Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0005755

Physical Location & Seq

Genomic Coordinates Reverse (-)

55874576 .. 55874998

Gene Structure 423 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG409100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGGATGATGTGGCTGCATACGGAGTGGTGATCTCAGGCCTCTGTAAGAATGGTCAGTTAGATAAAGCAATGCGGGATGGAGGGGTTAGTCTTGATGTGGCTGCATACGGAGCGGTGATCTCAGGCCTCTATAAGATGTTGTTGACGACCATTATGGATGCATGTTTCAAAGCTGGGAATTTAAAAGCAGCTTCAGGTTTCTACAGAGAATTGTTCGCTAAGGGTTTTGAACCAGATGCTGTGGTGCTTTCAGCTTTGATGGATGGCTTACGCAAGCATATGGGCATTTGGAGGAGGCAAGAGGCTACTTTTGCAAGAAAAAGGCTAATGAATTTCATATACTGTGCTCATTGA

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 PPR_long

Protein Analysis

117

Amino Acids

12.8

Weight (kDa)

9.07

Isoelectric Point (pI)

22.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	49 - 91	7.6e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0005755)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G01740
prunus_persica	Prupe.1G333800_v2.0.a1 Prupe.1G333800_v2.0.a1 Prupe.1G333800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0123271 RchiOBHm_Chr4g0442881 RchiOBHm_Chr4g0442961 RchiOBHm_Chr4g0443001
rosa_laevigata	RLG00000005963 RLG00000005969 RLG00000005972 RLG00000005974 RLG00000010013
rosa_multiflora	Rmu_sc0001917.1_g000006 Rmu_sc0005806.1_g000015 Rmu_sc0007295.1_g000001 Rmu_sc0014119.1_g000001 Rmu_ssc0000204.1_g000003 Rmu_ssc0000204.1_g000010
rosa_roxburghii	Rroxscaffold_5G00383640
rosa_samantha	Rh2BG311500 Rh4AG397900 Rh4BG409100 Rh4BG409400 Rh4CG424900 Rh4DG403700 Rh4DG404200
rosa_wichuraiana	Rw4G034270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	113
AciI	CCGC	2 cut(s)	73, 113
AcsI	RAATTY	2 cut(s)	178, 331
AcuI	CTGAAG	1 cut(s)	177
AgsI	TTSAA	2 cut(s)	169, 230
AluBI	AGCT	3 cut(s)	173, 191, 254
AluI	AGCT	3 cut(s)	173, 191, 254
Alw21I	GWGCWC	1 cut(s)	349
AlwNI	CAGNNNCTG	1 cut(s)	239
AoxI	GGCC	2 cut(s)	37, 124
ApeKI	GCWGC	3 cut(s)	14, 101, 188
ApoI	RAATTY	2 cut(s)	178, 331
AsuHPI	GGTGA	2 cut(s)	40, 127
Bbv12I	GWGCWC	1 cut(s)	349
BbvI	GCAGC	2 cut(s)	88, 200
BccI	CCATC	3 cut(s)	71, 253, 257
BfmI	CTRYAG	1 cut(s)	202
BisI	GCNGC	3 cut(s)	15, 102, 189
BlsI	GCNGC	3 cut(s)	16, 103, 190
BmsI	GCATC	2 cut(s)	148, 226
Bpu10I	CCTNAGC	1 cut(s)	219
Bse3DI	GCAATG	1 cut(s)	75
BseGI	GGATG	4 cut(s)	10, 82, 163, 268
BseMI	GCAATG	1 cut(s)	75
BseMII	CTCAG	2 cut(s)	48, 135
BseRI	GAGGAG	1 cut(s)	307
BseXI	GCAGC	2 cut(s)	88, 200
BseYI	CCCAGC	1 cut(s)	173
BshFI	GGCC	2 cut(s)	39, 126
BsiHKAI	GWGCWC	1 cut(s)	349
BsnI	GGCC	2 cut(s)	39, 126
Bsp1286I	GDGCHC	1 cut(s)	349
Bsp143I	GATC	2 cut(s)	30, 117
BspACI	CCGC	2 cut(s)	73, 113
BspANI	GGCC	2 cut(s)	39, 126
BspCNI	CTCAG	2 cut(s)	47, 134
BsrBI	CCGCTC	1 cut(s)	113
BsrDI	GCAATG	1 cut(s)	75
BssMI	GATC	2 cut(s)	30, 117
Bst4CI	ACNGT	1 cut(s)	344
BstC8I	GCNNGC	1 cut(s)	275
BstDEI	CTNAG	3 cut(s)	34, 121, 219
BstF5I	GGATG	4 cut(s)	10, 82, 163, 268
BstKTI	GATC	2 cut(s)	33, 120
BstMBI	GATC	2 cut(s)	30, 117
BstMWI	GCNNNNNNNGC	2 cut(s)	110, 311
BstNSI	RCATGY	1 cut(s)	165
BstSFI	CTRYAG	1 cut(s)	202
BstV1I	GCAGC	2 cut(s)	88, 200
BsuRI	GGCC	2 cut(s)	39, 126
BtsCI	GGATG	4 cut(s)	10, 82, 163, 268
Cac8I	GCNNGC	1 cut(s)	275
CaiI	CAGNNNCTG	1 cut(s)	239
CviAII	CATG	1 cut(s)	162
DdeI	CTNAG	3 cut(s)	34, 121, 219
DpnI	GATC	2 cut(s)	32, 119
DpnII	GATC	2 cut(s)	30, 117
DraI	TTTAAA	1 cut(s)	183
Eco147I	AGGCCT	2 cut(s)	39, 126
Eco57I	CTGAAG	1 cut(s)	177
EcoT22I	ATGCAT	1 cut(s)	163
FaeI	CATG	1 cut(s)	165
FaiI	YATR	9 cut(s)	19, 106, 132, 155, 163, 279, 281, 338, 340
FatI	CATG	1 cut(s)	161
FauI	CCCGC	1 cut(s)	66
FauNDI	CATATG	1 cut(s)	279
Fnu4HI	GCNGC	3 cut(s)	15, 102, 189
FokI	GGATG	4 cut(s)	17, 89, 170, 275
Fsp4HI	GCNGC	3 cut(s)	15, 102, 189
GluI	GCNGC	3 cut(s)	15, 102, 189
GsaI	CCCAGC	1 cut(s)	177
HaeIII	GGCC	2 cut(s)	39, 126
Hin1II	CATG	1 cut(s)	165
HincII	GTYRAC	1 cut(s)	144
HindII	GTYRAC	1 cut(s)	144
HphI	GGTGA	2 cut(s)	40, 127
Hpy166II	GTNNAC	1 cut(s)	144
Hpy188III	TCNNGA	1 cut(s)	92
Hpy8I	GTNNAC	1 cut(s)	144
HpyCH4III	ACNGT	1 cut(s)	344
HpyCH4V	TGCA	4 cut(s)	17, 104, 161, 314
HpyF10VI	GCNNNNNNNGC	2 cut(s)	110, 311
HpyF3I	CTNAG	3 cut(s)	34, 121, 219
Hsp92II	CATG	1 cut(s)	165
Kzo9I	GATC	2 cut(s)	30, 117
LmnI	GCTCC	1 cut(s)	110
LpnPI	CCDG	5 cut(s)	21, 108, 159, 180, 246
Lsp1109I	GCAGC	2 cut(s)	88, 200
LweI	GCATC	2 cut(s)	148, 226
MalI	GATC	2 cut(s)	32, 119
MbiI	CCGCTC	1 cut(s)	113
MboI	GATC	2 cut(s)	30, 117
MhlI	GDGCHC	1 cut(s)	349
MluCI	AATT	3 cut(s)	178, 209, 331
MnlI	CCTC	6 cut(s)	50, 74, 137, 285, 288, 295
Mph1103I	ATGCAT	1 cut(s)	163
MseI	TTAA	1 cut(s)	182
MwoI	GCNNNNNNNGC	2 cut(s)	110, 311
NdeI	CATATG	1 cut(s)	279
NdeII	GATC	2 cut(s)	30, 117
NlaIII	CATG	1 cut(s)	165
NsiI	ATGCAT	1 cut(s)	163
NspI	RCATGY	1 cut(s)	165
PceI	AGGCCT	2 cut(s)	39, 126
PkrI	GCNGC	3 cut(s)	16, 103, 190
PspFI	CCCAGC	1 cut(s)	173
PstNI	CAGNNNCTG	1 cut(s)	239
SaqAI	TTAA	1 cut(s)	182
SatI	GCNGC	3 cut(s)	15, 102, 189
Sau3AI	GATC	2 cut(s)	30, 117
SduI	GDGCHC	1 cut(s)	349
SetI	ASST	4 cut(s)	175, 193, 199, 256
SfaNI	GCATC	2 cut(s)	148, 226
SfcI	CTRYAG	1 cut(s)	202
Sse9I	AATT	3 cut(s)	178, 209, 331
SseBI	AGGCCT	2 cut(s)	39, 126
SsiI	CCGC	2 cut(s)	73, 113
StuI	AGGCCT	2 cut(s)	39, 126
TaaI	ACNGT	1 cut(s)	344
TasI	AATT	3 cut(s)	178, 209, 331
Tru1I	TTAA	1 cut(s)	182
Tru9I	TTAA	1 cut(s)	182
TseI	GCWGC	3 cut(s)	14, 101, 188
TspDTI	ATGAA	2 cut(s)	325, 344
TspGWI	ACGGA	2 cut(s)	36, 123
XapI	RAATTY	2 cut(s)	178, 331
XceI	RCATGY	1 cut(s)	165
Zsp2I	ATGCAT	1 cut(s)	163

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