Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

34274849 .. 34275544

Gene Structure 696 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG306500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGAAGGGGAAAGGTTGCGTGCCAAACACCATTACATACAATGCAATGATCTCTAACTTTATCTCTGATGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGCAATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCCGGAAAGTGGCGGATGCATTGGAGATGTTTGATGAGATGTTAAGTAGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCTTATGTAGCTATGGTCCACCATATGCTGTTATGATGATCTACCAGAAAGCAAGAAAGGTCGGATGTAGAATATCATCGACTGCTTATAAGCTATTGCTTATGCGCCTTTCTAGATTTGGTAAATGTGGAATGTTGGTAAACATTTGGGAAGAGATGCAGGAATATGGTTATGCTTCTGATATCGAAGTATATGAGTATGTAATCAGTGGACTTTGCAACATTGGGCAGCTTGAAAATGCTGTACTTGTCATGGAAGTGTCTCTACGAAAAGGTTTTTGCCCAAGCAGGCTTACCTATAGCAAACTGAGTAACAAACTTCTTGCTTCAAATAAGTTACAGAGGGCTTATAAGCTATACTTGAAGATTAAAGCTGCTCGTCGTTTTGACAAGACACAGAGAATTTGGCATGCTAGGGGATGGCATTTCTGA

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

231

Amino Acids

26.31

Weight (kDa)

9.39

Isoelectric Point (pI)

30.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	1 - 116	2.6e-06	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	8 - 57	5.3e-11	PPR repeat family
PPR_1	PF12854	41 - 71	2.5e-07	PPR repeat
PPR_2	PF13041	47 - 91	2.1e-09	PPR repeat family
PPR	PF01535	47 - 76	2.4e-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	2 cut(s)	354, 615
AciI	CCGC	1 cut(s)	185
AcsI	RAATTY	1 cut(s)	666
AfaI	GTAC	1 cut(s)	510
AfiI	CCNNNNNNNGG	2 cut(s)	181, 239
AgsI	TTSAA	4 cut(s)	100, 500, 594, 628
AluBI	AGCT	5 cut(s)	276, 358, 496, 619, 638
AluI	AGCT	5 cut(s)	276, 358, 496, 619, 638
Alw26I	GTCTC	1 cut(s)	531
ApeKI	GCWGC	2 cut(s)	493, 638
ApoI	RAATTY	1 cut(s)	666
AspLEI	GCGC	1 cut(s)	372
AspS9I	GGNCC	1 cut(s)	281
AsuC2I	CCSGG	1 cut(s)	175
AvaII	GGWCC	1 cut(s)	281
BarI	GAAGNNNNNNTAC	2 cut(s)	513, 545
BbvI	GCAGC	2 cut(s)	505, 625
BccI	CCATC	1 cut(s)	678
BcnI	CCSGG	1 cut(s)	175
BcoDI	GTCTC	1 cut(s)	531
BfaI	CTAG	2 cut(s)	378, 678
BfmI	CTRYAG	1 cut(s)	562
BisI	GCNGC	2 cut(s)	494, 639
BlsI	GCNGC	2 cut(s)	495, 640
Bme1390I	CCNGG	1 cut(s)	175
Bme18I	GGWCC	1 cut(s)	281
BmgT120I	GGNCC	1 cut(s)	281
BmiI	GGNNCC	1 cut(s)	264
BmrFI	CCNGG	1 cut(s)	175
BmsI	GCATC	3 cut(s)	58, 178, 411
BpuMI	CCSGG	1 cut(s)	175
Bsc4I	CCNNNNNNNGG	2 cut(s)	181, 239
Bse3DI	GCAATG	1 cut(s)	51
BseGI	GGATG	3 cut(s)	193, 335, 689
BseLI	CCNNNNNNNGG	2 cut(s)	181, 239
BseMI	GCAATG	1 cut(s)	51
BseMII	CTCAG	1 cut(s)	563
BseXI	GCAGC	2 cut(s)	505, 625
BsiSI	CCGG	1 cut(s)	175
BslFI	GGGAC	1 cut(s)	256
BslI	CCNNNNNNNGG	2 cut(s)	181, 239
BsmAI	GTCTC	1 cut(s)	531
BsmFI	GGGAC	1 cut(s)	256
Bsp143I	GATC	2 cut(s)	48, 303
BspACI	CCGC	1 cut(s)	185
BspCNI	CTCAG	1 cut(s)	564
BspLI	GGNNCC	1 cut(s)	264
BsrDI	GCAATG	1 cut(s)	51
BssMI	GATC	2 cut(s)	48, 303
Bst6I	CTCTTC	1 cut(s)	411
BstC8I	GCNNGC	4 cut(s)	20, 121, 554, 675
BstDEI	CTNAG	1 cut(s)	572
BstF5I	GGATG	3 cut(s)	193, 335, 689
BstHHI	GCGC	1 cut(s)	372
BstKTI	GATC	2 cut(s)	51, 306
BstMAI	GTCTC	1 cut(s)	531
BstMBI	GATC	2 cut(s)	48, 303
BstNSI	RCATGY	1 cut(s)	677
BstSCI	CCNGG	1 cut(s)	173
BstSFI	CTRYAG	1 cut(s)	562
BstV1I	GCAGC	2 cut(s)	505, 625
BtsCI	GGATG	3 cut(s)	193, 335, 689
BtsIMutI	CAGTG	1 cut(s)	478
Cac8I	GCNNGC	4 cut(s)	20, 121, 554, 675
CfoI	GCGC	1 cut(s)	372
Cfr13I	GGNCC	1 cut(s)	281
Csp6I	GTAC	1 cut(s)	509
CviAII	CATG	2 cut(s)	517, 674
CviJI	RGCY	8 cut(s)	173, 276, 358, 496, 556, 611, 619, 638
CviKI_1	RGCY	8 cut(s)	173, 276, 358, 496, 556, 611, 619, 638
CviQI	GTAC	1 cut(s)	509
DdeI	CTNAG	1 cut(s)	572
DpnI	GATC	2 cut(s)	50, 305
DpnII	GATC	2 cut(s)	48, 303
Eam1104I	CTCTTC	1 cut(s)	411
EarI	CTCTTC	1 cut(s)	411
EciI	GGCGGA	1 cut(s)	200
Eco32I	GATATC	1 cut(s)	448
Eco47I	GGWCC	1 cut(s)	281
EcoRV	GATATC	1 cut(s)	448
EcoT22I	ATGCAT	1 cut(s)	193
FaeI	CATG	2 cut(s)	520, 677
FalI	AAGNNNNNCTT	2 cut(s)	608, 640
FaqI	GGGAC	1 cut(s)	256
FatI	CATG	2 cut(s)	516, 673
FauNDI	CATATG	1 cut(s)	289
Fnu4HI	GCNGC	2 cut(s)	494, 639
FokI	GGATG	2 cut(s)	200, 342
Fsp4HI	GCNGC	2 cut(s)	494, 639
FspBI	CTAG	2 cut(s)	378, 678
GlaI	GCGC	1 cut(s)	371
GluI	GCNGC	2 cut(s)	494, 639
HapII	CCGG	1 cut(s)	175
HhaI	GCGC	1 cut(s)	372
Hin1II	CATG	2 cut(s)	520, 677
Hin6I	GCGC	1 cut(s)	370
HinP1I	GCGC	1 cut(s)	370
HpaII	CCGG	1 cut(s)	175
Hpy166II	GTNNAC	4 cut(s)	91, 284, 406, 476
Hpy188I	TCNGA	4 cut(s)	67, 329, 445, 695
Hpy188III	TCNNGA	2 cut(s)	100, 378
Hpy8I	GTNNAC	4 cut(s)	91, 284, 406, 476
Hpy99I	CGWCG	1 cut(s)	648
HpyCH4V	TGCA	5 cut(s)	44, 123, 191, 424, 483
HpyF3I	CTNAG	1 cut(s)	572
Hsp92II	CATG	2 cut(s)	520, 677
HspAI	GCGC	1 cut(s)	370
Kzo9I	GATC	2 cut(s)	48, 303
LpnPI	CCDG	5 cut(s)	144, 188, 323, 410, 538
Lsp1109I	GCAGC	2 cut(s)	505, 625
LweI	GCATC	3 cut(s)	58, 178, 411
MaeI	CTAG	2 cut(s)	378, 678
MaeIII	GTNAC	2 cut(s)	575, 600
MalI	GATC	2 cut(s)	50, 305
MboI	GATC	2 cut(s)	48, 303
MboII	GAAGA	2 cut(s)	428, 640
MluCI	AATT	2 cut(s)	149, 666
MmeI	TCCRAC	1 cut(s)	307
MnlI	CCTC	3 cut(s)	215, 262, 600
Mph1103I	ATGCAT	1 cut(s)	193
MseI	TTAA	3 cut(s)	168, 215, 633
MslI	CAYNNNNRTG	1 cut(s)	521
MspI	CCGG	1 cut(s)	175
MspR9I	CCNGG	1 cut(s)	175
NciI	CCSGG	1 cut(s)	175
NdeI	CATATG	1 cut(s)	289
NdeII	GATC	2 cut(s)	48, 303
NlaIII	CATG	2 cut(s)	520, 677
NlaIV	GGNNCC	1 cut(s)	264
NsiI	ATGCAT	1 cut(s)	193
NspI	RCATGY	1 cut(s)	677
PaeI	GCATGC	1 cut(s)	677
PkrI	GCNGC	2 cut(s)	495, 640
PsiI	TTATAA	2 cut(s)	354, 615
PspN4I	GGNNCC	1 cut(s)	264
PspPI	GGNCC	1 cut(s)	281
RsaI	GTAC	1 cut(s)	510
RsaNI	GTAC	1 cut(s)	509
RseI	CAYNNNNRTG	1 cut(s)	521
SaqAI	TTAA	3 cut(s)	168, 215, 633
SatI	GCNGC	2 cut(s)	494, 639
Sau3AI	GATC	2 cut(s)	48, 303
Sau96I	GGNCC	1 cut(s)	281
ScrFI	CCNGG	1 cut(s)	175
SfaNI	GCATC	3 cut(s)	58, 178, 411
SfcI	CTRYAG	1 cut(s)	562
SinI	GGWCC	1 cut(s)	281
SmiMI	CAYNNNNRTG	1 cut(s)	521
SphI	GCATGC	1 cut(s)	677
Sse9I	AATT	2 cut(s)	149, 666
SsiI	CCGC	1 cut(s)	185
SspI	AATATT	1 cut(s)	76
SspMI	CTAG	2 cut(s)	378, 678
StyD4I	CCNGG	1 cut(s)	173
TaqI	TCGA	3 cut(s)	110, 344, 450
TasI	AATT	2 cut(s)	149, 666
TatI	WGTACW	1 cut(s)	508
Tru1I	TTAA	3 cut(s)	168, 215, 633
Tru9I	TTAA	3 cut(s)	168, 215, 633
TscAI	CASTG	1 cut(s)	478
TseI	GCWGC	2 cut(s)	493, 638
TspDTI	ATGAA	2 cut(s)	17, 96
TspRI	CASTG	1 cut(s)	478
VpaK11BI	GGWCC	1 cut(s)	281
XapI	RAATTY	1 cut(s)	666
XbaI	TCTAGA	1 cut(s)	377
XceI	RCATGY	1 cut(s)	677
XspI	CTAG	2 cut(s)	378, 678
Zsp2I	ATGCAT	1 cut(s)	193

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