Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0003615

Physical Location & Seq

Genomic Coordinates Reverse (-)

51779463 .. 51781006

Gene Structure 1544 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG370300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGTATAAGTACTGTTTGGGTTGGTTAGTTTCTTTGTTCTGGCCATATGGTTGGTTACTTTCACCCCACAATTTCTGTAAGCATGCGCCAGTTGCACCTACTTCTCACTTGGATCAGCCAGTCTCAGTCACACAAGACATCAGAGGAGGACCCCTAAAAAGCTCGAGTTCAGATGAAATCGTCATGCGGAAGCATTCCACTCAAGTTGAGCTAGACATGCCCATTTTGAGGCCTGCCCCAAATGTTACAAATATGCTCAGTTTGAAGCCTGCCCCAAATGTTGCAAATCCAAATCCCTCTAAACGAACAGAGCTGTTAGAATCAAATTTTATAGACCCTACTGAGCCAAATAAAAGTTTGAAGCAGGTTGAAGATGCTTCTTTTGGTTCCGTAAGGGTTTCATCAAACGATAAAATTGAGGCTAATGGAGAGTTGCTTCTTGGACTGTATGTGGGTAATAAGAATGAAGTGGTTACCCCAATTAAGAATCTAGTAGGCACCCAAAAAAAGAAACCAGCAAAATCACATCTGCTTGAGATTTGCACTAAACAAAAATGGGAGCCTCCTGTTTTTGAGTGCTGCAAGGAGGAAGGGCCAAGCCACAGGAGAATGTTCACCTTCAAGGTTAATGTTAAAGTGAATGATCCCAATACAGATCTCGAATGCTTTAGTTCTCCTCATCCGAAAAAGAAAGCTGCAGCCGAGCAAGCATCTGAAGGGGCACTGTGGTACTTAAAGCATCTTGGTTATCAGTGA

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

251

Amino Acids

28.1

Weight (kDa)

8.79

Isoelectric Point (pI)

48.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DND1_DSRM	PF14709	173 - 246	1e-15	double strand RNA binding domain from DEAD END PROTEIN 1
dsrm	PF00035	173 - 242	3.8e-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

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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)
Acc36I	ACCTGC	1 cut(s)	355
AccB1I	GGYRCC	1 cut(s)	497
AciI	CCGC	1 cut(s)	187
AclWI	GGATC	2 cut(s)	120, 638
AcoI	YGGCCR	1 cut(s)	41
AcsI	RAATTY	1 cut(s)	325
AcuI	CTGAAG	1 cut(s)	735
AfaI	GTAC	2 cut(s)	11, 731
AfiI	CCNNNNNNNGG	1 cut(s)	228
AgsI	TTSAA	4 cut(s)	265, 361, 371, 622
AluBI	AGCT	4 cut(s)	162, 211, 313, 695
AluI	AGCT	4 cut(s)	162, 211, 313, 695
Alw26I	GTCTC	1 cut(s)	127
AlwI	GGATC	2 cut(s)	120, 638
Ama87I	CYCGRG	1 cut(s)	163
AoxI	GGCC	3 cut(s)	41, 230, 593
ApeKI	GCWGC	3 cut(s)	579, 695, 698
ApoI	RAATTY	1 cut(s)	325
AspLEI	GCGC	1 cut(s)	88
AspS9I	GGNCC	2 cut(s)	149, 593
AsuHPI	GGTGA	2 cut(s)	54, 607
AvaI	CYCGRG	1 cut(s)	163
AvaII	GGWCC	1 cut(s)	149
BaeGI	GKGCMC	1 cut(s)	724
BalI	TGGCCA	1 cut(s)	43
BanI	GGYRCC	1 cut(s)	497
BbvI	GCAGC	3 cut(s)	566, 682, 710
BcoDI	GTCTC	1 cut(s)	127
BfaI	CTAG	2 cut(s)	212, 491
BfmI	CTRYAG	1 cut(s)	696
BfuAI	ACCTGC	1 cut(s)	355
BglII	AGATCT	1 cut(s)	655
BisI	GCNGC	3 cut(s)	580, 696, 699
BlsI	GCNGC	3 cut(s)	581, 697, 700
BmcAI	AGTACT	1 cut(s)	11
Bme18I	GGWCC	1 cut(s)	149
BmeT110I	CYCGRG	1 cut(s)	163
BmgT120I	GGNCC	2 cut(s)	149, 593
BmiI	GGNNCC	4 cut(s)	151, 388, 499, 561
BmsI	GCATC	3 cut(s)	364, 719, 748
BpuEI	CTTGAG	2 cut(s)	186, 554
Bsc4I	CCNNNNNNNGG	1 cut(s)	228
Bse1I	ACTGG	2 cut(s)	89, 119
BseGI	GGATG	1 cut(s)	679
BseLI	CCNNNNNNNGG	1 cut(s)	228
BseMII	CTCAG	3 cut(s)	138, 271, 333
BseNI	ACTGG	2 cut(s)	89, 119
BseRI	GAGGAG	2 cut(s)	159, 666
BseSI	GKGCMC	1 cut(s)	724
BseXI	GCAGC	3 cut(s)	566, 682, 710
BshFI	GGCC	3 cut(s)	43, 232, 595
BshNI	GGYRCC	1 cut(s)	497
BsiHKCI	CYCGRG	1 cut(s)	163
BslI	CCNNNNNNNGG	1 cut(s)	228
BsmAI	GTCTC	1 cut(s)	127
BsmI	GAATGC	2 cut(s)	193, 668
BsnI	GGCC	3 cut(s)	43, 232, 595
BsoBI	CYCGRG	1 cut(s)	163
Bsp1286I	GDGCHC	1 cut(s)	724
Bsp143I	GATC	3 cut(s)	112, 643, 655
BspACI	CCGC	1 cut(s)	187
BspANI	GGCC	3 cut(s)	43, 232, 595
BspCNI	CTCAG	3 cut(s)	137, 270, 334
BspLI	GGNNCC	4 cut(s)	151, 388, 499, 561
BspMAI	CTGCAG	1 cut(s)	700
BspMI	ACCTGC	1 cut(s)	355
BspPI	GGATC	2 cut(s)	120, 638
BspT107I	GGYRCC	1 cut(s)	497
BsrI	ACTGG	2 cut(s)	89, 119
BssMI	GATC	3 cut(s)	112, 643, 655
Bst4CI	ACNGT	3 cut(s)	14, 447, 726
BstC8I	GCNNGC	4 cut(s)	84, 234, 270, 708
BstDEI	CTNAG	3 cut(s)	124, 257, 342
BstEII	GGTNACC	1 cut(s)	472
BstF5I	GGATG	1 cut(s)	679
BstHHI	GCGC	1 cut(s)	88
BstKTI	GATC	3 cut(s)	115, 646, 658
BstMAI	GTCTC	1 cut(s)	127
BstMBI	GATC	3 cut(s)	112, 643, 655
BstMWI	GCNNNNNNNGC	3 cut(s)	92, 217, 707
BstNSI	RCATGY	2 cut(s)	86, 220
BstPI	GGTNACC	1 cut(s)	472
BstSFI	CTRYAG	1 cut(s)	696
BstSLI	GKGCMC	1 cut(s)	724
BstV1I	GCAGC	3 cut(s)	566, 682, 710
BstX2I	RGATCY	1 cut(s)	655
BstXI	CCANNNNNNTGG	1 cut(s)	51
BstYI	RGATCY	1 cut(s)	655
BsuRI	GGCC	3 cut(s)	43, 232, 595
BtsCI	GGATG	1 cut(s)	679
BtsIMutI	CAGTG	1 cut(s)	722
BveI	ACCTGC	1 cut(s)	355
Cac8I	GCNNGC	4 cut(s)	84, 234, 270, 708
CfoI	GCGC	1 cut(s)	88
Cfr13I	GGNCC	2 cut(s)	149, 593
Csp6I	GTAC	2 cut(s)	10, 730
CspCI	CAANNNNNGTGG	2 cut(s)	187, 222
CviAII	CATG	3 cut(s)	83, 184, 217
CviQI	GTAC	2 cut(s)	10, 730
DdeI	CTNAG	3 cut(s)	124, 257, 342
DpnI	GATC	3 cut(s)	114, 645, 657
DpnII	GATC	3 cut(s)	112, 643, 655
EaeI	YGGCCR	1 cut(s)	41
Eco147I	AGGCCT	1 cut(s)	232
Eco47I	GGWCC	1 cut(s)	149
Eco57I	CTGAAG	1 cut(s)	735
Eco88I	CYCGRG	1 cut(s)	163
Eco91I	GGTNACC	1 cut(s)	472
EcoO109I	RGGNCCY	1 cut(s)	149
EcoO65I	GGTNACC	1 cut(s)	472
FaeI	CATG	3 cut(s)	86, 187, 220
FaiI	YATR	9 cut(s)	6, 46, 48, 84, 185, 218, 254, 332, 450
FatI	CATG	3 cut(s)	82, 183, 216
FauNDI	CATATG	1 cut(s)	46
Fnu4HI	GCNGC	3 cut(s)	580, 696, 699
FokI	GGATG	1 cut(s)	666
Fsp4HI	GCNGC	3 cut(s)	580, 696, 699
FspBI	CTAG	2 cut(s)	212, 491
GlaI	GCGC	1 cut(s)	87
GluI	GCNGC	3 cut(s)	580, 696, 699
HaeIII	GGCC	3 cut(s)	43, 232, 595
HhaI	GCGC	1 cut(s)	88
Hin1II	CATG	3 cut(s)	86, 187, 220
Hin6I	GCGC	1 cut(s)	86
HinP1I	GCGC	1 cut(s)	86
HinfI	GANTC	2 cut(s)	320, 487
HphI	GGTGA	2 cut(s)	54, 607
Hpy166II	GTNNAC	1 cut(s)	615
Hpy188I	TCNGA	4 cut(s)	143, 172, 684, 715
Hpy188III	TCNNGA	1 cut(s)	659
Hpy8I	GTNNAC	1 cut(s)	615
HpyAV	CCTTC	3 cut(s)	584, 628, 710
HpyCH4III	ACNGT	3 cut(s)	14, 447, 726
HpyCH4V	TGCA	5 cut(s)	95, 284, 543, 582, 698
HpyF10VI	GCNNNNNNNGC	3 cut(s)	92, 217, 707
HpyF3I	CTNAG	3 cut(s)	124, 257, 342
Hsp92II	CATG	3 cut(s)	86, 187, 220
HspAI	GCGC	1 cut(s)	86
Kzo9I	GATC	3 cut(s)	112, 643, 655
LmnI	GCTCC	1 cut(s)	559
LpnPI	CCDG	9 cut(s)	25, 102, 132, 246, 282, 350, 528, 579, 589
Lsp1109I	GCAGC	3 cut(s)	566, 682, 710
LweI	GCATC	3 cut(s)	364, 719, 748
MaeI	CTAG	2 cut(s)	212, 491
MaeIII	GTNAC	4 cut(s)	54, 127, 244, 472
MalI	GATC	3 cut(s)	114, 645, 657
MboI	GATC	3 cut(s)	112, 643, 655
MboII	GAAGA	1 cut(s)	383
MflI	RGATCY	1 cut(s)	655
MhlI	GDGCHC	1 cut(s)	724
MlsI	TGGCCA	1 cut(s)	43
MluCI	AATT	4 cut(s)	70, 325, 414, 480
MluNI	TGGCCA	1 cut(s)	43
MnlI	CCTC	8 cut(s)	137, 140, 222, 307, 412, 573, 580, 687
Mox20I	TGGCCA	1 cut(s)	43
MscI	TGGCCA	1 cut(s)	43
MseI	TTAA	4 cut(s)	483, 627, 633, 734
Msp20I	TGGCCA	1 cut(s)	43
Mva1269I	GAATGC	2 cut(s)	193, 668
MwoI	GCNNNNNNNGC	3 cut(s)	92, 217, 707
NdeI	CATATG	1 cut(s)	46
NdeII	GATC	3 cut(s)	112, 643, 655
NlaIII	CATG	3 cut(s)	86, 187, 220
NlaIV	GGNNCC	4 cut(s)	151, 388, 499, 561
NmeAIII	GCCGAG	1 cut(s)	727
NmuCI	GTSAC	1 cut(s)	127
NspI	RCATGY	2 cut(s)	86, 220
PaeI	GCATGC	1 cut(s)	86
PaeR7I	CTCGAG	1 cut(s)	163
PceI	AGGCCT	1 cut(s)	232
PctI	GAATGC	2 cut(s)	193, 668
PfeI	GAWTC	2 cut(s)	320, 487
PkrI	GCNGC	3 cut(s)	581, 697, 700
PpuMI	RGGWCCY	1 cut(s)	149
Psp5II	RGGWCCY	1 cut(s)	149
PspEI	GGTNACC	1 cut(s)	472
PspN4I	GGNNCC	4 cut(s)	151, 388, 499, 561
PspPI	GGNCC	2 cut(s)	149, 593
PspPPI	RGGWCCY	1 cut(s)	149
PspXI	VCTCGAGB	1 cut(s)	163
PstI	CTGCAG	1 cut(s)	700
PsuI	RGATCY	1 cut(s)	655
RsaI	GTAC	2 cut(s)	11, 731
RsaNI	GTAC	2 cut(s)	10, 730
SaqAI	TTAA	4 cut(s)	483, 627, 633, 734
SatI	GCNGC	3 cut(s)	580, 696, 699
Sau3AI	GATC	3 cut(s)	112, 643, 655
Sau96I	GGNCC	2 cut(s)	149, 593
ScaI	AGTACT	1 cut(s)	11
SduI	GDGCHC	1 cut(s)	724
SetI	ASST	8 cut(s)	100, 164, 213, 315, 369, 620, 627, 697
SfaNI	GCATC	3 cut(s)	364, 719, 748
SfcI	CTRYAG	1 cut(s)	696
Sfr274I	CTCGAG	1 cut(s)	163
SinI	GGWCC	1 cut(s)	149
SlaI	CTCGAG	1 cut(s)	163
SmlI	CTYRAG	3 cut(s)	163, 201, 533
SmoI	CTYRAG	3 cut(s)	163, 201, 533
SphI	GCATGC	1 cut(s)	86
Sse9I	AATT	4 cut(s)	70, 325, 414, 480
SseBI	AGGCCT	1 cut(s)	232
SsiI	CCGC	1 cut(s)	187
SspMI	CTAG	2 cut(s)	212, 491
StuI	AGGCCT	1 cut(s)	232
TaaI	ACNGT	3 cut(s)	14, 447, 726
TaqI	TCGA	2 cut(s)	164, 660
TasI	AATT	4 cut(s)	70, 325, 414, 480
TatI	WGTACW	1 cut(s)	9
TfiI	GAWTC	2 cut(s)	320, 487
Tru1I	TTAA	4 cut(s)	483, 627, 633, 734
Tru9I	TTAA	4 cut(s)	483, 627, 633, 734
TscAI	CASTG	1 cut(s)	729
TseFI	GTSAC	1 cut(s)	127
TseI	GCWGC	3 cut(s)	579, 695, 698
Tsp45I	GTSAC	1 cut(s)	127
TspDTI	ATGAA	3 cut(s)	189, 390, 480
TspGWI	ACGGA	1 cut(s)	379
TspRI	CASTG	1 cut(s)	729
VpaK11BI	GGWCC	1 cut(s)	149
XapI	RAATTY	1 cut(s)	325
XceI	RCATGY	2 cut(s)	86, 220
XhoI	CTCGAG	1 cut(s)	163
XspI	CTAG	2 cut(s)	212, 491
ZrmI	AGTACT	1 cut(s)	11

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