Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0003615

Physical Location & Seq

Genomic Coordinates Reverse (-)

54067228 .. 54080611

Gene Structure 13384 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG364600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGGCAGCGACGAAAACCGTTGCACCTACTTCTCACTTAGATCAGCCAGTCTCAGTCACACAAGACATCAGAGGAGGACCTATAAAAAGCTCGAGTTCAGATGAACTCGTCATGCGGAAGCATTCCACTCAAGTTGAGCTAGACATGCCCATTTTGAGGCCTGCCCCAAATGTTGCAAGTCCAAATCCCTCTAAACGAACAGAGCTGTTAGAATCAAATTTTATAGACCCTACTGAGCCAAATAAAAGTTTGAAGGTTGAAGATGCTTCTTTTGGTTTCACAAGGGTTTCATCAAATGATAAAATTGAGGCTAATGGAGAGTTGCTTCGTGGACTGTGTTGGAATGTGGGGAATAAGAATGAAGTGGTTACCCCAATTAAGAATCTAGTAGGCACCCAAAAAAAGAAACCAGCAAAATCACATCTGCTTGAGATTTGCACTAAACAAAAATGGGAGCCTCCTGTTTTTGAGTGCTGCAAGGAGGAAGGGCCAAGCCACAGGAGAATGTTCACCTTCAAGGTTAATGTTAAAGTGAATGATCCCAATATAGATCTCGAATGCTTTAGTTCTCCTCATCCGAAAAAGAAAGCTGCAGCCGAGCAAGCATCTGAAGGGGCACTGTGGTACTTAAAGCATCTTGGTTATCAGTGA

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

DND1_DSRM

Protein Analysis

216

Amino Acids

24.0

Weight (kDa)

8.74

Isoelectric Point (pI)

52.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DND1_DSRM	PF14709	138 - 211	1e-15	double strand RNA binding domain from DEAD END PROTEIN 1
dsrm	PF00035	138 - 207	5.7e-08	Double-stranded RNA binding 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: OG0003615)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G80650 AT1G80650 AT1G80650 AT1G80650 AT4G00420 AT4G00420 AT4G00420 AT4G00420 AT4G00420
fragaria_vesca	FvH4_2g22602
malus_domestica	MD17G1220100.v1.1
prunus_persica	Prupe.3G095800_v2.0.a1 Prupe.3G095800_v2.0.a1
pyrus_communis	pycom17g22500
rosa_laevigata	RLG00000012284 RLG00000019337
rosa_multiflora	Rmu_co8221574.1_g000001 Rmu_sc0007236.1_g000004
rosa_roxburghii	Rroxscaffold_2G00111090 Rroxscaffold_7G00177730 Rroxscaffold_7G00177760
rosa_rugosa	Rorug02G0312000 Rorug06G0205600 Rorug06G0205600
rosa_samantha	Rh2AG364600 Rh2BG370300 Rh2CG276500 Rh2CG347900 Rh6AG317100 Rh6BG323700 Rh6BG324100 Rh6CG330300 Rh6DG315500
rosa_wichuraiana	Rw2G029720 Rw6G027350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	392
AciI	CCGC	1 cut(s)	115
AclWI	GGATC	1 cut(s)	533
AcsI	RAATTY	1 cut(s)	217
AcuI	CTGAAG	1 cut(s)	630
AfaI	GTAC	1 cut(s)	626
AfiI	CCNNNNNNNGG	1 cut(s)	156
AgsI	TTSAA	3 cut(s)	253, 260, 517
AluBI	AGCT	4 cut(s)	90, 139, 205, 590
AluI	AGCT	4 cut(s)	90, 139, 205, 590
Alw26I	GTCTC	1 cut(s)	55
AlwI	GGATC	1 cut(s)	533
Ama87I	CYCGRG	1 cut(s)	91
AoxI	GGCC	2 cut(s)	158, 488
ApeKI	GCWGC	4 cut(s)	5, 474, 590, 593
ApoI	RAATTY	1 cut(s)	217
AspS9I	GGNCC	2 cut(s)	77, 488
AsuHPI	GGTGA	1 cut(s)	502
AvaI	CYCGRG	1 cut(s)	91
AvaII	GGWCC	1 cut(s)	77
BaeGI	GKGCMC	1 cut(s)	619
BanI	GGYRCC	1 cut(s)	392
BbvI	GCAGC	4 cut(s)	17, 461, 577, 605
BcoDI	GTCTC	1 cut(s)	55
BfaI	CTAG	2 cut(s)	140, 386
BfmI	CTRYAG	1 cut(s)	591
BglII	AGATCT	1 cut(s)	550
BisI	GCNGC	4 cut(s)	6, 475, 591, 594
BlsI	GCNGC	4 cut(s)	7, 476, 592, 595
Bme18I	GGWCC	1 cut(s)	77
BmeT110I	CYCGRG	1 cut(s)	91
BmgT120I	GGNCC	2 cut(s)	77, 488
BmiI	GGNNCC	2 cut(s)	394, 456
BmsI	GCATC	3 cut(s)	253, 614, 643
BpuEI	CTTGAG	2 cut(s)	114, 449
Bsc4I	CCNNNNNNNGG	1 cut(s)	156
Bse1I	ACTGG	1 cut(s)	47
BseGI	GGATG	1 cut(s)	574
BseLI	CCNNNNNNNGG	1 cut(s)	156
BseMII	CTCAG	2 cut(s)	66, 225
BseNI	ACTGG	1 cut(s)	47
BseRI	GAGGAG	2 cut(s)	87, 561
BseSI	GKGCMC	1 cut(s)	619
BseXI	GCAGC	4 cut(s)	17, 461, 577, 605
BshFI	GGCC	2 cut(s)	160, 490
BshNI	GGYRCC	1 cut(s)	392
BsiHKCI	CYCGRG	1 cut(s)	91
BslI	CCNNNNNNNGG	1 cut(s)	156
BsmAI	GTCTC	1 cut(s)	55
BsmI	GAATGC	2 cut(s)	121, 563
BsnI	GGCC	2 cut(s)	160, 490
BsoBI	CYCGRG	1 cut(s)	91
Bsp1286I	GDGCHC	1 cut(s)	619
Bsp143I	GATC	3 cut(s)	40, 538, 550
BspACI	CCGC	1 cut(s)	115
BspANI	GGCC	2 cut(s)	160, 490
BspCNI	CTCAG	2 cut(s)	65, 226
BspLI	GGNNCC	2 cut(s)	394, 456
BspMAI	CTGCAG	1 cut(s)	595
BspPI	GGATC	1 cut(s)	533
BspT107I	GGYRCC	1 cut(s)	392
BsrI	ACTGG	1 cut(s)	47
BssMI	GATC	3 cut(s)	40, 538, 550
Bst4CI	ACNGT	3 cut(s)	19, 336, 621
BstC8I	GCNNGC	2 cut(s)	162, 603
BstDEI	CTNAG	3 cut(s)	37, 52, 234
BstEII	GGTNACC	1 cut(s)	367
BstF5I	GGATG	1 cut(s)	574
BstKTI	GATC	3 cut(s)	43, 541, 553
BstMAI	GTCTC	1 cut(s)	55
BstMBI	GATC	3 cut(s)	40, 538, 550
BstMWI	GCNNNNNNNGC	2 cut(s)	145, 602
BstNSI	RCATGY	1 cut(s)	148
BstPI	GGTNACC	1 cut(s)	367
BstSFI	CTRYAG	1 cut(s)	591
BstSLI	GKGCMC	1 cut(s)	619
BstV1I	GCAGC	4 cut(s)	17, 461, 577, 605
BstX2I	RGATCY	1 cut(s)	550
BstYI	RGATCY	1 cut(s)	550
BsuRI	GGCC	2 cut(s)	160, 490
BtsCI	GGATG	1 cut(s)	574
BtsIMutI	CAGTG	1 cut(s)	617
Cac8I	GCNNGC	2 cut(s)	162, 603
Cfr13I	GGNCC	2 cut(s)	77, 488
Csp6I	GTAC	1 cut(s)	625
CspCI	CAANNNNNGTGG	2 cut(s)	115, 150
CviAII	CATG	2 cut(s)	112, 145
CviQI	GTAC	1 cut(s)	625
DdeI	CTNAG	3 cut(s)	37, 52, 234
DpnI	GATC	3 cut(s)	42, 540, 552
DpnII	GATC	3 cut(s)	40, 538, 550
Eco147I	AGGCCT	1 cut(s)	160
Eco47I	GGWCC	1 cut(s)	77
Eco57I	CTGAAG	1 cut(s)	630
Eco88I	CYCGRG	1 cut(s)	91
Eco91I	GGTNACC	1 cut(s)	367
EcoO109I	RGGNCCY	1 cut(s)	77
EcoO65I	GGTNACC	1 cut(s)	367
FaeI	CATG	2 cut(s)	115, 148
FaiI	YATR	5 cut(s)	83, 113, 146, 224, 548
FatI	CATG	2 cut(s)	111, 144
Fnu4HI	GCNGC	4 cut(s)	6, 475, 591, 594
FokI	GGATG	1 cut(s)	561
Fsp4HI	GCNGC	4 cut(s)	6, 475, 591, 594
FspBI	CTAG	2 cut(s)	140, 386
GluI	GCNGC	4 cut(s)	6, 475, 591, 594
HaeIII	GGCC	2 cut(s)	160, 490
Hin1II	CATG	2 cut(s)	115, 148
HinfI	GANTC	2 cut(s)	212, 382
HphI	GGTGA	1 cut(s)	502
Hpy166II	GTNNAC	2 cut(s)	332, 510
Hpy188I	TCNGA	4 cut(s)	71, 100, 579, 610
Hpy188III	TCNNGA	1 cut(s)	554
Hpy8I	GTNNAC	2 cut(s)	332, 510
Hpy99I	CGWCG	1 cut(s)	13
HpyAV	CCTTC	4 cut(s)	247, 479, 523, 605
HpyCH4III	ACNGT	3 cut(s)	19, 336, 621
HpyCH4V	TGCA	5 cut(s)	23, 176, 438, 477, 593
HpyF10VI	GCNNNNNNNGC	2 cut(s)	145, 602
HpyF3I	CTNAG	3 cut(s)	37, 52, 234
Hsp92II	CATG	2 cut(s)	115, 148
Kzo9I	GATC	3 cut(s)	40, 538, 550
LmnI	GCTCC	1 cut(s)	454
LpnPI	CCDG	5 cut(s)	60, 174, 423, 474, 484
Lsp1109I	GCAGC	4 cut(s)	17, 461, 577, 605
LweI	GCATC	3 cut(s)	253, 614, 643
MaeI	CTAG	2 cut(s)	140, 386
MaeIII	GTNAC	2 cut(s)	55, 367
MalI	GATC	3 cut(s)	42, 540, 552
MboI	GATC	3 cut(s)	40, 538, 550
MboII	GAAGA	1 cut(s)	272
MflI	RGATCY	1 cut(s)	550
MhlI	GDGCHC	1 cut(s)	619
MluCI	AATT	3 cut(s)	217, 303, 375
MmeI	TCCRAC	1 cut(s)	320
MnlI	CCTC	8 cut(s)	65, 68, 150, 199, 301, 468, 475, 582
MseI	TTAA	4 cut(s)	378, 522, 528, 629
Mva1269I	GAATGC	2 cut(s)	121, 563
MwoI	GCNNNNNNNGC	2 cut(s)	145, 602
NdeII	GATC	3 cut(s)	40, 538, 550
NlaIII	CATG	2 cut(s)	115, 148
NlaIV	GGNNCC	2 cut(s)	394, 456
NmeAIII	GCCGAG	1 cut(s)	622
NmuCI	GTSAC	1 cut(s)	55
NspI	RCATGY	1 cut(s)	148
PaeR7I	CTCGAG	1 cut(s)	91
PceI	AGGCCT	1 cut(s)	160
PctI	GAATGC	2 cut(s)	121, 563
PfeI	GAWTC	2 cut(s)	212, 382
PkrI	GCNGC	4 cut(s)	7, 476, 592, 595
PpuMI	RGGWCCY	1 cut(s)	77
Psp5II	RGGWCCY	1 cut(s)	77
PspEI	GGTNACC	1 cut(s)	367
PspN4I	GGNNCC	2 cut(s)	394, 456
PspPI	GGNCC	2 cut(s)	77, 488
PspPPI	RGGWCCY	1 cut(s)	77
PspXI	VCTCGAGB	1 cut(s)	91
PstI	CTGCAG	1 cut(s)	595
PsuI	RGATCY	1 cut(s)	550
RsaI	GTAC	1 cut(s)	626
RsaNI	GTAC	1 cut(s)	625
SaqAI	TTAA	4 cut(s)	378, 522, 528, 629
SatI	GCNGC	4 cut(s)	6, 475, 591, 594
Sau3AI	GATC	3 cut(s)	40, 538, 550
Sau96I	GGNCC	2 cut(s)	77, 488
SduI	GDGCHC	1 cut(s)	619
SetI	ASST	9 cut(s)	28, 82, 92, 141, 207, 258, 515, 522, 592
SfaNI	GCATC	3 cut(s)	253, 614, 643
SfcI	CTRYAG	1 cut(s)	591
Sfr274I	CTCGAG	1 cut(s)	91
SinI	GGWCC	1 cut(s)	77
SlaI	CTCGAG	1 cut(s)	91
SmlI	CTYRAG	3 cut(s)	91, 129, 428
SmoI	CTYRAG	3 cut(s)	91, 129, 428
Sse9I	AATT	3 cut(s)	217, 303, 375
SseBI	AGGCCT	1 cut(s)	160
SsiI	CCGC	1 cut(s)	115
SspMI	CTAG	2 cut(s)	140, 386
StuI	AGGCCT	1 cut(s)	160
TaaI	ACNGT	3 cut(s)	19, 336, 621
TaqI	TCGA	2 cut(s)	92, 555
TasI	AATT	3 cut(s)	217, 303, 375
TfiI	GAWTC	2 cut(s)	212, 382
Tru1I	TTAA	4 cut(s)	378, 522, 528, 629
Tru9I	TTAA	4 cut(s)	378, 522, 528, 629
TscAI	CASTG	1 cut(s)	624
TseFI	GTSAC	1 cut(s)	55
TseI	GCWGC	4 cut(s)	5, 474, 590, 593
Tsp45I	GTSAC	1 cut(s)	55
TspDTI	ATGAA	3 cut(s)	117, 279, 375
TspRI	CASTG	1 cut(s)	624
VpaK11BI	GGWCC	1 cut(s)	77
XapI	RAATTY	1 cut(s)	217
XceI	RCATGY	1 cut(s)	148
XhoI	CTCGAG	1 cut(s)	91
XspI	CTAG	2 cut(s)	140, 386

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