Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001153

Physical Location & Seq

Genomic Coordinates Reverse (-)

71668953 .. 71671770

Gene Structure 2818 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG449200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGAATTTACTTCAATCTTTCCCTCATTCTGAATTTGATGTCGAAAACATGAATATGGCCTCTAATGAAATGGAAGTTGATGACAAAGTCGAATGGTCTGCTAAGAATGAAGGAAAATTCATTCGTATTTTGCATGAGCATGTGAAAAAAGGTGATATGCAAACGTCCACTTTCAAAAAGAAAATTTGGGTGGAAATAAGTGATGAGTTGTTTGCTGAAAGTACAAAAAGATATGTTGTGCCACAACTAAAGTCTAAATTCAATAGACTACGCAAAAAACACCGTGTATTTTCTGATTTGATTGAGCATACCGGATTTGGGTGGGATCCTATTGCGAACACTGTAACTGCATCAGAGGAAGTATGGGCTACATATATTAAGAGAGTGCCAGGAGTGAAGCCATATCGTAAGAAAGGGTTGGAACATTATGAAATTTTAGGGGAAATATTTAACACTACTACTGCAACGGGTCAACTACATTATGCCTCTAGCCAACTCCCTCCCAATTCAGATGAAGAGCGCGAGTTAGAGAACAAGTTTCTTAATAATGGAGTTCATATCAATCTTGATGAGGATTTCAATATTAATAATGCTCAAATTGAGACAAAAGGAAAAAGAAAGGCTATGACAGAGGCTCCAGCTTCAGAGCGTCGTACAAAGAAATGGGACAAAATGGAAGCCTACTTAGAAATTTGTGGTACTAAAGATGATTATAGACATGGAAGATAG

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

Myb_DNA-bind_3

Protein Analysis

242

Amino Acids

28.23

Weight (kDa)

6.77

Isoelectric Point (pI)

42.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-bind_3	PF12776	31 - 125	6.5e-21	Myb/SANT-like DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: OG0001153)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g13820 FvH4_4g13820 FvH4_7g00340 FvH4_7g00340
malus_domestica	MD03G1270400.v1.1
prunus_persica	Prupe.2G094900_v2.0.a1 Prupe.2G102600_v2.0.a1 Prupe.6G193000_v2.0.a1 Prupe.7G061200_v2.0.a1 Prupe.7G061200_v2.0.a1 Prupe.7G061200_v2.0.a1 Prupe.8G054800_v2.0.a1 Prupe.8G117400_v2.0.a1
pyrus_communis	pycom03g21560 pycom07g16360
rosa_chinensis	RchiOBHm_Chr1g0354771
rosa_laevigata	RLG00000001198 RLG00000008665 RLG00000013335 RLG00000015409 RLG00000034319 RLG00000035605
rosa_multiflora	Rmu_sc0001706.1_g000015 Rmu_sc0002322.1_g000017 Rmu_sc0003547.1_g000003 Rmu_sc0004100.1_g000005 Rmu_sc0005327.1_g000016 Rmu_sc0005391.1_g000008 Rmu_sc0005712.1_g000024 Rmu_sc0005828.1_g000009 Rmu_sc0007671.1_g000018
rosa_roxburghii	Rroxscaffold_1G00003860 Rroxscaffold_1G00034960 Rroxscaffold_2G00132460 Rroxscaffold_2G00138020 Rroxscaffold_3G00226530 Rroxscaffold_3G00263690 Rroxscaffold_5G00349740 Rroxscaffold_6G00420740 Rroxscaffold_7G00189380
rosa_rugosa	Rorug01G0229200 Rorug07G0196300
rosa_samantha	Rh2CG067600 Rh4BG064700 Rh4BG219300 Rh4BG219400 Rh4DG015000 Rh4DG015100 Rh5DG120300 Rh5DG242700 Rh5DG449200 Rh7BG129400 Rh7DG459200
rosa_wichuraiana	Rw4G033640 Rw5G021850 Rw6G008400 Rw6G017680 Rw7G041100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	522
AclWI	GGATC	2 cut(s)	320, 333
AcsI	RAATTY	7 cut(s)	4, 32, 116, 183, 257, 432, 690
AcuI	CTGAAG	1 cut(s)	627
AfaI	GTAC	3 cut(s)	223, 655, 700
AfiI	CCNNNNNNNGG	1 cut(s)	318
AgsI	TTSAA	4 cut(s)	14, 175, 262, 580
AjnI	CCWGG	1 cut(s)	388
AluBI	AGCT	1 cut(s)	641
AluI	AGCT	1 cut(s)	641
Alw26I	GTCTC	1 cut(s)	596
AlwI	GGATC	2 cut(s)	320, 333
AoxI	GGCC	1 cut(s)	57
ApoI	RAATTY	7 cut(s)	4, 32, 116, 183, 257, 432, 690
AseI	ATTAAT	1 cut(s)	585
AspLEI	GCGC	1 cut(s)	522
AsuHPI	GGTGA	1 cut(s)	164
BamHI	GGATCC	1 cut(s)	325
BcgI	CGANNNNNNTGC	2 cut(s)	80, 114
BciT130I	CCWGG	1 cut(s)	390
BcoDI	GTCTC	1 cut(s)	596
BfaI	CTAG	1 cut(s)	489
Bme1390I	CCNGG	1 cut(s)	390
BmiI	GGNNCC	2 cut(s)	327, 636
BmrFI	CCNGG	1 cut(s)	390
BmsI	GCATC	1 cut(s)	359
BpmI	CTGGAG	1 cut(s)	621
BsaWI	WCCGGW	1 cut(s)	311
BsaXI	ACNNNNNCTCC	2 cut(s)	619, 649
Bsc4I	CCNNNNNNNGG	1 cut(s)	318
BseBI	CCWGG	1 cut(s)	390
BseLI	CCNNNNNNNGG	1 cut(s)	318
Bsh1236I	CGCG	1 cut(s)	522
BshFI	GGCC	1 cut(s)	59
BsiSI	CCGG	1 cut(s)	312
BslFI	GGGAC	1 cut(s)	680
BslI	CCNNNNNNNGG	1 cut(s)	318
BsmAI	GTCTC	1 cut(s)	596
BsmFI	GGGAC	1 cut(s)	680
BsnI	GGCC	1 cut(s)	59
Bsp143I	GATC	1 cut(s)	325
BspANI	GGCC	1 cut(s)	59
BspFNI	CGCG	1 cut(s)	522
BspLI	GGNNCC	2 cut(s)	327, 636
BspPI	GGATC	2 cut(s)	320, 333
BspQI	GCTCTTC	1 cut(s)	510
BssMI	GATC	1 cut(s)	325
Bst2UI	CCWGG	1 cut(s)	390
Bst4CI	ACNGT	2 cut(s)	284, 343
Bst6I	CTCTTC	1 cut(s)	510
BstDEI	CTNAG	2 cut(s)	102, 685
BstFNI	CGCG	1 cut(s)	522
BstHHI	GCGC	1 cut(s)	522
BstKTI	GATC	1 cut(s)	328
BstMAI	GTCTC	1 cut(s)	596
BstMBI	GATC	1 cut(s)	325
BstNI	CCWGG	1 cut(s)	390
BstNSI	RCATGY	1 cut(s)	143
BstSCI	CCNGG	1 cut(s)	388
BstUI	CGCG	1 cut(s)	522
BstX2I	RGATCY	1 cut(s)	325
BstYI	RGATCY	1 cut(s)	325
BsuRI	GGCC	1 cut(s)	59
BtsIMutI	CAGTG	1 cut(s)	339
CfoI	GCGC	1 cut(s)	522
CseI	GACGC	1 cut(s)	638
Csp6I	GTAC	3 cut(s)	222, 654, 699
CviAII	CATG	4 cut(s)	49, 134, 140, 719
CviJI	RGCY	8 cut(s)	59, 368, 400, 492, 623, 635, 641, 680
CviKI_1	RGCY	8 cut(s)	59, 368, 400, 492, 623, 635, 641, 680
CviQI	GTAC	3 cut(s)	222, 654, 699
DdeI	CTNAG	2 cut(s)	102, 685
DpnI	GATC	1 cut(s)	327
DpnII	GATC	1 cut(s)	325
Eam1104I	CTCTTC	1 cut(s)	510
EarI	CTCTTC	1 cut(s)	510
Eco57I	CTGAAG	1 cut(s)	627
EcoRII	CCWGG	1 cut(s)	388
FaeI	CATG	4 cut(s)	52, 137, 143, 722
FaqI	GGGAC	1 cut(s)	680
FatI	CATG	4 cut(s)	48, 133, 139, 718
FspBI	CTAG	1 cut(s)	489
GlaI	GCGC	1 cut(s)	521
GsuI	CTGGAG	1 cut(s)	621
HaeIII	GGCC	1 cut(s)	59
HapII	CCGG	1 cut(s)	312
HgaI	GACGC	1 cut(s)	638
HhaI	GCGC	1 cut(s)	522
Hin1II	CATG	4 cut(s)	52, 137, 143, 722
Hin6I	GCGC	1 cut(s)	520
HinP1I	GCGC	1 cut(s)	520
HincII	GTYRAC	1 cut(s)	473
HindII	GTYRAC	1 cut(s)	473
HpaII	CCGG	1 cut(s)	312
HphI	GGTGA	1 cut(s)	164
Hpy166II	GTNNAC	2 cut(s)	168, 473
Hpy188I	TCNGA	5 cut(s)	31, 295, 355, 511, 646
Hpy188III	TCNNGA	1 cut(s)	566
Hpy8I	GTNNAC	2 cut(s)	168, 473
Hpy99I	CGWCG	1 cut(s)	654
HpyAV	CCTTC	1 cut(s)	104
HpyCH4III	ACNGT	2 cut(s)	284, 343
HpyCH4IV	ACGT	1 cut(s)	164
HpyCH4V	TGCA	4 cut(s)	133, 160, 350, 464
HpyF3I	CTNAG	2 cut(s)	102, 685
HpySE526I	ACGT	1 cut(s)	164
Hsp92II	CATG	4 cut(s)	52, 137, 143, 722
HspAI	GCGC	1 cut(s)	520
Kzo9I	GATC	1 cut(s)	325
LguI	GCTCTTC	1 cut(s)	510
LmnI	GCTCC	1 cut(s)	640
LpnPI	CCDG	4 cut(s)	325, 375, 402, 651
LweI	GCATC	1 cut(s)	359
MaeI	CTAG	1 cut(s)	489
MaeII	ACGT	1 cut(s)	164
MaeIII	GTNAC	1 cut(s)	343
MalI	GATC	1 cut(s)	327
MboI	GATC	1 cut(s)	325
MboII	GAAGA	1 cut(s)	527
MflI	RGATCY	1 cut(s)	325
MluCI	AATT	9 cut(s)	4, 32, 116, 183, 257, 432, 505, 597, 690
MmeI	TCCRAC	1 cut(s)	399
MnlI	CCTC	7 cut(s)	33, 70, 349, 496, 510, 565, 625
MseI	TTAA	4 cut(s)	378, 450, 543, 585
MslI	CAYNNNNRTG	2 cut(s)	53, 138
MspI	CCGG	1 cut(s)	312
MspR9I	CCNGG	1 cut(s)	390
MvaI	CCWGG	1 cut(s)	390
MvnI	CGCG	1 cut(s)	522
NdeII	GATC	1 cut(s)	325
NlaIII	CATG	4 cut(s)	52, 137, 143, 722
NlaIV	GGNNCC	2 cut(s)	327, 636
NspI	RCATGY	1 cut(s)	143
PciSI	GCTCTTC	1 cut(s)	510
PflFI	GACNNNGTC	1 cut(s)	86
PshBI	ATTAAT	1 cut(s)	585
Psp6I	CCWGG	1 cut(s)	388
PspGI	CCWGG	1 cut(s)	388
PspN4I	GGNNCC	2 cut(s)	327, 636
PsuI	RGATCY	1 cut(s)	325
PsyI	GACNNNGTC	1 cut(s)	86
RsaI	GTAC	3 cut(s)	223, 655, 700
RsaNI	GTAC	3 cut(s)	222, 654, 699
RseI	CAYNNNNRTG	2 cut(s)	53, 138
SapI	GCTCTTC	1 cut(s)	510
SaqAI	TTAA	4 cut(s)	378, 450, 543, 585
Sau3AI	GATC	1 cut(s)	325
ScrFI	CCNGG	1 cut(s)	390
SetI	ASST	3 cut(s)	154, 167, 643
SfaNI	GCATC	1 cut(s)	359
SmiMI	CAYNNNNRTG	2 cut(s)	53, 138
Sse9I	AATT	9 cut(s)	4, 32, 116, 183, 257, 432, 505, 597, 690
SspI	AATATT	2 cut(s)	447, 583
SspMI	CTAG	1 cut(s)	489
StyD4I	CCNGG	1 cut(s)	388
TaaI	ACNGT	2 cut(s)	284, 343
TaiI	ACGT	1 cut(s)	167
TaqI	TCGA	2 cut(s)	42, 90
TasI	AATT	9 cut(s)	4, 32, 116, 183, 257, 432, 505, 597, 690
TatI	WGTACW	1 cut(s)	221
Tru1I	TTAA	4 cut(s)	378, 450, 543, 585
Tru9I	TTAA	4 cut(s)	378, 450, 543, 585
TscAI	CASTG	1 cut(s)	346
TspDTI	ATGAA	8 cut(s)	17, 65, 81, 109, 123, 444, 528, 545
TspRI	CASTG	1 cut(s)	346
Tth111I	GACNNNGTC	1 cut(s)	86
VspI	ATTAAT	1 cut(s)	585
XapI	RAATTY	7 cut(s)	4, 32, 116, 183, 257, 432, 690
XceI	RCATGY	1 cut(s)	143
XspI	CTAG	1 cut(s)	489

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