Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0005777

Physical Location & Seq

Genomic Coordinates Reverse (-)

19699197 .. 19699952

Gene Structure 756 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG176600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGCAAGCATTGTGGAAAAGGAGTCACCTTCAAGAAGCTCCGAGACTTGTTCAGTCTAACCCAACTCACTTGGACCATTACTATTGCTTGTATATGAAGATTCTGCAACTCTGCATCGATCAACGAGTAGAAAGACCCGGTCTTTTGGCTCACACCCATGTGATCACAAATGGGTTTGCTTCAAATCTGAATTTGAACACCAAATTGATCAACTTTTATTGCAAGTTTGGCCGCGTGGTTGGTGCTCGCAAGGTGTTCGATAAAATGCCTGAGAGAAATGTTGTGTCTTGGACTTCTATGGTTTCTGGGTATGCTCAAAGTGGAAGCTATGAGAAAGCTTTGGGGGTGTTTTTGGAAATGCGTCGGGCGGGTTTCAGAGCTAATCAGTTTGGGTATGGGAGTGCATTGAGGTCATGCACTGGTTTGAGGTCTTTGGAAGTAGGAATGCAGATACAGGGGTGTGTTGTGAAAGGAAGGTTTGCTGAGAATTTGTTTGTGCTGAGTGCATTAGTTGATTTTCATGCCAAGTGTGGAAAGATAGAGGATGCTTGTTGTGTTTTCGAGGCAATGTCGGAAAGGGACTTGGTTTCTTGGAATGCAATCATCGGAGGGTATGCTGTTCAGGGTTTTAGTGACGACTCGTTGCGAATGTTTCGGTCAATGATGAGGGAAGGTGAATGTTTATGCTTTTGGTTAAATTTTCAGTGTTTGGTAGTCTTGTCGTTGTGCTCTTCTTTGTGTTTGTTTGATGTTTGA

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 peroxidase

Protein Analysis

251

Amino Acids

28.38

Weight (kDa)

8.68

Isoelectric Point (pI)

48.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	92 - 139	2.1e-08	PPR repeat family
PPR	PF01535	95 - 125	2.2e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0005777)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G20730
fragaria_vesca	FvH4_3g15060 FvH4_3g15060
malus_domestica	MD05G1227700.v1.1 MD10G1208100.v1.1 MD10G1208200.v1.1
prunus_persica	Prupe.4G134800_v2.0.a1
pyrus_communis	pycom05g20980 pycom05g20990 pycom10g17710
rosa_chinensis	RchiOBHm_Chr5g0024821 RchiOBHm_Chr5g0024861
rosa_laevigata	RLG00000032817
rosa_multiflora	Rmu_co8198802.1_g000001 Rmu_co8370541.1_g000001 Rmu_sc0009744.1_g000006 Rmu_sc0009744.1_g000007
rosa_roxburghii	Rroxscaffold_1G00054560
rosa_rugosa	Rorug05G0084700.1
rosa_samantha	Rh5AG176500 Rh5AG176600 Rh5BG174200 Rh5CG191200 Rh5CG191300 Rh5CG191500 Rh5DG175800 Rh5DG176000
rosa_wichuraiana	Rw5G016000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	234
AciI	CCGC	2 cut(s)	232, 368
AcoI	YGGCCR	1 cut(s)	229
AcsI	RAATTY	3 cut(s)	190, 487, 697
AgsI	TTSAA	3 cut(s)	32, 183, 196
AleI	CACNNNNGTG	1 cut(s)	158
AluBI	AGCT	4 cut(s)	38, 327, 338, 380
AluI	AGCT	4 cut(s)	38, 327, 338, 380
Alw21I	GWGCWC	2 cut(s)	247, 731
Alw26I	GTCTC	1 cut(s)	37
AoxI	GGCC	1 cut(s)	229
ApoI	RAATTY	3 cut(s)	190, 487, 697
AspS9I	GGNCC	1 cut(s)	73
AsuC2I	CCSGG	1 cut(s)	138
AsuHPI	GGTGA	2 cut(s)	17, 686
AvaII	GGWCC	1 cut(s)	73
BaeI	ACNNNNGTAYC	2 cut(s)	443, 476
Bbv12I	GWGCWC	2 cut(s)	247, 731
BcgI	CGANNNNNNTGC	2 cut(s)	238, 272
BclI	TGATCA	2 cut(s)	162, 207
BcnI	CCSGG	1 cut(s)	138
BcoDI	GTCTC	1 cut(s)	37
BisI	GCNGC	1 cut(s)	232
BlsI	GCNGC	1 cut(s)	233
Bme1390I	CCNGG	1 cut(s)	138
Bme18I	GGWCC	1 cut(s)	73
BmgT120I	GGNCC	1 cut(s)	73
BmrFI	CCNGG	1 cut(s)	138
BmsI	GCATC	2 cut(s)	123, 535
BpuMI	CCSGG	1 cut(s)	138
Bsa29I	ATCGAT	1 cut(s)	117
Bse1I	ACTGG	1 cut(s)	424
Bse3DI	GCAATG	1 cut(s)	573
BseCI	ATCGAT	1 cut(s)	117
BseGI	GGATG	1 cut(s)	550
BseMI	GCAATG	1 cut(s)	573
BseMII	CTCAG	3 cut(s)	261, 474, 491
BseNI	ACTGG	1 cut(s)	424
Bsh1236I	CGCG	1 cut(s)	234
BshFI	GGCC	1 cut(s)	231
BshVI	ATCGAT	1 cut(s)	117
BsiHKAI	GWGCWC	2 cut(s)	247, 731
BsiSI	CCGG	1 cut(s)	138
BslFI	GGGAC	1 cut(s)	593
BsmAI	GTCTC	1 cut(s)	37
BsmFI	GGGAC	1 cut(s)	593
BsmI	GAATGC	2 cut(s)	450, 601
BsnI	GGCC	1 cut(s)	231
Bsp1286I	GDGCHC	2 cut(s)	247, 731
Bsp143I	GATC	3 cut(s)	118, 162, 207
BspACI	CCGC	2 cut(s)	232, 368
BspANI	GGCC	1 cut(s)	231
BspCNI	CTCAG	3 cut(s)	262, 475, 492
BspDI	ATCGAT	1 cut(s)	117
BspFNI	CGCG	1 cut(s)	234
BspQI	GCTCTTC	1 cut(s)	736
BsrDI	GCAATG	1 cut(s)	573
BsrI	ACTGG	1 cut(s)	424
BssMI	GATC	3 cut(s)	118, 162, 207
Bst6I	CTCTTC	1 cut(s)	736
BstC8I	GCNNGC	2 cut(s)	6, 247
BstDEI	CTNAG	3 cut(s)	270, 483, 500
BstF5I	GGATG	1 cut(s)	550
BstFNI	CGCG	1 cut(s)	234
BstKTI	GATC	3 cut(s)	121, 165, 210
BstMAI	GTCTC	1 cut(s)	37
BstMBI	GATC	3 cut(s)	118, 162, 207
BstMWI	GCNNNNNNNGC	1 cut(s)	228
BstSCI	CCNGG	1 cut(s)	136
BstUI	CGCG	1 cut(s)	234
Bsu15I	ATCGAT	1 cut(s)	117
BsuRI	GGCC	1 cut(s)	231
BsuTUI	ATCGAT	1 cut(s)	117
BtsCI	GGATG	1 cut(s)	550
BtsIMutI	CAGTG	2 cut(s)	417, 710
Cac8I	GCNNGC	2 cut(s)	6, 247
Cfr13I	GGNCC	1 cut(s)	73
ClaI	ATCGAT	1 cut(s)	117
CseI	GACGC	1 cut(s)	350
CspCI	CAANNNNNGTGG	1 cut(s)	28
CviAII	CATG	3 cut(s)	158, 414, 521
CviJI	RGCY	6 cut(s)	38, 149, 231, 327, 338, 380
CviKI_1	RGCY	6 cut(s)	38, 149, 231, 327, 338, 380
DdeI	CTNAG	3 cut(s)	270, 483, 500
DpnI	GATC	3 cut(s)	120, 164, 209
DpnII	GATC	3 cut(s)	118, 162, 207
EaeI	YGGCCR	1 cut(s)	229
Eam1104I	CTCTTC	1 cut(s)	736
EarI	CTCTTC	1 cut(s)	736
Eco47I	GGWCC	1 cut(s)	73
FaeI	CATG	3 cut(s)	161, 417, 524
FaqI	GGGAC	1 cut(s)	593
FatI	CATG	3 cut(s)	157, 413, 520
FauI	CCCGC	1 cut(s)	361
FbaI	TGATCA	2 cut(s)	162, 207
Fnu4HI	GCNGC	1 cut(s)	232
FokI	GGATG	1 cut(s)	557
Fsp4HI	GCNGC	1 cut(s)	232
GluI	GCNGC	1 cut(s)	232
HaeIII	GGCC	1 cut(s)	231
HapII	CCGG	1 cut(s)	138
HgaI	GACGC	1 cut(s)	350
Hin1II	CATG	3 cut(s)	161, 417, 524
HindIII	AAGCTT	1 cut(s)	336
HinfI	GANTC	3 cut(s)	22, 100, 638
HpaII	CCGG	1 cut(s)	138
HphI	GGTGA	2 cut(s)	17, 686
Hpy188I	TCNGA	5 cut(s)	42, 189, 377, 574, 608
Hpy188III	TCNNGA	1 cut(s)	32
Hpy99I	CGWCG	1 cut(s)	366
HpyAV	CCTTC	3 cut(s)	38, 468, 665
HpyCH4V	TGCA	9 cut(s)	4, 106, 114, 222, 404, 417, 448, 506, 599
HpyF10VI	GCNNNNNNNGC	1 cut(s)	228
HpyF3I	CTNAG	3 cut(s)	270, 483, 500
Hsp92II	CATG	3 cut(s)	161, 417, 524
Ksp22I	TGATCA	2 cut(s)	162, 207
Kzo9I	GATC	3 cut(s)	118, 162, 207
LguI	GCTCTTC	1 cut(s)	736
LmnI	GCTCC	1 cut(s)	43
LpnPI	CCDG	6 cut(s)	151, 282, 291, 405, 440, 608
LweI	GCATC	2 cut(s)	123, 535
MaeIII	GTNAC	2 cut(s)	23, 632
MalI	GATC	3 cut(s)	120, 164, 209
MboI	GATC	3 cut(s)	118, 162, 207
MboII	GAAGA	2 cut(s)	109, 723
MhlI	GDGCHC	2 cut(s)	247, 731
MluCI	AATT	4 cut(s)	190, 203, 487, 697
MlyI	GAGTC	2 cut(s)	31, 632
MmeI	TCCRAC	1 cut(s)	552
MnlI	CCTC	6 cut(s)	402, 420, 535, 556, 602, 660
MseI	TTAA	1 cut(s)	695
MslI	CAYNNNNRTG	2 cut(s)	156, 158
MspI	CCGG	1 cut(s)	138
MspR9I	CCNGG	1 cut(s)	138
Mva1269I	GAATGC	2 cut(s)	450, 601
MvnI	CGCG	1 cut(s)	234
MwoI	GCNNNNNNNGC	1 cut(s)	228
NciI	CCSGG	1 cut(s)	138
NdeII	GATC	3 cut(s)	118, 162, 207
NlaIII	CATG	3 cut(s)	161, 417, 524
NmuCI	GTSAC	2 cut(s)	23, 632
OliI	CACNNNNGTG	1 cut(s)	158
PciSI	GCTCTTC	1 cut(s)	736
PctI	GAATGC	2 cut(s)	450, 601
PfeI	GAWTC	1 cut(s)	100
PflFI	GACNNNGTC	1 cut(s)	138
PkrI	GCNGC	1 cut(s)	233
PleI	GAGTC	2 cut(s)	30, 632
PpsI	GAGTC	2 cut(s)	30, 632
PspPI	GGNCC	1 cut(s)	73
PsyI	GACNNNGTC	1 cut(s)	138
RseI	CAYNNNNRTG	2 cut(s)	156, 158
SapI	GCTCTTC	1 cut(s)	736
SaqAI	TTAA	1 cut(s)	695
SatI	GCNGC	1 cut(s)	232
Sau3AI	GATC	3 cut(s)	118, 162, 207
Sau96I	GGNCC	1 cut(s)	73
SchI	GAGTC	2 cut(s)	31, 632
ScrFI	CCNGG	1 cut(s)	138
SduI	GDGCHC	2 cut(s)	247, 731
SfaNI	GCATC	2 cut(s)	123, 535
SinI	GGWCC	1 cut(s)	73
SmiMI	CAYNNNNRTG	2 cut(s)	156, 158
Sse9I	AATT	4 cut(s)	190, 203, 487, 697
SsiI	CCGC	2 cut(s)	232, 368
StyD4I	CCNGG	1 cut(s)	136
TaqI	TCGA	3 cut(s)	117, 258, 561
TaqII	GACCGA	1 cut(s)	645
TasI	AATT	4 cut(s)	190, 203, 487, 697
TauI	GCSGC	1 cut(s)	234
TfiI	GAWTC	1 cut(s)	100
Tru1I	TTAA	1 cut(s)	695
Tru9I	TTAA	1 cut(s)	695
TscAI	CASTG	2 cut(s)	424, 710
TseFI	GTSAC	2 cut(s)	23, 632
Tsp45I	GTSAC	2 cut(s)	23, 632
TspDTI	ATGAA	2 cut(s)	110, 509
TspRI	CASTG	2 cut(s)	424, 710
Tth111I	GACNNNGTC	1 cut(s)	138
VpaK11BI	GGWCC	1 cut(s)	73
XapI	RAATTY	3 cut(s)	190, 487, 697

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