Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0015461

Physical Location & Seq

Genomic Coordinates Forward (+)

10035043 .. 10038156

Gene Structure 3114 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG118100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1383 bp

ATGGGAAAGATGTCCCCCTCAGTACGTTCACTAGTCTCAACCTCCCTCATCAGAAAGCCACCTTCTTTATCCCCAAACCAATCCCCATCTCATAAACCCCATAACTCTCAGACCCACCTCACCAGAAAAACCCCACCTCAAAATTCCGGCAAAACCCAACTCCAAACCCAGACCAAAAACCCATTCACCTCCCCAAACCTCTCAGACGCCAAAAGGGTCTTCAACTCCATCGCCACCGCAACAAAAACCCCTCTCGATCTTCGCGTCCACAACGCCCTCCTCCAATCCTACGCCGCAATCTCCACCGTCAACGACTCCATCGCTCTCTTCAACCACATGATCAAAACCCAACCCGCATTCTCGCCGGACCGGTCCACCTACCACATCTTGCTCGCCCAGTCCTGCACCGTACCCGATCAGACCCTCCAATCCGTTCACCAAGTCCTCAACTTTATGCTCAACAATGGCTTCCACCCAGATAAGGTCACCACCGACATTGCCGTCCGGTCACTCTGCTTGGCCGGACACGTGGACGAGGCAGTGCAAGTGATGAAGCAAATGTCGTTGAAAAACGCGGTACCGGATACTTATACTTACAATTTTCTTGTCAAGTGTCTCTGCAAGTCGAGAGTTTTGAGTACTGTTAAAGAGTTTATTGACGATATGCGAAAGTCTTTCGATTTGAAGCCGGATTTGGTTACTTATACGATTATGATTGACAATGTAGCTAATAGCAAGAATTTACGTGAGGCTAGCCGATTAGTGAAGGAGTTGGATAAGGAGGGGTTTAAGCCGGATTGCTATGTTTACAATACGATTATGAAAGGCTATTGTATGCTGAGTAAGGGTAATGAGGTGGTTCAGGTGTTGAAGGACATGCAGGAGAATGGAGTGGAGCCTGATCTTGTTACATATAATACTCTGATTTTCGGGTTGTCGAAGTGTGGCAGGGTTATAGAAGCGAAGAAGTACTTGCGGATCATGGTGGACATGGGGCATTTCCCCAACGAGGTGACTTATACTTCATTGATGAATGGATTGTGTCGGAAGGGGGATGCATTGGGTGCAGTGGCATTGTTGGAGGAGATGCAAGCGCAGGGGTGCAGCCCGAATGAGTGCACCTATAATACCTTGCTTCATGGGTTGTGTAAGGGAAGGTTGTTAGAGAAAGGGCTGGAATTGTATGGACTGATGAAAAAAGATGGGATGAAGCTTGACACGGCTTCGTATAGTACACTTGTGAGGACACTTTGTAGGGCAGGCAGGGTTGCAGACGCTTATGGAGTGTTTGATTATGCAGTTGAGAGTAAGAGCTTAACAAATGTTTCTGCTTACTTGACTTTGGAAAGTACAGTTAAGCAGCTTAAGAAAGCACGACCTTGA

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

460

Amino Acids

51.16

Weight (kDa)

9.16

Isoelectric Point (pI)

35.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	155 - 188	6.3e-06	PPR repeat
PPR_2	PF13041	170 - 208	4.5e-09	PPR repeat family
PPR_3	PF13812	226 - 277	1.7e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	230 - 278	2.4e-11	PPR repeat family
PPR_3	PF13812	253 - 309	2.2e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	265 - 314	4.1e-14	PPR repeat family
PPR_1	PF12854	296 - 328	6.1e-09	PPR repeat
PPR_2	PF13041	300 - 349	7.2e-15	PPR repeat family
PPR	PF01535	303 - 332	2.1e-06	PPR repeat
PPR_long	PF17177	322 - 435	9.4e-11	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	328 - 380	1.8e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	331 - 364	9.6e-11	PPR repeat
PPR_2	PF13041	335 - 384	2.8e-18	PPR repeat family
PPR	PF01535	338 - 368	1.7e-07	PPR repeat
PPR_1	PF12854	367 - 398	2.1e-08	PPR repeat
PPR_2	PF13041	373 - 419	1.2e-11	PPR repeat family
PPR	PF01535	374 - 402	6.4e-07	PPR repeat
PPR_1	PF12854	401 - 432	3.7e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0015461)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17670 AT2G17670
fragaria_vesca	FvH4_1g10671
malus_domestica	MD02G1120600.v1.1
prunus_persica	Prupe.7G178400_v2.0.a1
rosa_laevigata	RLG00000016739
rosa_multiflora	Rmu_co8429607.1_g000001 Rmu_sc0000974.1_g000027 Rmu_sc0008442.1_g000010
rosa_roxburghii	Rroxscaffold_6G00394240
rosa_rugosa	Rorug02G0068500
rosa_samantha	Rh2AG115200 Rh2BG118100 Rh2CG119700 Rh2DG119400
rosa_wichuraiana	Rw2G009000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	500
Acc65I	GGTACC	1 cut(s)	577
AccB1I	GGYRCC	1 cut(s)	577
AccII	CGCG	2 cut(s)	264, 575
AciI	CCGC	5 cut(s)	237, 294, 354, 575, 976
AclWI	GGATC	1 cut(s)	986
AcoI	YGGCCR	1 cut(s)	519
AcsI	RAATTY	2 cut(s)	142, 739
AcvI	CACGTG	1 cut(s)	529
AcyI	GRCGYC	1 cut(s)	207
AfaI	GTAC	7 cut(s)	24, 411, 579, 640, 971, 1234, 1351
AfiI	CCNNNNNNNGG	2 cut(s)	481, 1009
AflII	CTTAAG	1 cut(s)	1364
AflIII	ACRYGT	1 cut(s)	526
AgeI	ACCGGT	1 cut(s)	369
AgsI	TTSAA	5 cut(s)	223, 331, 568, 685, 871
AhlI	ACTAGT	1 cut(s)	31
AjuI	GAANNNNNNNTTGG	6 cut(s)	167, 199, 203, 235, 677, 709
AluBI	AGCT	4 cut(s)	728, 1213, 1314, 1363
AluI	AGCT	4 cut(s)	728, 1213, 1314, 1363
Alw21I	GWGCWC	1 cut(s)	1121
Alw26I	GTCTC	2 cut(s)	40, 620
Alw44I	GTGCAC	1 cut(s)	1117
AlwI	GGATC	1 cut(s)	986
AoxI	GGCC	1 cut(s)	519
ApaLI	GTGCAC	1 cut(s)	1117
ApeKI	GCWGC	2 cut(s)	1104, 1360
ApoI	RAATTY	2 cut(s)	142, 739
AsiGI	ACCGGT	1 cut(s)	369
Asp718I	GGTACC	1 cut(s)	577
AspLEI	GCGC	1 cut(s)	1096
AspS9I	GGNCC	2 cut(s)	367, 372
AsuHPI	GGTGA	5 cut(s)	112, 178, 428, 478, 1024
AsuNHI	GCTAGC	1 cut(s)	752
AvaII	GGWCC	2 cut(s)	367, 372
BaeGI	GKGCMC	1 cut(s)	1121
BanI	GGYRCC	1 cut(s)	577
BbrPI	CACGTG	1 cut(s)	529
BbsI	GAAGAC	1 cut(s)	211
Bbv12I	GWGCWC	1 cut(s)	1121
BbvI	GCAGC	2 cut(s)	1116, 1372
BccI	CCATC	4 cut(s)	94, 236, 326, 1196
BceAI	ACGGC	2 cut(s)	485, 1236
BciVI	GTATCC	1 cut(s)	577
BclI	TGATCA	1 cut(s)	339
BcoDI	GTCTC	2 cut(s)	40, 620
BcuI	ACTAGT	1 cut(s)	31
BfaI	CTAG	2 cut(s)	32, 753
BfrI	CTTAAG	1 cut(s)	1364
BfuI	GTATCC	1 cut(s)	577
BisI	GCNGC	3 cut(s)	294, 1105, 1361
BlsI	GCNGC	3 cut(s)	295, 1106, 1362
BmcAI	AGTACT	2 cut(s)	640, 971
Bme18I	GGWCC	2 cut(s)	367, 372
BmgT120I	GGNCC	2 cut(s)	367, 372
BmiI	GGNNCC	2 cut(s)	579, 897
BmrI	ACTGGG	1 cut(s)	391
BmsI	GCATC	2 cut(s)	1045, 1077
BmtI	GCTAGC	1 cut(s)	756
BmuI	ACTGGG	1 cut(s)	391
BpiI	GAAGAC	1 cut(s)	211
BsaAI	YACGTR	2 cut(s)	529, 746
BsaHI	GRCGYC	1 cut(s)	207
BsaWI	WCCGGW	3 cut(s)	369, 504, 580
Bsc4I	CCNNNNNNNGG	2 cut(s)	481, 1009
Bse118I	RCCGGY	1 cut(s)	369
Bse1I	ACTGG	1 cut(s)	397
Bse3DI	GCAATG	1 cut(s)	495
BseGI	GGATG	2 cut(s)	1060, 1212
BseLI	CCNNNNNNNGG	2 cut(s)	481, 1009
BseMI	GCAATG	1 cut(s)	495
BseMII	CTCAG	4 cut(s)	33, 122, 216, 830
BseNI	ACTGG	1 cut(s)	397
BseRI	GAGGAG	2 cut(s)	269, 1097
BseSI	GKGCMC	1 cut(s)	1121
BseXI	GCAGC	2 cut(s)	1116, 1372
BsgI	GTGCAG	3 cut(s)	388, 1086, 1123
Bsh1236I	CGCG	2 cut(s)	264, 575
BshFI	GGCC	1 cut(s)	521
BshNI	GGYRCC	1 cut(s)	577
BshTI	ACCGGT	1 cut(s)	369
BsiHKAI	GWGCWC	1 cut(s)	1121
BsiSI	CCGG	8 cut(s)	147, 365, 370, 505, 522, 581, 689, 794
BslI	CCNNNNNNNGG	2 cut(s)	481, 1009
BsmAI	GTCTC	2 cut(s)	40, 620
BsmI	GAATGC	1 cut(s)	356
BsnI	GGCC	1 cut(s)	521
Bsp1286I	GDGCHC	1 cut(s)	1121
Bsp143I	GATC	5 cut(s)	256, 339, 415, 901, 978
BspACI	CCGC	5 cut(s)	237, 294, 354, 575, 976
BspANI	GGCC	1 cut(s)	521
BspCNI	CTCAG	4 cut(s)	32, 121, 215, 831
BspFNI	CGCG	2 cut(s)	264, 575
BspLI	GGNNCC	2 cut(s)	579, 897
BspOI	GCTAGC	1 cut(s)	756
BspPI	GGATC	1 cut(s)	986
BspT107I	GGYRCC	1 cut(s)	577
BspTI	CTTAAG	1 cut(s)	1364
BsrDI	GCAATG	1 cut(s)	495
BsrFI	RCCGGY	1 cut(s)	369
BsrI	ACTGG	1 cut(s)	397
BssAI	RCCGGY	1 cut(s)	369
BssMI	GATC	5 cut(s)	256, 339, 415, 901, 978
BssNI	GRCGYC	1 cut(s)	207
Bst4CI	ACNGT	4 cut(s)	307, 409, 643, 1354
Bst6I	CTCTTC	1 cut(s)	332
BstACI	GRCGYC	1 cut(s)	207
BstAFI	CTTAAG	1 cut(s)	1364
BstAPI	GCANNNNNTGC	1 cut(s)	1064
BstBAI	YACGTR	2 cut(s)	529, 746
BstC8I	GCNNGC	4 cut(s)	393, 754, 1092, 1261
BstDEI	CTNAG	4 cut(s)	19, 108, 202, 839
BstEII	GGTNACC	1 cut(s)	484
BstF5I	GGATG	2 cut(s)	1060, 1212
BstFNI	CGCG	2 cut(s)	264, 575
BstHHI	GCGC	1 cut(s)	1096
BstKTI	GATC	5 cut(s)	259, 342, 418, 904, 981
BstMAI	GTCTC	2 cut(s)	40, 620
BstMBI	GATC	5 cut(s)	256, 339, 415, 901, 978
BstMWI	GCNNNNNNNGC	1 cut(s)	1064
BstNSI	RCATGY	1 cut(s)	880
BstPI	GGTNACC	1 cut(s)	484
BstSLI	GKGCMC	1 cut(s)	1121
BstUI	CGCG	2 cut(s)	264, 575
BstV1I	GCAGC	2 cut(s)	1116, 1372
BstV2I	GAAGAC	1 cut(s)	211
BsuI	GTATCC	1 cut(s)	577
BsuRI	GGCC	1 cut(s)	521
BtgZI	GCGATG	2 cut(s)	214, 304
BtsCI	GGATG	2 cut(s)	1060, 1212
BtsI	GCAGTG	2 cut(s)	546, 1074
BtsIMutI	CAGTG	2 cut(s)	546, 1074
Cac8I	GCNNGC	4 cut(s)	393, 754, 1092, 1261
CfoI	GCGC	1 cut(s)	1096
Cfr10I	RCCGGY	1 cut(s)	369
Cfr13I	GGNCC	2 cut(s)	367, 372
CpoI	CGGWCCG	1 cut(s)	367
CseI	GACGC	3 cut(s)	215, 253, 1283
Csp6I	GTAC	7 cut(s)	23, 410, 578, 639, 970, 1233, 1350
CspAI	ACCGGT	1 cut(s)	369
CspCI	CAANNNNNGTGG	2 cut(s)	478, 513
CspI	CGGWCCG	1 cut(s)	367
CviAII	CATG	5 cut(s)	337, 877, 982, 991, 1139
CviQI	GTAC	7 cut(s)	23, 410, 578, 639, 970, 1233, 1350
DdeI	CTNAG	4 cut(s)	19, 108, 202, 839
DpnI	GATC	5 cut(s)	258, 341, 417, 903, 980
DpnII	GATC	5 cut(s)	256, 339, 415, 901, 978
DrdI	GACNNNNNNGTC	1 cut(s)	500
DseDI	GACNNNNNNGTC	1 cut(s)	500
EaeI	YGGCCR	1 cut(s)	519
Eam1104I	CTCTTC	1 cut(s)	332
EarI	CTCTTC	1 cut(s)	332
Eco47I	GGWCC	2 cut(s)	367, 372
Eco72I	CACGTG	1 cut(s)	529
Eco91I	GGTNACC	1 cut(s)	484
EcoO65I	GGTNACC	1 cut(s)	484
EcoT22I	ATGCAT	1 cut(s)	1060
FaeI	CATG	5 cut(s)	340, 880, 985, 994, 1142
FalI	AAGNNNNNCTT	2 cut(s)	956, 988
FatI	CATG	5 cut(s)	336, 876, 981, 990, 1138
FauI	CCCGC	1 cut(s)	361
FbaI	TGATCA	1 cut(s)	339
Fnu4HI	GCNGC	3 cut(s)	294, 1105, 1361
FokI	GGATG	2 cut(s)	1067, 1219
Fsp4HI	GCNGC	3 cut(s)	294, 1105, 1361
FspBI	CTAG	2 cut(s)	32, 753
GlaI	GCGC	1 cut(s)	1095
GluI	GCNGC	3 cut(s)	294, 1105, 1361
HaeIII	GGCC	1 cut(s)	521
HapII	CCGG	8 cut(s)	147, 365, 370, 505, 522, 581, 689, 794
HgaI	GACGC	3 cut(s)	215, 253, 1283
HhaI	GCGC	1 cut(s)	1096
Hin1I	GRCGYC	1 cut(s)	207
Hin1II	CATG	5 cut(s)	340, 880, 985, 994, 1142
Hin6I	GCGC	1 cut(s)	1094
HinP1I	GCGC	1 cut(s)	1094
HincII	GTYRAC	1 cut(s)	310
HindII	GTYRAC	1 cut(s)	310
HindIII	AAGCTT	1 cut(s)	1211
HinfI	GANTC	1 cut(s)	314
HpaII	CCGG	8 cut(s)	147, 365, 370, 505, 522, 581, 689, 794
HphI	GGTGA	5 cut(s)	112, 178, 428, 478, 1024
Hpy188I	TCNGA	6 cut(s)	53, 111, 205, 420, 924, 1047
Hpy188III	TCNNGA	2 cut(s)	254, 627
HpyAV	CCTTC	5 cut(s)	72, 760, 865, 1042, 1149
HpyCH4III	ACNGT	4 cut(s)	307, 409, 643, 1354
HpyCH4IV	ACGT	3 cut(s)	25, 528, 745
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1064
HpyF3I	CTNAG	4 cut(s)	19, 108, 202, 839
HpySE526I	ACGT	3 cut(s)	25, 528, 745
Hsp92I	GRCGYC	1 cut(s)	207
Hsp92II	CATG	5 cut(s)	340, 880, 985, 994, 1142
HspAI	GCGC	1 cut(s)	1094
KpnI	GGTACC	1 cut(s)	581
Ksp22I	TGATCA	1 cut(s)	339
Kzo9I	GATC	5 cut(s)	256, 339, 415, 901, 978
LmnI	GCTCC	1 cut(s)	895
Lsp1109I	GCAGC	2 cut(s)	1116, 1372
LweI	GCATC	2 cut(s)	1045, 1077
MaeI	CTAG	2 cut(s)	32, 753
MaeII	ACGT	3 cut(s)	25, 528, 745
MaeIII	GTNAC	5 cut(s)	484, 507, 697, 907, 1012
MalI	GATC	5 cut(s)	258, 341, 417, 903, 980
MboI	GATC	5 cut(s)	256, 339, 415, 901, 978
MboII	GAAGA	4 cut(s)	211, 251, 319, 976
MhlI	GDGCHC	1 cut(s)	1121
MluCI	AATT	4 cut(s)	142, 598, 739, 1178
MlyI	GAGTC	1 cut(s)	308
MmeI	TCCRAC	3 cut(s)	753, 1025, 1059
Mph1103I	ATGCAT	1 cut(s)	1060
MseI	TTAA	5 cut(s)	645, 789, 1316, 1356, 1365
MspCI	CTTAAG	1 cut(s)	1364
MspI	CCGG	8 cut(s)	147, 365, 370, 505, 522, 581, 689, 794
Mva1269I	GAATGC	1 cut(s)	356
MvnI	CGCG	2 cut(s)	264, 575
MwoI	GCNNNNNNNGC	1 cut(s)	1064
NdeII	GATC	5 cut(s)	256, 339, 415, 901, 978
NheI	GCTAGC	1 cut(s)	752
NlaIII	CATG	5 cut(s)	340, 880, 985, 994, 1142
NlaIV	GGNNCC	2 cut(s)	579, 897
NmuCI	GTSAC	3 cut(s)	484, 507, 1012
NsiI	ATGCAT	1 cut(s)	1060
NspI	RCATGY	1 cut(s)	880
PcsI	WCGNNNNNNNCGW	1 cut(s)	261
PctI	GAATGC	1 cut(s)	356
PinAI	ACCGGT	1 cut(s)	369
PkrI	GCNGC	3 cut(s)	295, 1106, 1362
PleI	GAGTC	1 cut(s)	308
PmaCI	CACGTG	1 cut(s)	529
PmlI	CACGTG	1 cut(s)	529
PpsI	GAGTC	1 cut(s)	308
Ppu21I	YACGTR	2 cut(s)	529, 746
PspCI	CACGTG	1 cut(s)	529
PspEI	GGTNACC	1 cut(s)	484
PspN4I	GGNNCC	2 cut(s)	579, 897
PspPI	GGNCC	2 cut(s)	367, 372
RsaI	GTAC	7 cut(s)	24, 411, 579, 640, 971, 1234, 1351
RsaNI	GTAC	7 cut(s)	23, 410, 578, 639, 970, 1233, 1350
Rsr2I	CGGWCCG	1 cut(s)	367
RsrII	CGGWCCG	1 cut(s)	367
SaqAI	TTAA	5 cut(s)	645, 789, 1316, 1356, 1365
SatI	GCNGC	3 cut(s)	294, 1105, 1361
Sau3AI	GATC	5 cut(s)	256, 339, 415, 901, 978
Sau96I	GGNCC	2 cut(s)	367, 372
ScaI	AGTACT	2 cut(s)	640, 971
SchI	GAGTC	1 cut(s)	308
SduI	GDGCHC	1 cut(s)	1121
SfaNI	GCATC	2 cut(s)	1045, 1077
SinI	GGWCC	2 cut(s)	367, 372
SmlI	CTYRAG	1 cut(s)	1364
SmoI	CTYRAG	1 cut(s)	1364
SpeI	ACTAGT	1 cut(s)	31
Sse9I	AATT	4 cut(s)	142, 598, 739, 1178
SsiI	CCGC	5 cut(s)	237, 294, 354, 575, 976
SspMI	CTAG	2 cut(s)	32, 753
TaaI	ACNGT	4 cut(s)	307, 409, 643, 1354
TaiI	ACGT	3 cut(s)	28, 531, 748
TaqI	TCGA	4 cut(s)	255, 626, 678, 938
TasI	AATT	4 cut(s)	142, 598, 739, 1178
TatI	WGTACW	4 cut(s)	638, 969, 1232, 1349
TauI	GCSGC	1 cut(s)	296
Tru1I	TTAA	5 cut(s)	645, 789, 1316, 1356, 1365
Tru9I	TTAA	5 cut(s)	645, 789, 1316, 1356, 1365
TscAI	CASTG	2 cut(s)	546, 1074
TseFI	GTSAC	3 cut(s)	484, 507, 1012
TseI	GCWGC	2 cut(s)	1104, 1360
Tsp45I	GTSAC	3 cut(s)	484, 507, 1012
TspDTI	ATGAA	7 cut(s)	566, 836, 1014, 1046, 1127, 1208, 1223
TspGWI	ACGGA	1 cut(s)	421
TspRI	CASTG	2 cut(s)	546, 1074
Vha464I	CTTAAG	1 cut(s)	1364
VneI	GTGCAC	1 cut(s)	1117
VpaK11BI	GGWCC	2 cut(s)	367, 372
XapI	RAATTY	2 cut(s)	142, 739
XceI	RCATGY	1 cut(s)	880
XspI	CTAG	2 cut(s)	32, 753
ZrmI	AGTACT	2 cut(s)	640, 971
Zsp2I	ATGCAT	1 cut(s)	1060

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