Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0006591

Physical Location & Seq

Genomic Coordinates Forward (+)

22968950 .. 22973956

Gene Structure 5007 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG238900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGTGCTTTATTTGCCTGCCCGCATTTGCCTTTAAGAATGACCTCATTGTTTTTGATCCGATGAACTTGTTAATTTCACAAGCAGATTGTCTGCTAATGGCGAAGAAAAGGCAAAGACTGCTGGTGGAAAATCCCCCGCACAAGAAAAGTAGTCCGAGTGGTGGTCTTATTGACGCTTCAAACTCAGACAACGATTTGGATCTGCAGGATAGTTGGGTGATCGTCAAAAAGCAGAGAGTCAACATTTTAGTACCTGGACTTCCTGTTGCTAATAAATCACCACTCCCAAGCCCAGAACCAAGTCAGCTGCAACAACTCGTGGCTAGAGAAACAGTAGAAAGTGGACCACAGCTTCCTGCCGATACACATCCCAAAACGACTTTAGTTCATGAGAAAAAGAAGATTAAACCTGTTGCCCCTAAAAGGGCTGTGCAACTTGCTAAGAAAGCTTCTCCTGCTGCTGGATACGTTCCAACCGTTTCCCAGTCAATGAGGCGAGAATTAAGCACAAAATCACGAACCCCAGATCAGATGGCTACTTCACAGTATCAGAGAGCACTAGGAGTATCTATGGCCTCGAAAGCCATCATGCAGCGAAGAAGATTACAACATGTTTTCCTGGATCAGGGAATGTTGCTGAATGAAAGGCTGAGAGCTCGGAATATTGAGAGGAAGATTCAGAATGCTGGTGGGTTAAGCAGGTGGTTAGCATCATTGGGACTGGGGCAGTTTGTTAGAATTTTTCAGAGGAAAGGTTTCAGTAAATTTCAGTTGGTGAATTTGAACATGAAAAAGCTCAAAGATATGGGTGCAAATGCAGTTGGGCCAAGAAGGAAATTGATGCATGCAATAGACTGCTTTTGCCAACCATCCTATTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SAM_2

Protein Analysis

293

Amino Acids

32.79

Weight (kDa)

10.27

Isoelectric Point (pI)

61.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SAM_2	PF07647	231 - 286	2.1e-14	SAM domain (Sterile alpha motif)
SAM_1	PF00536	232 - 286	2.8e-09	SAM domain (Sterile alpha motif)

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

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

Orthologous Genes (Group: OG0006591)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G11860 AT3G11890 AT3G11890 AT3G11890 AT3G11890 AT3G11890 AT3G11890 AT3G11890
fragaria_vesca	FvH4_6g21130 FvH4_6g21130
malus_domestica	MD14G1045900.v1.1
prunus_persica	Prupe.7G088400_v2.0.a1
pyrus_communis	pycom14g03850
rosa_chinensis	RchiOBHm_Chr3g0477561
rosa_laevigata	RLG00000023707 RLG00000023708
rosa_multiflora	Rmu_co8410605.1_g000001 Rmu_sc0000775.1_g000011
rosa_roxburghii	Rroxscaffold_6G00403840
rosa_rugosa	Rorug03G0162100
rosa_samantha	Rh3AG212000 Rh3BG245800 Rh3CG239400 Rh3DG238900 Rh5DG502100
rosa_wichuraiana	Rw3G019210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	690
Acc36I	ACCTGC	1 cut(s)	690
AciI	CCGC	2 cut(s)	21, 137
AclWI	GGATC	3 cut(s)	50, 207, 630
AcsI	RAATTY	3 cut(s)	738, 764, 778
AfaI	GTAC	1 cut(s)	252
AfiI	CCNNNNNNNGG	5 cut(s)	161, 423, 424, 461, 625
AflIII	ACRYGT	1 cut(s)	610
AgsI	TTSAA	2 cut(s)	180, 784
AjnI	CCWGG	2 cut(s)	253, 618
AluBI	AGCT	5 cut(s)	307, 352, 449, 656, 796
AluI	AGCT	5 cut(s)	307, 352, 449, 656, 796
Alw21I	GWGCWC	2 cut(s)	559, 658
AlwI	GGATC	3 cut(s)	50, 207, 630
AoxI	GGCC	2 cut(s)	573, 824
ApeKI	GCWGC	3 cut(s)	307, 458, 592
ApoI	RAATTY	3 cut(s)	738, 764, 778
Asp700I	GAANNNNTTC	1 cut(s)	755
AspS9I	GGNCC	2 cut(s)	344, 824
AsuHPI	GGTGA	3 cut(s)	229, 270, 787
AvaII	GGWCC	1 cut(s)	344
BanII	GRGCYC	1 cut(s)	658
BarI	GAAGNNNNNNTAC	2 cut(s)	243, 275
BauI	CACGAG	1 cut(s)	317
Bbv12I	GWGCWC	2 cut(s)	559, 658
BbvI	GCAGC	3 cut(s)	294, 445, 604
BccI	CCATC	3 cut(s)	526, 593, 877
BciT130I	CCWGG	2 cut(s)	255, 620
BciVI	GTATCC	1 cut(s)	458
BfaI	CTAG	2 cut(s)	324, 560
BfmI	CTRYAG	1 cut(s)	203
BfuAI	ACCTGC	1 cut(s)	690
BfuI	GTATCC	1 cut(s)	458
BisI	GCNGC	3 cut(s)	308, 459, 593
BlsI	GCNGC	3 cut(s)	309, 460, 594
Bme1390I	CCNGG	2 cut(s)	255, 620
Bme18I	GGWCC	1 cut(s)	344
BmgT120I	GGNCC	2 cut(s)	344, 824
BmrFI	CCNGG	2 cut(s)	255, 620
BmrI	ACTGGG	2 cut(s)	478, 731
BmsI	GCATC	2 cut(s)	719, 831
BmuI	ACTGGG	2 cut(s)	478, 731
BsaBI	GATNNNNATC	2 cut(s)	198, 366
Bsc4I	CCNNNNNNNGG	5 cut(s)	161, 423, 424, 461, 625
Bse1I	ACTGG	2 cut(s)	484, 726
Bse8I	GATNNNNATC	2 cut(s)	198, 366
BseBI	CCWGG	2 cut(s)	255, 620
BseGI	GGATG	2 cut(s)	367, 869
BseJI	GATNNNNATC	2 cut(s)	198, 366
BseLI	CCNNNNNNNGG	5 cut(s)	161, 423, 424, 461, 625
BseMII	CTCAG	2 cut(s)	198, 641
BseNI	ACTGG	2 cut(s)	484, 726
BseXI	GCAGC	3 cut(s)	294, 445, 604
BshFI	GGCC	2 cut(s)	575, 826
BsiHKAI	GWGCWC	2 cut(s)	559, 658
BslFI	GGGAC	1 cut(s)	732
BslI	CCNNNNNNNGG	5 cut(s)	161, 423, 424, 461, 625
BsmFI	GGGAC	1 cut(s)	732
BsmI	GAATGC	1 cut(s)	688
BsnI	GGCC	2 cut(s)	575, 826
Bsp1286I	GDGCHC	2 cut(s)	559, 658
Bsp143I	GATC	5 cut(s)	55, 199, 219, 526, 622
BspACI	CCGC	2 cut(s)	21, 137
BspANI	GGCC	2 cut(s)	575, 826
BspCNI	CTCAG	2 cut(s)	197, 642
BspHI	TCATGA	1 cut(s)	388
BspMAI	CTGCAG	1 cut(s)	207
BspMI	ACCTGC	1 cut(s)	690
BspPI	GGATC	3 cut(s)	50, 207, 630
BsrI	ACTGG	2 cut(s)	484, 726
BssMI	GATC	5 cut(s)	55, 199, 219, 526, 622
BssSI	CACGAG	1 cut(s)	317
Bst2BI	CACGAG	1 cut(s)	317
Bst2UI	CCWGG	2 cut(s)	255, 620
Bst4CI	ACNGT	3 cut(s)	334, 478, 546
BstAPI	GCANNNNNTGC	1 cut(s)	118
BstC8I	GCNNGC	3 cut(s)	17, 21, 846
BstDEI	CTNAG	3 cut(s)	184, 441, 650
BstENI	CCTNNNNNAGG	1 cut(s)	623
BstF5I	GGATG	2 cut(s)	367, 869
BstKTI	GATC	5 cut(s)	58, 202, 222, 529, 625
BstMBI	GATC	5 cut(s)	55, 199, 219, 526, 622
BstMWI	GCNNNNNNNGC	5 cut(s)	12, 118, 446, 455, 581
BstNI	CCWGG	2 cut(s)	255, 620
BstNSI	RCATGY	2 cut(s)	614, 848
BstSCI	CCNGG	2 cut(s)	253, 618
BstSFI	CTRYAG	1 cut(s)	203
BstV1I	GCAGC	3 cut(s)	294, 445, 604
BstX2I	RGATCY	1 cut(s)	199
BstYI	RGATCY	1 cut(s)	199
BsuI	GTATCC	1 cut(s)	458
BsuRI	GGCC	2 cut(s)	575, 826
BtsCI	GGATG	2 cut(s)	367, 869
BveI	ACCTGC	1 cut(s)	690
Cac8I	GCNNGC	3 cut(s)	17, 21, 846
CciI	TCATGA	1 cut(s)	388
Cfr13I	GGNCC	2 cut(s)	344, 824
CseI	GACGC	1 cut(s)	182
Csp6I	GTAC	1 cut(s)	251
CviAII	CATG	5 cut(s)	389, 589, 611, 787, 845
CviQI	GTAC	1 cut(s)	251
DdeI	CTNAG	3 cut(s)	184, 441, 650
DpnI	GATC	5 cut(s)	57, 201, 221, 528, 624
DpnII	GATC	5 cut(s)	55, 199, 219, 526, 622
Ecl136II	GAGCTC	1 cut(s)	656
Eco24I	GRGCYC	1 cut(s)	658
Eco47I	GGWCC	1 cut(s)	344
Eco53kI	GAGCTC	1 cut(s)	656
EcoICRI	GAGCTC	1 cut(s)	656
EcoNI	CCTNNNNNAGG	1 cut(s)	623
EcoRII	CCWGG	2 cut(s)	253, 618
EcoT22I	ATGCAT	1 cut(s)	846
EcoT38I	GRGCYC	1 cut(s)	658
FaeI	CATG	5 cut(s)	392, 592, 614, 790, 848
FaiI	YATR	7 cut(s)	390, 572, 590, 612, 788, 806, 846
FaqI	GGGAC	1 cut(s)	732
FatI	CATG	5 cut(s)	388, 588, 610, 786, 844
FauI	CCCGC	2 cut(s)	28, 144
Fnu4HI	GCNGC	3 cut(s)	308, 459, 593
FokI	GGATG	2 cut(s)	354, 856
FriOI	GRGCYC	1 cut(s)	658
Fsp4HI	GCNGC	3 cut(s)	308, 459, 593
FspBI	CTAG	2 cut(s)	324, 560
GluI	GCNGC	3 cut(s)	308, 459, 593
HaeIII	GGCC	2 cut(s)	575, 826
HgaI	GACGC	1 cut(s)	182
Hin1II	CATG	5 cut(s)	392, 592, 614, 790, 848
HincII	GTYRAC	1 cut(s)	241
HindII	GTYRAC	1 cut(s)	241
HindIII	AAGCTT	1 cut(s)	447
HinfI	GANTC	2 cut(s)	237, 676
HphI	GGTGA	3 cut(s)	229, 270, 787
Hpy166II	GTNNAC	2 cut(s)	241, 344
Hpy188I	TCNGA	8 cut(s)	60, 156, 187, 531, 552, 660, 681, 747
Hpy188III	TCNNGA	2 cut(s)	389, 516
Hpy8I	GTNNAC	2 cut(s)	241, 344
HpyAV	CCTTC	1 cut(s)	825
HpyCH4III	ACNGT	3 cut(s)	334, 478, 546
HpyCH4IV	ACGT	1 cut(s)	468
HpyCH4V	TGCA	8 cut(s)	205, 310, 433, 592, 812, 818, 844, 848
HpyF10VI	GCNNNNNNNGC	5 cut(s)	12, 118, 446, 455, 581
HpyF3I	CTNAG	3 cut(s)	184, 441, 650
HpySE526I	ACGT	1 cut(s)	468
Hsp92II	CATG	5 cut(s)	392, 592, 614, 790, 848
Kzo9I	GATC	5 cut(s)	55, 199, 219, 526, 622
Lsp1109I	GCAGC	3 cut(s)	294, 445, 604
LweI	GCATC	2 cut(s)	719, 831
MaeI	CTAG	2 cut(s)	324, 560
MaeII	ACGT	1 cut(s)	468
MalI	GATC	5 cut(s)	57, 201, 221, 528, 624
MboI	GATC	5 cut(s)	55, 199, 219, 526, 622
MboII	GAAGA	5 cut(s)	115, 412, 609, 612, 685
MflI	RGATCY	1 cut(s)	199
MhlI	GDGCHC	2 cut(s)	559, 658
MluCI	AATT	6 cut(s)	72, 500, 738, 764, 778, 836
MlyI	GAGTC	1 cut(s)	246
MmeI	TCCRAC	1 cut(s)	497
MnlI	CCTC	5 cut(s)	53, 486, 586, 663, 741
Mph1103I	ATGCAT	1 cut(s)	846
MroXI	GAANNNNTTC	1 cut(s)	755
MseI	TTAA	6 cut(s)	33, 71, 405, 503, 695, 880
MspA1I	CMGCKG	1 cut(s)	307
MspR9I	CCNGG	2 cut(s)	255, 620
Mva1269I	GAATGC	1 cut(s)	688
MvaI	CCWGG	2 cut(s)	255, 620
MwoI	GCNNNNNNNGC	5 cut(s)	12, 118, 446, 455, 581
NdeII	GATC	5 cut(s)	55, 199, 219, 526, 622
NlaIII	CATG	5 cut(s)	392, 592, 614, 790, 848
NsiI	ATGCAT	1 cut(s)	846
NspI	RCATGY	2 cut(s)	614, 848
PaeI	GCATGC	1 cut(s)	848
PagI	TCATGA	1 cut(s)	388
PaqCI	CACCTGC	1 cut(s)	690
PciI	ACATGT	1 cut(s)	610
PcsI	WCGNNNNNNNCGW	1 cut(s)	474
PctI	GAATGC	1 cut(s)	688
PdmI	GAANNNNTTC	1 cut(s)	755
PfeI	GAWTC	1 cut(s)	676
PfoI	TCCNGGA	1 cut(s)	618
PkrI	GCNGC	3 cut(s)	309, 460, 594
PleI	GAGTC	1 cut(s)	245
PpsI	GAGTC	1 cut(s)	245
PscI	ACATGT	1 cut(s)	610
Psp124BI	GAGCTC	1 cut(s)	658
Psp6I	CCWGG	2 cut(s)	253, 618
PspGI	CCWGG	2 cut(s)	253, 618
PspPI	GGNCC	2 cut(s)	344, 824
PstI	CTGCAG	1 cut(s)	207
PsuI	RGATCY	1 cut(s)	199
PvuII	CAGCTG	1 cut(s)	307
RsaI	GTAC	1 cut(s)	252
RsaNI	GTAC	1 cut(s)	251
SacI	GAGCTC	1 cut(s)	658
SaqAI	TTAA	6 cut(s)	33, 71, 405, 503, 695, 880
SatI	GCNGC	3 cut(s)	308, 459, 593
Sau3AI	GATC	5 cut(s)	55, 199, 219, 526, 622
Sau96I	GGNCC	2 cut(s)	344, 824
SchI	GAGTC	1 cut(s)	246
ScrFI	CCNGG	2 cut(s)	255, 620
SduI	GDGCHC	2 cut(s)	559, 658
SfaNI	GCATC	2 cut(s)	719, 831
SfcI	CTRYAG	1 cut(s)	203
SinI	GGWCC	1 cut(s)	344
SphI	GCATGC	1 cut(s)	848
Sse9I	AATT	6 cut(s)	72, 500, 738, 764, 778, 836
SsiI	CCGC	2 cut(s)	21, 137
SspI	AATATT	1 cut(s)	664
SspMI	CTAG	2 cut(s)	324, 560
SstI	GAGCTC	1 cut(s)	658
StyD4I	CCNGG	2 cut(s)	253, 618
TaaI	ACNGT	3 cut(s)	334, 478, 546
TaiI	ACGT	1 cut(s)	471
TaqI	TCGA	1 cut(s)	578
TasI	AATT	6 cut(s)	72, 500, 738, 764, 778, 836
TfiI	GAWTC	1 cut(s)	676
Tru1I	TTAA	6 cut(s)	33, 71, 405, 503, 695, 880
Tru9I	TTAA	6 cut(s)	33, 71, 405, 503, 695, 880
TseI	GCWGC	3 cut(s)	307, 458, 592
TspDTI	ATGAA	4 cut(s)	77, 377, 657, 803
VpaK11BI	GGWCC	1 cut(s)	344
XagI	CCTNNNNNAGG	1 cut(s)	623
XapI	RAATTY	3 cut(s)	738, 764, 778
XceI	RCATGY	2 cut(s)	614, 848
XmnI	GAANNNNTTC	1 cut(s)	755
XspI	CTAG	2 cut(s)	324, 560
Zsp2I	ATGCAT	1 cut(s)	846

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