Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

35639184 .. 35640955

Gene Structure 1772 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG325500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGGGTTTAGTCCTGATAGTGCAACGTACTTTCAGTTACATTCTTGAGGGTCTAGGAAGAGCTGATCGGATTAACGATGCAGTTGAGATTTTTGAGAGCATGAAGGGGAAAGGTTGCGTGCCAAACACCATTACATACAATGCAATGATCTCTAACTTTATCTCTGATGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGCAATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCCGGAAAGTGGCGGATGCATTGGAGATGTTTGATGAGATGTTAAGTAGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCTTATGTAGCTATGGTCCACCATATGCTGTTATGATGATCTACCAGAAAGCAAGAAAGGTCGGATGTAGAATATCATCGACTGCTTATAAGCTATTGCTTATGCGCCTTTCTAGATTTGGTAAATGTGGAATGTTGGTAAACATTTGGGAAGAGATGCAGGAATATGGTTATGCTTCTGATATCGAAGTATATGAGTATGTAATCAGTGGACTTTGCAACATTGGGCAGCTTGAAAATGCTGTACTTGTCATGGAAGTGTCTCTACGAAAAGATATAATCTTTCTTTCCTTCGTACAGCAAGTTGTTGACTTACCCGCTGGAAGAGTCGTTGTTCTAGACATTTCATAA

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_2 PPR_3

Protein Analysis

237

Amino Acids

26.49

Weight (kDa)

5.17

Isoelectric Point (pI)

26.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	10 - 53	1.1e-10	PPR repeat family
PPR_3	PF13812	11 - 52	8.7e-07	Pentatricopeptide repeat domain
PPR_long	PF17177	23 - 149	6e-10	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	41 - 90	2.3e-11	PPR repeat family
PPR_1	PF12854	74 - 104	2.6e-07	PPR repeat
PPR_2	PF13041	76 - 124	4.1e-11	PPR repeat family
PPR	PF01535	80 - 109	2.5e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0001315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43820
fragaria_vesca	FvH4_5g24880 FvH4_5g25350 FvH4_5g25520
malus_domestica	MD16G1284000.v1.1
prunus_persica	Prupe.5G009500_v2.0.a1
pyrus_communis	pycom16g26010
rosa_chinensis	RchiOBHm_Chr6g0271861 RchiOBHm_Chr6g0271871 RchiOBHm_Chr6g0271981 RchiOBHm_Chr7g0215761 RchiOBHm_Chr7g0215771 RchiOBHm_Chr7g0215901 RchiOBHm_Chr7g0217231 RchiOBHm_Chr7g0219831
rosa_laevigata	RLG00000002611 RLG00000002625 RLG00000013566
rosa_multiflora	Rmu_sc0000055.1_g000008 Rmu_sc0000055.1_g000009 Rmu_sc0000516.1_g000005 Rmu_sc0000516.1_g000006 Rmu_sc0004379.1_g000016 Rmu_sc0006240.1_g000009 Rmu_sc0007857.1_g000006 Rmu_sc0016364.1_g000002 Rmu_sc0016407.1_g000001 Rmu_sc0023052.1_g000001
rosa_roxburghii	Rroxscaffold_2G00114980 Rroxscaffold_3G00243850 Rroxscaffold_5G00342010 Rroxscaffold_7G00186190
rosa_rugosa	Rorug06G0064100 Rorug07G0156600 Rorug07G0157900 Rorug07G0158000
rosa_samantha	Rh1BG116200 Rh6AG181800 Rh6BG185400 Rh6CG182900 Rh6CG183200 Rh6DG174300 Rh6DG174600 Rh7AG294600 Rh7AG306400 Rh7AG306500 Rh7BG286400 Rh7CG314600 Rh7CG325500 Rh7DG296900 Rh7DG299400 Rh7DG306200
rosa_wichuraiana	Rw6G015640 Rw7G026030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	453
AciI	CCGC	2 cut(s)	284, 681
AfaI	GTAC	3 cut(s)	28, 609, 660
AfiI	CCNNNNNNNGG	2 cut(s)	280, 338
AgsI	TTSAA	2 cut(s)	199, 599
AluBI	AGCT	4 cut(s)	62, 375, 457, 595
AluI	AGCT	4 cut(s)	62, 375, 457, 595
Alw26I	GTCTC	1 cut(s)	630
ApeKI	GCWGC	1 cut(s)	592
AspLEI	GCGC	1 cut(s)	471
AspS9I	GGNCC	1 cut(s)	380
AsuC2I	CCSGG	1 cut(s)	274
AvaII	GGWCC	1 cut(s)	380
BarI	GAAGNNNNNNTAC	2 cut(s)	612, 644
BbvI	GCAGC	1 cut(s)	604
BcnI	CCSGG	1 cut(s)	274
BcoDI	GTCTC	1 cut(s)	630
BfaI	CTAG	3 cut(s)	53, 477, 701
BisI	GCNGC	1 cut(s)	593
BlsI	GCNGC	1 cut(s)	594
Bme1390I	CCNGG	1 cut(s)	274
Bme18I	GGWCC	1 cut(s)	380
BmgT120I	GGNCC	1 cut(s)	380
BmiI	GGNNCC	1 cut(s)	363
BmrFI	CCNGG	1 cut(s)	274
BmsI	GCATC	4 cut(s)	67, 157, 277, 510
BpuEI	CTTGAG	1 cut(s)	65
BpuMI	CCSGG	1 cut(s)	274
Bsc4I	CCNNNNNNNGG	2 cut(s)	280, 338
Bse3DI	GCAATG	1 cut(s)	150
BseGI	GGATG	2 cut(s)	292, 434
BseLI	CCNNNNNNNGG	2 cut(s)	280, 338
BseMI	GCAATG	1 cut(s)	150
BseXI	GCAGC	1 cut(s)	604
BsiSI	CCGG	1 cut(s)	274
BslFI	GGGAC	1 cut(s)	355
BslI	CCNNNNNNNGG	2 cut(s)	280, 338
BsmAI	GTCTC	1 cut(s)	630
BsmFI	GGGAC	1 cut(s)	355
Bsp143I	GATC	3 cut(s)	64, 147, 402
BspACI	CCGC	2 cut(s)	284, 681
BspLI	GGNNCC	1 cut(s)	363
BspQI	GCTCTTC	1 cut(s)	52
BsrDI	GCAATG	1 cut(s)	150
BssMI	GATC	3 cut(s)	64, 147, 402
Bst6I	CTCTTC	3 cut(s)	52, 510, 682
BstC8I	GCNNGC	2 cut(s)	119, 220
BstF5I	GGATG	2 cut(s)	292, 434
BstHHI	GCGC	1 cut(s)	471
BstKTI	GATC	3 cut(s)	67, 150, 405
BstMAI	GTCTC	1 cut(s)	630
BstMBI	GATC	3 cut(s)	64, 147, 402
BstSCI	CCNGG	1 cut(s)	272
BstV1I	GCAGC	1 cut(s)	604
BtsCI	GGATG	2 cut(s)	292, 434
BtsIMutI	CAGTG	1 cut(s)	577
Cac8I	GCNNGC	2 cut(s)	119, 220
CfoI	GCGC	1 cut(s)	471
Cfr13I	GGNCC	1 cut(s)	380
Csp6I	GTAC	3 cut(s)	27, 608, 659
CviAII	CATG	2 cut(s)	100, 616
CviJI	RGCY	5 cut(s)	62, 272, 375, 457, 595
CviKI_1	RGCY	5 cut(s)	62, 272, 375, 457, 595
CviQI	GTAC	3 cut(s)	27, 608, 659
DpnI	GATC	3 cut(s)	66, 149, 404
DpnII	GATC	3 cut(s)	64, 147, 402
Eam1104I	CTCTTC	3 cut(s)	52, 510, 682
EarI	CTCTTC	3 cut(s)	52, 510, 682
EciI	GGCGGA	1 cut(s)	299
Eco32I	GATATC	1 cut(s)	547
Eco47I	GGWCC	1 cut(s)	380
EcoRV	GATATC	1 cut(s)	547
EcoT22I	ATGCAT	1 cut(s)	292
FaeI	CATG	2 cut(s)	103, 619
FaqI	GGGAC	1 cut(s)	355
FatI	CATG	2 cut(s)	99, 615
FauI	CCCGC	1 cut(s)	688
FauNDI	CATATG	1 cut(s)	388
Fnu4HI	GCNGC	1 cut(s)	593
FokI	GGATG	2 cut(s)	299, 441
Fsp4HI	GCNGC	1 cut(s)	593
FspBI	CTAG	3 cut(s)	53, 477, 701
GlaI	GCGC	1 cut(s)	470
GluI	GCNGC	1 cut(s)	593
HapII	CCGG	1 cut(s)	274
HhaI	GCGC	1 cut(s)	471
Hin1II	CATG	2 cut(s)	103, 619
Hin6I	GCGC	1 cut(s)	469
HinP1I	GCGC	1 cut(s)	469
HincII	GTYRAC	1 cut(s)	673
HindII	GTYRAC	1 cut(s)	673
HinfI	GANTC	1 cut(s)	690
HpaII	CCGG	1 cut(s)	274
Hpy166II	GTNNAC	5 cut(s)	190, 383, 505, 575, 673
Hpy188I	TCNGA	4 cut(s)	69, 166, 428, 544
Hpy188III	TCNNGA	5 cut(s)	13, 44, 199, 477, 701
Hpy8I	GTNNAC	5 cut(s)	190, 383, 505, 575, 673
HpyAV	CCTTC	2 cut(s)	97, 664
HpyCH4IV	ACGT	1 cut(s)	25
HpyCH4V	TGCA	7 cut(s)	22, 80, 143, 222, 290, 523, 582
HpySE526I	ACGT	1 cut(s)	25
Hsp92II	CATG	2 cut(s)	103, 619
HspAI	GCGC	1 cut(s)	469
Kzo9I	GATC	3 cut(s)	64, 147, 402
LguI	GCTCTTC	1 cut(s)	52
LpnPI	CCDG	6 cut(s)	26, 243, 287, 422, 509, 669
Lsp1109I	GCAGC	1 cut(s)	604
LweI	GCATC	4 cut(s)	67, 157, 277, 510
MaeI	CTAG	3 cut(s)	53, 477, 701
MaeII	ACGT	1 cut(s)	25
MaeIII	GTNAC	1 cut(s)	35
MalI	GATC	3 cut(s)	66, 149, 404
MboI	GATC	3 cut(s)	64, 147, 402
MboII	GAAGA	3 cut(s)	69, 527, 699
MluCI	AATT	1 cut(s)	248
MlyI	GAGTC	1 cut(s)	699
MmeI	TCCRAC	1 cut(s)	406
MnlI	CCTC	3 cut(s)	40, 314, 361
Mph1103I	ATGCAT	1 cut(s)	292
MseI	TTAA	3 cut(s)	72, 267, 314
MslI	CAYNNNNRTG	1 cut(s)	620
MspA1I	CMGCKG	1 cut(s)	683
MspI	CCGG	1 cut(s)	274
MspR9I	CCNGG	1 cut(s)	274
NciI	CCSGG	1 cut(s)	274
NdeI	CATATG	1 cut(s)	388
NdeII	GATC	3 cut(s)	64, 147, 402
NlaIII	CATG	2 cut(s)	103, 619
NlaIV	GGNNCC	1 cut(s)	363
NsiI	ATGCAT	1 cut(s)	292
PciSI	GCTCTTC	1 cut(s)	52
PkrI	GCNGC	1 cut(s)	594
PleI	GAGTC	1 cut(s)	698
PpsI	GAGTC	1 cut(s)	698
PsiI	TTATAA	1 cut(s)	453
PspN4I	GGNNCC	1 cut(s)	363
PspPI	GGNCC	1 cut(s)	380
RsaI	GTAC	3 cut(s)	28, 609, 660
RsaNI	GTAC	3 cut(s)	27, 608, 659
RseI	CAYNNNNRTG	1 cut(s)	620
SapI	GCTCTTC	1 cut(s)	52
SaqAI	TTAA	3 cut(s)	72, 267, 314
SatI	GCNGC	1 cut(s)	593
Sau3AI	GATC	3 cut(s)	64, 147, 402
Sau96I	GGNCC	1 cut(s)	380
SchI	GAGTC	1 cut(s)	699
ScrFI	CCNGG	1 cut(s)	274
SetI	ASST	8 cut(s)	28, 64, 115, 353, 377, 426, 459, 597
SfaNI	GCATC	4 cut(s)	67, 157, 277, 510
SinI	GGWCC	1 cut(s)	380
SmiMI	CAYNNNNRTG	1 cut(s)	620
SmlI	CTYRAG	1 cut(s)	44
SmoI	CTYRAG	1 cut(s)	44
Sse9I	AATT	1 cut(s)	248
SsiI	CCGC	2 cut(s)	284, 681
SspI	AATATT	1 cut(s)	175
SspMI	CTAG	3 cut(s)	53, 477, 701
StyD4I	CCNGG	1 cut(s)	272
TaiI	ACGT	1 cut(s)	28
TaqI	TCGA	3 cut(s)	209, 443, 549
TasI	AATT	1 cut(s)	248
TatI	WGTACW	1 cut(s)	607
Tru1I	TTAA	3 cut(s)	72, 267, 314
Tru9I	TTAA	3 cut(s)	72, 267, 314
TscAI	CASTG	1 cut(s)	577
TseI	GCWGC	1 cut(s)	592
TspDTI	ATGAA	3 cut(s)	116, 195, 699
TspRI	CASTG	1 cut(s)	577
VpaK11BI	GGWCC	1 cut(s)	380
XbaI	TCTAGA	2 cut(s)	476, 700
XspI	CTAG	3 cut(s)	53, 477, 701
Zsp2I	ATGCAT	1 cut(s)	292

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