Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Reverse (-)

9235035 .. 9235817

Gene Structure 783 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG056400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGCCTGAGAGGGATGTTGTGTCCTGGAACACCATGGTGATTGGTTATGCCCAGACTGGGGAATGTGATGAGGCTTTGAGGTTTTATAGAGAGTTGCGGAGGTCGCCGGTTGGGTTTAATGAGTTTAGTTTTGCAGGTGTTTTGACTGTGTGTGTGAAGATGAGGGAATGGGAGCTTATTAGGCAGGCTCATGGGCAGGTCTTGGTTGCTGGGTTTTTGTCGAATGTGGTGCTTTCGAGTTTGGTGGTGGATGCTTATGCCAAGTGTGGAGAGATGGTAGATGCTAGGAGATTGTTCGATGAGATGGCTGTGAGGGATGTTCTTGCTTGGACCACACTGGTTTTCGGATATGCCAAATGGGGTGATATGAAATCAGCTAGTCAGTTGTTTGATCGGATGCCTGAGAAGAACCCGGTGTCATGGACATCTATGATTTCGGGGTATGCTAGGAATGGACTGGGGCATGAAGCGCTTGCATTGTTTGCAGAGATGATGCTGTTTCAAGTCAGGCCTGCTCAGTTTACCTTTAGTAGTTACCTTTGTGCTTGTGCTAGTACAGCTTCACTTAAGCATGGTAAACAAATTCATGCCTCTTTAATACGAAGTAATTTAAGACCCAACACGATTGTCGTGACTTCTCTTATCGACATGTATTCCAAATGCGGCAATTTGGGGGCTGGGAGGCAGGTTTTCAAGCTCATGGGTGATGAGCAAGACACCGTCTTATGGAACACAATGATGTCTGCCATAGCACAGCATGGTCATGGTATAGAGGCATTGTAG

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

260

Amino Acids

29.03

Weight (kDa)

7.0

Isoelectric Point (pI)

39.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	4 - 53	8.4e-07	PPR repeat family
PPR	PF01535	7 - 35	1.2e-06	PPR repeat
PPR	PF01535	109 - 137	9.2e-06	PPR repeat
PPR_2	PF13041	137 - 184	9.4e-09	PPR repeat family
PPR	PF01535	139 - 165	1e-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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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)
AarI	CACCTGC	1 cut(s)	125
Acc36I	ACCTGC	3 cut(s)	125, 187, 676
AciI	CCGC	2 cut(s)	97, 663
AcsI	RAATTY	1 cut(s)	582
AfaI	GTAC	1 cut(s)	556
AfeI	AGCGCT	1 cut(s)	471
AfiI	CCNNNNNNNGG	3 cut(s)	57, 58, 726
AflII	CTTAAG	1 cut(s)	566
AflIII	ACRYGT	1 cut(s)	648
AgsI	TTSAA	2 cut(s)	503, 694
AjnI	CCWGG	1 cut(s)	23
AleI	CACNNNNGTG	1 cut(s)	35
AluBI	AGCT	4 cut(s)	175, 377, 560, 697
AluI	AGCT	4 cut(s)	175, 377, 560, 697
Aor51HI	AGCGCT	1 cut(s)	471
AoxI	GGCC	1 cut(s)	509
ApoI	RAATTY	1 cut(s)	582
AspLEI	GCGC	1 cut(s)	472
AspS9I	GGNCC	1 cut(s)	330
AsuC2I	CCSGG	1 cut(s)	413
AsuHPI	GGTGA	3 cut(s)	49, 374, 716
AvaII	GGWCC	1 cut(s)	330
BccI	CCATC	2 cut(s)	268, 298
BcgI	CGANNNNNNTGC	2 cut(s)	211, 245
BciT130I	CCWGG	1 cut(s)	25
BcnI	CCSGG	1 cut(s)	413
BfaI	CTAG	4 cut(s)	285, 378, 447, 552
BfoI	RGCGCY	1 cut(s)	473
BfrI	CTTAAG	1 cut(s)	566
BfuAI	ACCTGC	3 cut(s)	125, 187, 676
BisI	GCNGC	1 cut(s)	664
BlsI	GCNGC	1 cut(s)	665
Bme1390I	CCNGG	2 cut(s)	25, 413
Bme18I	GGWCC	1 cut(s)	330
BmgT120I	GGNCC	1 cut(s)	330
BmrFI	CCNGG	2 cut(s)	25, 413
BmrI	ACTGGG	2 cut(s)	66, 467
BmsI	GCATC	4 cut(s)	241, 271, 387, 483
BmuI	ACTGGG	2 cut(s)	66, 467
BpuMI	CCSGG	1 cut(s)	413
BsaJI	CCNNGG	1 cut(s)	33
BsaXI	ACNNNNNCTCC	2 cut(s)	261, 291
Bsc4I	CCNNNNNNNGG	3 cut(s)	57, 58, 726
Bse118I	RCCGGY	1 cut(s)	106
Bse1I	ACTGG	3 cut(s)	61, 342, 462
BseBI	CCWGG	1 cut(s)	25
BseDI	CCNNGG	1 cut(s)	33
BseGI	GGATG	4 cut(s)	19, 256, 322, 402
BseLI	CCNNNNNNNGG	3 cut(s)	57, 58, 726
BseMII	CTCAG	2 cut(s)	393, 530
BseNI	ACTGG	3 cut(s)	61, 342, 462
BseYI	CCCAGC	2 cut(s)	209, 677
BshFI	GGCC	1 cut(s)	511
BsiSI	CCGG	2 cut(s)	107, 413
BslI	CCNNNNNNNGG	3 cut(s)	57, 58, 726
BsnI	GGCC	1 cut(s)	511
Bsp143I	GATC	1 cut(s)	391
Bsp19I	CCATGG	1 cut(s)	33
BspACI	CCGC	2 cut(s)	97, 663
BspANI	GGCC	1 cut(s)	511
BspCNI	CTCAG	2 cut(s)	394, 529
BspMI	ACCTGC	3 cut(s)	125, 187, 676
BspTI	CTTAAG	1 cut(s)	566
BsrFI	RCCGGY	1 cut(s)	106
BsrI	ACTGG	3 cut(s)	61, 342, 462
BssAI	RCCGGY	1 cut(s)	106
BssECI	CCNNGG	1 cut(s)	33
BssMI	GATC	1 cut(s)	391
BssT1I	CCWWGG	1 cut(s)	33
Bst2UI	CCWGG	1 cut(s)	25
Bst4CI	ACNGT	2 cut(s)	148, 721
BstAFI	CTTAAG	1 cut(s)	566
BstAPI	GCANNNNNTGC	1 cut(s)	482
BstC8I	GCNNGC	3 cut(s)	186, 474, 513
BstDEI	CTNAG	3 cut(s)	6, 402, 516
BstDSI	CCRYGG	1 cut(s)	33
BstF5I	GGATG	4 cut(s)	19, 256, 322, 402
BstH2I	RGCGCY	1 cut(s)	473
BstHHI	GCGC	1 cut(s)	472
BstKTI	GATC	1 cut(s)	394
BstMBI	GATC	1 cut(s)	391
BstMWI	GCNNNNNNNGC	5 cut(s)	103, 181, 469, 482, 557
BstNI	CCWGG	1 cut(s)	25
BstNSI	RCATGY	1 cut(s)	652
BstSCI	CCNGG	2 cut(s)	23, 411
BsuRI	GGCC	1 cut(s)	511
BtgI	CCRYGG	1 cut(s)	33
BtsCI	GGATG	4 cut(s)	19, 256, 322, 402
BtsIMutI	CAGTG	1 cut(s)	335
BveI	ACCTGC	3 cut(s)	125, 187, 676
Cac8I	GCNNGC	3 cut(s)	186, 474, 513
CfoI	GCGC	1 cut(s)	472
Cfr10I	RCCGGY	1 cut(s)	106
Cfr13I	GGNCC	1 cut(s)	330
Csp6I	GTAC	1 cut(s)	555
CviJI	RGCY	9 cut(s)	74, 175, 188, 308, 377, 511, 560, 677, 697
CviKI_1	RGCY	9 cut(s)	74, 175, 188, 308, 377, 511, 560, 677, 697
CviQI	GTAC	1 cut(s)	555
DdeI	CTNAG	3 cut(s)	6, 402, 516
DpnI	GATC	1 cut(s)	393
DpnII	GATC	1 cut(s)	391
Eco130I	CCWWGG	1 cut(s)	33
Eco147I	AGGCCT	1 cut(s)	511
Eco47I	GGWCC	1 cut(s)	330
Eco47III	AGCGCT	1 cut(s)	471
EcoRII	CCWGG	1 cut(s)	23
EcoT14I	CCWWGG	1 cut(s)	33
ErhI	CCWWGG	1 cut(s)	33
Fnu4HI	GCNGC	1 cut(s)	664
FokI	GGATG	4 cut(s)	26, 263, 329, 409
Fsp4HI	GCNGC	1 cut(s)	664
FspBI	CTAG	4 cut(s)	285, 378, 447, 552
GlaI	GCGC	1 cut(s)	471
GluI	GCNGC	1 cut(s)	664
GsaI	CCCAGC	2 cut(s)	213, 681
HaeII	RGCGCY	1 cut(s)	473
HaeIII	GGCC	1 cut(s)	511
HapII	CCGG	2 cut(s)	107, 413
HhaI	GCGC	1 cut(s)	472
Hin6I	GCGC	1 cut(s)	470
HinP1I	GCGC	1 cut(s)	470
HpaII	CCGG	2 cut(s)	107, 413
HphI	GGTGA	3 cut(s)	49, 374, 716
Hpy166II	GTNNAC	2 cut(s)	522, 578
Hpy188I	TCNGA	2 cut(s)	347, 396
Hpy188III	TCNNGA	1 cut(s)	631
Hpy8I	GTNNAC	2 cut(s)	522, 578
HpyCH4III	ACNGT	2 cut(s)	148, 721
HpyCH4V	TGCA	3 cut(s)	134, 476, 485
HpyF10VI	GCNNNNNNNGC	5 cut(s)	103, 181, 469, 482, 557
HpyF3I	CTNAG	3 cut(s)	6, 402, 516
HspAI	GCGC	1 cut(s)	470
Kzo9I	GATC	1 cut(s)	391
LmnI	GCTCC	1 cut(s)	172
LweI	GCATC	4 cut(s)	241, 271, 387, 483
MaeI	CTAG	4 cut(s)	285, 378, 447, 552
MaeIII	GTNAC	2 cut(s)	533, 631
MalI	GATC	1 cut(s)	393
MboI	GATC	1 cut(s)	391
MboII	GAAGA	2 cut(s)	169, 418
MluCI	AATT	3 cut(s)	582, 607, 667
MnlI	CCTC	9 cut(s)	3, 64, 72, 93, 156, 306, 601, 675, 766
MseI	TTAA	4 cut(s)	117, 567, 596, 611
MslI	CAYNNNNRTG	3 cut(s)	35, 737, 762
MspCI	CTTAAG	1 cut(s)	566
MspI	CCGG	2 cut(s)	107, 413
MspR9I	CCNGG	2 cut(s)	25, 413
MvaI	CCWGG	1 cut(s)	25
MwoI	GCNNNNNNNGC	5 cut(s)	103, 181, 469, 482, 557
NciI	CCSGG	1 cut(s)	413
NcoI	CCATGG	1 cut(s)	33
NdeII	GATC	1 cut(s)	391
NmuCI	GTSAC	1 cut(s)	631
NspI	RCATGY	1 cut(s)	652
OliI	CACNNNNGTG	1 cut(s)	35
PaqCI	CACCTGC	1 cut(s)	125
PceI	AGGCCT	1 cut(s)	511
PciI	ACATGT	1 cut(s)	648
PflFI	GACNNNGTC	1 cut(s)	719
PfoI	TCCNGGA	1 cut(s)	23
PkrI	GCNGC	1 cut(s)	665
PscI	ACATGT	1 cut(s)	648
Psp6I	CCWGG	1 cut(s)	23
PspFI	CCCAGC	2 cut(s)	209, 677
PspGI	CCWGG	1 cut(s)	23
PspPI	GGNCC	1 cut(s)	330
PsyI	GACNNNGTC	1 cut(s)	719
RsaI	GTAC	1 cut(s)	556
RsaNI	GTAC	1 cut(s)	555
RseI	CAYNNNNRTG	3 cut(s)	35, 737, 762
SaqAI	TTAA	4 cut(s)	117, 567, 596, 611
SatI	GCNGC	1 cut(s)	664
Sau3AI	GATC	1 cut(s)	391
Sau96I	GGNCC	1 cut(s)	330
ScrFI	CCNGG	2 cut(s)	25, 413
SfaNI	GCATC	4 cut(s)	241, 271, 387, 483
SinI	GGWCC	1 cut(s)	330
SmiMI	CAYNNNNRTG	3 cut(s)	35, 737, 762
SmlI	CTYRAG	1 cut(s)	566
SmoI	CTYRAG	1 cut(s)	566
Sse9I	AATT	3 cut(s)	582, 607, 667
SseBI	AGGCCT	1 cut(s)	511
SsiI	CCGC	2 cut(s)	97, 663
SspMI	CTAG	4 cut(s)	285, 378, 447, 552
StuI	AGGCCT	1 cut(s)	511
StyD4I	CCNGG	2 cut(s)	23, 411
StyI	CCWWGG	1 cut(s)	33
TaaI	ACNGT	2 cut(s)	148, 721
TaqI	TCGA	4 cut(s)	221, 236, 297, 645
TasI	AATT	3 cut(s)	582, 607, 667
TatI	WGTACW	1 cut(s)	554
TauI	GCSGC	1 cut(s)	666
Tru1I	TTAA	4 cut(s)	117, 567, 596, 611
Tru9I	TTAA	4 cut(s)	117, 567, 596, 611
TscAI	CASTG	1 cut(s)	342
TseFI	GTSAC	1 cut(s)	631
Tsp45I	GTSAC	1 cut(s)	631
TspDTI	ATGAA	3 cut(s)	383, 480, 575
TspRI	CASTG	1 cut(s)	342
Tth111I	GACNNNGTC	1 cut(s)	719
Vha464I	CTTAAG	1 cut(s)	566
VpaK11BI	GGWCC	1 cut(s)	330
XapI	RAATTY	1 cut(s)	582
XceI	RCATGY	1 cut(s)	652
XspI	CTAG	4 cut(s)	285, 378, 447, 552

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