Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0004906

Physical Location & Seq

Genomic Coordinates Forward (+)

65827251 .. 65830612

Gene Structure 3362 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG450100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 885 bp

ATGAAGATGATAACTGGACGCCAAACTAGCAGATTTTTACAAATTGTTGGATGCAATATTCACATGAATTATTTCTTTGATTGCAGAAAATTTGCAGCAGCCAATCTTTTGGTCTCAAATATGAGTGGACGATTTTCTCGCACAATCTATGTCGGCAACCTACCCTCAGATATAAGAGAACGGGAGGTTGAAGATTTATTCTACAAGTATGGCCGCATTTTGGATATTGAATTGAAGGTTCCACCTCGCCCTCCATGCTATAGTTTTGTTGAGTTTGAGAGTTCTCGGGATGCAGAAGATGCAATTAGGGGTCGTGATGGGTACAACTTTGATGGCTGTCGTTTAAGGGTTGAGCTTGCCCATGGTGGTAGTAGGGGCCCGCCACCTAGTGATCGTCGTGGTGGATATGGTGGAGGCAGTAGCAGAGGAGGCAGCAGTGGGGGTCGATTTGGTGTCTCACGTCATTCTGAATTTCGAGTTATTGTTCGTGGTCTCCCTTCTTCTGCTTCATGGCAAGATTTGAAGGATCATATGCGAAAAGCTGGTGATGTGTGTTTTGCTGAGGTTTGTCGTGACAGTGAAGGGACTTATGGCTTGGTTGATTATAACAATTATGATGACATGAAATATGCTGTTCGGGAACTTCATGATACTGAATTTAAAAATCCTTGGGCAAGATCTTATATTCGGGTTAAAGTGTATGAAAGCAGCAGTCCCTCTAGGAGTCGGAGCAGAAGCCGTAGTGTAAGAAGGAATAAGAGGCGAGGTCAGATAGTGCTTGATCCTCCTGGCAAGTCATGCTTCCAAGGTGTATGGGTGTATGGGTGTTGGGTGCAAGAATTCAAATATCTGAGGGGACTTGTTGAAAATATTATTTTTGTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0031974 GO:0031981 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03040 ko04657 ko05168 map03040 map04657 map05168

Pfam Domains

Protein Families

RRM_1

Protein Analysis

294

Amino Acids

33.62

Weight (kDa)

9.52

Isoelectric Point (pI)

58.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	49 - 116	1.8e-17	RNA recognition motif
RRM_1	PF00076	160 - 222	1.5e-11	RNA recognition 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: OG0004906)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G49430 AT3G49430 AT3G49430 AT3G49430 AT3G49430 AT3G49430 AT3G49430
fragaria_vesca	FvH4_7g32850 FvH4_7g32850
malus_domestica	MD01G1227800.v1.1 MD01G1227900.v1.1 MD07G1298400.v1.1
prunus_persica	Prupe.2G318200_v2.0.a1
pyrus_communis	pycom01g23610 pycom07g27080
rosa_chinensis	RchiOBHm_Chr1g0382791
rosa_laevigata	RLG00000026159
rosa_multiflora	Rmu_sc0002242.1_g000001 Rmu_sc0003389.1_g000002
rosa_roxburghii	Rroxscaffold_4G00277900
rosa_rugosa	Rorug01G0435900.1 Rorug01G0436000 Rorug01G0436100 Rorug01G0436200 Rorug01G0436300
rosa_samantha	Rh1AG461200 Rh1BG417900 Rh1CG431700 Rh1DG450100
rosa_wichuraiana	Rw1G041050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	606
AciI	CCGC	2 cut(s)	214, 380
AclWI	GGATC	2 cut(s)	534, 776
AcoI	YGGCCR	1 cut(s)	211
AcsI	RAATTY	4 cut(s)	89, 470, 656, 839
AcyI	GRCGYC	1 cut(s)	19
AdeI	CACNNNGTG	1 cut(s)	389
AfaI	GTAC	1 cut(s)	323
AfiI	CCNNNNNNNGG	1 cut(s)	220
AgsI	TTSAA	6 cut(s)	191, 230, 235, 523, 844, 866
AjiI	CACGTC	1 cut(s)	461
AjnI	CCWGG	1 cut(s)	787
AluBI	AGCT	2 cut(s)	355, 542
AluI	AGCT	2 cut(s)	355, 542
Alw26I	GTCTC	3 cut(s)	118, 460, 497
AlwI	GGATC	2 cut(s)	534, 776
Ama87I	CYCGRG	1 cut(s)	285
AoxI	GGCC	2 cut(s)	211, 376
ApaI	GGGCCC	1 cut(s)	380
ApeKI	GCWGC	4 cut(s)	95, 98, 432, 708
ApoI	RAATTY	4 cut(s)	89, 470, 656, 839
Asp700I	GAANNNNTTC	1 cut(s)	71
AspS9I	GGNCC	2 cut(s)	376, 377
AsuHPI	GGTGA	1 cut(s)	557
AvaI	CYCGRG	1 cut(s)	285
BaeGI	GKGCMC	1 cut(s)	380
BanII	GRGCYC	1 cut(s)	380
BbvCI	CCTCAGC	1 cut(s)	561
BbvI	GCAGC	4 cut(s)	107, 110, 444, 720
BccI	CCATC	2 cut(s)	311, 326
BceAI	ACGGC	1 cut(s)	723
BciT130I	CCWGG	1 cut(s)	789
BcoDI	GTCTC	3 cut(s)	118, 460, 497
BfaI	CTAG	3 cut(s)	27, 387, 720
BfmI	CTRYAG	1 cut(s)	259
BglII	AGATCT	1 cut(s)	677
BisI	GCNGC	5 cut(s)	96, 99, 214, 433, 709
BlsI	GCNGC	5 cut(s)	97, 100, 215, 434, 710
Bme1390I	CCNGG	1 cut(s)	789
BmeT110I	CYCGRG	1 cut(s)	285
BmgBI	CACGTC	1 cut(s)	461
BmgT120I	GGNCC	2 cut(s)	376, 377
BmiI	GGNNCC	3 cut(s)	240, 377, 378
BmrFI	CCNGG	1 cut(s)	789
BmsI	GCATC	3 cut(s)	41, 280, 289
Bpu10I	CCTNAGC	1 cut(s)	561
BsaHI	GRCGYC	1 cut(s)	19
BsaI	GGTCTC	2 cut(s)	118, 497
BsaJI	CCNNGG	3 cut(s)	361, 668, 805
Bsc4I	CCNNNNNNNGG	1 cut(s)	220
Bse1I	ACTGG	1 cut(s)	19
BseBI	CCWGG	1 cut(s)	789
BseDI	CCNNGG	3 cut(s)	361, 668, 805
BseGI	GGATG	2 cut(s)	56, 295
BseLI	CCNNNNNNNGG	1 cut(s)	220
BseMII	CTCAG	3 cut(s)	180, 552, 842
BseNI	ACTGG	1 cut(s)	19
BseRI	GAGGAG	1 cut(s)	441
BseSI	GKGCMC	1 cut(s)	380
BseXI	GCAGC	4 cut(s)	107, 110, 444, 720
BshFI	GGCC	2 cut(s)	213, 378
BsiHKCI	CYCGRG	1 cut(s)	285
BslFI	GGGAC	3 cut(s)	598, 699, 870
BslI	CCNNNNNNNGG	1 cut(s)	220
BsmAI	GTCTC	3 cut(s)	118, 460, 497
BsmFI	GGGAC	3 cut(s)	598, 699, 870
BsnI	GGCC	2 cut(s)	213, 378
Bso31I	GGTCTC	2 cut(s)	118, 497
BsoBI	CYCGRG	1 cut(s)	285
Bsp120I	GGGCCC	1 cut(s)	376
Bsp1286I	GDGCHC	1 cut(s)	380
Bsp143I	GATC	4 cut(s)	391, 526, 677, 781
Bsp19I	CCATGG	1 cut(s)	361
BspACI	CCGC	2 cut(s)	214, 380
BspANI	GGCC	2 cut(s)	213, 378
BspCNI	CTCAG	3 cut(s)	179, 553, 843
BspHI	TCATGA	1 cut(s)	646
BspLI	GGNNCC	3 cut(s)	240, 377, 378
BspPI	GGATC	2 cut(s)	534, 776
BspTNI	GGTCTC	2 cut(s)	118, 497
BsrI	ACTGG	1 cut(s)	19
BssECI	CCNNGG	3 cut(s)	361, 668, 805
BssMI	GATC	4 cut(s)	391, 526, 677, 781
BssNI	GRCGYC	1 cut(s)	19
BssT1I	CCWWGG	3 cut(s)	361, 668, 805
Bst2UI	CCWGG	1 cut(s)	789
Bst4CI	ACNGT	1 cut(s)	578
BstACI	GRCGYC	1 cut(s)	19
BstAPI	GCANNNNNTGC	2 cut(s)	299, 798
BstC8I	GCNNGC	2 cut(s)	357, 380
BstDEI	CTNAG	3 cut(s)	166, 561, 851
BstDSI	CCRYGG	1 cut(s)	361
BstF5I	GGATG	2 cut(s)	56, 295
BstKTI	GATC	4 cut(s)	394, 529, 680, 784
BstMAI	GTCTC	3 cut(s)	118, 460, 497
BstMBI	GATC	4 cut(s)	391, 526, 677, 781
BstMWI	GCNNNNNNNGC	5 cut(s)	27, 255, 299, 429, 798
BstNI	CCWGG	1 cut(s)	789
BstSCI	CCNGG	1 cut(s)	787
BstSFI	CTRYAG	1 cut(s)	259
BstSLI	GKGCMC	1 cut(s)	380
BstV1I	GCAGC	4 cut(s)	107, 110, 444, 720
BstX2I	RGATCY	1 cut(s)	677
BstXI	CCANNNNNNTGG	1 cut(s)	109
BstYI	RGATCY	1 cut(s)	677
BsuRI	GGCC	2 cut(s)	213, 378
BtgI	CCRYGG	1 cut(s)	361
BtrI	CACGTC	1 cut(s)	461
BtsCI	GGATG	2 cut(s)	56, 295
BtsI	GCAGTG	1 cut(s)	442
BtsIMutI	CAGTG	2 cut(s)	442, 583
Cac8I	GCNNGC	2 cut(s)	357, 380
CciI	TCATGA	1 cut(s)	646
Cfr13I	GGNCC	2 cut(s)	376, 377
CseI	GACGC	1 cut(s)	27
Csp6I	GTAC	1 cut(s)	322
CviAII	CATG	7 cut(s)	64, 255, 362, 510, 622, 647, 798
CviJI	RGCY	8 cut(s)	101, 213, 336, 355, 378, 542, 594, 738
CviKI_1	RGCY	8 cut(s)	101, 213, 336, 355, 378, 542, 594, 738
CviQI	GTAC	1 cut(s)	322
DdeI	CTNAG	3 cut(s)	166, 561, 851
DpnI	GATC	4 cut(s)	393, 528, 679, 783
DpnII	GATC	4 cut(s)	391, 526, 677, 781
DraI	TTTAAA	1 cut(s)	661
DraIII	CACNNNGTG	1 cut(s)	389
EaeI	YGGCCR	1 cut(s)	211
Eco130I	CCWWGG	3 cut(s)	361, 668, 805
Eco24I	GRGCYC	1 cut(s)	380
Eco31I	GGTCTC	2 cut(s)	118, 497
Eco88I	CYCGRG	1 cut(s)	285
EcoO109I	RGGNCCY	1 cut(s)	376
EcoRI	GAATTC	1 cut(s)	839
EcoRII	CCWGG	1 cut(s)	787
EcoT14I	CCWWGG	3 cut(s)	361, 668, 805
EcoT38I	GRGCYC	1 cut(s)	380
ErhI	CCWWGG	3 cut(s)	361, 668, 805
FaeI	CATG	7 cut(s)	67, 258, 365, 513, 625, 650, 801
FalI	AAGNNNNNCTT	2 cut(s)	785, 817
FaqI	GGGAC	3 cut(s)	598, 699, 870
FatI	CATG	7 cut(s)	63, 254, 361, 509, 621, 646, 797
FauI	CCCGC	1 cut(s)	387
FauNDI	CATATG	1 cut(s)	531
Fnu4HI	GCNGC	5 cut(s)	96, 99, 214, 433, 709
FokI	GGATG	2 cut(s)	63, 302
FriOI	GRGCYC	1 cut(s)	380
Fsp4HI	GCNGC	5 cut(s)	96, 99, 214, 433, 709
FspBI	CTAG	3 cut(s)	27, 387, 720
GluI	GCNGC	5 cut(s)	96, 99, 214, 433, 709
HaeIII	GGCC	2 cut(s)	213, 378
HgaI	GACGC	1 cut(s)	27
Hin1I	GRCGYC	1 cut(s)	19
Hin1II	CATG	7 cut(s)	67, 258, 365, 513, 625, 650, 801
HinfI	GANTC	1 cut(s)	724
HphI	GGTGA	1 cut(s)	557
Hpy166II	GTNNAC	1 cut(s)	128
Hpy188I	TCNGA	5 cut(s)	169, 469, 729, 771, 852
Hpy188III	TCNNGA	5 cut(s)	287, 314, 572, 638, 647
Hpy8I	GTNNAC	1 cut(s)	128
Hpy99I	CGWCG	1 cut(s)	399
HpyAV	CCTTC	5 cut(s)	229, 507, 517, 575, 744
HpyCH4III	ACNGT	1 cut(s)	578
HpyCH4IV	ACGT	1 cut(s)	460
HpyCH4V	TGCA	6 cut(s)	54, 84, 95, 293, 302, 835
HpyF10VI	GCNNNNNNNGC	5 cut(s)	27, 255, 299, 429, 798
HpyF3I	CTNAG	3 cut(s)	166, 561, 851
HpySE526I	ACGT	1 cut(s)	460
Hsp92I	GRCGYC	1 cut(s)	19
Hsp92II	CATG	7 cut(s)	67, 258, 365, 513, 625, 650, 801
Kzo9I	GATC	4 cut(s)	391, 526, 677, 781
LmnI	GCTCC	1 cut(s)	729
LpnPI	CCDG	3 cut(s)	528, 774, 801
Lsp1109I	GCAGC	4 cut(s)	107, 110, 444, 720
LweI	GCATC	3 cut(s)	41, 280, 289
MaeI	CTAG	3 cut(s)	27, 387, 720
MaeII	ACGT	1 cut(s)	460
MaeIII	GTNAC	1 cut(s)	572
MalI	GATC	4 cut(s)	393, 528, 679, 783
MboI	GATC	4 cut(s)	391, 526, 677, 781
MboII	GAAGA	4 cut(s)	16, 203, 308, 492
MflI	RGATCY	1 cut(s)	677
MhlI	GDGCHC	1 cut(s)	380
MluCI	AATT	9 cut(s)	42, 67, 89, 230, 303, 470, 610, 656, 839
MlyI	GAGTC	1 cut(s)	733
MmeI	TCCRAC	2 cut(s)	28, 707
MroXI	GAANNNNTTC	1 cut(s)	71
MseI	TTAA	3 cut(s)	344, 660, 693
MspR9I	CCNGG	1 cut(s)	789
MvaI	CCWGG	1 cut(s)	789
MwoI	GCNNNNNNNGC	5 cut(s)	27, 255, 299, 429, 798
NcoI	CCATGG	1 cut(s)	361
NdeI	CATATG	1 cut(s)	531
NdeII	GATC	4 cut(s)	391, 526, 677, 781
NlaIII	CATG	7 cut(s)	67, 258, 365, 513, 625, 650, 801
NlaIV	GGNNCC	3 cut(s)	240, 377, 378
NmuCI	GTSAC	1 cut(s)	572
PagI	TCATGA	1 cut(s)	646
PdmI	GAANNNNTTC	1 cut(s)	71
PkrI	GCNGC	5 cut(s)	97, 100, 215, 434, 710
PleI	GAGTC	1 cut(s)	732
PpsI	GAGTC	1 cut(s)	732
PsiI	TTATAA	1 cut(s)	606
Psp6I	CCWGG	1 cut(s)	787
PspGI	CCWGG	1 cut(s)	787
PspN4I	GGNNCC	3 cut(s)	240, 377, 378
PspOMI	GGGCCC	1 cut(s)	376
PspPI	GGNCC	2 cut(s)	376, 377
PsuI	RGATCY	1 cut(s)	677
RsaI	GTAC	1 cut(s)	323
RsaNI	GTAC	1 cut(s)	322
SaqAI	TTAA	3 cut(s)	344, 660, 693
SatI	GCNGC	5 cut(s)	96, 99, 214, 433, 709
Sau3AI	GATC	4 cut(s)	391, 526, 677, 781
Sau96I	GGNCC	2 cut(s)	376, 377
SchI	GAGTC	1 cut(s)	733
ScrFI	CCNGG	1 cut(s)	789
SduI	GDGCHC	1 cut(s)	380
SfaNI	GCATC	3 cut(s)	41, 280, 289
SfcI	CTRYAG	1 cut(s)	259
Sse9I	AATT	9 cut(s)	42, 67, 89, 230, 303, 470, 610, 656, 839
SsiI	CCGC	2 cut(s)	214, 380
SspI	AATATT	2 cut(s)	58, 871
SspMI	CTAG	3 cut(s)	27, 387, 720
StyD4I	CCNGG	1 cut(s)	787
StyI	CCWWGG	3 cut(s)	361, 668, 805
TaaI	ACNGT	1 cut(s)	578
TaiI	ACGT	1 cut(s)	463
TaqI	TCGA	2 cut(s)	445, 475
TasI	AATT	9 cut(s)	42, 67, 89, 230, 303, 470, 610, 656, 839
TauI	GCSGC	1 cut(s)	216
Tru1I	TTAA	3 cut(s)	344, 660, 693
Tru9I	TTAA	3 cut(s)	344, 660, 693
TscAI	CASTG	2 cut(s)	442, 583
TseFI	GTSAC	1 cut(s)	572
TseI	GCWGC	4 cut(s)	95, 98, 432, 708
Tsp45I	GTSAC	1 cut(s)	572
TspDTI	ATGAA	6 cut(s)	17, 80, 498, 635, 638, 717
TspRI	CASTG	2 cut(s)	442, 583
XapI	RAATTY	4 cut(s)	89, 470, 656, 839
XmnI	GAANNNNTTC	1 cut(s)	71
XspI	CTAG	3 cut(s)	27, 387, 720

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