Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0006117

Physical Location & Seq

Genomic Coordinates Forward (+)

15984821 .. 15985948

Gene Structure 1128 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00231050.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGGGCAAAGAAGGGGTGAAGGCTGATGCTGATTGTTTTCATTCTTTGTTTGAGTTGTGTGGGAATTTGAAGTCGCTAGAGAATGGAAAGAAAGGTCATGATTTCTTTTTGCAGTCTACATGTAGGGGTAATAGTGACTTGAGCCATAAAGTAATCGAAATGTATGGAAAATGTGGAACCATGACTGATGCCAGGAGAGTGTTTGATCACCTGCTTGAGAAGAACATTGATTCTTGGCATTTGATGATAAACTGGTATGCGGAGAACGGGTTAGGGGATGATGGGTTGCAGATGTTTGAGTCGATGAGGGAGCAAGGGTTGAAACCCAATTCTGAAACATTCCTTGCAGTCTTTTCGGTTTGTGCCAAAGCAGATGCTGTTGAAGAAGCATTTATACATTTGGAGTCGATGAAAACTGAGTACGGATTTGATCCTCTGGGGATTCTTGATGTACTTGGAAAATGTGGTCATCTGAATGAAGTGGTTGATTATATTGAGAAGCTCCCATTTGAGCCGACTGTGACAGTTTGGGAGGCGTTGAGGAATTATGCGCAGGTTCATGGAGATATTGATCTTGAAGATCACGCTGAGGAGTTAATGGTTGCTGTTGACCCGTCAAAGGCTGTTGCTGGTAAGATTCCAACTCCACCACCTAGAAAGCGTAGTGCTATTTGCATGCTTGATGGGAAGAACAGAATCAGTGAGTTTAAAAATCCCACATTGTACAAGGATGATGAAAAGTTAAAGGCTCTCAATTCGATGAGAGGAGGGGGTTATGTTCCAGACACAAGATATATTCGTCATGATATTGACCAGGAGGCTAAGGAGAAAGCATTGCTCTATCACAGTGAGCGTTTGGCAATCACATATGGCCTGATTAGTACTCCAGCAAGGACACCTCTTAGGATCATTAAGAACCTCCATGTCTGTGGTGACTGCCACAATGGCATTAAGATCATGTCCAAGATTGTTGGAAGGCAATTAATTGTTTGGGACAACAAACGTTTTCATCATTTTGAGGATGGAAAATGCTCTTGTCGTGATTATTGGTGA

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:0005739 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

DYW_deaminase PPR PPR_2

Protein Analysis

350

Amino Acids

39.69

Weight (kDa)

6.02

Isoelectric Point (pI)

33.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	75 - 123	1.6e-08	PPR repeat family
DYW_deaminase	PF14432	258 - 350	3.1e-39	DYW family of nucleic acid deaminases

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006117)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15690
fragaria_vesca	FvH4_2g06150
malus_domestica	MD05G1080000.v1.1
prunus_persica	Prupe.8G123800_v2.0.a1
pyrus_communis	pycom05g07310 pycom10g07740
rosa_chinensis	RchiOBHm_Chr6g0257041 RchiOBHm_Chr7g0228581
rosa_laevigata	RLG00000001553 RLG00000014672
rosa_multiflora	Rmu_sc0008871.1_g000003 Rmu_sc0011334.1_g000001 Rmu_sc0019183.1_g000001
rosa_roxburghii	Rroxscaffold_3G00231050 Rroxscaffold_7G00208450
rosa_rugosa	Rorug05G0575600 Rorug07G0250600
rosa_samantha	Rh6AG093700 Rh6BG084500 Rh6CG081200 Rh6DG076600 Rh7AG402800 Rh7BG383700 Rh7CG422100 Rh7DG398500
rosa_wichuraiana	Rw6G008060 Rw7G033470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	219
Acc16I	TGCGCA	1 cut(s)	552
Acc36I	ACCTGC	2 cut(s)	219, 544
AccI	GTMKAC	1 cut(s)	116
AciI	CCGC	1 cut(s)	260
AclI	AACGTT	1 cut(s)	1003
AclWI	GGATC	2 cut(s)	425, 914
AcsI	RAATTY	1 cut(s)	64
AfaI	GTAC	4 cut(s)	422, 453, 725, 883
AfiI	CCNNNNNNNGG	1 cut(s)	619
AflIII	ACRYGT	1 cut(s)	119
AgsI	TTSAA	4 cut(s)	70, 322, 383, 578
AjnI	CCWGG	2 cut(s)	191, 813
AluBI	AGCT	1 cut(s)	502
AluI	AGCT	1 cut(s)	502
AlwI	GGATC	2 cut(s)	425, 914
AlwNI	CAGNNNCTG	1 cut(s)	377
AoxI	GGCC	1 cut(s)	871
ApoI	RAATTY	1 cut(s)	64
AseI	ATTAAT	1 cut(s)	983
AspLEI	GCGC	1 cut(s)	553
AsuHPI	GGTGA	3 cut(s)	28, 200, 944
BarI	GAAGNNNNNNTAC	2 cut(s)	378, 410
BbvCI	CCTCAGC	1 cut(s)	588
BccI	CCATC	3 cut(s)	275, 677, 1016
BcgI	CGANNNNNNTGC	2 cut(s)	336, 370
BciT130I	CCWGG	2 cut(s)	193, 815
BclI	TGATCA	1 cut(s)	205
BfaI	CTAG	2 cut(s)	77, 654
BfuAI	ACCTGC	2 cut(s)	219, 544
BglI	GCCNNNNNGGC	1 cut(s)	945
BmcAI	AGTACT	1 cut(s)	883
Bme1390I	CCNGG	2 cut(s)	193, 815
BmiI	GGNNCC	1 cut(s)	178
BmrFI	CCNGG	2 cut(s)	193, 815
BmsI	GCATC	3 cut(s)	16, 178, 364
BpmI	CTGGAG	1 cut(s)	870
Bpu10I	CCTNAGC	2 cut(s)	588, 822
BpuEI	CTTGAG	2 cut(s)	160, 236
BsaBI	GATNNNNATC	1 cut(s)	570
BsaXI	ACNNNNNCTCC	4 cut(s)	254, 284, 302, 332
Bsc4I	CCNNNNNNNGG	1 cut(s)	619
Bse1I	ACTGG	1 cut(s)	257
Bse3DI	GCAATG	1 cut(s)	833
Bse8I	GATNNNNATC	1 cut(s)	570
BseBI	CCWGG	2 cut(s)	193, 815
BseGI	GGATG	3 cut(s)	283, 736, 1027
BseJI	GATNNNNATC	1 cut(s)	570
BseLI	CCNNNNNNNGG	1 cut(s)	619
BseMI	GCAATG	1 cut(s)	833
BseMII	CTCAG	2 cut(s)	408, 579
BseNI	ACTGG	1 cut(s)	257
BseRI	GAGGAG	2 cut(s)	605, 780
BshFI	GGCC	1 cut(s)	873
BslFI	GGGAC	1 cut(s)	1007
BslI	CCNNNNNNNGG	1 cut(s)	619
BsmFI	GGGAC	1 cut(s)	1007
BsnI	GGCC	1 cut(s)	873
Bsp1407I	TGTACA	1 cut(s)	723
Bsp143I	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
BspACI	CCGC	1 cut(s)	260
BspANI	GGCC	1 cut(s)	873
BspCNI	CTCAG	2 cut(s)	409, 580
BspHI	TCATGA	2 cut(s)	97, 802
BspLI	GGNNCC	1 cut(s)	178
BspMI	ACCTGC	2 cut(s)	219, 544
BspPI	GGATC	2 cut(s)	425, 914
BsrDI	GCAATG	1 cut(s)	833
BsrGI	TGTACA	1 cut(s)	723
BsrI	ACTGG	1 cut(s)	257
BssMI	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
Bst2UI	CCWGG	2 cut(s)	193, 815
Bst4CI	ACNGT	3 cut(s)	520, 526, 848
BstAUI	TGTACA	1 cut(s)	723
BstC8I	GCNNGC	1 cut(s)	677
BstDEI	CTNAG	4 cut(s)	417, 588, 822, 902
BstF5I	GGATG	3 cut(s)	283, 736, 1027
BstHHI	GCGC	1 cut(s)	553
BstKTI	GATC	6 cut(s)	208, 433, 574, 583, 909, 957
BstMBI	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
BstMWI	GCNNNNNNNGC	1 cut(s)	945
BstNI	CCWGG	2 cut(s)	193, 815
BstNSI	RCATGY	2 cut(s)	123, 679
BstSCI	CCNGG	2 cut(s)	191, 813
BstXI	CCANNNNNNTGG	1 cut(s)	929
BsuRI	GGCC	1 cut(s)	873
BtsCI	GGATG	3 cut(s)	283, 736, 1027
BtsIMutI	CAGTG	2 cut(s)	706, 853
BveI	ACCTGC	2 cut(s)	219, 544
Cac8I	GCNNGC	1 cut(s)	677
CaiI	CAGNNNCTG	1 cut(s)	377
CciI	TCATGA	2 cut(s)	97, 802
CfoI	GCGC	1 cut(s)	553
Csp6I	GTAC	4 cut(s)	421, 452, 724, 882
CviAII	CATG	8 cut(s)	98, 120, 181, 560, 676, 803, 923, 958
CviJI	RGCY	8 cut(s)	23, 144, 502, 514, 623, 749, 821, 873
CviKI_1	RGCY	8 cut(s)	23, 144, 502, 514, 623, 749, 821, 873
CviQI	GTAC	4 cut(s)	421, 452, 724, 882
DdeI	CTNAG	4 cut(s)	417, 588, 822, 902
DpnI	GATC	6 cut(s)	207, 432, 573, 582, 908, 956
DpnII	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
DraI	TTTAAA	1 cut(s)	709
EcoRII	CCWGG	2 cut(s)	191, 813
FaeI	CATG	8 cut(s)	101, 123, 184, 563, 679, 806, 926, 961
FaqI	GGGAC	1 cut(s)	1007
FatI	CATG	8 cut(s)	97, 119, 180, 559, 675, 802, 922, 957
FauNDI	CATATG	1 cut(s)	868
FbaI	TGATCA	1 cut(s)	205
FblI	GTMKAC	1 cut(s)	116
FokI	GGATG	3 cut(s)	290, 743, 1034
FspBI	CTAG	2 cut(s)	77, 654
FspI	TGCGCA	1 cut(s)	552
GlaI	GCGC	1 cut(s)	552
GsuI	CTGGAG	1 cut(s)	870
HaeIII	GGCC	1 cut(s)	873
HhaI	GCGC	1 cut(s)	553
Hin1II	CATG	8 cut(s)	101, 123, 184, 563, 679, 806, 926, 961
Hin6I	GCGC	1 cut(s)	551
HinP1I	GCGC	1 cut(s)	551
HincII	GTYRAC	1 cut(s)	610
HindII	GTYRAC	1 cut(s)	610
HinfI	GANTC	6 cut(s)	230, 299, 404, 442, 637, 696
HphI	GGTGA	3 cut(s)	28, 200, 944
Hpy166II	GTNNAC	2 cut(s)	117, 610
Hpy188I	TCNGA	2 cut(s)	334, 474
Hpy188III	TCNNGA	6 cut(s)	98, 446, 575, 782, 803, 1040
Hpy8I	GTNNAC	2 cut(s)	117, 610
HpyAV	CCTTC	3 cut(s)	5, 13, 969
HpyCH4III	ACNGT	3 cut(s)	520, 526, 848
HpyCH4IV	ACGT	1 cut(s)	1003
HpyCH4V	TGCA	4 cut(s)	112, 289, 347, 675
HpyF10VI	GCNNNNNNNGC	1 cut(s)	945
HpyF3I	CTNAG	4 cut(s)	417, 588, 822, 902
HpySE526I	ACGT	1 cut(s)	1003
Hsp92II	CATG	8 cut(s)	101, 123, 184, 563, 679, 806, 926, 961
HspAI	GCGC	1 cut(s)	551
Ksp22I	TGATCA	1 cut(s)	205
Kzo9I	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
LmnI	GCTCC	2 cut(s)	310, 507
LweI	GCATC	3 cut(s)	16, 178, 364
MaeI	CTAG	2 cut(s)	77, 654
MaeII	ACGT	1 cut(s)	1003
MaeIII	GTNAC	3 cut(s)	134, 520, 932
MalI	GATC	6 cut(s)	207, 432, 573, 582, 908, 956
MboI	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
MboII	GAAGA	4 cut(s)	232, 395, 590, 700
MluCI	AATT	6 cut(s)	64, 328, 544, 754, 980, 984
MlyI	GAGTC	2 cut(s)	308, 413
MmeI	TCCRAC	2 cut(s)	665, 952
MseI	TTAA	6 cut(s)	596, 708, 743, 912, 951, 983
MslI	CAYNNNNRTG	2 cut(s)	474, 927
MspR9I	CCNGG	2 cut(s)	193, 815
MvaI	CCWGG	2 cut(s)	193, 815
MwoI	GCNNNNNNNGC	1 cut(s)	945
NdeI	CATATG	1 cut(s)	868
NdeII	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
NlaIII	CATG	8 cut(s)	101, 123, 184, 563, 679, 806, 926, 961
NlaIV	GGNNCC	1 cut(s)	178
NmuCI	GTSAC	3 cut(s)	134, 520, 932
NsbI	TGCGCA	1 cut(s)	552
NspI	RCATGY	2 cut(s)	123, 679
PaeI	GCATGC	1 cut(s)	679
PagI	TCATGA	2 cut(s)	97, 802
PaqCI	CACCTGC	1 cut(s)	219
PciI	ACATGT	1 cut(s)	119
PfeI	GAWTC	4 cut(s)	230, 442, 637, 696
PleI	GAGTC	2 cut(s)	307, 412
PpsI	GAGTC	2 cut(s)	307, 412
PscI	ACATGT	1 cut(s)	119
PshBI	ATTAAT	1 cut(s)	983
Psp1406I	AACGTT	1 cut(s)	1003
Psp6I	CCWGG	2 cut(s)	191, 813
PspGI	CCWGG	2 cut(s)	191, 813
PspN4I	GGNNCC	1 cut(s)	178
PstNI	CAGNNNCTG	1 cut(s)	377
RsaI	GTAC	4 cut(s)	422, 453, 725, 883
RsaNI	GTAC	4 cut(s)	421, 452, 724, 882
RseI	CAYNNNNRTG	2 cut(s)	474, 927
SaqAI	TTAA	6 cut(s)	596, 708, 743, 912, 951, 983
Sau3AI	GATC	6 cut(s)	205, 430, 571, 580, 906, 954
ScaI	AGTACT	1 cut(s)	883
SchI	GAGTC	2 cut(s)	308, 413
ScrFI	CCNGG	2 cut(s)	193, 815
SetI	ASST	8 cut(s)	97, 213, 504, 558, 655, 901, 921, 1006
SfaNI	GCATC	3 cut(s)	16, 178, 364
SmiMI	CAYNNNNRTG	2 cut(s)	474, 927
SmlI	CTYRAG	2 cut(s)	139, 215
SmoI	CTYRAG	2 cut(s)	139, 215
SphI	GCATGC	1 cut(s)	679
Sse9I	AATT	6 cut(s)	64, 328, 544, 754, 980, 984
SsiI	CCGC	1 cut(s)	260
SspMI	CTAG	2 cut(s)	77, 654
StyD4I	CCNGG	2 cut(s)	191, 813
TaaI	ACNGT	3 cut(s)	520, 526, 848
TaiI	ACGT	1 cut(s)	1006
TaqI	TCGA	4 cut(s)	156, 302, 407, 758
TasI	AATT	6 cut(s)	64, 328, 544, 754, 980, 984
TatI	WGTACW	3 cut(s)	451, 723, 881
TfiI	GAWTC	4 cut(s)	230, 442, 637, 696
Tru1I	TTAA	6 cut(s)	596, 708, 743, 912, 951, 983
Tru9I	TTAA	6 cut(s)	596, 708, 743, 912, 951, 983
TscAI	CASTG	2 cut(s)	706, 853
TseFI	GTSAC	3 cut(s)	134, 520, 932
Tsp45I	GTSAC	3 cut(s)	134, 520, 932
TspDTI	ATGAA	6 cut(s)	29, 425, 492, 548, 750, 998
TspGWI	ACGGA	1 cut(s)	438
TspRI	CASTG	2 cut(s)	706, 853
VspI	ATTAAT	1 cut(s)	983
XapI	RAATTY	1 cut(s)	64
XceI	RCATGY	2 cut(s)	123, 679
XmiI	GTMKAC	1 cut(s)	116
XspI	CTAG	2 cut(s)	77, 654
ZrmI	AGTACT	1 cut(s)	883

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