Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0001527.1

Orthogroup ID

OG0004844

Physical Location & Seq

Genomic Coordinates Reverse (-)

51361 .. 52476

Gene Structure 1116 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

atgatagataaggcaacagagcttttcctagaaatgaaaaatagagggatttttccagatgtggttgtatataggattctaatacatggtttgtactataatgaaaaatgggaagccggtcaagctttgttacatgagatgatagatagcggtatccagcctgatttggtaacattcaatgtgttaataggggcactttgcagaaggggaaatgtgaaagatagccgtgacttgctaaagttgatgattcgaagaggcatgaatcccaatatttttacttacaatactttgatggatggcttatgtttggtgggtaatcttgatgaagcaagagagctatttcattctatgtcaactagggggtgtgaacctggtgcaatcagctactctgtgttaatcaacggttactgcaagtataggaagatacaggaagccatcaatctttatgaggaaatgattttcaaaggagttaagccaacagtaataacatataatgccttattaactggtatttttcagatgggcaaagttcaggatgcacagaaactgtttcatgagatgcacactcagaatgtgctaccggattcagctacatatttaatattattggatggcctttgcaaacatgattgcaaaccagaagcaatggatatttttcattctttagaaaattccaattttagatttagtgttgaaatttttaattgtcttatggatgggttctgtaaatcggggaagcttgaaattgcttgggacctatttcacaaaatgtcaagtaaaggcttgctaccaaatgttataacatactccataatgattcatggcctctgtatggaaggccaactggaaaaggcaaatggtttgctcttagaaatggaaggaaaaggttgtcttccaaatgtcatcacttacaatacccttatgcggggtttctgcctaaatgatgactcgacaaaggttcttgaactgctgcataagatgtcagaaagaaatttgtcaccagatgactctacaatctccattgtcgtagacttgctgtcaagggatgaaaggttacgtaattgtctggacttgctacccacatttcctgctaccagccaattgaggatgccatga

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0000966 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004016 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:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009791 GO:0009845 GO:0009975 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0016829 GO:0016849 GO:0032501 GO:0032502 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:0048856 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0090351 GO:0090615 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

371

Amino Acids

42.16

Weight (kDa)

5.84

Isoelectric Point (pI)

32.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	2 - 31	2.4e-07	PPR repeat family
PPR_3	PF13812	8 - 66	9.8e-10	Pentatricopeptide repeat domain
PPR_2	PF13041	19 - 68	7.8e-13	PPR repeat family
PPR_1	PF12854	51 - 82	8.2e-09	PPR repeat
PPR_2	PF13041	54 - 102	4.1e-16	PPR repeat family
PPR	PF01535	57 - 86	1.2e-06	PPR repeat
PPR_3	PF13812	78 - 136	1.4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	85 - 117	5.5e-13	PPR repeat
PPR_2	PF13041	89 - 138	8.5e-18	PPR repeat family
PPR	PF01535	92 - 122	1.8e-08	PPR repeat
PPR_long	PF17177	106 - 203	3.9e-07	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	120 - 152	1.5e-08	PPR repeat
PPR_2	PF13041	124 - 170	6.6e-15	PPR repeat family
PPR	PF01535	127 - 157	1e-07	PPR repeat
PPR_3	PF13812	148 - 203	7.1e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	155 - 187	2.4e-09	PPR repeat
PPR_2	PF13041	159 - 208	8e-17	PPR repeat family
PPR_long	PF17177	214 - 342	3.5e-09	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	218 - 273	2.3e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	231 - 258	5.9e-07	PPR repeat
PPR_2	PF13041	231 - 277	2.8e-19	PPR repeat family
PPR	PF01535	233 - 262	2e-07	PPR repeat
PPR_3	PF13812	253 - 309	1.6e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	260 - 293	7.5e-11	PPR repeat
PPR	PF01535	267 - 297	1.3e-07	PPR repeat
PPR_2	PF13041	272 - 312	5.6e-13	PPR repeat family
PPR_1	PF12854	295 - 327	5.8e-08	PPR repeat
PPR_2	PF13041	299 - 346	8.9e-12	PPR repeat family
PPR	PF01535	302 - 331	7.5e-06	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: OG0004844)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g22260
malus_domestica	MD05G1203800.v1.1
prunus_persica	Prupe.8G230100_v2.0.a1
pyrus_communis	pycom05g19020
rosa_chinensis	RchiOBHm_Chr6g0289191 RchiOBHm_Chr6g0289221
rosa_laevigata	RLG00000009132 RLG00000009134 RLG00000012320 RLG00000012323 RLG00000012325
rosa_multiflora	Rmu_co8489247.1_g000002 Rmu_sc0001527.1_g000006 Rmu_sc0001527.1_g000010 Rmu_sc0001527.1_g000011
rosa_roxburghii	Rroxscaffold_7G00179440 Rroxscaffold_7G00179500
rosa_rugosa	Rorug06G0201500 Rorug06G0201800 Rorug06G0201900 Rorug06G0202000
rosa_samantha	Rh6AG312700 Rh6AG312900 Rh6BG319700 Rh6BG320300 Rh6BG320400 Rh6CG326100 Rh6CG326400 Rh6DG312100
rosa_wichuraiana	Rw6G027020 Rw6G027040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	800
AccI	GTMKAC	1 cut(s)	1029
AciI	CCGC	2 cut(s)	150, 925
AcsI	RAATTY	3 cut(s)	670, 696, 991
AfaI	GTAC	1 cut(s)	95
AfiI	CCNNNNNNNGG	3 cut(s)	832, 924, 925
AgsI	TTSAA	5 cut(s)	178, 463, 695, 743, 965
AhdI	GACNNNNNGTC	1 cut(s)	1036
AjnI	CCWGG	1 cut(s)	370
AluBI	AGCT	6 cut(s)	22, 125, 337, 384, 590, 739
AluI	AGCT	6 cut(s)	22, 125, 337, 384, 590, 739
AlwNI	CAGNNNCTG	1 cut(s)	547
AoxI	GGCC	3 cut(s)	613, 823, 838
ApeKI	GCWGC	1 cut(s)	970
ApoI	RAATTY	3 cut(s)	670, 696, 991
AspS9I	GGNCC	1 cut(s)	754
AsuHPI	GGTGA	1 cut(s)	990
AsuII	TTCGAA	1 cut(s)	250
AvaII	GGWCC	1 cut(s)	754
BaeGI	GKGCMC	1 cut(s)	196
BbsI	GAAGAC	1 cut(s)	884
BbvI	GCAGC	1 cut(s)	957
BccI	CCATC	6 cut(s)	286, 290, 443, 514, 605, 710
BceAI	ACGGC	1 cut(s)	210
BciT130I	CCWGG	1 cut(s)	372
BciVI	GTATCC	1 cut(s)	164
BfaI	CTAG	2 cut(s)	29, 357
BfuI	GTATCC	1 cut(s)	164
BisI	GCNGC	1 cut(s)	971
BlsI	GCNGC	1 cut(s)	972
Bme1390I	CCNGG	1 cut(s)	372
Bme18I	GGWCC	1 cut(s)	754
BmeRI	GACNNNNNGTC	1 cut(s)	1036
BmgT120I	GGNCC	1 cut(s)	754
BmiI	GGNNCC	1 cut(s)	755
BmrFI	CCNGG	1 cut(s)	372
BmsI	GCATC	3 cut(s)	526, 549, 1098
BpiI	GAAGAC	1 cut(s)	884
Bpu14I	TTCGAA	1 cut(s)	250
BsaAI	YACGTR	1 cut(s)	1058
BsaWI	WCCGGW	1 cut(s)	580
Bsc4I	CCNNNNNNNGG	3 cut(s)	832, 924, 925
Bse118I	RCCGGY	1 cut(s)	116
Bse1I	ACTGG	2 cut(s)	511, 849
Bse3DI	GCAATG	1 cut(s)	651
BseBI	CCWGG	1 cut(s)	372
BseGI	GGATG	6 cut(s)	301, 541, 616, 721, 1051, 1113
BseLI	CCNNNNNNNGG	3 cut(s)	832, 924, 925
BseMI	GCAATG	1 cut(s)	651
BseMII	CTCAG	1 cut(s)	581
BseNI	ACTGG	2 cut(s)	511, 849
BseSI	GKGCMC	1 cut(s)	196
BseXI	GCAGC	1 cut(s)	957
BshFI	GGCC	3 cut(s)	615, 825, 840
BsiSI	CCGG	2 cut(s)	117, 581
BslFI	GGGAC	1 cut(s)	767
BslI	CCNNNNNNNGG	3 cut(s)	832, 924, 925
BsmFI	GGGAC	1 cut(s)	767
BsnI	GGCC	3 cut(s)	615, 825, 840
Bsp119I	TTCGAA	1 cut(s)	250
Bsp1286I	GDGCHC	1 cut(s)	196
BspACI	CCGC	2 cut(s)	150, 925
BspANI	GGCC	3 cut(s)	615, 825, 840
BspCNI	CTCAG	1 cut(s)	580
BspHI	TCATGA	1 cut(s)	553
BspLI	GGNNCC	1 cut(s)	755
BspT104I	TTCGAA	1 cut(s)	250
BsrDI	GCAATG	1 cut(s)	651
BsrFI	RCCGGY	1 cut(s)	116
BsrI	ACTGG	2 cut(s)	511, 849
BssAI	RCCGGY	1 cut(s)	116
Bst2UI	CCWGG	1 cut(s)	372
Bst4CI	ACNGT	3 cut(s)	404, 481, 549
Bst6I	CTCTTC	1 cut(s)	247
BstBAI	YACGTR	1 cut(s)	1058
BstBI	TTCGAA	1 cut(s)	250
BstC8I	GCNNGC	1 cut(s)	785
BstDEI	CTNAG	2 cut(s)	567, 868
BstF5I	GGATG	6 cut(s)	301, 541, 616, 721, 1051, 1113
BstMWI	GCNNNNNNNGC	1 cut(s)	122
BstNI	CCWGG	1 cut(s)	372
BstSCI	CCNGG	1 cut(s)	370
BstSLI	GKGCMC	1 cut(s)	196
BstSNI	TACGTA	1 cut(s)	1058
BstV1I	GCAGC	1 cut(s)	957
BstV2I	GAAGAC	1 cut(s)	884
BsuI	GTATCC	1 cut(s)	164
BsuRI	GGCC	3 cut(s)	615, 825, 840
BtsCI	GGATG	6 cut(s)	301, 541, 616, 721, 1051, 1113
Cac8I	GCNNGC	1 cut(s)	785
CaiI	CAGNNNCTG	1 cut(s)	547
CciI	TCATGA	1 cut(s)	553
Cfr10I	RCCGGY	1 cut(s)	116
Cfr13I	GGNCC	1 cut(s)	754
CsiI	ACCWGGT	1 cut(s)	370
Csp6I	GTAC	1 cut(s)	94
CviAII	CATG	7 cut(s)	86, 134, 259, 554, 626, 821, 1113
CviQI	GTAC	1 cut(s)	94
DdeI	CTNAG	2 cut(s)	567, 868
DriI	GACNNNNNGTC	1 cut(s)	1036
Eam1104I	CTCTTC	1 cut(s)	247
Eam1105I	GACNNNNNGTC	1 cut(s)	1036
EarI	CTCTTC	1 cut(s)	247
Eco105I	TACGTA	1 cut(s)	1058
Eco47I	GGWCC	1 cut(s)	754
EcoO109I	RGGNCCY	1 cut(s)	754
EcoRII	CCWGG	1 cut(s)	370
FaeI	CATG	7 cut(s)	89, 137, 262, 557, 629, 824, 1116
FalI	AAGNNNNNCTT	2 cut(s)	876, 908
FaqI	GGGAC	1 cut(s)	767
FatI	CATG	7 cut(s)	85, 133, 258, 553, 625, 820, 1112
FauI	CCCGC	1 cut(s)	918
FblI	GTMKAC	1 cut(s)	1029
Fnu4HI	GCNGC	1 cut(s)	971
FokI	GGATG	5 cut(s)	308, 548, 623, 728, 1058
Fsp4HI	GCNGC	1 cut(s)	971
FspBI	CTAG	2 cut(s)	29, 357
GluI	GCNGC	1 cut(s)	971
HaeIII	GGCC	3 cut(s)	615, 825, 840
HapII	CCGG	2 cut(s)	117, 581
Hin1II	CATG	7 cut(s)	89, 137, 262, 557, 629, 824, 1116
HincII	GTYRAC	1 cut(s)	354
HindII	GTYRAC	1 cut(s)	354
HindIII	AAGCTT	2 cut(s)	123, 737
HinfI	GANTC	7 cut(s)	76, 247, 262, 584, 817, 947, 1007
HpaII	CCGG	2 cut(s)	117, 581
HphI	GGTGA	1 cut(s)	990
Hpy166II	GTNNAC	3 cut(s)	354, 368, 1030
Hpy188I	TCNGA	3 cut(s)	519, 570, 985
Hpy188III	TCNNGA	6 cut(s)	56, 320, 533, 554, 962, 1067
Hpy8I	GTNNAC	3 cut(s)	354, 368, 1030
HpyAV	CCTTC	3 cut(s)	198, 830, 872
HpyCH4III	ACNGT	3 cut(s)	404, 481, 549
HpyCH4IV	ACGT	1 cut(s)	1057
HpyCH4V	TGCA	8 cut(s)	201, 377, 411, 539, 562, 621, 633, 973
HpyF10VI	GCNNNNNNNGC	1 cut(s)	122
HpyF3I	CTNAG	2 cut(s)	567, 868
HpySE526I	ACGT	1 cut(s)	1057
Hsp92II	CATG	7 cut(s)	89, 137, 262, 557, 629, 824, 1116
Lsp1109I	GCAGC	1 cut(s)	957
LweI	GCATC	3 cut(s)	526, 549, 1098
MabI	ACCWGGT	1 cut(s)	370
MaeI	CTAG	2 cut(s)	29, 357
MaeII	ACGT	1 cut(s)	1057
MaeIII	GTNAC	6 cut(s)	129, 169, 227, 404, 996, 1053
MboII	GAAGA	3 cut(s)	264, 433, 884
MfeI	CAATTG	1 cut(s)	1100
MhlI	GDGCHC	1 cut(s)	196
MluCI	AATT	8 cut(s)	670, 676, 696, 703, 744, 991, 1060, 1100
MlyI	GAGTC	2 cut(s)	941, 1001
MnlI	CCTC	5 cut(s)	38, 248, 442, 836, 1098
MseI	TTAA	6 cut(s)	185, 395, 471, 503, 599, 702
MspI	CCGG	2 cut(s)	117, 581
MspR9I	CCNGG	1 cut(s)	372
MunI	CAATTG	1 cut(s)	1100
MvaI	CCWGG	1 cut(s)	372
MwoI	GCNNNNNNNGC	1 cut(s)	122
NlaIII	CATG	7 cut(s)	89, 137, 262, 557, 629, 824, 1116
NlaIV	GGNNCC	1 cut(s)	755
NmuCI	GTSAC	2 cut(s)	227, 996
NspV	TTCGAA	1 cut(s)	250
PagI	TCATGA	1 cut(s)	553
PfeI	GAWTC	5 cut(s)	76, 247, 262, 584, 817
PkrI	GCNGC	1 cut(s)	972
PleI	GAGTC	2 cut(s)	941, 1001
PpsI	GAGTC	2 cut(s)	941, 1001
Ppu21I	YACGTR	1 cut(s)	1058
PpuMI	RGGWCCY	1 cut(s)	754
PsiI	TTATAA	1 cut(s)	800
Psp5II	RGGWCCY	1 cut(s)	754
Psp6I	CCWGG	1 cut(s)	370
PspGI	CCWGG	1 cut(s)	370
PspN4I	GGNNCC	1 cut(s)	755
PspPI	GGNCC	1 cut(s)	754
PspPPI	RGGWCCY	1 cut(s)	754
PstNI	CAGNNNCTG	1 cut(s)	547
RsaI	GTAC	1 cut(s)	95
RsaNI	GTAC	1 cut(s)	94
SaqAI	TTAA	6 cut(s)	185, 395, 471, 503, 599, 702
SatI	GCNGC	1 cut(s)	971
Sau96I	GGNCC	1 cut(s)	754
SchI	GAGTC	2 cut(s)	941, 1001
ScrFI	CCNGG	1 cut(s)	372
SduI	GDGCHC	1 cut(s)	196
SexAI	ACCWGGT	1 cut(s)	370
SfaNI	GCATC	3 cut(s)	526, 549, 1098
SfuI	TTCGAA	1 cut(s)	250
SinI	GGWCC	1 cut(s)	754
SnaBI	TACGTA	1 cut(s)	1058
Sse9I	AATT	8 cut(s)	670, 676, 696, 703, 744, 991, 1060, 1100
SsiI	CCGC	2 cut(s)	150, 925
SspI	AATATT	2 cut(s)	271, 603
SspMI	CTAG	2 cut(s)	29, 357
StyD4I	CCNGG	1 cut(s)	370
TaaI	ACNGT	3 cut(s)	404, 481, 549
TaiI	ACGT	1 cut(s)	1060
TaqI	TCGA	2 cut(s)	250, 950
TasI	AATT	8 cut(s)	670, 676, 696, 703, 744, 991, 1060, 1100
TatI	WGTACW	1 cut(s)	93
TfiI	GAWTC	5 cut(s)	76, 247, 262, 584, 817
Tru1I	TTAA	6 cut(s)	185, 395, 471, 503, 599, 702
Tru9I	TTAA	6 cut(s)	185, 395, 471, 503, 599, 702
TseFI	GTSAC	2 cut(s)	227, 996
TseI	GCWGC	1 cut(s)	970
Tsp45I	GTSAC	2 cut(s)	227, 996
TspDTI	ATGAA	9 cut(s)	50, 117, 275, 332, 339, 542, 647, 809, 1062
VpaK11BI	GGWCC	1 cut(s)	754
XapI	RAATTY	3 cut(s)	670, 696, 991
XmiI	GTMKAC	1 cut(s)	1029
XspI	CTAG	2 cut(s)	29, 357

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