Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0008589

Physical Location & Seq

Genomic Coordinates Reverse (-)

528685 .. 531509

Gene Structure 2825 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00333090.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1368 bp

ATGTGGAAGATCGTCGGCGTTGAAGGAGGAACTTGGCCGAGGAGGGCGGTTGAGATGAGTGGCGGCGCTAGGCCGGGTGCCGAGACTCGCTCGTTACACAGTGAAGCAGAGTCAGAACTCATTCTGCACCATCATCTTCATCCTCAGCCTCCAACAAGGAATTGGAATCCAATTCTTATTCCCCACAGAACAATTCCTGAACCCAAAGGCCAAGACCTTGATTTTGTTAATGTTGTAAACAGCCATTTGATTCACTCTGATTGGGCTAAGCTTGATTCCTTAGCCAATGGTCTGACTGCTTTCAGAGTGAAACATATTTTGGTGAAAATTCAGAAGGATTATGTTCTCTCTCTTGAAGTCGATTTTGAGAAAGATTCTTGTGCCAGGGTCCATAGACTTGCCCCCAAGCTGTTTGAAGCGATACTGTATTCGTACCGCTTGTGTGATTCCTCTCCTCGGGTTTTTGATTCGCTTTTCAAGACGTTTGTGCATATGAAGAAGTTTAGGAATGCCACAGACACGTTTTGTAGAATGAAGGATTATGGGTTTTACCCGACGGTTAAGTCATGCAATGCGTATGTGAGCTCATTGCTTGATTTACATAGAGCTGATGTTGCTTTGGCATTCTACAGAGAAATGAGGCGTTGTCGAATTTCACCCAATGTTTATACTCTTAATATGGTTATGAGTGCTTATTGTAGAGTGGGAAAATTAGAGAATGCTGTTGAAGTCCTTGAGAAGATGGAGAGCATGAGTTTCAGTCCTACCATTGTGTCATATAATACACTTATTGGAGGACATTGCGATAAGGGTCTTCTGAGTGCCGCTGTGAAGTTCAAAAACTTGATGGTGAAGAATGGATTGCACCCGAATGTGGTAACTTTTAACACACTCATTGATGGGTTTTGTAAGCAAGGAAAACTACCAGAAGCAAATAGAATTTTTAGTGAGATGAAAGCCCTGAATGTGGCTCCTAATACAGTAACCAATAATACCATGATAAATGGTGGATTGATTTTGGGACCATGCAAGGAGAGTAAGACAAAGAAAGCTGCATATCTGGTAAAAGAGCTTGACAGAAAGAACTTTGTCCCAAATGCCTCAACCTTTTCTGCACTTGTTGGTGGGCAATGTGTGAGAAAGAACTCAGATCGTGCCTTTCTGTTGTACAAGAGCATGGTTAGGAGTAGCTATCATCCCGATGAACGCATATTATCTGATCTATGTCTGGGACTTCAACGCTGTGGAAAAGAAAAATGGGTAGAATTGCTATGCACTGAGATGGAAGCTAGACGCCTCATTCCTCAAGGTTTTGACATGGCGAAGATTATCTGCTGTGTAGAAGAGAATGATAACTTAACAGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016071 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:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0090615 GO:0090617 GO:0097159 GO:0140053 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

455

Amino Acids

51.49

Weight (kDa)

9.02

Isoelectric Point (pI)

35.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	130 - 264	2.5e-07	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	185 - 228	1e-05	PPR repeat family
PPR_3	PF13812	211 - 265	2.1e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	218 - 249	2.6e-09	PPR repeat
PPR_2	PF13041	222 - 257	2.9e-06	PPR repeat family
PPR	PF01535	224 - 251	8.5e-06	PPR repeat
PPR_1	PF12854	253 - 284	3.2e-07	PPR repeat
PPR_2	PF13041	255 - 304	6.2e-18	PPR repeat family
PPR_3	PF13812	283 - 335	9.8e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	286 - 319	1.7e-14	PPR repeat
PPR_2	PF13041	290 - 336	3.8e-17	PPR repeat family
PPR	PF01535	293 - 322	1.7e-08	PPR repeat

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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Orthologous Genes (Group: OG0008589)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G26680 AT4G26680
fragaria_vesca	FvH4_6g40750
malus_domestica	MD17G1115600.v1.1
prunus_persica	Prupe.3G199000_v2.0.a1 Prupe.3G199000_v2.0.a1
pyrus_communis	pycom17g10680
rosa_chinensis	RchiOBHm_Chr2g0156201 RchiOBHm_Chr4g0385191
rosa_laevigata	RLG00000010250 RLG00000020895
rosa_multiflora	Rmu_sc0000260.1_g000011 Rmu_sc0003086.1_g000003
rosa_roxburghii	Rroxscaffold_2G00093150 Rroxscaffold_5G00333090
rosa_rugosa	Rorug02G0452500
rosa_samantha	Rh2AG519000 Rh2BG530400 Rh2CG504000 Rh2DG539400 Rh4CG003600
rosa_wichuraiana	Rw2G042750 Rw4G000590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	562
AccB1I	GGYRCC	1 cut(s)	77
AciI	CCGC	4 cut(s)	47, 63, 436, 825
AcoI	YGGCCR	1 cut(s)	35
AcsI	RAATTY	3 cut(s)	327, 651, 939
AcyI	GRCGYC	1 cut(s)	1294
AfaI	GTAC	2 cut(s)	434, 1169
AfiI	CCNNNNNNNGG	3 cut(s)	456, 874, 967
AflIII	ACRYGT	1 cut(s)	519
AgsI	TTSAA	7 cut(s)	23, 356, 416, 478, 728, 838, 1238
AjnI	CCWGG	1 cut(s)	383
AjuI	GAANNNNNNNTTGG	2 cut(s)	302, 334
AluBI	AGCT	8 cut(s)	271, 409, 585, 608, 1052, 1072, 1191, 1289
AluI	AGCT	8 cut(s)	271, 409, 585, 608, 1052, 1072, 1191, 1289
Alw21I	GWGCWC	1 cut(s)	587
Alw26I	GTCTC	1 cut(s)	77
Ama87I	CYCGRG	1 cut(s)	456
AoxI	GGCC	3 cut(s)	35, 71, 208
ApeKI	GCWGC	1 cut(s)	1052
ApoI	RAATTY	3 cut(s)	327, 651, 939
ArsI	GACNNNNNNTTYG	2 cut(s)	206, 238
Asp700I	GAANNNNTTC	1 cut(s)	120
AspLEI	GCGC	1 cut(s)	68
AspS9I	GGNCC	2 cut(s)	388, 1022
AsuC2I	CCSGG	1 cut(s)	75
AsuHPI	GGTGA	3 cut(s)	334, 648, 862
AvaI	CYCGRG	1 cut(s)	456
AvaII	GGWCC	2 cut(s)	388, 1022
BanI	GGYRCC	1 cut(s)	77
BanII	GRGCYC	1 cut(s)	587
BbsI	GAAGAC	1 cut(s)	806
Bbv12I	GWGCWC	1 cut(s)	587
BbvCI	CCTCAGC	1 cut(s)	144
BbvI	GCAGC	1 cut(s)	1039
BccI	CCATC	5 cut(s)	138, 736, 841, 893, 1276
BciT130I	CCWGG	1 cut(s)	385
BcnI	CCSGG	1 cut(s)	75
BcoDI	GTCTC	1 cut(s)	77
BfaI	CTAG	2 cut(s)	69, 1290
BfmI	CTRYAG	1 cut(s)	628
BfoI	RGCGCY	1 cut(s)	69
BisI	GCNGC	3 cut(s)	64, 825, 1053
BlpI	GCTNAGC	1 cut(s)	267
BlsI	GCNGC	3 cut(s)	65, 826, 1054
Bme1390I	CCNGG	2 cut(s)	75, 385
Bme18I	GGWCC	2 cut(s)	388, 1022
BmeT110I	CYCGRG	1 cut(s)	456
BmgT120I	GGNCC	2 cut(s)	388, 1022
BmiI	GGNNCC	4 cut(s)	79, 389, 972, 1023
BmrFI	CCNGG	2 cut(s)	75, 385
BpiI	GAAGAC	1 cut(s)	806
BplI	GAGNNNNNCTC	2 cut(s)	74, 106
Bpu10I	CCTNAGC	2 cut(s)	144, 280
Bpu1102I	GCTNAGC	1 cut(s)	267
BpuEI	CTTGAG	2 cut(s)	755, 1290
BpuMI	CCSGG	1 cut(s)	75
BsaHI	GRCGYC	1 cut(s)	1294
BsaJI	CCNNGG	3 cut(s)	38, 384, 455
Bsc4I	CCNNNNNNNGG	3 cut(s)	456, 874, 967
Bse3DI	GCAATG	4 cut(s)	577, 587, 799, 1136
BseBI	CCWGG	1 cut(s)	385
BseDI	CCNNGG	3 cut(s)	38, 384, 455
BseGI	GGATG	2 cut(s)	139, 1195
BseLI	CCNNNNNNNGG	3 cut(s)	456, 874, 967
BseMI	GCAATG	4 cut(s)	577, 587, 799, 1136
BseMII	CTCAG	4 cut(s)	158, 809, 1161, 1269
BseRI	GAGGAG	2 cut(s)	55, 444
BseXI	GCAGC	1 cut(s)	1039
BsgI	GTGCAG	2 cut(s)	110, 1098
BshFI	GGCC	3 cut(s)	37, 73, 210
BshNI	GGYRCC	1 cut(s)	77
BsiHKAI	GWGCWC	1 cut(s)	587
BsiHKCI	CYCGRG	1 cut(s)	456
BsiSI	CCGG	1 cut(s)	74
BslFI	GGGAC	3 cut(s)	1035, 1076, 1245
BslI	CCNNNNNNNGG	3 cut(s)	456, 874, 967
BsmAI	GTCTC	1 cut(s)	77
BsmFI	GGGAC	3 cut(s)	1035, 1076, 1245
BsmI	GAATGC	3 cut(s)	514, 623, 724
BsnI	GGCC	3 cut(s)	37, 73, 210
BsoBI	CYCGRG	1 cut(s)	456
Bsp1286I	GDGCHC	1 cut(s)	587
Bsp1407I	TGTACA	1 cut(s)	1167
Bsp143I	GATC	3 cut(s)	9, 1150, 1219
Bsp1720I	GCTNAGC	1 cut(s)	267
BspACI	CCGC	4 cut(s)	47, 63, 436, 825
BspANI	GGCC	3 cut(s)	37, 73, 210
BspCNI	CTCAG	4 cut(s)	157, 810, 1160, 1270
BspLI	GGNNCC	4 cut(s)	79, 389, 972, 1023
BspT107I	GGYRCC	1 cut(s)	77
BsrDI	GCAATG	4 cut(s)	577, 587, 799, 1136
BsrGI	TGTACA	1 cut(s)	1167
BssECI	CCNNGG	3 cut(s)	38, 384, 455
BssMI	GATC	3 cut(s)	9, 1150, 1219
BssNI	GRCGYC	1 cut(s)	1294
Bst2UI	CCWGG	1 cut(s)	385
Bst4CI	ACNGT	4 cut(s)	101, 426, 559, 982
Bst6I	CTCTTC	1 cut(s)	1338
BstACI	GRCGYC	1 cut(s)	1294
BstAUI	TGTACA	1 cut(s)	1167
BstDEI	CTNAG	6 cut(s)	144, 267, 280, 818, 1147, 1278
BstF5I	GGATG	2 cut(s)	139, 1195
BstH2I	RGCGCY	1 cut(s)	69
BstHHI	GCGC	1 cut(s)	68
BstKTI	GATC	3 cut(s)	12, 1153, 1222
BstMAI	GTCTC	1 cut(s)	77
BstMBI	GATC	3 cut(s)	9, 1150, 1219
BstMWI	GCNNNNNNNGC	1 cut(s)	614
BstNI	CCWGG	1 cut(s)	385
BstSCI	CCNGG	2 cut(s)	73, 383
BstSFI	CTRYAG	1 cut(s)	628
BstV1I	GCAGC	1 cut(s)	1039
BstV2I	GAAGAC	1 cut(s)	806
BsuRI	GGCC	3 cut(s)	37, 73, 210
BtsCI	GGATG	2 cut(s)	139, 1195
BtsIMutI	CAGTG	2 cut(s)	106, 1275
CfoI	GCGC	1 cut(s)	68
Cfr13I	GGNCC	2 cut(s)	388, 1022
CseI	GACGC	1 cut(s)	1302
Csp6I	GTAC	2 cut(s)	433, 1168
CviAII	CATG	6 cut(s)	567, 751, 997, 1026, 1177, 1318
CviQI	GTAC	2 cut(s)	433, 1168
DdeI	CTNAG	6 cut(s)	144, 267, 280, 818, 1147, 1278
DpnI	GATC	3 cut(s)	11, 1152, 1221
DpnII	GATC	3 cut(s)	9, 1150, 1219
DrdI	GACNNNNNNGTC	1 cut(s)	562
DseDI	GACNNNNNNGTC	1 cut(s)	562
EaeI	YGGCCR	1 cut(s)	35
Eam1104I	CTCTTC	1 cut(s)	1338
EarI	CTCTTC	1 cut(s)	1338
Ecl136II	GAGCTC	1 cut(s)	585
Eco24I	GRGCYC	1 cut(s)	587
Eco47I	GGWCC	2 cut(s)	388, 1022
Eco53kI	GAGCTC	1 cut(s)	585
Eco88I	CYCGRG	1 cut(s)	456
EcoICRI	GAGCTC	1 cut(s)	585
EcoRII	CCWGG	1 cut(s)	383
EcoT38I	GRGCYC	1 cut(s)	587
FaeI	CATG	6 cut(s)	570, 754, 1000, 1029, 1180, 1321
FaqI	GGGAC	3 cut(s)	1035, 1076, 1245
FatI	CATG	6 cut(s)	566, 750, 996, 1025, 1176, 1317
FauNDI	CATATG	1 cut(s)	492
Fnu4HI	GCNGC	3 cut(s)	64, 825, 1053
FokI	GGATG	2 cut(s)	126, 1182
FriOI	GRGCYC	1 cut(s)	587
Fsp4HI	GCNGC	3 cut(s)	64, 825, 1053
FspBI	CTAG	2 cut(s)	69, 1290
GlaI	GCGC	1 cut(s)	67
GluI	GCNGC	3 cut(s)	64, 825, 1053
HaeII	RGCGCY	1 cut(s)	69
HaeIII	GGCC	3 cut(s)	37, 73, 210
HapII	CCGG	1 cut(s)	74
HgaI	GACGC	1 cut(s)	1302
HhaI	GCGC	1 cut(s)	68
Hin1I	GRCGYC	1 cut(s)	1294
Hin1II	CATG	6 cut(s)	570, 754, 1000, 1029, 1180, 1321
Hin6I	GCGC	1 cut(s)	66
HinP1I	GCGC	1 cut(s)	66
HindIII	AAGCTT	1 cut(s)	269
HinfI	GANTC	8 cut(s)	85, 110, 166, 250, 275, 374, 446, 467
HpaII	CCGG	1 cut(s)	74
HphI	GGTGA	3 cut(s)	334, 648, 862
Hpy166II	GTNNAC	1 cut(s)	238
Hpy188I	TCNGA	8 cut(s)	115, 259, 294, 305, 333, 819, 1150, 1219
Hpy188III	TCNNGA	4 cut(s)	197, 353, 478, 1199
Hpy8I	GTNNAC	1 cut(s)	238
Hpy99I	CGWCG	2 cut(s)	17, 559
HpyAV	CCTTC	3 cut(s)	17, 328, 529
HpyCH4III	ACNGT	4 cut(s)	101, 426, 559, 982
HpyCH4IV	ACGT	2 cut(s)	482, 521
HpyCH4V	TGCA	8 cut(s)	127, 490, 570, 865, 1029, 1055, 1115, 1275
HpyF10VI	GCNNNNNNNGC	1 cut(s)	614
HpyF3I	CTNAG	6 cut(s)	144, 267, 280, 818, 1147, 1278
HpySE526I	ACGT	2 cut(s)	482, 521
Hsp92I	GRCGYC	1 cut(s)	1294
Hsp92II	CATG	6 cut(s)	570, 754, 1000, 1029, 1180, 1321
HspAI	GCGC	1 cut(s)	66
Kzo9I	GATC	3 cut(s)	9, 1150, 1219
LmnI	GCTCC	1 cut(s)	976
LpnPI	CCDG	8 cut(s)	87, 210, 370, 397, 939, 974, 1046, 1214
Lsp1109I	GCAGC	1 cut(s)	1039
MaeI	CTAG	2 cut(s)	69, 1290
MaeII	ACGT	2 cut(s)	482, 521
MaeIII	GTNAC	3 cut(s)	93, 877, 982
MalI	GATC	3 cut(s)	11, 1152, 1221
MboI	GATC	3 cut(s)	9, 1150, 1219
MboII	GAAGA	8 cut(s)	19, 128, 508, 751, 806, 865, 1336, 1355
MhlI	GDGCHC	1 cut(s)	587
MluCI	AATT	8 cut(s)	160, 171, 192, 327, 651, 710, 939, 1265
MlyI	GAGTC	2 cut(s)	79, 119
MmeI	TCCRAC	1 cut(s)	176
MroXI	GAANNNNTTC	1 cut(s)	120
MseI	TTAA	5 cut(s)	228, 561, 675, 885, 1358
MslI	CAYNNNNRTG	3 cut(s)	870, 1200, 1280
MspA1I	CMGCKG	1 cut(s)	827
MspI	CCGG	1 cut(s)	74
MspR9I	CCNGG	2 cut(s)	75, 385
Mva1269I	GAATGC	3 cut(s)	514, 623, 724
MvaI	CCWGG	1 cut(s)	385
MwoI	GCNNNNNNNGC	1 cut(s)	614
NciI	CCSGG	1 cut(s)	75
NdeI	CATATG	1 cut(s)	492
NdeII	GATC	3 cut(s)	9, 1150, 1219
NlaIII	CATG	6 cut(s)	570, 754, 1000, 1029, 1180, 1321
NlaIV	GGNNCC	4 cut(s)	79, 389, 972, 1023
NmeAIII	GCCGAG	2 cut(s)	63, 106
PctI	GAATGC	3 cut(s)	514, 623, 724
PdmI	GAANNNNTTC	1 cut(s)	120
PfeI	GAWTC	6 cut(s)	166, 250, 275, 374, 446, 467
PkrI	GCNGC	3 cut(s)	65, 826, 1054
PleI	GAGTC	2 cut(s)	79, 118
PpsI	GAGTC	2 cut(s)	79, 118
Psp124BI	GAGCTC	1 cut(s)	587
Psp6I	CCWGG	1 cut(s)	383
PspGI	CCWGG	1 cut(s)	383
PspN4I	GGNNCC	4 cut(s)	79, 389, 972, 1023
PspPI	GGNCC	2 cut(s)	388, 1022
RsaI	GTAC	2 cut(s)	434, 1169
RsaNI	GTAC	2 cut(s)	433, 1168
RseI	CAYNNNNRTG	3 cut(s)	870, 1200, 1280
SacI	GAGCTC	1 cut(s)	587
SaqAI	TTAA	5 cut(s)	228, 561, 675, 885, 1358
SatI	GCNGC	3 cut(s)	64, 825, 1053
Sau3AI	GATC	3 cut(s)	9, 1150, 1219
Sau96I	GGNCC	2 cut(s)	388, 1022
SchI	GAGTC	2 cut(s)	79, 119
ScrFI	CCNGG	2 cut(s)	75, 385
SduI	GDGCHC	1 cut(s)	587
SfcI	CTRYAG	1 cut(s)	628
SinI	GGWCC	2 cut(s)	388, 1022
SmiMI	CAYNNNNRTG	3 cut(s)	870, 1200, 1280
SmlI	CTYRAG	2 cut(s)	734, 1305
SmoI	CTYRAG	2 cut(s)	734, 1305
Sse9I	AATT	8 cut(s)	160, 171, 192, 327, 651, 710, 939, 1265
SsiI	CCGC	4 cut(s)	47, 63, 436, 825
SspMI	CTAG	2 cut(s)	69, 1290
SstI	GAGCTC	1 cut(s)	587
StyD4I	CCNGG	2 cut(s)	73, 383
TaaI	ACNGT	4 cut(s)	101, 426, 559, 982
TaiI	ACGT	2 cut(s)	485, 524
TaqI	TCGA	2 cut(s)	360, 649
TasI	AATT	8 cut(s)	160, 171, 192, 327, 651, 710, 939, 1265
TatI	WGTACW	1 cut(s)	1167
TauI	GCSGC	2 cut(s)	66, 827
TfiI	GAWTC	6 cut(s)	166, 250, 275, 374, 446, 467
Tru1I	TTAA	5 cut(s)	228, 561, 675, 885, 1358
Tru9I	TTAA	5 cut(s)	228, 561, 675, 885, 1358
TscAI	CASTG	2 cut(s)	106, 1282
TseI	GCWGC	1 cut(s)	1052
TspDTI	ATGAA	5 cut(s)	128, 509, 548, 968, 1218
TspRI	CASTG	2 cut(s)	106, 1282
VpaK11BI	GGWCC	2 cut(s)	388, 1022
XapI	RAATTY	3 cut(s)	327, 651, 939
XcmI	CCANNNNNNNNNTGG	1 cut(s)	159
XmnI	GAANNNNTTC	1 cut(s)	120
XspI	CTAG	2 cut(s)	69, 1290

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