Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0002831

Physical Location & Seq

Genomic Coordinates Reverse (-)

49216846 .. 49219805

Gene Structure 2960 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG429900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1554 bp

ATGAATCTAAGGAGAGTTCATTTTAGTTGGTGCCGTTGGTTCTCTTCCTTTCCTTCGATAATCTCATCATCTGTTTCATGGATCTCTCCTCTTCAGTTATCAAAATTCAATGCTCACAAACCAGATCCCCCTCCCGAAACCACAACCACAAGGACAGAAGCTAGGAGGAAATCCAAATATATTTCTCATGATGCTGCCATCAACTTAATTAAACGTGAGAGAGATCCACAACATGCCTTGGAAATATTTAACATGGTTTCGGAGCAAAAGGGTTTCAACCACAATAATGCCACCTATGCAACTATCCTCAATAAGCTTGCTCAGTCCAAGAAGTTCAAGGCTGTTGATGCAGTTCTCTATCAAATGAAGTACGATGCCTGCAAATATCATGAGGGTATATTCCTTAATCTCATGAAGCATTTTTCAAATTCATCTATGCATGAAAGAGTGCTTGAAATGTTCTATGCTATCCAGCCAATAGTTCGGGAAAAGCCGTCTCTCAAATGCATTAGTACTTGTCTAAATCTACTGATTGAAGCGAATCAGGTTGATTTGGCCCAACAGTTTCTCATGCATTTGAAGAAGAGTCTTAACTTGAAGCTGAATACATGCATTGTCAACATCTTGGTTAAGCACCATTGCAAAAATGGGGATCTTGAATCTGCCTTTGAGGTTGTAAAGGAAATGAAAAAGTCTAAGCTTTCCTATCCTAATTTGATTACTTACTCGACTCTAATTGATGGTTTATGTCAAAGTGGAAGACTGACAGAAGCAATGGACCTGTTTGAGGAAATGATCTCAAAGGATCAGATATTGCCTGATGTGCTAACGTACAACATTTTGATTAACGGTTTTTGCCGTGGTGGGAAAGTTGATAGGGCAAGGAAGATTTTGGATTTTATGAAGAGCAAAGGATGCAACCCAAATGTATTCAATTACTCAGCTCTGATGAATGGATTCTGTAAGGAGGAAAGGTTGGAAGAGGCCAAGGAGCTTTTGGATGAAATGAAGAGCTTTGGTATCAAACCAGATACAGTTGTCTACACTACTTTAATTGATTGCTACTGTAGGACCGGGAGAGTTGATGAAGCGATAGAGTTGCTCAAAGAGATGAAAGAAAGACGGTGCAAAGCTGATACTGTGACTTTCAATGTGATACTTGGAGGACTATGTAGAGAAGGTAAAATTGAGGATGCGCTTGAGATGCTGGACAGACTTCCTTATGAGGGTATCTATCTGAATAAGGGAAGCTACAGGATTGTGTTGAATTCATTGTGTCAGAAAGGCAAACTAAACAAAGCTAAAGAGTTGTTGAGATTGATGATGGGTAGGGGGTTTGTACCACATTATGCAACTTCAAACGAGTTGCTAGTTAGCCTTTGTGAGGCTGGAATGGCAGATGATGCAACTATGGCTTTATTTGGATTGGTGGAGATGGGATTCAAGCCACTGCCTGATTCCTGGACTCTTTTTGTTGAATCAATTTGCAGAGAAAGAAAGCTGCTGCCTGCATTTGAACTGCTCGATGAATTAGTTAATGAAGAGTTCGATTAA

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

517

Amino Acids

59.27

Weight (kDa)

8.31

Isoelectric Point (pI)

36.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	196 - 247	1e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	198 - 230	6.5e-07	PPR repeat
PPR_long	PF17177	202 - 268	6.1e-06	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	202 - 251	5.2e-14	PPR repeat family
PPR_2	PF13041	237 - 287	2.3e-17	PPR repeat family
PPR_1	PF12854	237 - 265	3.7e-13	PPR repeat
PPR	PF01535	240 - 268	2.1e-09	PPR repeat
PPR_long	PF17177	252 - 404	1.1e-10	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	262 - 320	1.6e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	271 - 302	3.5e-13	PPR repeat
PPR_2	PF13041	273 - 322	1.6e-17	PPR repeat family
PPR	PF01535	277 - 306	1.4e-08	PPR repeat
PPR_1	PF12854	304 - 337	7.8e-13	PPR repeat
PPR_2	PF13041	308 - 357	2.4e-16	PPR repeat family
TPR_24	PF23276	312 - 402	1.6e-08	Fungal tetratrico peptide repeats
PPR	PF01535	313 - 341	3.3e-08	PPR repeat
PPR_long	PF17177	326 - 438	8e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	332 - 388	7.7e-13	Pentatricopeptide repeat domain
PPR_1	PF12854	340 - 372	2.6e-15	PPR repeat
PPR_2	PF13041	343 - 392	2.6e-19	PPR repeat family
PPR	PF01535	346 - 376	2.9e-11	PPR repeat
PPR_1	PF12854	375 - 405	2.8e-09	PPR repeat
PPR_2	PF13041	379 - 427	9.1e-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: OG0002831)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18475
fragaria_vesca	FvH4_5g35730 FvH4_5g35730 FvH4_5g35730 FvH4_5g35730 FvH4_5g35730
prunus_persica	Prupe.1G528200_v2.0.a1
pyrus_communis	pycom08g16680
rosa_chinensis	RchiOBHm_Chr4g0424581 RchiOBHm_Chr7g0237351
rosa_laevigata	RLG00000001010 RLG00000007454
rosa_multiflora	Rmu_co8091050.1_g000001 Rmu_sc0000281.1_g000013 Rmu_sc0000820.1_g000045 Rmu_sc0002603.1_g000021 Rmu_sc0002923.1_g000038 Rmu_sc0006438.1_g000010
rosa_roxburghii	Rroxscaffold_3G00224290 Rroxscaffold_3G00224300 Rroxscaffold_5G00366500
rosa_rugosa	Rorug04G0198000 Rorug07G0302800 Rorug07G0302800
rosa_samantha	Rh1CG247200 Rh1DG083900 Rh4AG254700 Rh4BG260200 Rh4CG271700 Rh4DG254900 Rh5AG212800 Rh6DG464200 Rh7AG460000 Rh7BG429900 Rh7CG477300 Rh7DG446600
rosa_wichuraiana	Rw1G023340 Rw4G022020 Rw7G038100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	30
AccI	GTMKAC	1 cut(s)	1041
AclWI	GGATC	5 cut(s)	89, 119, 218, 660, 813
AcsI	RAATTY	3 cut(s)	104, 427, 1267
AcuI	CTGAAG	1 cut(s)	77
AfaI	GTAC	4 cut(s)	371, 514, 833, 1341
AfiI	CCNNNNNNNGG	3 cut(s)	787, 1226, 1384
AjnI	CCWGG	1 cut(s)	1460
Alw26I	GTCTC	1 cut(s)	501
AlwI	GGATC	5 cut(s)	89, 119, 218, 660, 813
AoxI	GGCC	2 cut(s)	555, 984
ApeKI	GCWGC	3 cut(s)	194, 1501, 1504
ApoI	RAATTY	3 cut(s)	104, 427, 1267
Asp700I	GAANNNNTTC	1 cut(s)	956
AspLEI	GCGC	1 cut(s)	1198
AspS9I	GGNCC	3 cut(s)	556, 778, 1071
AsuC2I	CCSGG	1 cut(s)	1075
AvaII	GGWCC	2 cut(s)	778, 1071
BaeI	ACNNNNGTAYC	2 cut(s)	1023, 1056
BanI	GGYRCC	1 cut(s)	30
BbsI	GAAGAC	1 cut(s)	766
BbvI	GCAGC	3 cut(s)	181, 1488, 1491
BccI	CCATC	4 cut(s)	206, 734, 1318, 1429
BceAI	ACGGC	3 cut(s)	18, 478, 843
BcgI	CGANNNNNNTGC	2 cut(s)	1081, 1115
BciT130I	CCWGG	1 cut(s)	1462
BcnI	CCSGG	1 cut(s)	1075
BcoDI	GTCTC	1 cut(s)	501
BfaI	CTAG	2 cut(s)	162, 1370
BfmI	CTRYAG	2 cut(s)	1066, 1252
BisI	GCNGC	3 cut(s)	195, 1502, 1505
BlsI	GCNGC	3 cut(s)	196, 1503, 1506
BmcAI	AGTACT	1 cut(s)	514
Bme1390I	CCNGG	2 cut(s)	1075, 1462
Bme18I	GGWCC	2 cut(s)	778, 1071
BmgT120I	GGNCC	3 cut(s)	556, 778, 1071
BmiI	GGNNCC	1 cut(s)	32
BmrFI	CCNGG	2 cut(s)	1075, 1462
BmsI	GCATC	7 cut(s)	181, 337, 364, 905, 1183, 1194, 1393
BpiI	GAAGAC	1 cut(s)	766
BpuEI	CTTGAG	1 cut(s)	1220
BpuMI	CCSGG	1 cut(s)	1075
BsaJI	CCNNGG	3 cut(s)	237, 859, 987
BsaXI	ACNNNNNCTCC	2 cut(s)	959, 989
Bsc4I	CCNNNNNNNGG	3 cut(s)	787, 1226, 1384
Bse3DI	GCAATG	2 cut(s)	637, 780
BseBI	CCWGG	1 cut(s)	1462
BseDI	CCNNGG	3 cut(s)	237, 859, 987
BseGI	GGATG	3 cut(s)	920, 1006, 1198
BseLI	CCNNNNNNNGG	3 cut(s)	787, 1226, 1384
BseMI	GCAATG	2 cut(s)	637, 780
BseMII	CTCAG	2 cut(s)	335, 954
BseRI	GAGGAG	1 cut(s)	78
BseXI	GCAGC	3 cut(s)	181, 1488, 1491
BshFI	GGCC	2 cut(s)	557, 986
BshNI	GGYRCC	1 cut(s)	30
BsiSI	CCGG	1 cut(s)	1074
BslI	CCNNNNNNNGG	3 cut(s)	787, 1226, 1384
BsmAI	GTCTC	1 cut(s)	501
BsmBI	CGTCTC	1 cut(s)	501
BsnI	GGCC	2 cut(s)	557, 986
Bsp143I	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
BspANI	GGCC	2 cut(s)	557, 986
BspCNI	CTCAG	2 cut(s)	334, 953
BspHI	TCATGA	3 cut(s)	187, 388, 411
BspLI	GGNNCC	1 cut(s)	32
BspPI	GGATC	5 cut(s)	89, 119, 218, 660, 813
BspQI	GCTCTTC	2 cut(s)	899, 1004
BspT107I	GGYRCC	1 cut(s)	30
BsrDI	GCAATG	2 cut(s)	637, 780
BssECI	CCNNGG	3 cut(s)	237, 859, 987
BssMI	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
BssT1I	CCWWGG	2 cut(s)	237, 987
Bst2UI	CCWGG	1 cut(s)	1462
Bst4CI	ACNGT	6 cut(s)	564, 851, 1036, 1067, 1125, 1141
Bst6I	CTCTTC	7 cut(s)	49, 96, 578, 899, 975, 1004, 1536
BstAPI	GCANNNNNTGC	2 cut(s)	915, 1403
BstC8I	GCNNGC	3 cut(s)	318, 379, 1509
BstDEI	CTNAG	4 cut(s)	8, 321, 696, 940
BstDSI	CCRYGG	1 cut(s)	859
BstENI	CCTNNNNNAGG	2 cut(s)	785, 1382
BstF5I	GGATG	3 cut(s)	920, 1006, 1198
BstHHI	GCGC	1 cut(s)	1198
BstKTI	GATC	6 cut(s)	84, 127, 226, 655, 798, 808
BstMAI	GTCTC	1 cut(s)	501
BstMBI	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
BstMWI	GCNNNNNNNGC	8 cut(s)	296, 347, 823, 915, 1204, 1394, 1403, 1412
BstNI	CCWGG	1 cut(s)	1462
BstNSI	RCATGY	2 cut(s)	236, 612
BstSCI	CCNGG	2 cut(s)	1073, 1460
BstSFI	CTRYAG	2 cut(s)	1066, 1252
BstV1I	GCAGC	3 cut(s)	181, 1488, 1491
BstV2I	GAAGAC	1 cut(s)	766
BstX2I	RGATCY	4 cut(s)	81, 124, 223, 652
BstYI	RGATCY	4 cut(s)	81, 124, 223, 652
BsuRI	GGCC	2 cut(s)	557, 986
BtgI	CCRYGG	1 cut(s)	859
BtsCI	GGATG	3 cut(s)	920, 1006, 1198
BtsI	GCAGTG	1 cut(s)	1448
BtsIMutI	CAGTG	1 cut(s)	1448
Cac8I	GCNNGC	3 cut(s)	318, 379, 1509
CciI	TCATGA	3 cut(s)	187, 388, 411
CfoI	GCGC	1 cut(s)	1198
Cfr13I	GGNCC	3 cut(s)	556, 778, 1071
Csp6I	GTAC	4 cut(s)	370, 513, 832, 1340
CviAII	CATG	9 cut(s)	78, 188, 233, 253, 389, 412, 440, 571, 609
CviQI	GTAC	4 cut(s)	370, 513, 832, 1340
DdeI	CTNAG	4 cut(s)	8, 321, 696, 940
DpnI	GATC	6 cut(s)	83, 126, 225, 654, 797, 807
DpnII	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
Eam1104I	CTCTTC	7 cut(s)	49, 96, 578, 899, 975, 1004, 1536
EarI	CTCTTC	7 cut(s)	49, 96, 578, 899, 975, 1004, 1536
Eco130I	CCWWGG	2 cut(s)	237, 987
Eco47I	GGWCC	2 cut(s)	778, 1071
Eco57I	CTGAAG	1 cut(s)	77
EcoNI	CCTNNNNNAGG	2 cut(s)	785, 1382
EcoRI	GAATTC	1 cut(s)	1267
EcoRII	CCWGG	1 cut(s)	1460
EcoT14I	CCWWGG	2 cut(s)	237, 987
EcoT22I	ATGCAT	4 cut(s)	441, 509, 576, 614
ErhI	CCWWGG	2 cut(s)	237, 987
Esp3I	CGTCTC	1 cut(s)	501
FaeI	CATG	9 cut(s)	81, 191, 236, 256, 392, 415, 443, 574, 612
FatI	CATG	9 cut(s)	77, 187, 232, 252, 388, 411, 439, 570, 608
FblI	GTMKAC	1 cut(s)	1041
Fnu4HI	GCNGC	3 cut(s)	195, 1502, 1505
FokI	GGATG	3 cut(s)	927, 1013, 1205
Fsp4HI	GCNGC	3 cut(s)	195, 1502, 1505
FspBI	CTAG	2 cut(s)	162, 1370
GlaI	GCGC	1 cut(s)	1197
GluI	GCNGC	3 cut(s)	195, 1502, 1505
HaeIII	GGCC	2 cut(s)	557, 986
HapII	CCGG	1 cut(s)	1074
HhaI	GCGC	1 cut(s)	1198
Hin1II	CATG	9 cut(s)	81, 191, 236, 256, 392, 415, 443, 574, 612
Hin6I	GCGC	1 cut(s)	1196
HinP1I	GCGC	1 cut(s)	1196
HincII	GTYRAC	1 cut(s)	619
HindII	GTYRAC	1 cut(s)	619
HindIII	AAGCTT	2 cut(s)	314, 698
HpaII	CCGG	1 cut(s)	1074
Hpy166II	GTNNAC	2 cut(s)	619, 1042
Hpy188I	TCNGA	5 cut(s)	262, 810, 948, 1239, 1281
Hpy188III	TCNNGA	6 cut(s)	134, 188, 389, 412, 485, 656
Hpy8I	GTNNAC	2 cut(s)	619, 1042
HpyAV	CCTTC	2 cut(s)	63, 1172
HpyCH4III	ACNGT	6 cut(s)	564, 851, 1036, 1067, 1125, 1141
HpyCH4IV	ACGT	2 cut(s)	214, 830
HpyF10VI	GCNNNNNNNGC	8 cut(s)	296, 347, 823, 915, 1204, 1394, 1403, 1412
HpyF3I	CTNAG	4 cut(s)	8, 321, 696, 940
HpySE526I	ACGT	2 cut(s)	214, 830
Hsp92II	CATG	9 cut(s)	81, 191, 236, 256, 392, 415, 443, 574, 612
HspAI	GCGC	1 cut(s)	1196
Kzo9I	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
LguI	GCTCTTC	2 cut(s)	899, 1004
LmnI	GCTCC	2 cut(s)	262, 991
Lsp1109I	GCAGC	3 cut(s)	181, 1488, 1491
LweI	GCATC	7 cut(s)	181, 337, 364, 905, 1183, 1194, 1393
MaeI	CTAG	2 cut(s)	162, 1370
MaeII	ACGT	2 cut(s)	214, 830
MaeIII	GTNAC	1 cut(s)	1141
MalI	GATC	6 cut(s)	83, 126, 225, 654, 797, 807
MboI	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
MflI	RGATCY	4 cut(s)	81, 124, 223, 652
MlyI	GAGTC	3 cut(s)	595, 724, 1459
MmeI	TCCRAC	1 cut(s)	957
Mph1103I	ATGCAT	4 cut(s)	441, 509, 576, 614
MroXI	GAANNNNTTC	1 cut(s)	956
MslI	CAYNNNNRTG	1 cut(s)	285
MspI	CCGG	1 cut(s)	1074
MspR9I	CCNGG	2 cut(s)	1075, 1462
MvaI	CCWGG	1 cut(s)	1462
MwoI	GCNNNNNNNGC	8 cut(s)	296, 347, 823, 915, 1204, 1394, 1403, 1412
NciI	CCSGG	1 cut(s)	1075
NdeII	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
NlaIII	CATG	9 cut(s)	81, 191, 236, 256, 392, 415, 443, 574, 612
NlaIV	GGNNCC	1 cut(s)	32
NmuCI	GTSAC	1 cut(s)	1141
NsiI	ATGCAT	4 cut(s)	441, 509, 576, 614
NspI	RCATGY	2 cut(s)	236, 612
PacI	TTAATTAA	1 cut(s)	210
PagI	TCATGA	3 cut(s)	187, 388, 411
PciSI	GCTCTTC	2 cut(s)	899, 1004
PdmI	GAANNNNTTC	1 cut(s)	956
PfeI	GAWTC	7 cut(s)	4, 541, 659, 957, 1440, 1457, 1478
PfoI	TCCNGGA	1 cut(s)	1460
PkrI	GCNGC	3 cut(s)	196, 1503, 1506
PleI	GAGTC	3 cut(s)	594, 724, 1459
PpsI	GAGTC	3 cut(s)	594, 724, 1459
Psp6I	CCWGG	1 cut(s)	1460
PspGI	CCWGG	1 cut(s)	1460
PspN4I	GGNNCC	1 cut(s)	32
PspPI	GGNCC	3 cut(s)	556, 778, 1071
PsuI	RGATCY	4 cut(s)	81, 124, 223, 652
RsaI	GTAC	4 cut(s)	371, 514, 833, 1341
RsaNI	GTAC	4 cut(s)	370, 513, 832, 1340
RseI	CAYNNNNRTG	1 cut(s)	285
SapI	GCTCTTC	2 cut(s)	899, 1004
SatI	GCNGC	3 cut(s)	195, 1502, 1505
Sau3AI	GATC	6 cut(s)	81, 124, 223, 652, 795, 805
Sau96I	GGNCC	3 cut(s)	556, 778, 1071
ScaI	AGTACT	1 cut(s)	514
SchI	GAGTC	3 cut(s)	595, 724, 1459
ScrFI	CCNGG	2 cut(s)	1075, 1462
SfaNI	GCATC	7 cut(s)	181, 337, 364, 905, 1183, 1194, 1393
SfcI	CTRYAG	2 cut(s)	1066, 1252
SinI	GGWCC	2 cut(s)	778, 1071
SmiMI	CAYNNNNRTG	1 cut(s)	285
SmlI	CTYRAG	1 cut(s)	1199
SmoI	CTYRAG	1 cut(s)	1199
SspI	AATATT	1 cut(s)	246
SspMI	CTAG	2 cut(s)	162, 1370
StyD4I	CCNGG	2 cut(s)	1073, 1460
StyI	CCWWGG	2 cut(s)	237, 987
TaaI	ACNGT	6 cut(s)	564, 851, 1036, 1067, 1125, 1141
TaiI	ACGT	2 cut(s)	217, 833
TaqI	TCGA	4 cut(s)	56, 728, 1524, 1548
TatI	WGTACW	1 cut(s)	512
TfiI	GAWTC	7 cut(s)	4, 541, 659, 957, 1440, 1457, 1478
TscAI	CASTG	1 cut(s)	1455
TseFI	GTSAC	1 cut(s)	1141
TseI	GCWGC	3 cut(s)	194, 1501, 1504
Tsp45I	GTSAC	1 cut(s)	1141
TspRI	CASTG	1 cut(s)	1455
VpaK11BI	GGWCC	2 cut(s)	778, 1071
XagI	CCTNNNNNAGG	2 cut(s)	785, 1382
XapI	RAATTY	3 cut(s)	104, 427, 1267
XceI	RCATGY	2 cut(s)	236, 612
XcmI	CCANNNNNNNNNTGG	2 cut(s)	644, 994
XmiI	GTMKAC	1 cut(s)	1041
XmnI	GAANNNNTTC	1 cut(s)	956
XspI	CTAG	2 cut(s)	162, 1370
ZrmI	AGTACT	1 cut(s)	514
Zsp2I	ATGCAT	4 cut(s)	441, 509, 576, 614

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