Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0004368

Physical Location & Seq

Genomic Coordinates Forward (+)

49165043 .. 49165417

Gene Structure 375 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG265400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 375 bp

ATGTCAAGCAAACCTGATCCAAGTACATTTGGAGCATTCATAGGGGCTTGTAAAGTCAATGGAACTGTAGGATTAGCAAAATGGGCTGAAGAAAAGCTTTTTAGATTAGAACCAAACAAACCTGTGAATTGTACTCTCATGTCTAACATCTATTCTACTGAAGGTCATTGGGCTGATATTGCAAGGGTACGCCAAATGATGAGGTACAGTTGTGATCAGAAAGCTCCAGGTTGTAGCTGGCTGGAGGTAGGCGGCGACATTCATACGTTTGTATCAGGTGATGAGTCCCACCCACAAGCATCACAGGTGTATGTTATGCTAGGGATGTTGCTCAGGGTGATGAAGGAGATCGAACTGGAGAAGAATTATATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 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:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

124

Amino Acids

13.89

Weight (kDa)

6.28

Isoelectric Point (pI)

51.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
E_motif	PF20431	24 - 82	7.1e-17	E motif

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: OG0004368)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G46050
fragaria_vesca	FvH4_7g14820
malus_domestica	MD01G1066700.v1.1 MD11G1207600.v1.1
pyrus_communis	pycom01g09600 pycom01g22640 pycom17g24510
rosa_chinensis	RchiOBHm_Chr1g0356771 RchiOBHm_Chr1g0356781 RchiOBHm_Chr1g0375691 RchiOBHm_Chr2g0089631 RchiOBHm_Chr4g0418871
rosa_laevigata	RLG00000011901 RLG00000028084
rosa_multiflora	Rmu_co8104928.1_g000001 Rmu_co8368077.1_g000001 Rmu_sc0000517.1_g000030 Rmu_sc0000935.1_g000021 Rmu_sc0002219.1_g000014 Rmu_sc0005718.1_g000009
rosa_roxburghii	Rroxscaffold_4G00299370
rosa_rugosa	Rorug01G0251100
rosa_samantha	Rh1AG265300 Rh1AG265400 Rh1BG232700 Rh1BG232800 Rh1CG248800 Rh1CG248900 Rh1DG260300 Rh4BG214000 Rh6AG008500
rosa_wichuraiana	Rw4G018520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	252
AclWI	GGATC	1 cut(s)	11
AcuI	CTGAAG	2 cut(s)	108, 180
AfaI	GTAC	4 cut(s)	25, 133, 189, 206
AjnI	CCWGG	1 cut(s)	226
AluBI	AGCT	3 cut(s)	97, 224, 237
AluI	AGCT	3 cut(s)	97, 224, 237
AlwI	GGATC	1 cut(s)	11
AsuHPI	GGTGA	2 cut(s)	290, 349
BaeI	ACNNNNGTAYC	4 cut(s)	196, 229, 255, 288
BciT130I	CCWGG	1 cut(s)	228
BclI	TGATCA	1 cut(s)	214
BfaI	CTAG	1 cut(s)	320
BfmI	CTRYAG	1 cut(s)	66
BisI	GCNGC	1 cut(s)	253
BlsI	GCNGC	1 cut(s)	254
Bme1390I	CCNGG	1 cut(s)	228
BmrFI	CCNGG	1 cut(s)	228
BmsI	GCATC	1 cut(s)	308
BpmI	CTGGAG	2 cut(s)	210, 263
Bpu10I	CCTNAGC	1 cut(s)	332
Bse1I	ACTGG	1 cut(s)	360
BseBI	CCWGG	1 cut(s)	228
BseGI	GGATG	1 cut(s)	330
BseMII	CTCAG	1 cut(s)	346
BseNI	ACTGG	1 cut(s)	360
BslFI	GGGAC	1 cut(s)	271
BsmFI	GGGAC	1 cut(s)	271
BsmI	GAATGC	1 cut(s)	35
Bsp143I	GATC	3 cut(s)	16, 214, 348
BspACI	CCGC	1 cut(s)	252
BspCNI	CTCAG	1 cut(s)	345
BspPI	GGATC	1 cut(s)	11
BsrI	ACTGG	1 cut(s)	360
BssMI	GATC	3 cut(s)	16, 214, 348
Bst2UI	CCWGG	1 cut(s)	228
Bst4CI	ACNGT	2 cut(s)	67, 209
BstC8I	GCNNGC	1 cut(s)	239
BstDEI	CTNAG	1 cut(s)	332
BstF5I	GGATG	1 cut(s)	330
BstKTI	GATC	3 cut(s)	19, 217, 351
BstMBI	GATC	3 cut(s)	16, 214, 348
BstMWI	GCNNNNNNNGC	2 cut(s)	83, 179
BstNI	CCWGG	1 cut(s)	228
BstSCI	CCNGG	1 cut(s)	226
BstSFI	CTRYAG	1 cut(s)	66
BtsCI	GGATG	1 cut(s)	330
Cac8I	GCNNGC	1 cut(s)	239
Csp6I	GTAC	4 cut(s)	24, 132, 188, 205
CviAII	CATG	1 cut(s)	139
CviJI	RGCY	7 cut(s)	47, 86, 97, 173, 224, 237, 241
CviKI_1	RGCY	7 cut(s)	47, 86, 97, 173, 224, 237, 241
CviQI	GTAC	4 cut(s)	24, 132, 188, 205
DdeI	CTNAG	1 cut(s)	332
DpnI	GATC	3 cut(s)	18, 216, 350
DpnII	GATC	3 cut(s)	16, 214, 348
Eco57I	CTGAAG	2 cut(s)	108, 180
EcoRII	CCWGG	1 cut(s)	226
FaeI	CATG	1 cut(s)	142
FaiI	YATR	7 cut(s)	41, 140, 264, 312, 317, 369, 371
FalI	AAGNNNNNCTT	2 cut(s)	81, 113
FaqI	GGGAC	1 cut(s)	271
FatI	CATG	1 cut(s)	138
FbaI	TGATCA	1 cut(s)	214
Fnu4HI	GCNGC	1 cut(s)	253
FokI	GGATG	1 cut(s)	337
Fsp4HI	GCNGC	1 cut(s)	253
FspBI	CTAG	1 cut(s)	320
GluI	GCNGC	1 cut(s)	253
GsuI	CTGGAG	2 cut(s)	210, 263
Hin1II	CATG	1 cut(s)	142
HindIII	AAGCTT	1 cut(s)	95
HinfI	GANTC	1 cut(s)	284
HphI	GGTGA	2 cut(s)	290, 349
Hpy188I	TCNGA	1 cut(s)	219
HpyAV	CCTTC	2 cut(s)	155, 337
HpyCH4III	ACNGT	2 cut(s)	67, 209
HpyCH4IV	ACGT	1 cut(s)	266
HpyCH4V	TGCA	1 cut(s)	182
HpyF10VI	GCNNNNNNNGC	2 cut(s)	83, 179
HpyF3I	CTNAG	1 cut(s)	332
HpySE526I	ACGT	1 cut(s)	266
Hsp92II	CATG	1 cut(s)	142
Ksp22I	TGATCA	1 cut(s)	214
Kzo9I	GATC	3 cut(s)	16, 214, 348
LmnI	GCTCC	2 cut(s)	32, 229
LweI	GCATC	1 cut(s)	308
MaeI	CTAG	1 cut(s)	320
MaeII	ACGT	1 cut(s)	266
MalI	GATC	3 cut(s)	18, 216, 350
MboI	GATC	3 cut(s)	16, 214, 348
MboII	GAAGA	2 cut(s)	101, 373
MluCI	AATT	2 cut(s)	127, 364
MlyI	GAGTC	1 cut(s)	293
MnlI	CCTC	2 cut(s)	195, 238
MspR9I	CCNGG	1 cut(s)	228
Mva1269I	GAATGC	1 cut(s)	35
MvaI	CCWGG	1 cut(s)	228
MwoI	GCNNNNNNNGC	2 cut(s)	83, 179
NdeII	GATC	3 cut(s)	16, 214, 348
NlaIII	CATG	1 cut(s)	142
PctI	GAATGC	1 cut(s)	35
PkrI	GCNGC	1 cut(s)	254
PleI	GAGTC	1 cut(s)	292
PpsI	GAGTC	1 cut(s)	292
Psp6I	CCWGG	1 cut(s)	226
PspGI	CCWGG	1 cut(s)	226
RsaI	GTAC	4 cut(s)	25, 133, 189, 206
RsaNI	GTAC	4 cut(s)	24, 132, 188, 205
SatI	GCNGC	1 cut(s)	253
Sau3AI	GATC	3 cut(s)	16, 214, 348
SchI	GAGTC	1 cut(s)	293
ScrFI	CCNGG	1 cut(s)	228
SfaNI	GCATC	1 cut(s)	308
SfcI	CTRYAG	1 cut(s)	66
Sse9I	AATT	2 cut(s)	127, 364
SsiI	CCGC	1 cut(s)	252
SspMI	CTAG	1 cut(s)	320
StyD4I	CCNGG	1 cut(s)	226
TaaI	ACNGT	2 cut(s)	67, 209
TaiI	ACGT	1 cut(s)	269
TaqI	TCGA	1 cut(s)	351
TasI	AATT	2 cut(s)	127, 364
TatI	WGTACW	2 cut(s)	23, 131
TauI	GCSGC	1 cut(s)	255
TspDTI	ATGAA	3 cut(s)	28, 251, 356
XcmI	CCANNNNNNNNNTGG	1 cut(s)	234
XspI	CTAG	1 cut(s)	320

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