Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0004093

Physical Location & Seq

Genomic Coordinates Forward (+)

53498506 .. 53507601

Gene Structure 9096 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG405900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGATCACTTCCGGCCACCCACGTGGCCATATCCTCAACCGTTTGATCGACGTCAACTGCAAATCTTCGAATCTTCGCTACGCACTCCACCTGTTCGACCAAATTCCCAACCCGGACATCGTCGCCAGAACAACTCTGGTTTCTGCGTATTCCGGCGTCGGGGACGTCACGCTGGCCCGGAGAGTGTTCAGTGAAACTCCGTCCAGCATGAGAGACACTGTCAGCTACAATGCCATGATCGCAGGCTACTCTCATAATAGGGACGGCAATGCCGCCGTTGAGCTGTTTCGGGAAATGATGCGAGGCGGTTTTCGGCCCGATGAGTTTACCTTCACCAGTGTGCTGAGTGGTCTGGCGCTTATAGTGGAGGAGGAGAAGCAATGCCAGCAGCTACATTGTGCAATTGTTAAGTCTGGAGCATTGTTGGCCACTTTGGTGTCGAATGCGTTGGTGTCTGTGTGCGGTAAAATTGATGAAGCACGATATATTTTTAATAATATGTCCGTCAGAGATCTTGTTTCTTGGAATGCAATATTGTCAGGGTATGTGAGTGGAGGGCGCATCCAGGAAGCAAAATCCTTTTTTGAGGAAATGCCGGAAAGGAGTGGTCTAACTTGGACTGTAATAATATCAGGTTTAGCTCAAAATGGATGTGGGGAAGAAGCTATAAAGCTATTTAACCAAATGAGACTAGATGGTTTTAAACCCTGTGATTATGCATTTGCTGGAGCTATTACGTCTTGTGCTGCCCTGGGGGCATTGGAGCATGGACGCCAGCTCCATGCTCAACTAATATGCTTGGGGCATGATTCAAGCCTTTCAGTTGGAAATTCACTTATCACAATGTATGCGAGATGTGGGGTTGTAGACGACGCTGACTGTGTGTTCCTCACAATGCCTTATATTGATTCCGTGTCGTGGAATGCTATGATTGCAGCTCTGGCACAACATGGATATGGGCTTGGATTGCTCTTCCACAGAAAGCAGCTGCAGGTCTTTGGAGATTTGCCAAGAGTTACAGTTTAA

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

DYW_deaminase PPR PPR_2

Protein Analysis

341

Amino Acids

37.24

Weight (kDa)

6.2

Isoelectric Point (pI)

27.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	71 - 119	1.4e-15	PPR repeat family
PPR	PF01535	74 - 104	1.2e-07	PPR repeat
PPR_2	PF13041	171 - 201	4.1e-06	PPR repeat family
PPR	PF01535	173 - 201	5.9e-07	PPR repeat
PPR_2	PF13041	205 - 248	2e-07	PPR repeat family
PPR	PF01535	205 - 234	5e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004093)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G25360
fragaria_vesca	FvH4_5g32410 FvH4_6g08990
malus_domestica	MD17G1265000.v1.1
prunus_persica	Prupe.3G114900_v2.0.a1 Prupe.3G115100_v2.0.a1
pyrus_communis	pycom17g26470
rosa_chinensis	RchiOBHm_Chr7g0221631 RchiOBHm_Chr7g0228891 RchiOBHm_Chr7g0228961
rosa_laevigata	RLG00000001538 RLG00000002149
rosa_multiflora	Rmu_sc0005016.1_g000036 Rmu_sc0005913.1_g000007 Rmu_sc0005913.1_g000028 Rmu_sc0027650.1_g000001
rosa_roxburghii	Rroxscaffold_3G00230820 Rroxscaffold_3G00238170
rosa_rugosa	Rorug07G0202700 Rorug07G0202700 Rorug07G0252700 Rorug07G0254200
rosa_samantha	Rh7AG343100 Rh7AG405900 Rh7BG333100 Rh7BG385400 Rh7CG360700 Rh7CG423700 Rh7DG341100
rosa_wichuraiana	Rw0G004030 Rw7G029100 Rw7G033660 Rw7G033680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	2 cut(s)	54, 168
Acc36I	ACCTGC	1 cut(s)	982
AccI	GTMKAC	1 cut(s)	867
AciI	CCGC	3 cut(s)	273, 306, 462
AcoI	YGGCCR	3 cut(s)	13, 25, 426
AcsI	RAATTY	2 cut(s)	102, 829
AcvI	CACGTG	1 cut(s)	23
AcyI	GRCGYC	4 cut(s)	51, 156, 165, 772
AfiI	CCNNNNNNNGG	2 cut(s)	159, 918
AgsI	TTSAA	1 cut(s)	813
AjnI	CCWGG	2 cut(s)	564, 750
AleI	CACNNNNGTG	3 cut(s)	21, 338, 434
Alw26I	GTCTC	2 cut(s)	207, 682
AoxI	GGCC	5 cut(s)	13, 25, 174, 314, 426
ApeKI	GCWGC	5 cut(s)	388, 746, 935, 985, 988
ApoI	RAATTY	2 cut(s)	102, 829
AspLEI	GCGC	2 cut(s)	358, 561
AspS9I	GGNCC	2 cut(s)	175, 315
AsuC2I	CCSGG	2 cut(s)	113, 178
AsuHPI	GGTGA	1 cut(s)	325
AsuII	TTCGAA	1 cut(s)	68
BalI	TGGCCA	2 cut(s)	27, 428
BbrPI	CACGTG	1 cut(s)	23
BbvI	GCAGC	5 cut(s)	400, 733, 947, 975, 997
BccI	CCATC	1 cut(s)	689
BceAI	ACGGC	2 cut(s)	260, 280
BciT130I	CCWGG	2 cut(s)	566, 752
BclI	TGATCA	1 cut(s)	3
BcnI	CCSGG	2 cut(s)	113, 178
BcoDI	GTCTC	2 cut(s)	207, 682
BfaI	CTAG	1 cut(s)	692
BfmI	CTRYAG	1 cut(s)	989
BfoI	RGCGCY	1 cut(s)	359
BfuAI	ACCTGC	1 cut(s)	982
BglI	GCCNNNNNGGC	1 cut(s)	755
BglII	AGATCT	1 cut(s)	511
BisI	GCNGC	6 cut(s)	273, 389, 747, 936, 986, 989
BlsI	GCNGC	6 cut(s)	274, 390, 748, 937, 987, 990
Bme1390I	CCNGG	4 cut(s)	113, 178, 566, 752
BmgT120I	GGNCC	2 cut(s)	175, 315
BmrFI	CCNGG	4 cut(s)	113, 178, 566, 752
BmsI	GCATC	2 cut(s)	288, 570
BpmI	CTGGAG	2 cut(s)	435, 747
Bpu14I	TTCGAA	1 cut(s)	68
BpuMI	CCSGG	2 cut(s)	113, 178
BsaAI	YACGTR	1 cut(s)	23
BsaHI	GRCGYC	4 cut(s)	51, 156, 165, 772
BsaJI	CCNNGG	2 cut(s)	750, 751
BsaXI	ACNNNNNCTCC	2 cut(s)	762, 792
Bsc4I	CCNNNNNNNGG	2 cut(s)	159, 918
Bse1I	ACTGG	1 cut(s)	336
Bse3DI	GCAATG	2 cut(s)	274, 386
BseBI	CCWGG	2 cut(s)	566, 752
BseDI	CCNNGG	2 cut(s)	750, 751
BseGI	GGATG	2 cut(s)	561, 656
BseLI	CCNNNNNNNGG	2 cut(s)	159, 918
BseMI	GCAATG	2 cut(s)	274, 386
BseMII	CTCAG	1 cut(s)	335
BseNI	ACTGG	1 cut(s)	336
BseRI	GAGGAG	2 cut(s)	383, 386
BseXI	GCAGC	5 cut(s)	400, 733, 947, 975, 997
BshFI	GGCC	5 cut(s)	15, 27, 176, 316, 428
BsiSI	CCGG	5 cut(s)	12, 113, 153, 178, 596
BslFI	GGGAC	2 cut(s)	176, 275
BslI	CCNNNNNNNGG	2 cut(s)	159, 918
BsmAI	GTCTC	2 cut(s)	207, 682
BsmFI	GGGAC	2 cut(s)	176, 275
BsmI	GAATGC	3 cut(s)	448, 532, 928
BsnI	GGCC	5 cut(s)	15, 27, 176, 316, 428
Bsp119I	TTCGAA	1 cut(s)	68
Bsp143I	GATC	4 cut(s)	3, 45, 237, 511
BspACI	CCGC	3 cut(s)	273, 306, 462
BspANI	GGCC	5 cut(s)	15, 27, 176, 316, 428
BspCNI	CTCAG	1 cut(s)	336
BspMAI	CTGCAG	1 cut(s)	993
BspMI	ACCTGC	1 cut(s)	982
BspQI	GCTCTTC	1 cut(s)	977
BspT104I	TTCGAA	1 cut(s)	68
BsrDI	GCAATG	2 cut(s)	274, 386
BsrI	ACTGG	1 cut(s)	336
BssECI	CCNNGG	2 cut(s)	750, 751
BssMI	GATC	4 cut(s)	3, 45, 237, 511
BssNI	GRCGYC	4 cut(s)	51, 156, 165, 772
Bst2UI	CCWGG	2 cut(s)	566, 752
Bst4CI	ACNGT	5 cut(s)	41, 220, 622, 881, 1021
Bst6I	CTCTTC	1 cut(s)	977
BstACI	GRCGYC	4 cut(s)	51, 156, 165, 772
BstBAI	YACGTR	1 cut(s)	23
BstBI	TTCGAA	1 cut(s)	68
BstC8I	GCNNGC	4 cut(s)	174, 244, 386, 776
BstDEI	CTNAG	1 cut(s)	344
BstF5I	GGATG	2 cut(s)	561, 656
BstH2I	RGCGCY	1 cut(s)	359
BstHHI	GCGC	2 cut(s)	358, 561
BstKTI	GATC	4 cut(s)	6, 48, 240, 514
BstMAI	GTCTC	2 cut(s)	207, 682
BstMBI	GATC	4 cut(s)	3, 45, 237, 511
BstMWI	GCNNNNNNNGC	7 cut(s)	239, 385, 425, 755, 932, 941, 967
BstNI	CCWGG	2 cut(s)	566, 752
BstSCI	CCNGG	4 cut(s)	111, 176, 564, 750
BstSFI	CTRYAG	1 cut(s)	989
BstV1I	GCAGC	5 cut(s)	400, 733, 947, 975, 997
BstX2I	RGATCY	1 cut(s)	511
BstXI	CCANNNNNNTGG	1 cut(s)	23
BstYI	RGATCY	1 cut(s)	511
BsuRI	GGCC	5 cut(s)	15, 27, 176, 316, 428
BtsCI	GGATG	2 cut(s)	561, 656
BtsIMutI	CAGTG	3 cut(s)	196, 216, 343
BveI	ACCTGC	1 cut(s)	982
Cac8I	GCNNGC	4 cut(s)	174, 244, 386, 776
CfoI	GCGC	2 cut(s)	358, 561
Cfr13I	GGNCC	2 cut(s)	175, 315
CseI	GACGC	3 cut(s)	145, 780, 881
CviAII	CATG	6 cut(s)	208, 235, 767, 782, 806, 950
DdeI	CTNAG	1 cut(s)	344
DpnI	GATC	4 cut(s)	5, 47, 239, 513
DpnII	GATC	4 cut(s)	3, 45, 237, 511
DraI	TTTAAA	1 cut(s)	703
EaeI	YGGCCR	3 cut(s)	13, 25, 426
Eam1104I	CTCTTC	1 cut(s)	977
EarI	CTCTTC	1 cut(s)	977
Eco72I	CACGTG	1 cut(s)	23
EcoRII	CCWGG	2 cut(s)	564, 750
EcoT22I	ATGCAT	1 cut(s)	721
FaeI	CATG	6 cut(s)	211, 238, 770, 785, 809, 953
FaqI	GGGAC	2 cut(s)	176, 275
FatI	CATG	6 cut(s)	207, 234, 766, 781, 805, 949
FbaI	TGATCA	1 cut(s)	3
FblI	GTMKAC	1 cut(s)	867
Fnu4HI	GCNGC	6 cut(s)	273, 389, 747, 936, 986, 989
FokI	GGATG	2 cut(s)	548, 663
Fsp4HI	GCNGC	6 cut(s)	273, 389, 747, 936, 986, 989
FspBI	CTAG	1 cut(s)	692
GlaI	GCGC	2 cut(s)	357, 560
GluI	GCNGC	6 cut(s)	273, 389, 747, 936, 986, 989
GsuI	CTGGAG	2 cut(s)	435, 747
HaeII	RGCGCY	1 cut(s)	359
HaeIII	GGCC	5 cut(s)	15, 27, 176, 316, 428
HapII	CCGG	5 cut(s)	12, 113, 153, 178, 596
HgaI	GACGC	3 cut(s)	145, 780, 881
HhaI	GCGC	2 cut(s)	358, 561
Hin1I	GRCGYC	4 cut(s)	51, 156, 165, 772
Hin1II	CATG	6 cut(s)	211, 238, 770, 785, 809, 953
Hin6I	GCGC	2 cut(s)	356, 559
HinP1I	GCGC	2 cut(s)	356, 559
HincII	GTYRAC	1 cut(s)	55
HindII	GTYRAC	1 cut(s)	55
HinfI	GANTC	3 cut(s)	70, 809, 908
HpaII	CCGG	5 cut(s)	12, 113, 153, 178, 596
HphI	GGTGA	1 cut(s)	325
Hpy166II	GTNNAC	3 cut(s)	55, 327, 868
Hpy188I	TCNGA	1 cut(s)	509
Hpy188III	TCNNGA	2 cut(s)	290, 414
Hpy8I	GTNNAC	3 cut(s)	55, 327, 868
Hpy99I	CGWCG	4 cut(s)	53, 125, 161, 875
HpyAV	CCTTC	1 cut(s)	340
HpyCH4III	ACNGT	5 cut(s)	41, 220, 622, 881, 1021
HpyCH4IV	ACGT	4 cut(s)	22, 51, 165, 737
HpyCH4V	TGCA	6 cut(s)	60, 401, 530, 719, 935, 991
HpyF10VI	GCNNNNNNNGC	7 cut(s)	239, 385, 425, 755, 932, 941, 967
HpyF3I	CTNAG	1 cut(s)	344
HpySE526I	ACGT	4 cut(s)	22, 51, 165, 737
Hsp92I	GRCGYC	4 cut(s)	51, 156, 165, 772
Hsp92II	CATG	6 cut(s)	211, 238, 770, 785, 809, 953
HspAI	GCGC	2 cut(s)	356, 559
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	4 cut(s)	3, 45, 237, 511
LguI	GCTCTTC	1 cut(s)	977
LmnI	GCTCC	4 cut(s)	416, 728, 763, 783
Lsp1109I	GCAGC	5 cut(s)	400, 733, 947, 975, 997
LweI	GCATC	2 cut(s)	288, 570
MaeI	CTAG	1 cut(s)	692
MaeII	ACGT	4 cut(s)	22, 51, 165, 737
MaeIII	GTNAC	2 cut(s)	166, 1015
MalI	GATC	4 cut(s)	5, 47, 239, 513
MboI	GATC	4 cut(s)	3, 45, 237, 511
MboII	GAAGA	4 cut(s)	57, 65, 671, 964
MfeI	CAATTG	1 cut(s)	402
MflI	RGATCY	1 cut(s)	511
MlsI	TGGCCA	2 cut(s)	27, 428
MluCI	AATT	4 cut(s)	102, 402, 468, 829
MluNI	TGGCCA	2 cut(s)	27, 428
MmeI	TCCRAC	1 cut(s)	805
MnlI	CCTC	7 cut(s)	44, 296, 361, 364, 548, 580, 899
Mox20I	TGGCCA	2 cut(s)	27, 428
Mph1103I	ATGCAT	1 cut(s)	721
MscI	TGGCCA	2 cut(s)	27, 428
MseI	TTAA	5 cut(s)	408, 492, 678, 702, 1024
MslI	CAYNNNNRTG	4 cut(s)	21, 338, 434, 954
Msp20I	TGGCCA	2 cut(s)	27, 428
MspA1I	CMGCKG	1 cut(s)	988
MspI	CCGG	5 cut(s)	12, 113, 153, 178, 596
MspR9I	CCNGG	4 cut(s)	113, 178, 566, 752
MunI	CAATTG	1 cut(s)	402
Mva1269I	GAATGC	3 cut(s)	448, 532, 928
MvaI	CCWGG	2 cut(s)	566, 752
MwoI	GCNNNNNNNGC	7 cut(s)	239, 385, 425, 755, 932, 941, 967
NciI	CCSGG	2 cut(s)	113, 178
NdeII	GATC	4 cut(s)	3, 45, 237, 511
NlaIII	CATG	6 cut(s)	211, 238, 770, 785, 809, 953
NmuCI	GTSAC	1 cut(s)	166
NsiI	ATGCAT	1 cut(s)	721
NspV	TTCGAA	1 cut(s)	68
OliI	CACNNNNGTG	3 cut(s)	21, 338, 434
PasI	CCCWGGG	1 cut(s)	751
PciSI	GCTCTTC	1 cut(s)	977
PctI	GAATGC	3 cut(s)	448, 532, 928
PfeI	GAWTC	3 cut(s)	70, 809, 908
PflFI	GACNNNGTC	2 cut(s)	119, 218
PfoI	TCCNGGA	1 cut(s)	564
PkrI	GCNGC	6 cut(s)	274, 390, 748, 937, 987, 990
PmaCI	CACGTG	1 cut(s)	23
PmlI	CACGTG	1 cut(s)	23
Ppu21I	YACGTR	1 cut(s)	23
Psp6I	CCWGG	2 cut(s)	564, 750
PspCI	CACGTG	1 cut(s)	23
PspGI	CCWGG	2 cut(s)	564, 750
PspPI	GGNCC	2 cut(s)	175, 315
PstI	CTGCAG	1 cut(s)	993
PsuI	RGATCY	1 cut(s)	511
PsyI	GACNNNGTC	2 cut(s)	119, 218
PvuII	CAGCTG	1 cut(s)	988
RseI	CAYNNNNRTG	4 cut(s)	21, 338, 434, 954
SapI	GCTCTTC	1 cut(s)	977
SaqAI	TTAA	5 cut(s)	408, 492, 678, 702, 1024
SatI	GCNGC	6 cut(s)	273, 389, 747, 936, 986, 989
Sau3AI	GATC	4 cut(s)	3, 45, 237, 511
Sau96I	GGNCC	2 cut(s)	175, 315
ScrFI	CCNGG	4 cut(s)	113, 178, 566, 752
SfaNI	GCATC	2 cut(s)	288, 570
SfcI	CTRYAG	1 cut(s)	989
SfuI	TTCGAA	1 cut(s)	68
SmiMI	CAYNNNNRTG	4 cut(s)	21, 338, 434, 954
Sse9I	AATT	4 cut(s)	102, 402, 468, 829
SsiI	CCGC	3 cut(s)	273, 306, 462
SspI	AATATT	1 cut(s)	534
SspMI	CTAG	1 cut(s)	692
StyD4I	CCNGG	4 cut(s)	111, 176, 564, 750
TaaI	ACNGT	5 cut(s)	41, 220, 622, 881, 1021
TaiI	ACGT	4 cut(s)	25, 54, 168, 740
TaqI	TCGA	4 cut(s)	48, 68, 96, 440
TasI	AATT	4 cut(s)	102, 402, 468, 829
TauI	GCSGC	1 cut(s)	275
TfiI	GAWTC	3 cut(s)	70, 809, 908
Tru1I	TTAA	5 cut(s)	408, 492, 678, 702, 1024
Tru9I	TTAA	5 cut(s)	408, 492, 678, 702, 1024
TscAI	CASTG	3 cut(s)	196, 223, 343
TseFI	GTSAC	1 cut(s)	166
TseI	GCWGC	5 cut(s)	388, 746, 935, 985, 988
Tsp45I	GTSAC	1 cut(s)	166
TspDTI	ATGAA	1 cut(s)	489
TspGWI	ACGGA	3 cut(s)	189, 493, 901
TspRI	CASTG	3 cut(s)	196, 223, 343
Tth111I	GACNNNGTC	2 cut(s)	119, 218
XapI	RAATTY	2 cut(s)	102, 829
XcmI	CCANNNNNNNNNTGG	1 cut(s)	133
XmiI	GTMKAC	1 cut(s)	867
XspI	CTAG	1 cut(s)	692
ZraI	GACGTC	2 cut(s)	52, 166
Zsp2I	ATGCAT	1 cut(s)	721

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