Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0006117

Physical Location & Seq

Genomic Coordinates Reverse (-)

41545682 .. 41546500

Gene Structure 819 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG383700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGACTGATGCCAGGAGAGTGTTTGATCACCTGCTTGAGAAGAACATTGATTCTTGGCATTTGATGATAAACTGGTATGCGGATAATGGGTTGGGAGATGATGGGTTGCAGATGTTTGAGTTGATGAGGGAGCAAGGGTTGAAACCCAATTCTGAAACATTCCTTGCAGTCTTTTCGGCTTGTGCCAGTGCAGATGCTGTTGAAGAATCATTTATACATTTTGAGTCGATGAAAACTGATTACGGATTTGATCCTGTAGTGGAGCATTATTTGAGGATTCTTGATGTACTTGGAAAATGCGGTCATCTGAATGAAGCAGTTGATTATATTGAGAAGCTCCCATTTGAGCCGACTGTGACAGTTTGGGAGGCATTGAGGAATTATGCCCAGGTTCATGGAGATATTGATCTTGAAGATCACGCTGAGGAGTTAATGGTTGCTCTTGATCCGTCAAGGGCTGTTGCTGGTAAGATTCCAACTCCACCACCTAGAAAGCGTAGTGCTATTTGCATGCTTGATGGGAAGAACAGAACCAGTGAGTTTAAAAATCCCACATTGTACAAGGATTGTGAAAAGTTAAAGGCTCTCAATTCAATGAGAGGAGGGGGTTATGTTCCAGACACAAGATATGTTCTTCATGACATTGACCAGGAGGCTAAGGAGCAAGCACTGCTCTATCACAGTGAGCTTTTGGCAATCGCATTTGGCCTGATTAGTACTCTGGCAAGACACCTCTTAGGATCATTAACAACCTCCGTGTCTGTGGTGACTGCCACAGTGCCATTAAGATCATGTCCAAGATTGTTGGAAGGCAATTAA

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

272

Amino Acids

30.53

Weight (kDa)

5.13

Isoelectric Point (pI)

42.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	15 - 62	2.9e-08	PPR repeat family
DYW_deaminase	PF14432	203 - 243	4.6e-09	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)

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Tree File

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Publication-ready

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

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)	39
Acc36I	ACCTGC	1 cut(s)	39
AciI	CCGC	2 cut(s)	80, 300
AclWI	GGATC	3 cut(s)	245, 440, 748
AfaI	GTAC	3 cut(s)	288, 560, 718
AgsI	TTSAA	4 cut(s)	142, 203, 413, 594
AjnI	CCWGG	3 cut(s)	11, 387, 648
AluBI	AGCT	2 cut(s)	337, 688
AluI	AGCT	2 cut(s)	337, 688
AlwI	GGATC	3 cut(s)	245, 440, 748
AlwNI	CAGNNNCTG	1 cut(s)	197
AoxI	GGCC	1 cut(s)	706
AsuHPI	GGTGA	2 cut(s)	20, 778
BbvCI	CCTCAGC	1 cut(s)	423
BccI	CCATC	2 cut(s)	95, 512
BcgI	CGANNNNNNTGC	2 cut(s)	156, 190
BciT130I	CCWGG	3 cut(s)	13, 389, 650
BclI	TGATCA	1 cut(s)	25
BfaI	CTAG	1 cut(s)	489
BfmI	CTRYAG	1 cut(s)	255
BfuAI	ACCTGC	1 cut(s)	39
BmcAI	AGTACT	1 cut(s)	718
Bme1390I	CCNGG	3 cut(s)	13, 389, 650
BmrFI	CCNGG	3 cut(s)	13, 389, 650
BmsI	GCATC	1 cut(s)	184
Bpu10I	CCTNAGC	2 cut(s)	423, 657
BpuEI	CTTGAG	1 cut(s)	56
BsaBI	GATNNNNATC	1 cut(s)	405
BsaJI	CCNNGG	1 cut(s)	387
BsaXI	ACNNNNNCTCC	2 cut(s)	122, 152
Bse1I	ACTGG	3 cut(s)	77, 186, 534
Bse8I	GATNNNNATC	1 cut(s)	405
BseBI	CCWGG	3 cut(s)	13, 389, 650
BseDI	CCNNGG	1 cut(s)	387
BseJI	GATNNNNATC	1 cut(s)	405
BseMII	CTCAG	1 cut(s)	414
BseNI	ACTGG	3 cut(s)	77, 186, 534
BseRI	GAGGAG	2 cut(s)	440, 615
BsgI	GTGCAG	1 cut(s)	210
BshFI	GGCC	1 cut(s)	708
BsnI	GGCC	1 cut(s)	708
Bsp1407I	TGTACA	1 cut(s)	558
Bsp143I	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
BspACI	CCGC	2 cut(s)	80, 300
BspANI	GGCC	1 cut(s)	708
BspCNI	CTCAG	1 cut(s)	415
BspHI	TCATGA	1 cut(s)	637
BspMI	ACCTGC	1 cut(s)	39
BspPI	GGATC	3 cut(s)	245, 440, 748
BsrGI	TGTACA	1 cut(s)	558
BsrI	ACTGG	3 cut(s)	77, 186, 534
BssECI	CCNNGG	1 cut(s)	387
BssMI	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
Bst2UI	CCWGG	3 cut(s)	13, 389, 650
Bst4CI	ACNGT	4 cut(s)	355, 361, 683, 778
BstAPI	GCANNNNNTGC	1 cut(s)	670
BstAUI	TGTACA	1 cut(s)	558
BstC8I	GCNNGC	2 cut(s)	512, 666
BstDEI	CTNAG	3 cut(s)	423, 657, 736
BstKTI	GATC	7 cut(s)	28, 253, 409, 418, 448, 743, 791
BstMBI	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
BstMWI	GCNNNNNNNGC	1 cut(s)	670
BstNI	CCWGG	3 cut(s)	13, 389, 650
BstNSI	RCATGY	1 cut(s)	514
BstSCI	CCNGG	3 cut(s)	11, 387, 648
BstSFI	CTRYAG	1 cut(s)	255
BstXI	CCANNNNNNTGG	1 cut(s)	395
BsuRI	GGCC	1 cut(s)	708
BtsI	GCAGTG	1 cut(s)	668
BtsIMutI	CAGTG	5 cut(s)	193, 541, 668, 688, 783
BveI	ACCTGC	1 cut(s)	39
Cac8I	GCNNGC	2 cut(s)	512, 666
CaiI	CAGNNNCTG	1 cut(s)	197
CciI	TCATGA	1 cut(s)	637
Csp6I	GTAC	3 cut(s)	287, 559, 717
CviAII	CATG	4 cut(s)	395, 511, 638, 792
CviJI	RGCY	8 cut(s)	179, 337, 349, 458, 584, 656, 688, 708
CviKI_1	RGCY	8 cut(s)	179, 337, 349, 458, 584, 656, 688, 708
CviQI	GTAC	3 cut(s)	287, 559, 717
DdeI	CTNAG	3 cut(s)	423, 657, 736
DpnI	GATC	7 cut(s)	27, 252, 408, 417, 447, 742, 790
DpnII	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
DraI	TTTAAA	1 cut(s)	544
EcoRII	CCWGG	3 cut(s)	11, 387, 648
FaeI	CATG	4 cut(s)	398, 514, 641, 795
FatI	CATG	4 cut(s)	394, 510, 637, 791
FbaI	TGATCA	1 cut(s)	25
FspBI	CTAG	1 cut(s)	489
HaeIII	GGCC	1 cut(s)	708
Hin1II	CATG	4 cut(s)	398, 514, 641, 795
HinfI	GANTC	5 cut(s)	50, 206, 224, 277, 472
HphI	GGTGA	2 cut(s)	20, 778
Hpy188I	TCNGA	2 cut(s)	154, 309
Hpy188III	TCNNGA	5 cut(s)	281, 410, 443, 617, 638
HpyAV	CCTTC	1 cut(s)	803
HpyCH4III	ACNGT	4 cut(s)	355, 361, 683, 778
HpyCH4V	TGCA	4 cut(s)	109, 167, 191, 510
HpyF10VI	GCNNNNNNNGC	1 cut(s)	670
HpyF3I	CTNAG	3 cut(s)	423, 657, 736
Hsp92II	CATG	4 cut(s)	398, 514, 641, 795
Ksp22I	TGATCA	1 cut(s)	25
Kzo9I	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
LmnI	GCTCC	4 cut(s)	130, 262, 342, 661
LweI	GCATC	1 cut(s)	184
MaeI	CTAG	1 cut(s)	489
MaeIII	GTNAC	2 cut(s)	355, 766
MalI	GATC	7 cut(s)	27, 252, 408, 417, 447, 742, 790
MboI	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
MboII	GAAGA	5 cut(s)	52, 215, 425, 535, 626
MluCI	AATT	4 cut(s)	148, 379, 589, 814
MlyI	GAGTC	1 cut(s)	233
MmeI	TCCRAC	2 cut(s)	500, 786
MseI	TTAA	6 cut(s)	431, 543, 578, 746, 785, 817
MslI	CAYNNNNRTG	1 cut(s)	309
MspR9I	CCNGG	3 cut(s)	13, 389, 650
MvaI	CCWGG	3 cut(s)	13, 389, 650
MwoI	GCNNNNNNNGC	1 cut(s)	670
NdeII	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
NlaIII	CATG	4 cut(s)	398, 514, 641, 795
NmuCI	GTSAC	2 cut(s)	355, 766
NspI	RCATGY	1 cut(s)	514
PaeI	GCATGC	1 cut(s)	514
PagI	TCATGA	1 cut(s)	637
PaqCI	CACCTGC	1 cut(s)	39
PfeI	GAWTC	4 cut(s)	50, 206, 277, 472
PleI	GAGTC	1 cut(s)	232
PpsI	GAGTC	1 cut(s)	232
Psp6I	CCWGG	3 cut(s)	11, 387, 648
PspGI	CCWGG	3 cut(s)	11, 387, 648
PstNI	CAGNNNCTG	1 cut(s)	197
RsaI	GTAC	3 cut(s)	288, 560, 718
RsaNI	GTAC	3 cut(s)	287, 559, 717
RseI	CAYNNNNRTG	1 cut(s)	309
SaqAI	TTAA	6 cut(s)	431, 543, 578, 746, 785, 817
Sau3AI	GATC	7 cut(s)	25, 250, 406, 415, 445, 740, 788
ScaI	AGTACT	1 cut(s)	718
SchI	GAGTC	1 cut(s)	233
ScrFI	CCNGG	3 cut(s)	13, 389, 650
SetI	ASST	7 cut(s)	33, 339, 393, 490, 690, 735, 755
SfaNI	GCATC	1 cut(s)	184
SfcI	CTRYAG	1 cut(s)	255
SmiMI	CAYNNNNRTG	1 cut(s)	309
SmlI	CTYRAG	1 cut(s)	35
SmoI	CTYRAG	1 cut(s)	35
SphI	GCATGC	1 cut(s)	514
Sse9I	AATT	4 cut(s)	148, 379, 589, 814
SsiI	CCGC	2 cut(s)	80, 300
SspMI	CTAG	1 cut(s)	489
StyD4I	CCNGG	3 cut(s)	11, 387, 648
TaaI	ACNGT	4 cut(s)	355, 361, 683, 778
TaqI	TCGA	1 cut(s)	227
TasI	AATT	4 cut(s)	148, 379, 589, 814
TatI	WGTACW	3 cut(s)	286, 558, 716
TfiI	GAWTC	4 cut(s)	50, 206, 277, 472
Tru1I	TTAA	6 cut(s)	431, 543, 578, 746, 785, 817
Tru9I	TTAA	6 cut(s)	431, 543, 578, 746, 785, 817
TscAI	CASTG	5 cut(s)	193, 541, 675, 688, 783
TseFI	GTSAC	2 cut(s)	355, 766
Tsp45I	GTSAC	2 cut(s)	355, 766
TspDTI	ATGAA	4 cut(s)	245, 327, 383, 626
TspGWI	ACGGA	3 cut(s)	258, 438, 745
TspRI	CASTG	5 cut(s)	193, 541, 675, 688, 783
XceI	RCATGY	1 cut(s)	514
XspI	CTAG	1 cut(s)	489
ZrmI	AGTACT	1 cut(s)	718

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