	5 cut(s)	1133, 1163, 1278, 1439, 1477
Hpy8I	GTNNAC	3 cut(s)	310, 678, 1254
Hpy99I	CGWCG	1 cut(s)	311
HpyCH4IV	ACGT	1 cut(s)	285
HpyCH4V	TGCA	3 cut(s)	354, 873, 1173
HpyF10VI	GCNNNNNNNGC	2 cut(s)	485, 524
HpyF3I	CTNAG	2 cut(s)	1188, 1205
HpySE526I	ACGT	1 cut(s)	285
Hsp92II	CATG	5 cut(s)	409, 423, 541, 1249, 1333
Kzo9I	GATC	4 cut(s)	1135, 1165, 1345, 1488
LmnI	GCTCC	3 cut(s)	40, 252, 1234
LweI	GCATC	3 cut(s)	505, 1101, 1311
MaeI	CTAG	2 cut(s)	564, 984
MaeII	ACGT	1 cut(s)	285
MaeIII	GTNAC	2 cut(s)	886, 1141
MalI	GATC	4 cut(s)	1137, 1167, 1347, 1490
MboI	GATC	4 cut(s)	1135, 1165, 1345, 1488
MboII	GAAGA	6 cut(s)	280, 655, 1090, 1130, 1209, 1427
MflI	RGATCY	3 cut(s)	1135, 1165, 1488
MlsI	TGGCCA	1 cut(s)	1383
MluCI	AATT	7 cut(s)	473, 545, 712, 719, 1033, 1150, 1174
MluNI	TGGCCA	1 cut(s)	1383
MlyI	GAGTC	1 cut(s)	305
MmeI	TCCRAC	2 cut(s)	77, 1029
Mox20I	TGGCCA	1 cut(s)	1383
MscI	TGGCCA	1 cut(s)	1383
MseI	TTAA	6 cut(s)	591, 663, 684, 744, 801, 1149
MslI	CAYNNNNRTG	1 cut(s)	1262
Msp20I	TGGCCA	1 cut(s)	1383
MspR9I	CCNGG	1 cut(s)	1385
MvaI	CCWGG	1 cut(s)	1385
MwoI	GCNNNNNNNGC	2 cut(s)	485, 524
NdeI	CATATG	1 cut(s)	616
NdeII	GATC	4 cut(s)	1135, 1165, 1345, 1488
NlaIII	CATG	5 cut(s)	409, 423, 541, 1249, 1333
NlaIV	GGNNCC	4 cut(s)	11, 1131, 1390, 1490
NmeAIII	GCCGAG	1 cut(s)	406
NmuCI	GTSAC	2 cut(s)	886, 1141
NspV	TTCGAA	2 cut(s)	339, 413
PcsI	WCGNNNNNNNCGW	3 cut(s)	282, 366, 1043
PfeI	GAWTC	1 cut(s)	533
PleI	GAGTC	1 cut(s)	305
PpsI	GAGTC	1 cut(s)	305
PshBI	ATTAAT	1 cut(s)	591
PsiI	TTATAA	1 cut(s)	579
Psp6I	CCWGG	1 cut(s)	1383
PspFI	CCCAGC	2 cut(s)	385, 1409
PspGI	CCWGG	1 cut(s)	1383
PspN4I	GGNNCC	4 cut(s)	11, 1131, 1390, 1490
PspPI	GGNCC	4 cut(s)	297, 388, 1389, 1461
PsuI	RGATCY	3 cut(s)	1135, 1165, 1488
RseI	CAYNNNNRTG	1 cut(s)	1262
SalI	GTCGAC	1 cut(s)	308
SaqAI	TTAA	6 cut(s)	591, 663, 684, 744, 801, 1149
Sau3AI	GATC	4 cut(s)	1135, 1165, 1345, 1488
Sau96I	GGNCC	4 cut(s)	297, 388, 1389, 1461
SchI	GAGTC	1 cut(s)	305
ScrFI	CCNGG	1 cut(s)	1385
SfaNI	GCATC	3 cut(s)	505, 1101, 1311
SfuI	TTCGAA	2 cut(s)	339, 413
SinI	GGWCC	1 cut(s)	1389
SmiMI	CAYNNNNRTG	1 cut(s)	1262
SmlI	CTYRAG	1 cut(s)	236
SmoI	CTYRAG	1 cut(s)	236
Sse9I	AATT	7 cut(s)	473, 545, 712, 719, 1033, 1150, 1174
SsiI	CCGC	2 cut(s)	319, 373
SspI	AATATT	1 cut(s)	688
SspMI	CTAG	2 cut(s)	564, 984
StyD4I	CCNGG	1 cut(s)	1383
StyI	CCWWGG	1 cut(s)	983
TaiI	ACGT	1 cut(s)	288
TaqI	TCGA	8 cut(s)	276, 309, 339, 413, 709, 881, 965, 1220
TasI	AATT	7 cut(s)	473, 545, 712, 719, 1033, 1150, 1174
TfiI	GAWTC	1 cut(s)	533
Tru1I	TTAA	6 cut(s)	591, 663, 684, 744, 801, 1149
Tru9I	TTAA	6 cut(s)	591, 663, 684, 744, 801, 1149
TscAI	CASTG	1 cut(s)	1471
TseFI	GTSAC	2 cut(s)	886, 1141
Tsp45I	GTSAC	2 cut(s)	886, 1141
TspDTI	ATGAA	3 cut(s)	169, 394, 1101
TspGWI	ACGGA	1 cut(s)	295
TspRI	CASTG	1 cut(s)	1471
VpaK11BI	GGWCC	1 cut(s)	1389
VspI	ATTAAT	1 cut(s)	591
XapI	RAATTY	3 cut(s)	473, 712, 1033
XmaJI	CCTAGG	1 cut(s)	983
XmiI	GTMKAC	2 cut(s)	309, 1253
XspI	CTAG	2 cut(s)	564, 984

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