Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0012459

Physical Location & Seq

Genomic Coordinates Reverse (-)

73316346 .. 73318046

Gene Structure 1701 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00052550.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1701 bp

ATGGCAATTCTCATAAATTCGGTGTCACCTATAACAAACCCATCAGCAGAAACTGCTAGAAAGGGTTGTGGTTTCTTTTCGCACATCAGGGTCCAGACATTTTTACTCAACAAGGGGTTTTCAAGAGTTTTGGCATCAACCCAGGTTACCATTTCTCCAAAGGACACTGTTTTCACTTTGCCCAATTGGAGGAATCCCAAGAATGATAGAAGAAGTAGAGAAGTTAGAATAATTGATGCCTTTCAGCATTTAGAGTCTATGATAGGGAAGGGCCAAAAGCCTGATGTGGGCCAAGCAACTCAGCTCTTGTATGATCTGTGCAAGGCGAGTAAGATGAGGAAAGCGGTGAGAGTGATCGAAATGATGGTTGCTTCAGGCATTATACCTGATGCAGCTTCATATACCTTCTTGGTGAACTATTTGTGTAAAAGAGGGAATATTGGTTATGCAATGCAGTTGGTTGAGAAGATGGAGGAGTATGGATATCCGACTAATACTGTTACCTATAATTCACTTGTTAGAGGGCTTTGTGTGCGTGGAAATTTGAATCAAAGCTTGCAGCTTTTGGATAAGCTGATACGGAAGGGGCTGGTCCCGAATGTTTATACTTACTCTTTCTTGCTTGAAGCGGCTTATAAGGAAAGAGGGGTCAACGAAGCGGTGAAGCTCCTGGAGGAGATCATTGCTAAAGGTGGAAAGCCTAATTTGGTTAGTTACAATGTTTTGTTGACTGGTTTGTGCAAGGAAGGTAGGAGTGATGAGGCAATGAAGTTTTTTAGGAGTTTGCCTTCGATGGGATTCAGACCAAATGTTGTGAGCTATAACATTGTGCTGAGGAGCTTGTGCTATGAGGGTAGGTGGGAAGAGGCGAATGTGCTTTTAGCTGAGATGGATGGTGAGGATCGGACACCCTCCATAGTTACATATAACATCTTAATCAGTTCTCTTGCCCTTCATGGTAGAACAGAACATGCTCTTGAAGTTTTGGATGAAATGGTTAAGGGTCGGTTCAAGCCTACTGCTGCAAGCTACAATCCGATAATTGCTCATCTCTGCAAAGAGGGGAAAGTGGATCATGTGGTGAAGTGTCTAGACCAAATGATGTTCCGGCGATGTAATCCAAATGAGGGAACATTCAATGCCATTGCTGTGCTATGTGAGCAAGGTATGGTGCAAGAAGCATACTCCATCATTCAAAGCCTCGGAAATAAACAGAAATGCTCCACGAATGAGTTCTACAGAAATGTAATCACAAGCTTGTGCAGGAAAGGGAATACATATCCAGCATTTCAGATGTTATATGAAATGACCAAGTATGGTTTTACACCAGATTCTTATACCTATTCATCTTTGATCAGAGGGTTGTGTCTGGAGGGTATGCTAAATGAAGCAATGGAGATTTTCAAGGTCATGGAGGAAAACAACCAAAGGCCTGATACTGAGAATTTCAATGCCCTTATACTTGGATTTTGCAAATGTCGAAGAACAGATCTATCCTTGCAGGTTTTCGAGATGATGATTGAGAAAAGGCTAATGCCTAATGAAATGACATATACCATTCTCGTGGAAGGGCTTGCACATGAAAAGGAAACGGAGCTGGCAGCTGAGGTTTTGAGGGAGTTACAGGGGAGACGGGTTATGAGTCCAAATACAGTGGAAAGACTTGTTATGCAGTATGACCTTGAGGAAATACCGTTGTAG

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

566

Amino Acids

64.22

Weight (kDa)

8.36

Isoelectric Point (pI)

37.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	106 - 143	6.9e-07	PPR repeat family
PPR_long	PF17177	110 - 212	1.7e-07	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	126 - 158	7e-07	PPR repeat
PPR_2	PF13041	129 - 177	5.5e-12	PPR repeat family
TPR_24	PF23276	145 - 261	3.5e-07	Fungal tetratrico peptide repeats
PPR_3	PF13812	153 - 210	1.1e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	162 - 191	3e-06	PPR repeat
PPR_2	PF13041	165 - 210	1.1e-11	PPR repeat family
PPR_2	PF13041	207 - 248	1.6e-07	PPR repeat family
PPR_3	PF13812	222 - 279	2.6e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	230 - 260	3.9e-10	PPR repeat
PPR_2	PF13041	234 - 282	3.6e-15	PPR repeat family
PPR	PF01535	237 - 267	9e-07	PPR repeat
PPR_1	PF12854	265 - 297	2e-07	PPR repeat
PPR_2	PF13041	269 - 317	5.9e-13	PPR repeat family
PPR_3	PF13812	293 - 349	5e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	304 - 333	2e-08	PPR repeat
PPR_2	PF13041	304 - 345	1.3e-09	PPR repeat family
PPR	PF01535	307 - 334	5.1e-07	PPR repeat
PPR_2	PF13041	339 - 381	2.4e-09	PPR repeat family
PPR_2	PF13041	413 - 456	1.3e-11	PPR repeat family
PPR_3	PF13812	433 - 487	7.1e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	440 - 472	2.1e-11	PPR repeat
PPR	PF01535	446 - 475	2.3e-07	PPR repeat
PPR_2	PF13041	478 - 527	4.3e-11	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012459)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79080
fragaria_vesca	FvH4_3g15990
malus_domestica	MD05G1216400.v1.1 MD10G1198700.v1.1
prunus_persica	Prupe.4G143000_v2.0.a1
pyrus_communis	pycom05g19870 pycom10g17140
rosa_chinensis	RchiOBHm_Chr5g0026921
rosa_laevigata	RLG00000032970
rosa_multiflora	Rmu_co8463079.1_g000001 Rmu_sc0004223.1_g000006 Rmu_sc0008732.1_g000003
rosa_roxburghii	Rroxscaffold_1G00052550
rosa_rugosa	Rorug05G0095900
rosa_samantha	Rh5AG189500 Rh5BG187100 Rh5CG206800 Rh5DG188800
rosa_wichuraiana	Rw5G017240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	636
Acc36I	ACCTGC	1 cut(s)	1492
AciI	CCGC	3 cut(s)	344, 629, 659
AclWI	GGATC	2 cut(s)	909, 1080
AcsI	RAATTY	3 cut(s)	16, 541, 1444
AcuI	CTGAAG	1 cut(s)	357
AfiI	CCNNNNNNNGG	4 cut(s)	189, 287, 794, 1127
AgsI	TTSAA	9 cut(s)	123, 547, 626, 980, 1012, 1138, 1196, 1405, 1450
AjnI	CCWGG	2 cut(s)	141, 669
Alw26I	GTCTC	1 cut(s)	1624
AlwI	GGATC	2 cut(s)	909, 1080
AlwNI	CAGNNNCTG	1 cut(s)	53
AoxI	GGCC	3 cut(s)	271, 289, 1430
ApeKI	GCWGC	4 cut(s)	392, 559, 1022, 1601
ApoI	RAATTY	3 cut(s)	16, 541, 1444
Asp700I	GAANNNNTTC	1 cut(s)	1232
AspS9I	GGNCC	4 cut(s)	91, 271, 289, 592
AsuHPI	GGTGA	6 cut(s)	18, 358, 424, 673, 908, 1093
AvaII	GGWCC	2 cut(s)	91, 592
BauI	CACGAG	1 cut(s)	1562
BbvCI	CCTCAGC	2 cut(s)	833, 1605
BbvI	GCAGC	4 cut(s)	404, 571, 1009, 1613
BccI	CCATC	7 cut(s)	49, 358, 463, 787, 883, 887, 1196
BciT130I	CCWGG	2 cut(s)	143, 671
BclI	TGATCA	1 cut(s)	1353
BcoDI	GTCTC	1 cut(s)	1624
BfaI	CTAG	2 cut(s)	57, 1091
BfmI	CTRYAG	1 cut(s)	1237
BfuAI	ACCTGC	1 cut(s)	1492
BglII	AGATCT	1 cut(s)	1489
BisI	GCNGC	5 cut(s)	393, 560, 630, 1023, 1602
BlsI	GCNGC	5 cut(s)	394, 561, 631, 1024, 1603
Bme1390I	CCNGG	2 cut(s)	143, 671
Bme18I	GGWCC	2 cut(s)	91, 592
BmgT120I	GGNCC	4 cut(s)	91, 271, 289, 592
BmiI	GGNNCC	2 cut(s)	92, 594
BmrFI	CCNGG	2 cut(s)	143, 671
BmsI	GCATC	3 cut(s)	143, 226, 379
BpmI	CTGGAG	2 cut(s)	692, 1391
Bpu10I	CCTNAGC	2 cut(s)	833, 1605
BsaJI	CCNNGG	2 cut(s)	141, 1201
BsaXI	ACNNNNNCTCC	2 cut(s)	139, 169
Bsc4I	CCNNNNNNNGG	4 cut(s)	189, 287, 794, 1127
Bse1I	ACTGG	1 cut(s)	736
Bse3DI	GCAATG	5 cut(s)	456, 681, 771, 1143, 1398
BseBI	CCWGG	2 cut(s)	143, 671
BseDI	CCNNGG	2 cut(s)	141, 1201
BseGI	GGATG	2 cut(s)	898, 994
BseLI	CCNNNNNNNGG	4 cut(s)	189, 287, 794, 1127
BseMI	GCAATG	5 cut(s)	456, 681, 771, 1143, 1398
BseMII	CTCAG	5 cut(s)	314, 824, 876, 1431, 1596
BseNI	ACTGG	1 cut(s)	736
BseRI	GAGGAG	3 cut(s)	488, 689, 850
BseXI	GCAGC	4 cut(s)	404, 571, 1009, 1613
BsgI	GTGCAG	1 cut(s)	1282
BshFI	GGCC	3 cut(s)	273, 291, 1432
BsiSI	CCGG	1 cut(s)	1108
BslFI	GGGAC	1 cut(s)	578
BslI	CCNNNNNNNGG	4 cut(s)	189, 287, 794, 1127
BsmAI	GTCTC	1 cut(s)	1624
BsmBI	CGTCTC	1 cut(s)	1624
BsmFI	GGGAC	1 cut(s)	578
BsnI	GGCC	3 cut(s)	273, 291, 1432
Bsp143I	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
BspACI	CCGC	3 cut(s)	344, 629, 659
BspANI	GGCC	3 cut(s)	273, 291, 1432
BspCNI	CTCAG	5 cut(s)	313, 825, 877, 1432, 1597
BspLI	GGNNCC	2 cut(s)	92, 594
BspMI	ACCTGC	1 cut(s)	1492
BspPI	GGATC	2 cut(s)	909, 1080
BsrDI	GCAATG	5 cut(s)	456, 681, 771, 1143, 1398
BsrI	ACTGG	1 cut(s)	736
BssECI	CCNNGG	2 cut(s)	141, 1201
BssMI	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
BssSI	CACGAG	1 cut(s)	1562
Bst2BI	CACGAG	1 cut(s)	1562
Bst2UI	CCWGG	2 cut(s)	143, 671
Bst4CI	ACNGT	4 cut(s)	169, 499, 1654, 1695
Bst6I	CTCTTC	1 cut(s)	858
BstAPI	GCANNNNNTGC	1 cut(s)	53
BstC8I	GCNNGC	4 cut(s)	557, 1027, 1575, 1599
BstDEI	CTNAG	5 cut(s)	300, 833, 885, 1440, 1605
BstEII	GGTNACC	1 cut(s)	145
BstF5I	GGATG	2 cut(s)	898, 994
BstKTI	GATC	7 cut(s)	316, 357, 681, 904, 1075, 1356, 1492
BstMAI	GTCTC	1 cut(s)	1624
BstMBI	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
BstMWI	GCNNNNNNNGC	3 cut(s)	53, 532, 1159
BstNI	CCWGG	2 cut(s)	143, 671
BstNSI	RCATGY	1 cut(s)	974
BstPI	GGTNACC	1 cut(s)	145
BstSCI	CCNGG	2 cut(s)	141, 669
BstSFI	CTRYAG	1 cut(s)	1237
BstV1I	GCAGC	4 cut(s)	404, 571, 1009, 1613
BstX2I	RGATCY	1 cut(s)	1489
BstXI	CCANNNNNNTGG	1 cut(s)	1564
BstYI	RGATCY	1 cut(s)	1489
BsuRI	GGCC	3 cut(s)	273, 291, 1432
BtgZI	GCGATG	1 cut(s)	1126
BtsCI	GGATG	2 cut(s)	898, 994
BtsIMutI	CAGTG	2 cut(s)	165, 1659
BveI	ACCTGC	1 cut(s)	1492
Cac8I	GCNNGC	4 cut(s)	557, 1027, 1575, 1599
CaiI	CAGNNNCTG	1 cut(s)	53
Cfr13I	GGNCC	4 cut(s)	91, 271, 289, 592
CspCI	CAANNNNNGTGG	2 cut(s)	1635, 1670
CviAII	CATG	5 cut(s)	956, 971, 1076, 1411, 1580
DdeI	CTNAG	5 cut(s)	300, 833, 885, 1440, 1605
DpnI	GATC	7 cut(s)	315, 356, 680, 903, 1074, 1355, 1491
DpnII	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
Eam1104I	CTCTTC	1 cut(s)	858
EarI	CTCTTC	1 cut(s)	858
Eco147I	AGGCCT	1 cut(s)	1432
Eco32I	GATATC	1 cut(s)	485
Eco47I	GGWCC	2 cut(s)	91, 592
Eco57I	CTGAAG	1 cut(s)	357
Eco91I	GGTNACC	1 cut(s)	145
EcoO65I	GGTNACC	1 cut(s)	145
EcoRII	CCWGG	2 cut(s)	141, 669
EcoRV	GATATC	1 cut(s)	485
Esp3I	CGTCTC	1 cut(s)	1624
FaeI	CATG	5 cut(s)	959, 974, 1079, 1414, 1583
FaqI	GGGAC	1 cut(s)	578
FatI	CATG	5 cut(s)	955, 970, 1075, 1410, 1579
FbaI	TGATCA	1 cut(s)	1353
Fnu4HI	GCNGC	5 cut(s)	393, 560, 630, 1023, 1602
FokI	GGATG	2 cut(s)	905, 1001
Fsp4HI	GCNGC	5 cut(s)	393, 560, 630, 1023, 1602
FspBI	CTAG	2 cut(s)	57, 1091
GluI	GCNGC	5 cut(s)	393, 560, 630, 1023, 1602
GsuI	CTGGAG	2 cut(s)	692, 1391
HaeIII	GGCC	3 cut(s)	273, 291, 1432
HapII	CCGG	1 cut(s)	1108
Hin1II	CATG	5 cut(s)	959, 974, 1079, 1414, 1583
HincII	GTYRAC	2 cut(s)	652, 729
HindII	GTYRAC	2 cut(s)	652, 729
HindIII	AAGCTT	2 cut(s)	553, 1255
HinfI	GANTC	6 cut(s)	193, 254, 547, 798, 1331, 1642
HpaII	CCGG	1 cut(s)	1108
HphI	GGTGA	6 cut(s)	18, 358, 424, 673, 908, 1093
Hpy166II	GTNNAC	3 cut(s)	415, 652, 729
Hpy188I	TCNGA	7 cut(s)	489, 803, 906, 1038, 1205, 1293, 1358
Hpy188III	TCNNGA	7 cut(s)	94, 123, 595, 977, 1091, 1370, 1510
Hpy8I	GTNNAC	3 cut(s)	415, 652, 729
HpyAV	CCTTC	7 cut(s)	262, 415, 577, 740, 798, 962, 1562
HpyCH4III	ACNGT	4 cut(s)	169, 499, 1654, 1695
HpyF10VI	GCNNNNNNNGC	3 cut(s)	53, 532, 1159
HpyF3I	CTNAG	5 cut(s)	300, 833, 885, 1440, 1605
Hsp92II	CATG	5 cut(s)	959, 974, 1079, 1414, 1583
Ksp22I	TGATCA	1 cut(s)	1353
Kzo9I	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
LmnI	GCTCC	4 cut(s)	672, 837, 1226, 1594
Lsp1109I	GCAGC	4 cut(s)	404, 571, 1009, 1613
LweI	GCATC	3 cut(s)	143, 226, 379
MaeI	CTAG	2 cut(s)	57, 1091
MaeIII	GTNAC	6 cut(s)	24, 145, 499, 713, 919, 1620
MalI	GATC	7 cut(s)	315, 356, 680, 903, 1074, 1355, 1491
MboI	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
MboII	GAAGA	4 cut(s)	222, 478, 875, 1494
MfeI	CAATTG	1 cut(s)	184
MflI	RGATCY	1 cut(s)	1489
MluCI	AATT	9 cut(s)	6, 16, 184, 231, 508, 541, 703, 1041, 1444
MlyI	GAGTC	2 cut(s)	263, 1651
MmeI	TCCRAC	1 cut(s)	512
MroXI	GAANNNNTTC	1 cut(s)	1232
MseI	TTAA	2 cut(s)	935, 999
MslI	CAYNNNNRTG	2 cut(s)	1148, 1562
MspA1I	CMGCKG	1 cut(s)	1604
MspI	CCGG	1 cut(s)	1108
MspR9I	CCNGG	2 cut(s)	143, 671
MunI	CAATTG	1 cut(s)	184
MvaI	CCWGG	2 cut(s)	143, 671
MwoI	GCNNNNNNNGC	3 cut(s)	53, 532, 1159
NdeII	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
NlaIII	CATG	5 cut(s)	959, 974, 1079, 1414, 1583
NlaIV	GGNNCC	2 cut(s)	92, 594
NmuCI	GTSAC	1 cut(s)	24
NspI	RCATGY	1 cut(s)	974
PceI	AGGCCT	1 cut(s)	1432
PdmI	GAANNNNTTC	1 cut(s)	1232
PfeI	GAWTC	4 cut(s)	193, 547, 798, 1331
PfoI	TCCNGGA	1 cut(s)	669
PkrI	GCNGC	5 cut(s)	394, 561, 631, 1024, 1603
PleI	GAGTC	2 cut(s)	262, 1650
PpsI	GAGTC	2 cut(s)	262, 1650
PsiI	TTATAA	1 cut(s)	636
Psp6I	CCWGG	2 cut(s)	141, 669
PspEI	GGTNACC	1 cut(s)	145
PspGI	CCWGG	2 cut(s)	141, 669
PspN4I	GGNNCC	2 cut(s)	92, 594
PspPI	GGNCC	4 cut(s)	91, 271, 289, 592
PstNI	CAGNNNCTG	1 cut(s)	53
PsuI	RGATCY	1 cut(s)	1489
PvuII	CAGCTG	1 cut(s)	1604
RseI	CAYNNNNRTG	2 cut(s)	1148, 1562
SaqAI	TTAA	2 cut(s)	935, 999
SatI	GCNGC	5 cut(s)	393, 560, 630, 1023, 1602
Sau3AI	GATC	7 cut(s)	313, 354, 678, 901, 1072, 1353, 1489
Sau96I	GGNCC	4 cut(s)	91, 271, 289, 592
SchI	GAGTC	2 cut(s)	263, 1651
ScrFI	CCNGG	2 cut(s)	143, 671
SfaNI	GCATC	3 cut(s)	143, 226, 379
SfcI	CTRYAG	1 cut(s)	1237
SinI	GGWCC	2 cut(s)	91, 592
SmiMI	CAYNNNNRTG	2 cut(s)	1148, 1562
SmlI	CTYRAG	1 cut(s)	1682
SmoI	CTYRAG	1 cut(s)	1682
Sse9I	AATT	9 cut(s)	6, 16, 184, 231, 508, 541, 703, 1041, 1444
SseBI	AGGCCT	1 cut(s)	1432
SsiI	CCGC	3 cut(s)	344, 629, 659
SspI	AATATT	1 cut(s)	439
SspMI	CTAG	2 cut(s)	57, 1091
StuI	AGGCCT	1 cut(s)	1432
StyD4I	CCNGG	2 cut(s)	141, 669
TaaI	ACNGT	4 cut(s)	169, 499, 1654, 1695
TaqI	TCGA	4 cut(s)	357, 791, 1480, 1509
TasI	AATT	9 cut(s)	6, 16, 184, 231, 508, 541, 703, 1041, 1444
TauI	GCSGC	1 cut(s)	632
TfiI	GAWTC	4 cut(s)	193, 547, 798, 1331
Tru1I	TTAA	2 cut(s)	935, 999
Tru9I	TTAA	2 cut(s)	935, 999
TscAI	CASTG	2 cut(s)	172, 1659
TseFI	GTSAC	1 cut(s)	24
TseI	GCWGC	4 cut(s)	392, 559, 1022, 1601
Tsp45I	GTSAC	1 cut(s)	24
TspDTI	ATGAA	9 cut(s)	387, 782, 944, 1005, 1317, 1335, 1401, 1557, 1596
TspGWI	ACGGA	2 cut(s)	595, 1607
TspRI	CASTG	2 cut(s)	172, 1659
VpaK11BI	GGWCC	2 cut(s)	91, 592
XapI	RAATTY	3 cut(s)	16, 541, 1444
XbaI	TCTAGA	1 cut(s)	1090
XceI	RCATGY	1 cut(s)	974
XmnI	GAANNNNTTC	1 cut(s)	1232
XspI	CTAG	2 cut(s)	57, 1091

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