Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Reverse (-)

9251422 .. 9252132

Gene Structure 711 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG056500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGCCGTCTCCTCCCTCGACCTCTTATTCCGAAAAGGAATTCGCTTGCCCACCGTATTATGGAACACAATATATGATGTCTGCCTTAGCACAGCATGGTCATGGTATAGAGACATTGCAGATGTTTGAAGACATGGTCAGTTCAGGTGTAAAGCCGGTTAATACCACCTTTGTTGTCATTCTCAATGCTTGTAGTCATTCTGGTCTAGTGCAGGAAGGGCGTAGGCTTTTCAAGTCCATGACTGATGATTATGGCATTGTTCCTGATGAGGAACATTATGCATGCTTAATTGATCTCTTGGGTCAAGCTGGATGTTTTGATGAGTTGATGAACCGGCTCGAAAATATGCCATGTAAAGCTGGCGGTCAAGTTTGGAATGCATTACTGGGTGTTTGTAGAATCCATGGAAATACAGAGCTGGGAAGAAAAGTGGCCGAACACCTTATTGAGTTGGAGCCTCAATCTTCTGCTCCCTATGTTTTGCTTTCGAGCATATATGCTGAAGAAGGTAGATGGGAGCTGGTAGAGAAGGTGAGACGGCTTATGGATGAGAGACATGTGAGGAAAGAGCGGGCCATTAGTTGGGTAGAAGTTGAAAGTAGAGTGCATGCTTTCACTGTATCAGACCGGCTGCATCCTCTGAAAGAGGAAATATACTCAGTTTTGAAACAGTTAGCTGACCAGATGGAAGAAGATGCTTCAGTAACATGA

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

Protein Analysis

236

Amino Acids

26.65

Weight (kDa)

5.13

Isoelectric Point (pI)

61.15

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
E_motif	PF20431	135 - 197	1.9e-16	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	582
AccBSI	CCGCTC	1 cut(s)	571
AciI	CCGC	2 cut(s)	363, 571
AcoI	YGGCCR	1 cut(s)	432
AcsI	RAATTY	1 cut(s)	38
AcuI	CTGAAG	2 cut(s)	522, 684
AfiI	CCNNNNNNNGG	2 cut(s)	59, 582
AflIII	ACRYGT	1 cut(s)	556
AgsI	TTSAA	4 cut(s)	128, 232, 596, 667
AluBI	AGCT	5 cut(s)	308, 359, 418, 520, 677
AluI	AGCT	5 cut(s)	308, 359, 418, 520, 677
Alw26I	GTCTC	4 cut(s)	12, 104, 529, 547
AoxI	GGCC	2 cut(s)	432, 573
ApeKI	GCWGC	1 cut(s)	631
ApoI	RAATTY	1 cut(s)	38
AspS9I	GGNCC	1 cut(s)	573
AsuHPI	GGTGA	1 cut(s)	544
BbsI	GAAGAC	1 cut(s)	135
BbvI	GCAGC	1 cut(s)	618
BccI	CCATC	2 cut(s)	507, 679
BceAI	ACGGC	1 cut(s)	554
BcoDI	GTCTC	4 cut(s)	12, 104, 529, 547
BfaI	CTAG	1 cut(s)	206
BisI	GCNGC	1 cut(s)	632
BlsI	GCNGC	1 cut(s)	633
BmgT120I	GGNCC	1 cut(s)	573
BmiI	GGNNCC	1 cut(s)	456
BmrI	ACTGGG	1 cut(s)	395
BmsI	GCATC	2 cut(s)	643, 685
BmuI	ACTGGG	1 cut(s)	395
BpiI	GAAGAC	1 cut(s)	135
Bpu10I	CCTNAGC	1 cut(s)	85
BsaJI	CCNNGG	1 cut(s)	403
Bsc4I	CCNNNNNNNGG	2 cut(s)	59, 582
Bse118I	RCCGGY	3 cut(s)	154, 333, 627
Bse1I	ACTGG	1 cut(s)	390
Bse3DI	GCAATG	1 cut(s)	113
BseDI	CCNNGG	1 cut(s)	403
BseGI	GGATG	3 cut(s)	317, 553, 634
BseLI	CCNNNNNNNGG	2 cut(s)	59, 582
BseMI	GCAATG	1 cut(s)	113
BseMII	CTCAG	1 cut(s)	672
BseNI	ACTGG	1 cut(s)	390
BseXI	GCAGC	1 cut(s)	618
BseYI	CCCAGC	1 cut(s)	418
BsgI	GTGCAG	1 cut(s)	230
BshFI	GGCC	2 cut(s)	434, 575
BsiSI	CCGG	3 cut(s)	155, 334, 628
BslI	CCNNNNNNNGG	2 cut(s)	59, 582
BsmAI	GTCTC	4 cut(s)	12, 104, 529, 547
BsmBI	CGTCTC	2 cut(s)	12, 529
BsmI	GAATGC	1 cut(s)	382
BsnI	GGCC	2 cut(s)	434, 575
Bsp143I	GATC	1 cut(s)	292
Bsp19I	CCATGG	1 cut(s)	403
BspACI	CCGC	2 cut(s)	363, 571
BspANI	GGCC	2 cut(s)	434, 575
BspCNI	CTCAG	1 cut(s)	671
BspLI	GGNNCC	1 cut(s)	456
BsrBI	CCGCTC	1 cut(s)	571
BsrDI	GCAATG	1 cut(s)	113
BsrFI	RCCGGY	3 cut(s)	154, 333, 627
BsrI	ACTGG	1 cut(s)	390
BssAI	RCCGGY	3 cut(s)	154, 333, 627
BssECI	CCNNGG	1 cut(s)	403
BssMI	GATC	1 cut(s)	292
BssT1I	CCWWGG	1 cut(s)	403
Bst4CI	ACNGT	3 cut(s)	54, 619, 672
BstC8I	GCNNGC	5 cut(s)	46, 283, 361, 573, 609
BstDEI	CTNAG	2 cut(s)	85, 658
BstDSI	CCRYGG	1 cut(s)	403
BstF5I	GGATG	3 cut(s)	317, 553, 634
BstKTI	GATC	1 cut(s)	295
BstMAI	GTCTC	4 cut(s)	12, 104, 529, 547
BstMBI	GATC	1 cut(s)	292
BstMWI	GCNNNNNNNGC	1 cut(s)	217
BstNSI	RCATGY	3 cut(s)	285, 560, 611
BstV1I	GCAGC	1 cut(s)	618
BstV2I	GAAGAC	1 cut(s)	135
BsuRI	GGCC	2 cut(s)	434, 575
BtgI	CCRYGG	1 cut(s)	403
BtsCI	GGATG	3 cut(s)	317, 553, 634
BtsIMutI	CAGTG	1 cut(s)	615
Cac8I	GCNNGC	5 cut(s)	46, 283, 361, 573, 609
Cfr10I	RCCGGY	3 cut(s)	154, 333, 627
Cfr13I	GGNCC	1 cut(s)	573
CspCI	CAANNNNNGTGG	2 cut(s)	154, 189
DdeI	CTNAG	2 cut(s)	85, 658
DpnI	GATC	1 cut(s)	294
DpnII	GATC	1 cut(s)	292
EaeI	YGGCCR	1 cut(s)	432
Eco130I	CCWWGG	1 cut(s)	403
Eco57I	CTGAAG	2 cut(s)	522, 684
EcoRI	GAATTC	1 cut(s)	38
EcoT14I	CCWWGG	1 cut(s)	403
EcoT22I	ATGCAT	2 cut(s)	283, 382
ErhI	CCWWGG	1 cut(s)	403
Esp3I	CGTCTC	2 cut(s)	12, 529
FauI	CCCGC	1 cut(s)	564
Fnu4HI	GCNGC	1 cut(s)	632
FokI	GGATG	3 cut(s)	324, 560, 621
Fsp4HI	GCNGC	1 cut(s)	632
FspBI	CTAG	1 cut(s)	206
GluI	GCNGC	1 cut(s)	632
GsaI	CCCAGC	1 cut(s)	422
HaeIII	GGCC	2 cut(s)	434, 575
HapII	CCGG	3 cut(s)	155, 334, 628
HinfI	GANTC	1 cut(s)	399
HpaII	CCGG	3 cut(s)	155, 334, 628
HphI	GGTGA	1 cut(s)	544
Hpy188I	TCNGA	3 cut(s)	31, 625, 642
Hpy188III	TCNNGA	1 cut(s)	263
HpyAV	CCTTC	3 cut(s)	209, 500, 523
HpyCH4III	ACNGT	3 cut(s)	54, 619, 672
HpyCH4V	TGCA	6 cut(s)	118, 211, 281, 380, 607, 634
HpyF10VI	GCNNNNNNNGC	1 cut(s)	217
HpyF3I	CTNAG	2 cut(s)	85, 658
Kzo9I	GATC	1 cut(s)	292
LmnI	GCTCC	3 cut(s)	454, 475, 517
Lsp1109I	GCAGC	1 cut(s)	618
LweI	GCATC	2 cut(s)	643, 685
MaeI	CTAG	1 cut(s)	206
MaeIII	GTNAC	1 cut(s)	703
MalI	GATC	1 cut(s)	294
MbiI	CCGCTC	1 cut(s)	571
MboI	GATC	1 cut(s)	292
MboII	GAAGA	6 cut(s)	140, 435, 456, 515, 701, 704
MluCI	AATT	2 cut(s)	38, 288
MmeI	TCCRAC	1 cut(s)	432
MnlI	CCTC	8 cut(s)	21, 25, 31, 262, 468, 555, 640, 648
Mph1103I	ATGCAT	2 cut(s)	283, 382
MseI	TTAA	2 cut(s)	159, 287
MslI	CAYNNNNRTG	1 cut(s)	99
MspI	CCGG	3 cut(s)	155, 334, 628
Mva1269I	GAATGC	1 cut(s)	382
MwoI	GCNNNNNNNGC	1 cut(s)	217
NcoI	CCATGG	1 cut(s)	403
NdeII	GATC	1 cut(s)	292
NlaIV	GGNNCC	1 cut(s)	456
NsiI	ATGCAT	2 cut(s)	283, 382
NspI	RCATGY	3 cut(s)	285, 560, 611
PaeI	GCATGC	2 cut(s)	285, 611
PciI	ACATGT	1 cut(s)	556
PctI	GAATGC	1 cut(s)	382
PfeI	GAWTC	1 cut(s)	399
PflFI	GACNNNGTC	1 cut(s)	134
PflMI	CCANNNNNTGG	1 cut(s)	582
PkrI	GCNGC	1 cut(s)	633
PscI	ACATGT	1 cut(s)	556
PspFI	CCCAGC	1 cut(s)	418
PspN4I	GGNNCC	1 cut(s)	456
PspPI	GGNCC	1 cut(s)	573
PsyI	GACNNNGTC	1 cut(s)	134
RseI	CAYNNNNRTG	1 cut(s)	99
SaqAI	TTAA	2 cut(s)	159, 287
SatI	GCNGC	1 cut(s)	632
Sau3AI	GATC	1 cut(s)	292
Sau96I	GGNCC	1 cut(s)	573
SfaNI	GCATC	2 cut(s)	643, 685
SmiMI	CAYNNNNRTG	1 cut(s)	99
SphI	GCATGC	2 cut(s)	285, 611
Sse9I	AATT	2 cut(s)	38, 288
SsiI	CCGC	2 cut(s)	363, 571
SspMI	CTAG	1 cut(s)	206
StyI	CCWWGG	1 cut(s)	403
TaaI	ACNGT	3 cut(s)	54, 619, 672
TaqI	TCGA	3 cut(s)	17, 339, 488
TasI	AATT	2 cut(s)	38, 288
TfiI	GAWTC	1 cut(s)	399
Tru1I	TTAA	2 cut(s)	159, 287
Tru9I	TTAA	2 cut(s)	159, 287
TscAI	CASTG	1 cut(s)	622
TseI	GCWGC	1 cut(s)	631
TspDTI	ATGAA	1 cut(s)	344
TspRI	CASTG	1 cut(s)	622
Tth111I	GACNNNGTC	1 cut(s)	134
Van91I	CCANNNNNTGG	1 cut(s)	582
XapI	RAATTY	1 cut(s)	38
XceI	RCATGY	3 cut(s)	285, 560, 611
XspI	CTAG	1 cut(s)	206
Zsp2I	ATGCAT	2 cut(s)	283, 382

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