Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002968

Physical Location & Seq

Genomic Coordinates Forward (+)

35779170 .. 35779646

Gene Structure 477 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG327400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 477 bp

ATGATGAAGATGCTGGGTAAGGGTATTGACCCAACTCCCGTCACATACAGGACGATCATCCACTGGTATTGTAACATGAATAGGGTGGATGATTTGTTAAAATTATTGGAGAAGATGTTCTTGAGGCAACGTTGCAAAACAACATATAATCAAGTGATTGAGAAGCTTTGTAGTTTTGGGAACTTTGAGGCTGCTGATAAACTATTGGGTAAGGTGTTGAGAACAGCTTCAAGAGTTGATGCTAAAACATGCCATGTTGTTATGGATGGTTATTTGAGAAAAGAGGTTCCTCTATTAGCATACAAAGTGGCTTGTCGAATGTTCAATCGGAATCTGATTCCTTATTTAAAGTTGTGTCAGAAGGTGACCAAGAGATTGATGCTAGAAGGATACTCCAAAGAGGCAGACAACCTTATGTTACGGTTTGTTGAGCGTGGATGCATATCAAACCAACTTCAGGAACATCTGGAAAGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 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:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 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

Protein Analysis

158

Amino Acids

18.5

Weight (kDa)

9.45

Isoelectric Point (pI)

20.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	7 - 39	7.4e-08	PPR repeat

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: OG0002968)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G30290 AT1G30290
fragaria_vesca	FvH4_3g05050 FvH4_3g05050 FvH4_3g05050 FvH4_3g05050 FvH4_3g05050 FvH4_3g05050 FvH4_3g05050 FvH4_3g05050
malus_domestica	MD10G1258300.v1.1
prunus_persica	Prupe.4G085500_v2.0.a1 Prupe.4G085500_v2.0.a1
pyrus_communis	pycom05g26000 pycom10g21460
rosa_chinensis	RchiOBHm_Chr3g0490541 RchiOBHm_Chr3g0490551 RchiOBHm_Chr5g0014911
rosa_laevigata	RLG00000022885 RLG00000032150
rosa_multiflora	Rmu_sc0003862.1_g000007 Rmu_sc0013610.1_g000002
rosa_roxburghii	Rroxscaffold_1G00061660 Rroxscaffold_6G00393420
rosa_rugosa	Rorug03G0243900 Rorug05G0021400
rosa_samantha	Rh3AG293300 Rh3AG293400 Rh3BG329800 Rh3CG327300 Rh3CG327400 Rh3DG326700 Rh5AG117100 Rh5BG114100 Rh5CG125600 Rh5DG113500
rosa_wichuraiana	Rw3G025970 Rw5G010080

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclI	AACGTT	1 cut(s)	130
AcuI	CTGAAG	1 cut(s)	440
AfiI	CCNNNNNNNGG	1 cut(s)	457
AgsI	TTSAA	2 cut(s)	231, 325
AloI	GAACNNNNNNTCC	2 cut(s)	101, 133
AluBI	AGCT	3 cut(s)	166, 227, 474
AluI	AGCT	3 cut(s)	166, 227, 474
ApeKI	GCWGC	1 cut(s)	191
Asp700I	GAANNNNTTC	2 cut(s)	116, 226
AsuHPI	GGTGA	1 cut(s)	376
BbvI	GCAGC	1 cut(s)	178
BccI	CCATC	1 cut(s)	260
BciVI	GTATCC	1 cut(s)	383
BfaI	CTAG	2 cut(s)	383, 475
BfuI	GTATCC	1 cut(s)	383
BisI	GCNGC	1 cut(s)	192
BlsI	GCNGC	1 cut(s)	193
BmiI	GGNNCC	1 cut(s)	288
BmsI	GCATC	3 cut(s)	229, 369, 428
BpuEI	CTTGAG	1 cut(s)	142
BsaBI	GATNNNNATC	1 cut(s)	442
BsaXI	ACNNNNNCTCC	2 cut(s)	101, 131
Bsc4I	CCNNNNNNNGG	1 cut(s)	457
Bse1I	ACTGG	1 cut(s)	68
Bse8I	GATNNNNATC	1 cut(s)	442
BseGI	GGATG	4 cut(s)	57, 94, 271, 443
BseJI	GATNNNNATC	1 cut(s)	442
BseLI	CCNNNNNNNGG	1 cut(s)	457
BseNI	ACTGG	1 cut(s)	68
BseXI	GCAGC	1 cut(s)	178
BseYI	CCCAGC	1 cut(s)	13
BslI	CCNNNNNNNGG	1 cut(s)	457
Bsp143I	GATC	1 cut(s)	54
BspLI	GGNNCC	1 cut(s)	288
BsrI	ACTGG	1 cut(s)	68
BssMI	GATC	1 cut(s)	54
Bst4CI	ACNGT	1 cut(s)	423
BstEII	GGTNACC	1 cut(s)	364
BstF5I	GGATG	4 cut(s)	57, 94, 271, 443
BstKTI	GATC	1 cut(s)	57
BstMBI	GATC	1 cut(s)	54
BstNSI	RCATGY	1 cut(s)	252
BstPI	GGTNACC	1 cut(s)	364
BstV1I	GCAGC	1 cut(s)	178
BsuI	GTATCC	1 cut(s)	383
BtsCI	GGATG	4 cut(s)	57, 94, 271, 443
BtsIMutI	CAGTG	1 cut(s)	61
CspCI	CAANNNNNGTGG	2 cut(s)	50, 85
CviAII	CATG	3 cut(s)	76, 249, 254
CviJI	RGCY	5 cut(s)	166, 191, 227, 311, 474
CviKI_1	RGCY	5 cut(s)	166, 191, 227, 311, 474
DpnI	GATC	1 cut(s)	56
DpnII	GATC	1 cut(s)	54
DraI	TTTAAA	1 cut(s)	348
Eco57I	CTGAAG	1 cut(s)	440
Eco91I	GGTNACC	1 cut(s)	364
EcoO65I	GGTNACC	1 cut(s)	364
EcoT22I	ATGCAT	1 cut(s)	443
FaeI	CATG	3 cut(s)	79, 252, 257
FalI	AAGNNNNNCTT	2 cut(s)	104, 136
FatI	CATG	3 cut(s)	75, 248, 253
Fnu4HI	GCNGC	1 cut(s)	192
FokI	GGATG	4 cut(s)	44, 101, 278, 450
Fsp4HI	GCNGC	1 cut(s)	192
FspBI	CTAG	2 cut(s)	383, 475
GluI	GCNGC	1 cut(s)	192
GsaI	CCCAGC	1 cut(s)	17
Hin1II	CATG	3 cut(s)	79, 252, 257
HindIII	AAGCTT	1 cut(s)	164
HinfI	GANTC	2 cut(s)	331, 337
HphI	GGTGA	1 cut(s)	376
Hpy188I	TCNGA	3 cut(s)	330, 336, 360
Hpy188III	TCNNGA	4 cut(s)	121, 231, 458, 467
HpyAV	CCTTC	2 cut(s)	355, 380
HpyCH4III	ACNGT	1 cut(s)	423
HpyCH4IV	ACGT	1 cut(s)	130
HpyCH4V	TGCA	2 cut(s)	135, 441
HpySE526I	ACGT	1 cut(s)	130
Hsp92II	CATG	3 cut(s)	79, 252, 257
Kzo9I	GATC	1 cut(s)	54
LpnPI	CCDG	4 cut(s)	34, 49, 443, 452
Lsp1109I	GCAGC	1 cut(s)	178
LweI	GCATC	3 cut(s)	229, 369, 428
MaeI	CTAG	2 cut(s)	383, 475
MaeII	ACGT	1 cut(s)	130
MaeIII	GTNAC	4 cut(s)	40, 71, 364, 417
MalI	GATC	1 cut(s)	56
MboI	GATC	1 cut(s)	54
MboII	GAAGA	2 cut(s)	19, 124
MluCI	AATT	1 cut(s)	101
MnlI	CCTC	5 cut(s)	117, 181, 277, 300, 394
Mph1103I	ATGCAT	1 cut(s)	443
MroXI	GAANNNNTTC	2 cut(s)	116, 226
MseI	TTAA	2 cut(s)	98, 347
NdeII	GATC	1 cut(s)	54
NlaIII	CATG	3 cut(s)	79, 252, 257
NlaIV	GGNNCC	1 cut(s)	288
NmuCI	GTSAC	2 cut(s)	40, 364
NsiI	ATGCAT	1 cut(s)	443
NspI	RCATGY	1 cut(s)	252
PdmI	GAANNNNTTC	2 cut(s)	116, 226
PfeI	GAWTC	2 cut(s)	331, 337
PkrI	GCNGC	1 cut(s)	193
Psp1406I	AACGTT	1 cut(s)	130
PspEI	GGTNACC	1 cut(s)	364
PspFI	CCCAGC	1 cut(s)	13
PspN4I	GGNNCC	1 cut(s)	288
SaqAI	TTAA	2 cut(s)	98, 347
SatI	GCNGC	1 cut(s)	192
Sau3AI	GATC	1 cut(s)	54
SetI	ASST	8 cut(s)	133, 168, 216, 229, 288, 366, 414, 476
SfaNI	GCATC	3 cut(s)	229, 369, 428
SmlI	CTYRAG	1 cut(s)	121
SmoI	CTYRAG	1 cut(s)	121
Sse9I	AATT	1 cut(s)	101
SspMI	CTAG	2 cut(s)	383, 475
TaaI	ACNGT	1 cut(s)	423
TaiI	ACGT	1 cut(s)	133
TaqI	TCGA	1 cut(s)	316
TasI	AATT	1 cut(s)	101
TfiI	GAWTC	2 cut(s)	331, 337
Tru1I	TTAA	2 cut(s)	98, 347
Tru9I	TTAA	2 cut(s)	98, 347
TscAI	CASTG	1 cut(s)	68
TseFI	GTSAC	2 cut(s)	40, 364
TseI	GCWGC	1 cut(s)	191
Tsp45I	GTSAC	2 cut(s)	40, 364
TspDTI	ATGAA	2 cut(s)	20, 92
TspRI	CASTG	1 cut(s)	68
XceI	RCATGY	1 cut(s)	252
XmnI	GAANNNNTTC	2 cut(s)	116, 226
XspI	CTAG	2 cut(s)	383, 475
Zsp2I	ATGCAT	1 cut(s)	443

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