Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Reverse (-)

11211536 .. 11212876

Gene Structure 1341 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG101000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1341 bp

ATGCCTAGGACTAAGACTTGTAATGAATTGTTGAGTTTGTTTTCGAAATTGAATCGAACCGAGAGGGCTTGGGTTTTGTATGCTGACATGTTTAGGTTGAAGGTCAAGTCCAGTGTTTGTACTTTTAACATCATGATTAATGTGTTGTGCAAAGAAGGCAAGTTGAACGAGGCAAAGGAGTTTCTTGGGTTTATGGAGGTTTTGGGGATTAAGCCTACTGTTGTTACTTATAATACTATCATTCATGGGTTTTGTTTGAGAGGCAGAGTTGGAGGGGCTCAGATGATTTTTGGTGCTATGAAAGGGAGAGGAGTTCTGCCGGATTCTTACACGTATGGATTGCTTATTAGTGGGATGTGTAAGGAGAGAAGGCTTGATGAAGCGTCTGGTCTTTTTGATAAAATGCTGGAAATTGGGCTGCTTCCAAGTGCTGTTACTTATAACACATTGATTGATGGTTATTGCAATAAGGGTGATCTGGACAGGGCTTTCAGTTATAGAGATGAGATGGTGAAGAAGGGTATAATTCCCACGGTGTCAACTTACAATTTGTTGATTCATGAATTGTTTATGGAAGGTAGGGTGAGTGAAGCTGATTGCATGGTTAGAGAAATGGAAGAGAAGGGAATGGTTCCTGATGCCATTACGTATAATATCCTGATGAATGGCTATTGCAGGTCTGGGAATGCAAAGAAGGCGTTTATCCTTCACGATGAAATGTTGAGCAAAGGGATAGAGCCCACTAAGGAAACTTATACATCACTTATTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAAGATACTGCGTAAGGGTGTTCTACCAGATCTTGTGATGTTCAATGCCTTGATTGATGGTCATTGTGCTAATGGGAAAATGGAGCGTGCATTTTCACTTTTGAGGGAGATGGATAAAATGAAGGTTAATCCAGATGAAGTCACTTACAATACCCTAATGCAAGGGCGCTGCAGGACAGGGAAAGTTGAGGAAGCTCGGGAACTTCTGGATGAGATGAAGAGAAGAGGAATTAAGCCTGATTACATTAGTTACAACATCCTCATTAGTGGACATAGTAAACGAGGTGATATGAAAGATGCCTTCAAAGTTCGAGACGAGATGTTGAGTAGAGGTTTCAATCCTACACTTCTAACGTACAATGCTCTTATAAAAGGTCTATGCAAAAACCAAGAAGGTGATCTTGCTCAAGAGCTCCTTAAAGAAATGGTGAGCAGAGGGATTACTCCCGATGACAGCACATATTACTCTCTGATTGAGGGAATTGAGAATGTTGAGGAATTTCTCAGAAGGGGCGATTCATGA

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:0005737 GO:0005739 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:0044444 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 PPR_long

Protein Analysis

446

Amino Acids

50.73

Weight (kDa)

8.15

Isoelectric Point (pI)

29.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	3 - 51	1.8e-10	PPR repeat family
PPR_3	PF13812	26 - 82	1.5e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	36 - 66	3.3e-09	PPR repeat
PPR_2	PF13041	38 - 85	3.3e-15	PPR repeat family
PPR	PF01535	41 - 70	2.7e-06	PPR repeat
PPR_1	PF12854	69 - 101	3.7e-11	PPR repeat
PPR_2	PF13041	72 - 121	2e-16	PPR repeat family
PPR	PF01535	75 - 105	6.2e-06	PPR repeat
PPR_long	PF17177	95 - 187	6.1e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	96 - 151	2.2e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	103 - 135	2.9e-11	PPR repeat
PPR	PF01535	110 - 140	5.3e-07	PPR repeat
PPR_2	PF13041	115 - 153	4.3e-10	PPR repeat family
PPR_3	PF13812	131 - 186	8e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	139 - 171	1.2e-12	PPR repeat
PPR_2	PF13041	142 - 189	1.1e-16	PPR repeat family
PPR	PF01535	145 - 175	6.2e-10	PPR repeat
PPR_2	PF13041	177 - 226	1.3e-15	PPR repeat family
PPR_long	PF17177	197 - 259	2.9e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	202 - 261	1.7e-09	Pentatricopeptide repeat domain
TPR_24	PF23276	205 - 267	7.4e-06	Fungal tetratrico peptide repeats
PPR_1	PF12854	208 - 240	1e-11	PPR repeat
PPR_2	PF13041	212 - 260	3.2e-16	PPR repeat family
PPR	PF01535	215 - 245	3.8e-09	PPR repeat
PPR_long	PF17177	252 - 369	5.6e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	271 - 327	9e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	278 - 310	1.9e-11	PPR repeat
TPR_24	PF23276	279 - 376	5.4e-09	Fungal tetratrico peptide repeats
PPR_2	PF13041	282 - 331	1.6e-17	PPR repeat family
PPR	PF01535	285 - 314	1.1e-07	PPR repeat
PPR_1	PF12854	315 - 346	9.7e-12	PPR repeat
PPR_2	PF13041	317 - 364	6.5e-19	PPR repeat family
PPR	PF01535	320 - 350	6.4e-09	PPR repeat
PPR_long	PF17177	335 - 432	2.6e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	341 - 398	3.8e-14	Pentatricopeptide repeat domain
PPR_1	PF12854	348 - 380	1.2e-09	PPR repeat
PPR_2	PF13041	352 - 401	1.7e-17	PPR repeat family
PPR	PF01535	355 - 385	6.9e-08	PPR repeat
PPR_1	PF12854	383 - 416	8.2e-09	PPR repeat
PPR_2	PF13041	387 - 433	2.8e-13	PPR repeat family
PPR	PF01535	391 - 420	2.1e-07	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: OG0000571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15630
fragaria_vesca	FvH4_2g07360
malus_domestica	MD02G1234600.v1.1
prunus_persica	Prupe.8G019300_v2.0.a1
pyrus_communis	pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis	RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata	RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora	Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa	Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha	Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana	Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	231, 441, 1187
Acc36I	ACCTGC	1 cut(s)	666
AcsI	RAATTY	1 cut(s)	1316
AfaI	GTAC	2 cut(s)	121, 1175
AflIII	ACRYGT	2 cut(s)	87, 330
AgsI	TTSAA	6 cut(s)	52, 100, 166, 862, 1123, 1156
AluBI	AGCT	3 cut(s)	593, 1013, 1231
AluI	AGCT	3 cut(s)	593, 1013, 1231
Alw21I	GWGCWC	1 cut(s)	1233
Alw26I	GTCTC	1 cut(s)	1125
Ama87I	CYCGRG	1 cut(s)	1014
ApeKI	GCWGC	2 cut(s)	418, 987
ApoI	RAATTY	1 cut(s)	1316
AseI	ATTAAT	1 cut(s)	138
AspA2I	CCTAGG	1 cut(s)	5
AspLEI	GCGC	1 cut(s)	987
AsuHPI	GGTGA	6 cut(s)	485, 523, 595, 1115, 1226, 1258
AsuII	TTCGAA	1 cut(s)	44
AvaI	CYCGRG	1 cut(s)	1014
AvrII	CCTAGG	1 cut(s)	5
BanII	GRGCYC	3 cut(s)	280, 741, 1233
Bbv12I	GWGCWC	1 cut(s)	1233
BbvI	GCAGC	2 cut(s)	405, 974
BccI	CCATC	4 cut(s)	449, 502, 869, 922
BcoDI	GTCTC	1 cut(s)	1125
BfaI	CTAG	1 cut(s)	6
BfmI	CTRYAG	1 cut(s)	988
BfoI	RGCGCY	1 cut(s)	988
BfuAI	ACCTGC	1 cut(s)	666
BglII	AGATCT	1 cut(s)	847
BisI	GCNGC	2 cut(s)	419, 988
BlnI	CCTAGG	1 cut(s)	5
BlsI	GCNGC	2 cut(s)	420, 989
BmeT110I	CYCGRG	1 cut(s)	1014
BmiI	GGNNCC	1 cut(s)	633
BmsI	GCATC	2 cut(s)	628, 1105
Bpu14I	TTCGAA	1 cut(s)	44
BpuEI	CTTGAG	1 cut(s)	1209
BsaAI	YACGTR	2 cut(s)	333, 648
BsaJI	CCNNGG	2 cut(s)	5, 531
Bse1I	ACTGG	1 cut(s)	111
BseDI	CCNNGG	2 cut(s)	5, 531
BseGI	GGATG	3 cut(s)	360, 1033, 1074
BseMII	CTCAG	2 cut(s)	293, 1336
BseNI	ACTGG	1 cut(s)	111
BseRI	GAGGAG	1 cut(s)	324
BseXI	GCAGC	2 cut(s)	405, 974
BsiHKAI	GWGCWC	1 cut(s)	1233
BsiHKCI	CYCGRG	1 cut(s)	1014
BsiSI	CCGG	1 cut(s)	320
BsmAI	GTCTC	1 cut(s)	1125
BsmBI	CGTCTC	1 cut(s)	1125
BsmI	GAATGC	1 cut(s)	691
BsoBI	CYCGRG	1 cut(s)	1014
Bsp119I	TTCGAA	1 cut(s)	44
Bsp1286I	GDGCHC	3 cut(s)	280, 741, 1233
Bsp143I	GATC	3 cut(s)	475, 847, 1216
BspCNI	CTCAG	2 cut(s)	292, 1335
BspHI	TCATGA	3 cut(s)	132, 559, 1337
BspLI	GGNNCC	1 cut(s)	633
BspMAI	CTGCAG	1 cut(s)	992
BspMI	ACCTGC	1 cut(s)	666
BspT104I	TTCGAA	1 cut(s)	44
BsrI	ACTGG	1 cut(s)	111
BssECI	CCNNGG	2 cut(s)	5, 531
BssMI	GATC	3 cut(s)	475, 847, 1216
BssT1I	CCWWGG	1 cut(s)	5
Bst4CI	ACNGT	2 cut(s)	220, 535
Bst6I	CTCTTC	4 cut(s)	612, 782, 1031, 1036
BstBAI	YACGTR	2 cut(s)	333, 648
BstBI	TTCGAA	1 cut(s)	44
BstC8I	GCNNGC	1 cut(s)	906
BstDEI	CTNAG	4 cut(s)	12, 279, 744, 1322
BstDSI	CCRYGG	1 cut(s)	531
BstF5I	GGATG	3 cut(s)	360, 1033, 1074
BstH2I	RGCGCY	1 cut(s)	988
BstHHI	GCGC	1 cut(s)	987
BstKTI	GATC	3 cut(s)	478, 850, 1219
BstMAI	GTCTC	1 cut(s)	1125
BstMBI	GATC	3 cut(s)	475, 847, 1216
BstMWI	GCNNNNNNNGC	2 cut(s)	156, 695
BstNSI	RCATGY	1 cut(s)	91
BstSFI	CTRYAG	1 cut(s)	988
BstSNI	TACGTA	1 cut(s)	648
BstV1I	GCAGC	2 cut(s)	405, 974
BstX2I	RGATCY	1 cut(s)	847
BstYI	RGATCY	1 cut(s)	847
BtgI	CCRYGG	1 cut(s)	531
BtsCI	GGATG	3 cut(s)	360, 1033, 1074
BtsIMutI	CAGTG	1 cut(s)	118
BveI	ACCTGC	1 cut(s)	666
Cac8I	GCNNGC	1 cut(s)	906
CciI	TCATGA	3 cut(s)	132, 559, 1337
CfoI	GCGC	1 cut(s)	987
CseI	GACGC	1 cut(s)	372
Csp6I	GTAC	2 cut(s)	120, 1174
CviAII	CATG	6 cut(s)	88, 133, 245, 560, 601, 1338
CviQI	GTAC	2 cut(s)	120, 1174
DdeI	CTNAG	4 cut(s)	12, 279, 744, 1322
DpnI	GATC	3 cut(s)	477, 849, 1218
DpnII	GATC	3 cut(s)	475, 847, 1216
Eam1104I	CTCTTC	4 cut(s)	612, 782, 1031, 1036
EarI	CTCTTC	4 cut(s)	612, 782, 1031, 1036
Ecl136II	GAGCTC	1 cut(s)	1231
Eco105I	TACGTA	1 cut(s)	648
Eco130I	CCWWGG	1 cut(s)	5
Eco24I	GRGCYC	3 cut(s)	280, 741, 1233
Eco53kI	GAGCTC	1 cut(s)	1231
Eco88I	CYCGRG	1 cut(s)	1014
EcoICRI	GAGCTC	1 cut(s)	1231
EcoT14I	CCWWGG	1 cut(s)	5
EcoT38I	GRGCYC	3 cut(s)	280, 741, 1233
ErhI	CCWWGG	1 cut(s)	5
Esp3I	CGTCTC	1 cut(s)	1125
FaeI	CATG	6 cut(s)	91, 136, 248, 563, 604, 1341
FalI	AAGNNNNNCTT	4 cut(s)	1203, 1235, 1218, 1250
FatI	CATG	6 cut(s)	87, 132, 244, 559, 600, 1337
Fnu4HI	GCNGC	2 cut(s)	419, 988
FokI	GGATG	3 cut(s)	367, 1040, 1061
FriOI	GRGCYC	3 cut(s)	280, 741, 1233
Fsp4HI	GCNGC	2 cut(s)	419, 988
FspBI	CTAG	1 cut(s)	6
GlaI	GCGC	1 cut(s)	986
GluI	GCNGC	2 cut(s)	419, 988
HaeII	RGCGCY	1 cut(s)	988
HapII	CCGG	1 cut(s)	320
HgaI	GACGC	1 cut(s)	372
HhaI	GCGC	1 cut(s)	987
Hin1II	CATG	6 cut(s)	91, 136, 248, 563, 604, 1341
Hin6I	GCGC	1 cut(s)	985
HinP1I	GCGC	1 cut(s)	985
HincII	GTYRAC	1 cut(s)	540
HindII	GTYRAC	1 cut(s)	540
HinfI	GANTC	4 cut(s)	52, 323, 556, 1334
HpaII	CCGG	1 cut(s)	320
HphI	GGTGA	6 cut(s)	485, 523, 595, 1115, 1226, 1258
Hpy166II	GTNNAC	3 cut(s)	540, 1088, 1097
Hpy188I	TCNGA	3 cut(s)	282, 1290, 1325
Hpy8I	GTNNAC	3 cut(s)	540, 1088, 1097
HpyCH4III	ACNGT	2 cut(s)	220, 535
HpyCH4IV	ACGT	3 cut(s)	332, 647, 1172
HpyCH4V	TGCA	9 cut(s)	150, 465, 600, 675, 689, 908, 979, 990, 1200
HpyF10VI	GCNNNNNNNGC	2 cut(s)	156, 695
HpyF3I	CTNAG	4 cut(s)	12, 279, 744, 1322
HpySE526I	ACGT	3 cut(s)	332, 647, 1172
Hsp92II	CATG	6 cut(s)	91, 136, 248, 563, 604, 1341
HspAI	GCGC	1 cut(s)	985
Kzo9I	GATC	3 cut(s)	475, 847, 1216
LmnI	GCTCC	2 cut(s)	901, 1236
Lsp1109I	GCAGC	2 cut(s)	405, 974
LweI	GCATC	2 cut(s)	628, 1105
MaeI	CTAG	1 cut(s)	6
MaeII	ACGT	3 cut(s)	332, 647, 1172
MaeIII	GTNAC	4 cut(s)	223, 433, 958, 1067
MalI	GATC	3 cut(s)	477, 849, 1218
MboI	GATC	3 cut(s)	475, 847, 1216
MboII	GAAGA	6 cut(s)	526, 629, 799, 832, 1048, 1053
MflI	RGATCY	1 cut(s)	847
MhlI	GDGCHC	3 cut(s)	280, 741, 1233
MluCI	AATT	9 cut(s)	26, 47, 411, 525, 547, 563, 1047, 1299, 1316
MmeI	TCCRAC	1 cut(s)	250
MseI	TTAA	6 cut(s)	126, 138, 210, 945, 1050, 1236
MspI	CCGG	1 cut(s)	320
Mva1269I	GAATGC	1 cut(s)	691
MwoI	GCNNNNNNNGC	2 cut(s)	156, 695
NdeII	GATC	3 cut(s)	475, 847, 1216
NlaIII	CATG	6 cut(s)	91, 136, 248, 563, 604, 1341
NlaIV	GGNNCC	1 cut(s)	633
NmuCI	GTSAC	1 cut(s)	958
NspI	RCATGY	1 cut(s)	91
NspV	TTCGAA	1 cut(s)	44
PagI	TCATGA	3 cut(s)	132, 559, 1337
PciI	ACATGT	1 cut(s)	87
PctI	GAATGC	1 cut(s)	691
PfeI	GAWTC	4 cut(s)	52, 323, 556, 1334
PkrI	GCNGC	2 cut(s)	420, 989
Ppu21I	YACGTR	2 cut(s)	333, 648
PscI	ACATGT	1 cut(s)	87
PshBI	ATTAAT	1 cut(s)	138
PsiI	TTATAA	3 cut(s)	231, 441, 1187
Psp124BI	GAGCTC	1 cut(s)	1233
PspN4I	GGNNCC	1 cut(s)	633
PstI	CTGCAG	1 cut(s)	992
PsuI	RGATCY	1 cut(s)	847
RsaI	GTAC	2 cut(s)	121, 1175
RsaNI	GTAC	2 cut(s)	120, 1174
SacI	GAGCTC	1 cut(s)	1233
SaqAI	TTAA	6 cut(s)	126, 138, 210, 945, 1050, 1236
SatI	GCNGC	2 cut(s)	419, 988
Sau3AI	GATC	3 cut(s)	475, 847, 1216
SduI	GDGCHC	3 cut(s)	280, 741, 1233
SfaNI	GCATC	2 cut(s)	628, 1105
SfcI	CTRYAG	1 cut(s)	988
SfuI	TTCGAA	1 cut(s)	44
SmlI	CTYRAG	1 cut(s)	1224
SmoI	CTYRAG	1 cut(s)	1224
SnaBI	TACGTA	1 cut(s)	648
Sse9I	AATT	9 cut(s)	26, 47, 411, 525, 547, 563, 1047, 1299, 1316
SspMI	CTAG	1 cut(s)	6
SstI	GAGCTC	1 cut(s)	1233
StyI	CCWWGG	1 cut(s)	5
TaaI	ACNGT	2 cut(s)	220, 535
TaiI	ACGT	3 cut(s)	335, 650, 1175
TaqI	TCGA	3 cut(s)	44, 55, 1129
TasI	AATT	9 cut(s)	26, 47, 411, 525, 547, 563, 1047, 1299, 1316
TatI	WGTACW	1 cut(s)	119
TfiI	GAWTC	4 cut(s)	52, 323, 556, 1334
Tru1I	TTAA	6 cut(s)	126, 138, 210, 945, 1050, 1236
Tru9I	TTAA	6 cut(s)	126, 138, 210, 945, 1050, 1236
TscAI	CASTG	1 cut(s)	118
TseFI	GTSAC	1 cut(s)	958
TseI	GCWGC	2 cut(s)	418, 987
Tsp45I	GTSAC	1 cut(s)	958
TspRI	CASTG	1 cut(s)	118
VspI	ATTAAT	1 cut(s)	138
XapI	RAATTY	1 cut(s)	1316
XceI	RCATGY	1 cut(s)	91
XmaJI	CCTAGG	1 cut(s)	5
XspI	CTAG	1 cut(s)	6

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