Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Reverse (-)

16343179 .. 16343892

Gene Structure 714 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG105900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGGTTCCTGATGCCATTACATATAATATCCTGATTAATGGCTATTGCAGGTCTGGGAATGCAAAGAAAGCGTTTATCCTTCGTGATGAAATGTTGAGTAAAGGGATAGAAACCACTAAGGAAACTTATACATCGCTTATTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAAGATACTGCATAAGGGTGTTGTGCCAGGTCTTGTGATGTTCAATGCCTTGATTGATGGTCATTGTACAAATGGGAATATGGAGCGTGCATTTTCACTTTTGAGGGAGATAGATCAAATGAAGGTTCATCCAGATGAAGTGACTTACAATACCCTAATGCAAGGGCGCTGCGGGGCAGGGAAAATTGAGGAAGCTCGAGAACTCCTGGATGAGATGAAGATAAGGGGAATTAAGCCTGATTACATTAGTTACAACACCCTCATTAGTGGACATAGTAAGCGAGGTGATATGAATGATGCCTTCAGAGTTCGAGACGAGATGTTGAGTATAGGTTTCAATCCTACACTTCTGACATACAATGCTCTTATAAAGGGTCTGTGCAAAAACCAAGAAGGTGATCTTGCTCAAGACCTCCTTAAAGACATTGTGAGCAGAGGGATTACTCCCGATGACAGCACATATTACTCTCTGATTGAGGGAATTGAGAATGTTGAGGAATTTCTCAGAAAGGGCGATTCATGA

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

237

Amino Acids

26.8

Weight (kDa)

5.51

Isoelectric Point (pI)

27.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	2 - 31	3.6e-12	PPR repeat
PPR_2	PF13041	3 - 51	4.1e-15	PPR repeat family
TPR_24	PF23276	6 - 100	6.3e-09	Fungal tetratrico peptide repeats
PPR	PF01535	6 - 36	2.4e-09	PPR repeat
PPR_long	PF17177	21 - 125	1.6e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	62 - 118	1.3e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	69 - 100	5e-09	PPR repeat
TPR_24	PF23276	70 - 166	3.7e-07	Fungal tetratrico peptide repeats
PPR_2	PF13041	73 - 121	1.9e-14	PPR repeat family
PPR	PF01535	76 - 103	4.3e-06	PPR repeat
PPR_1	PF12854	106 - 137	4.5e-11	PPR repeat
PPR_2	PF13041	108 - 149	7.8e-14	PPR repeat family
PPR	PF01535	111 - 141	8e-07	PPR repeat
PPR_long	PF17177	126 - 223	6.9e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	132 - 189	8.7e-14	Pentatricopeptide repeat domain
PPR_1	PF12854	139 - 171	2.8e-10	PPR repeat
PPR_2	PF13041	143 - 192	2.1e-16	PPR repeat family
PPR	PF01535	146 - 176	2.4e-07	PPR repeat
PPR_1	PF12854	175 - 205	2.8e-06	PPR repeat
PPR_2	PF13041	178 - 224	9.2e-12	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: 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	1 cut(s)	560
Acc36I	ACCTGC	1 cut(s)	39
AciI	CCGC	1 cut(s)	363
AcsI	RAATTY	1 cut(s)	689
AcuI	CTGAAG	1 cut(s)	478
AfaI	GTAC	1 cut(s)	259
AgsI	TTSAA	2 cut(s)	235, 529
AjnI	CCWGG	2 cut(s)	217, 396
AluBI	AGCT	1 cut(s)	386
AluI	AGCT	1 cut(s)	386
Alw26I	GTCTC	1 cut(s)	498
Ama87I	CYCGRG	1 cut(s)	387
ApeKI	GCWGC	1 cut(s)	360
ApoI	RAATTY	1 cut(s)	689
AseI	ATTAAT	1 cut(s)	36
AspLEI	GCGC	1 cut(s)	360
AsuHPI	GGTGA	2 cut(s)	488, 599
AvaI	CYCGRG	1 cut(s)	387
BbvI	GCAGC	1 cut(s)	347
BccI	CCATC	1 cut(s)	242
BciT130I	CCWGG	2 cut(s)	219, 398
BcoDI	GTCTC	1 cut(s)	498
BfoI	RGCGCY	1 cut(s)	361
BfuAI	ACCTGC	1 cut(s)	39
BisI	GCNGC	1 cut(s)	361
BlsI	GCNGC	1 cut(s)	362
Bme1390I	CCNGG	2 cut(s)	219, 398
BmeT110I	CYCGRG	1 cut(s)	387
BmiI	GGNNCC	1 cut(s)	6
BmrFI	CCNGG	2 cut(s)	219, 398
BmsI	GCATC	1 cut(s)	478
BpuEI	CTTGAG	1 cut(s)	582
BseBI	CCWGG	2 cut(s)	219, 398
BseGI	GGATG	2 cut(s)	319, 406
BseMII	CTCAG	1 cut(s)	709
BseXI	GCAGC	1 cut(s)	347
BsiHKCI	CYCGRG	1 cut(s)	387
BsmAI	GTCTC	1 cut(s)	498
BsmBI	CGTCTC	1 cut(s)	498
BsmI	GAATGC	1 cut(s)	64
BsoBI	CYCGRG	1 cut(s)	387
Bsp1407I	TGTACA	1 cut(s)	257
Bsp143I	GATC	2 cut(s)	304, 589
BspACI	CCGC	1 cut(s)	363
BspCNI	CTCAG	1 cut(s)	708
BspHI	TCATGA	1 cut(s)	710
BspLI	GGNNCC	1 cut(s)	6
BspMI	ACCTGC	1 cut(s)	39
BsrGI	TGTACA	1 cut(s)	257
BssMI	GATC	2 cut(s)	304, 589
Bst2UI	CCWGG	2 cut(s)	219, 398
Bst6I	CTCTTC	1 cut(s)	155
BstAUI	TGTACA	1 cut(s)	257
BstC8I	GCNNGC	1 cut(s)	279
BstDEI	CTNAG	2 cut(s)	117, 695
BstF5I	GGATG	2 cut(s)	319, 406
BstH2I	RGCGCY	1 cut(s)	361
BstHHI	GCGC	1 cut(s)	360
BstKTI	GATC	2 cut(s)	307, 592
BstMAI	GTCTC	1 cut(s)	498
BstMBI	GATC	2 cut(s)	304, 589
BstMWI	GCNNNNNNNGC	1 cut(s)	68
BstNI	CCWGG	2 cut(s)	219, 398
BstSCI	CCNGG	2 cut(s)	217, 396
BstV1I	GCAGC	1 cut(s)	347
BtgZI	GCGATG	1 cut(s)	117
BtsCI	GGATG	2 cut(s)	319, 406
BveI	ACCTGC	1 cut(s)	39
Cac8I	GCNNGC	1 cut(s)	279
CciI	TCATGA	1 cut(s)	710
CfoI	GCGC	1 cut(s)	360
Csp6I	GTAC	1 cut(s)	258
CviAII	CATG	1 cut(s)	711
CviJI	RGCY	3 cut(s)	42, 386, 427
CviKI_1	RGCY	3 cut(s)	42, 386, 427
CviQI	GTAC	1 cut(s)	258
DdeI	CTNAG	2 cut(s)	117, 695
DpnI	GATC	2 cut(s)	306, 591
DpnII	GATC	2 cut(s)	304, 589
Eam1104I	CTCTTC	1 cut(s)	155
EarI	CTCTTC	1 cut(s)	155
Eco57I	CTGAAG	1 cut(s)	478
Eco88I	CYCGRG	1 cut(s)	387
EcoRII	CCWGG	2 cut(s)	217, 396
Esp3I	CGTCTC	1 cut(s)	498
FaeI	CATG	1 cut(s)	714
FalI	AAGNNNNNCTT	4 cut(s)	576, 608, 591, 623
FatI	CATG	1 cut(s)	710
FauI	CCCGC	1 cut(s)	356
Fnu4HI	GCNGC	1 cut(s)	361
FokI	GGATG	2 cut(s)	306, 413
Fsp4HI	GCNGC	1 cut(s)	361
GlaI	GCGC	1 cut(s)	359
GluI	GCNGC	1 cut(s)	361
HaeII	RGCGCY	1 cut(s)	361
HhaI	GCGC	1 cut(s)	360
Hin1II	CATG	1 cut(s)	714
Hin6I	GCGC	1 cut(s)	358
HinP1I	GCGC	1 cut(s)	358
HinfI	GANTC	1 cut(s)	707
HphI	GGTGA	2 cut(s)	488, 599
Hpy166II	GTNNAC	1 cut(s)	461
Hpy188I	TCNGA	4 cut(s)	497, 543, 663, 698
Hpy188III	TCNNGA	9 cut(s)	8, 31, 83, 323, 389, 503, 599, 638, 711
Hpy8I	GTNNAC	1 cut(s)	461
HpyAV	CCTTC	4 cut(s)	89, 307, 502, 578
HpyCH4V	TGCA	6 cut(s)	48, 62, 202, 281, 352, 573
HpyF10VI	GCNNNNNNNGC	1 cut(s)	68
HpyF3I	CTNAG	2 cut(s)	117, 695
Hsp92II	CATG	1 cut(s)	714
HspAI	GCGC	1 cut(s)	358
Kzo9I	GATC	2 cut(s)	304, 589
LmnI	GCTCC	1 cut(s)	274
Lsp1109I	GCAGC	1 cut(s)	347
LweI	GCATC	1 cut(s)	478
MaeIII	GTNAC	2 cut(s)	331, 440
MalI	GATC	2 cut(s)	306, 591
MboI	GATC	2 cut(s)	304, 589
MboII	GAAGA	3 cut(s)	172, 205, 421
MluCI	AATT	4 cut(s)	375, 420, 672, 689
MnlI	CCTC	9 cut(s)	166, 288, 373, 461, 467, 614, 620, 661, 679
MseI	TTAA	3 cut(s)	36, 423, 609
MslI	CAYNNNNRTG	2 cut(s)	207, 324
MspR9I	CCNGG	2 cut(s)	219, 398
Mva1269I	GAATGC	1 cut(s)	64
MvaI	CCWGG	2 cut(s)	219, 398
MwoI	GCNNNNNNNGC	1 cut(s)	68
NdeII	GATC	2 cut(s)	304, 589
NlaIII	CATG	1 cut(s)	714
NlaIV	GGNNCC	1 cut(s)	6
NmuCI	GTSAC	1 cut(s)	331
PaeR7I	CTCGAG	1 cut(s)	387
PagI	TCATGA	1 cut(s)	710
PctI	GAATGC	1 cut(s)	64
PfeI	GAWTC	1 cut(s)	707
PfoI	TCCNGGA	1 cut(s)	396
PkrI	GCNGC	1 cut(s)	362
PshBI	ATTAAT	1 cut(s)	36
PsiI	TTATAA	1 cut(s)	560
Psp6I	CCWGG	2 cut(s)	217, 396
PspGI	CCWGG	2 cut(s)	217, 396
PspN4I	GGNNCC	1 cut(s)	6
RsaI	GTAC	1 cut(s)	259
RsaNI	GTAC	1 cut(s)	258
RseI	CAYNNNNRTG	2 cut(s)	207, 324
SaqAI	TTAA	3 cut(s)	36, 423, 609
SatI	GCNGC	1 cut(s)	361
Sau3AI	GATC	2 cut(s)	304, 589
ScrFI	CCNGG	2 cut(s)	219, 398
SetI	ASST	8 cut(s)	53, 223, 318, 388, 478, 526, 589, 606
SfaNI	GCATC	1 cut(s)	478
Sfr274I	CTCGAG	1 cut(s)	387
SlaI	CTCGAG	1 cut(s)	387
SmiMI	CAYNNNNRTG	2 cut(s)	207, 324
SmlI	CTYRAG	2 cut(s)	387, 597
SmoI	CTYRAG	2 cut(s)	387, 597
Sse9I	AATT	4 cut(s)	375, 420, 672, 689
SsiI	CCGC	1 cut(s)	363
StyD4I	CCNGG	2 cut(s)	217, 396
TaqI	TCGA	2 cut(s)	388, 502
TasI	AATT	4 cut(s)	375, 420, 672, 689
TatI	WGTACW	1 cut(s)	257
TfiI	GAWTC	1 cut(s)	707
Tru1I	TTAA	3 cut(s)	36, 423, 609
Tru9I	TTAA	3 cut(s)	36, 423, 609
TseFI	GTSAC	1 cut(s)	331
TseI	GCWGC	1 cut(s)	360
Tsp45I	GTSAC	1 cut(s)	331
TspDTI	ATGAA	8 cut(s)	102, 182, 308, 326, 342, 422, 497, 699
VspI	ATTAAT	1 cut(s)	36
XapI	RAATTY	1 cut(s)	689
XhoI	CTCGAG	1 cut(s)	387

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