Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0011085

Physical Location & Seq

Genomic Coordinates Forward (+)

51507081 .. 51508878

Gene Structure 1798 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG291300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGGCAGCCACTTGCTTAATCATAGCACCCTCTCCTCCCTCTTGGATCACTAACAACACCACCCCGAAGACCGGAGTCACAATTTCACTTAAACGATTCGTTTTCAGTTCCGTTCCATTTTCTTCCTTGCATCACCAGCTCAAGTACTCGAAGAACAGAGCCGGGGTTTTGACGGCGTTGGCCGTAGTGGAACAGGAACAGGCGGTGAGTTCAGTGGCTGAGGAAGAAGAACAAGGTGTGGACGATAATGGGTATGAAGAGCAGTATGAGCACGAGAGACACAGCGCCGATGTTTCAGGCGAGGAGGGATTGGAAATGGAGACGCAGAATCGGCAGCCAAGACCGTGTGAGTTGTACGTGTGCAATCTTCCCAGAAGCTCTGACATTGAGGACTTGATGGAGATGTTTAAGCCACACGGGACTGTTTTCTCCGTCGAGATTTCCCGGAGTCCCGTGACCGGTTTAAGCAGAGGCTGTGGTTACATTACAATGGGCTCTATAGACTCTGCTAAAGCCGCCATTGCTGCATTGGATGGGATTGATGTTGCAGGGAGGGAGATGCGGGTTAGGTTTTCGGTTCATATGAGTCCGAGGACTAGGAACTCCGAGGCATTGAATTCGGCACCGGTGAAGAACTTGGTGTACGAAAGCCCTTATAAGCTCTATGTTGGTAACCTGGCCTGGGCTGTCCAGCCTCATGCTTTGAGGAGCCATTTCAGCAAGTTTGGGACTGTGGCTAGTGCAAGAGTGTTGCATGATCGTAAAGCTGGGAAGAACCGGGCTTATGGGTTTATCTCATTCTCTTCGGCTGCAGAGCGTGATAAAGCGGCCACTTTGGATGGAACGGTAATGTACATGAATTCTGACCCGATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 ko03018 map03013 map03015 map03018

Pfam Domains

Protein Families

RRM_1

Protein Analysis

291

Amino Acids

31.95

Weight (kDa)

6.15

Isoelectric Point (pI)

42.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	118 - 188	3.4e-13	RNA recognition motif
RRM_1	PF00076	221 - 283	1.3e-12	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0011085)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G01080 AT1G01080 AT1G01080
fragaria_vesca	FvH4_7g17690
malus_domestica	MD07G1160000.v1.1
pyrus_communis	pycom07g15630
rosa_chinensis	RchiOBHm_Chr1g0361121
rosa_laevigata	RLG00000027747
rosa_multiflora	Rmu_co8199314.1_g000001 Rmu_co8203846.1_g000001 Rmu_sc0002863.1_g000038 Rmu_sc0020096.1_g000002
rosa_roxburghii	Rroxscaffold_4G00295420
rosa_rugosa	Rorug01G0285700
rosa_samantha	Rh1AG297200 Rh1BG261500 Rh1CG278600 Rh1DG291300
rosa_wichuraiana	Rw1G026250 Rw1G026930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	657
AccB1I	GGYRCC	1 cut(s)	622
AciI	CCGC	4 cut(s)	203, 516, 562, 827
AclWI	GGATC	1 cut(s)	53
AcoI	YGGCCR	2 cut(s)	180, 828
AcsI	RAATTY	2 cut(s)	616, 859
AfaI	GTAC	4 cut(s)	146, 356, 644, 854
AfiI	CCNNNNNNNGG	3 cut(s)	71, 458, 682
AflIII	ACRYGT	1 cut(s)	357
AgeI	ACCGGT	2 cut(s)	458, 625
AgsI	TTSAA	1 cut(s)	616
AjnI	CCWGG	2 cut(s)	675, 680
AluBI	AGCT	4 cut(s)	139, 378, 661, 767
AluI	AGCT	4 cut(s)	139, 378, 661, 767
Alw21I	GWGCWC	1 cut(s)	273
Alw26I	GTCTC	2 cut(s)	271, 314
AlwI	GGATC	1 cut(s)	53
AlwNI	CAGNNNCTG	2 cut(s)	218, 474
AoxI	GGCC	3 cut(s)	180, 678, 828
ApeKI	GCWGC	4 cut(s)	5, 334, 524, 809
ApoI	RAATTY	2 cut(s)	616, 859
AsiGI	ACCGGT	2 cut(s)	458, 625
AspLEI	GCGC	1 cut(s)	287
AsuC2I	CCSGG	3 cut(s)	163, 445, 779
AsuHPI	GGTGA	3 cut(s)	125, 217, 640
BanI	GGYRCC	1 cut(s)	622
BanII	GRGCYC	1 cut(s)	497
BauI	CACGAG	1 cut(s)	272
BbsI	GAAGAC	1 cut(s)	74
Bbv12I	GWGCWC	1 cut(s)	273
BbvCI	CCTCAGC	1 cut(s)	219
BbvI	GCAGC	4 cut(s)	17, 346, 511, 796
BccI	CCATC	3 cut(s)	391, 527, 833
BceAI	ACGGC	2 cut(s)	167, 189
BcgI	CGANNNNNNTGC	2 cut(s)	600, 634
BciT130I	CCWGG	2 cut(s)	677, 682
BcnI	CCSGG	3 cut(s)	163, 445, 779
BcoDI	GTCTC	2 cut(s)	271, 314
BfaI	CTAG	2 cut(s)	597, 738
BfmI	CTRYAG	2 cut(s)	498, 810
BfoI	RGCGCY	1 cut(s)	288
BisI	GCNGC	6 cut(s)	6, 335, 516, 525, 810, 828
BlsI	GCNGC	6 cut(s)	7, 336, 517, 526, 811, 829
BmcAI	AGTACT	1 cut(s)	146
Bme1390I	CCNGG	5 cut(s)	163, 445, 677, 682, 779
BmiI	GGNNCC	2 cut(s)	624, 710
BmrFI	CCNGG	5 cut(s)	163, 445, 677, 682, 779
BmsI	GCATC	2 cut(s)	139, 549
BoxI	GACNNNNGTC	1 cut(s)	74
BpiI	GAAGAC	1 cut(s)	74
Bpu10I	CCTNAGC	1 cut(s)	219
BpuEI	CTTGAG	1 cut(s)	125
BpuMI	CCSGG	3 cut(s)	163, 445, 779
BsaAI	YACGTR	1 cut(s)	358
BsaJI	CCNNGG	4 cut(s)	162, 590, 606, 681
BsaWI	WCCGGW	3 cut(s)	71, 458, 625
Bsc4I	CCNNNNNNNGG	3 cut(s)	71, 458, 682
Bse118I	RCCGGY	2 cut(s)	458, 625
Bse3DI	GCAATG	1 cut(s)	519
BseBI	CCWGG	2 cut(s)	677, 682
BseDI	CCNNGG	4 cut(s)	162, 590, 606, 681
BseGI	GGATG	2 cut(s)	538, 844
BseLI	CCNNNNNNNGG	3 cut(s)	71, 458, 682
BseMI	GCAATG	1 cut(s)	519
BseMII	CTCAG	1 cut(s)	210
BseRI	GAGGAG	3 cut(s)	24, 317, 721
BseXI	GCAGC	4 cut(s)	17, 346, 511, 796
BseYI	CCCAGC	1 cut(s)	767
BshFI	GGCC	3 cut(s)	182, 680, 830
BshNI	GGYRCC	1 cut(s)	622
BshTI	ACCGGT	2 cut(s)	458, 625
BsiHKAI	GWGCWC	1 cut(s)	273
BsiSI	CCGG	6 cut(s)	72, 162, 445, 459, 626, 778
BslFI	GGGAC	3 cut(s)	433, 435, 742
BslI	CCNNNNNNNGG	3 cut(s)	71, 458, 682
BsmAI	GTCTC	2 cut(s)	271, 314
BsmBI	CGTCTC	1 cut(s)	314
BsmFI	GGGAC	3 cut(s)	433, 435, 742
BsnI	GGCC	3 cut(s)	182, 680, 830
Bsp1286I	GDGCHC	2 cut(s)	273, 497
Bsp1407I	TGTACA	1 cut(s)	852
Bsp143I	GATC	2 cut(s)	45, 757
BspACI	CCGC	4 cut(s)	203, 516, 562, 827
BspANI	GGCC	3 cut(s)	182, 680, 830
BspCNI	CTCAG	1 cut(s)	211
BspLI	GGNNCC	2 cut(s)	624, 710
BspMAI	CTGCAG	1 cut(s)	814
BspPI	GGATC	1 cut(s)	53
BspQI	GCTCTTC	1 cut(s)	252
BspT107I	GGYRCC	1 cut(s)	622
BsrDI	GCAATG	1 cut(s)	519
BsrFI	RCCGGY	2 cut(s)	458, 625
BsrGI	TGTACA	1 cut(s)	852
BssAI	RCCGGY	2 cut(s)	458, 625
BssECI	CCNNGG	4 cut(s)	162, 590, 606, 681
BssMI	GATC	2 cut(s)	45, 757
BssSI	CACGAG	1 cut(s)	272
Bst2BI	CACGAG	1 cut(s)	272
Bst2UI	CCWGG	2 cut(s)	677, 682
Bst4CI	ACNGT	4 cut(s)	345, 424, 733, 847
Bst6I	CTCTTC	2 cut(s)	252, 808
BstAUI	TGTACA	1 cut(s)	852
BstBAI	YACGTR	1 cut(s)	358
BstDEI	CTNAG	1 cut(s)	219
BstEII	GGTNACC	1 cut(s)	671
BstF5I	GGATG	2 cut(s)	538, 844
BstH2I	RGCGCY	1 cut(s)	288
BstHHI	GCGC	1 cut(s)	287
BstKTI	GATC	2 cut(s)	48, 760
BstMAI	GTCTC	2 cut(s)	271, 314
BstMBI	GATC	2 cut(s)	45, 757
BstMWI	GCNNNNNNNGC	7 cut(s)	136, 268, 331, 515, 521, 524, 717
BstNI	CCWGG	2 cut(s)	677, 682
BstPAI	GACNNNNGTC	1 cut(s)	74
BstPI	GGTNACC	1 cut(s)	671
BstSCI	CCNGG	5 cut(s)	161, 443, 675, 680, 777
BstSFI	CTRYAG	2 cut(s)	498, 810
BstV1I	GCAGC	4 cut(s)	17, 346, 511, 796
BstV2I	GAAGAC	1 cut(s)	74
BsuRI	GGCC	3 cut(s)	182, 680, 830
BtsCI	GGATG	2 cut(s)	538, 844
BtsIMutI	CAGTG	1 cut(s)	219
CaiI	CAGNNNCTG	2 cut(s)	218, 474
CfoI	GCGC	1 cut(s)	287
Cfr10I	RCCGGY	2 cut(s)	458, 625
CseI	GACGC	1 cut(s)	331
Csp6I	GTAC	4 cut(s)	145, 355, 643, 853
CspAI	ACCGGT	2 cut(s)	458, 625
CviAII	CATG	3 cut(s)	698, 755, 856
CviQI	GTAC	4 cut(s)	145, 355, 643, 853
DdeI	CTNAG	1 cut(s)	219
DpnI	GATC	2 cut(s)	47, 759
DpnII	GATC	2 cut(s)	45, 757
EaeI	YGGCCR	2 cut(s)	180, 828
Eam1104I	CTCTTC	2 cut(s)	252, 808
EarI	CTCTTC	2 cut(s)	252, 808
Eco24I	GRGCYC	1 cut(s)	497
Eco91I	GGTNACC	1 cut(s)	671
EcoO65I	GGTNACC	1 cut(s)	671
EcoRI	GAATTC	2 cut(s)	616, 859
EcoRII	CCWGG	2 cut(s)	675, 680
EcoT38I	GRGCYC	1 cut(s)	497
Esp3I	CGTCTC	1 cut(s)	314
FaeI	CATG	3 cut(s)	701, 758, 859
FaqI	GGGAC	3 cut(s)	433, 435, 742
FatI	CATG	3 cut(s)	697, 754, 855
FauI	CCCGC	1 cut(s)	555
FauNDI	CATATG	1 cut(s)	582
Fnu4HI	GCNGC	6 cut(s)	6, 335, 516, 525, 810, 828
FokI	GGATG	2 cut(s)	545, 851
FriOI	GRGCYC	1 cut(s)	497
Fsp4HI	GCNGC	6 cut(s)	6, 335, 516, 525, 810, 828
FspBI	CTAG	2 cut(s)	597, 738
GlaI	GCGC	1 cut(s)	286
GluI	GCNGC	6 cut(s)	6, 335, 516, 525, 810, 828
GsaI	CCCAGC	1 cut(s)	771
HaeII	RGCGCY	1 cut(s)	288
HaeIII	GGCC	3 cut(s)	182, 680, 830
HapII	CCGG	6 cut(s)	72, 162, 445, 459, 626, 778
HgaI	GACGC	1 cut(s)	331
HhaI	GCGC	1 cut(s)	287
Hin1II	CATG	3 cut(s)	701, 758, 859
Hin6I	GCGC	1 cut(s)	285
HinP1I	GCGC	1 cut(s)	285
HinfI	GANTC	6 cut(s)	75, 96, 328, 448, 503, 586
HpaII	CCGG	6 cut(s)	72, 162, 445, 459, 626, 778
HphI	GGTGA	3 cut(s)	125, 217, 640
Hpy166II	GTNNAC	2 cut(s)	241, 643
Hpy188I	TCNGA	4 cut(s)	382, 591, 607, 865
Hpy188III	TCNNGA	1 cut(s)	436
Hpy8I	GTNNAC	2 cut(s)	241, 643
Hpy99I	CGWCG	1 cut(s)	437
HpyCH4III	ACNGT	4 cut(s)	345, 424, 733, 847
HpyCH4IV	ACGT	1 cut(s)	357
HpyCH4V	TGCA	7 cut(s)	130, 363, 527, 548, 743, 754, 812
HpyF10VI	GCNNNNNNNGC	7 cut(s)	136, 268, 331, 515, 521, 524, 717
HpyF3I	CTNAG	1 cut(s)	219
HpySE526I	ACGT	1 cut(s)	357
Hsp92II	CATG	3 cut(s)	701, 758, 859
HspAI	GCGC	1 cut(s)	285
Kzo9I	GATC	2 cut(s)	45, 757
LguI	GCTCTTC	1 cut(s)	252
LmnI	GCTCC	1 cut(s)	708
Lsp1109I	GCAGC	4 cut(s)	17, 346, 511, 796
LweI	GCATC	2 cut(s)	139, 549
MaeI	CTAG	2 cut(s)	597, 738
MaeII	ACGT	1 cut(s)	357
MaeIII	GTNAC	4 cut(s)	76, 454, 479, 671
MalI	GATC	2 cut(s)	47, 759
MboI	GATC	2 cut(s)	45, 757
MhlI	GDGCHC	2 cut(s)	273, 497
MluCI	AATT	3 cut(s)	81, 616, 859
MlyI	GAGTC	4 cut(s)	84, 457, 497, 595
MseI	TTAA	4 cut(s)	17, 90, 408, 464
MslI	CAYNNNNRTG	1 cut(s)	488
MspI	CCGG	6 cut(s)	72, 162, 445, 459, 626, 778
MspR9I	CCNGG	5 cut(s)	163, 445, 677, 682, 779
MvaI	CCWGG	2 cut(s)	677, 682
MwoI	GCNNNNNNNGC	7 cut(s)	136, 268, 331, 515, 521, 524, 717
NciI	CCSGG	3 cut(s)	163, 445, 779
NdeI	CATATG	1 cut(s)	582
NdeII	GATC	2 cut(s)	45, 757
NlaIII	CATG	3 cut(s)	701, 758, 859
NlaIV	GGNNCC	2 cut(s)	624, 710
NmuCI	GTSAC	2 cut(s)	76, 454
PciSI	GCTCTTC	1 cut(s)	252
PfeI	GAWTC	2 cut(s)	96, 328
PfoI	TCCNGGA	1 cut(s)	443
PinAI	ACCGGT	2 cut(s)	458, 625
PkrI	GCNGC	6 cut(s)	7, 336, 517, 526, 811, 829
PleI	GAGTC	4 cut(s)	83, 456, 497, 594
PpsI	GAGTC	4 cut(s)	83, 456, 497, 594
Ppu21I	YACGTR	1 cut(s)	358
PshAI	GACNNNNGTC	1 cut(s)	74
PsiI	TTATAA	1 cut(s)	657
Psp6I	CCWGG	2 cut(s)	675, 680
PspEI	GGTNACC	1 cut(s)	671
PspFI	CCCAGC	1 cut(s)	767
PspGI	CCWGG	2 cut(s)	675, 680
PspN4I	GGNNCC	2 cut(s)	624, 710
PsrI	GAACNNNNNNTAC	2 cut(s)	626, 658
PstI	CTGCAG	1 cut(s)	814
PstNI	CAGNNNCTG	2 cut(s)	218, 474
RsaI	GTAC	4 cut(s)	146, 356, 644, 854
RsaNI	GTAC	4 cut(s)	145, 355, 643, 853
RseI	CAYNNNNRTG	1 cut(s)	488
SapI	GCTCTTC	1 cut(s)	252
SaqAI	TTAA	4 cut(s)	17, 90, 408, 464
SatI	GCNGC	6 cut(s)	6, 335, 516, 525, 810, 828
Sau3AI	GATC	2 cut(s)	45, 757
ScaI	AGTACT	1 cut(s)	146
SchI	GAGTC	4 cut(s)	84, 457, 497, 595
ScrFI	CCNGG	5 cut(s)	163, 445, 677, 682, 779
SduI	GDGCHC	2 cut(s)	273, 497
SetI	ASST	8 cut(s)	141, 238, 360, 380, 572, 663, 678, 769
SfaNI	GCATC	2 cut(s)	139, 549
SfcI	CTRYAG	2 cut(s)	498, 810
SgrAI	CRCCGGYG	1 cut(s)	625
SmiMI	CAYNNNNRTG	1 cut(s)	488
SmlI	CTYRAG	1 cut(s)	140
SmoI	CTYRAG	1 cut(s)	140
Sse9I	AATT	3 cut(s)	81, 616, 859
SsiI	CCGC	4 cut(s)	203, 516, 562, 827
SspMI	CTAG	2 cut(s)	597, 738
StyD4I	CCNGG	5 cut(s)	161, 443, 675, 680, 777
TaaI	ACNGT	4 cut(s)	345, 424, 733, 847
TaiI	ACGT	1 cut(s)	360
TaqI	TCGA	2 cut(s)	149, 435
TasI	AATT	3 cut(s)	81, 616, 859
TatI	WGTACW	2 cut(s)	144, 852
TauI	GCSGC	2 cut(s)	518, 830
TfiI	GAWTC	2 cut(s)	96, 328
Tru1I	TTAA	4 cut(s)	17, 90, 408, 464
Tru9I	TTAA	4 cut(s)	17, 90, 408, 464
TscAI	CASTG	1 cut(s)	219
TseFI	GTSAC	2 cut(s)	76, 454
TseI	GCWGC	4 cut(s)	5, 334, 524, 809
Tsp45I	GTSAC	2 cut(s)	76, 454
TspDTI	ATGAA	3 cut(s)	270, 569, 872
TspGWI	ACGGA	2 cut(s)	100, 421
TspRI	CASTG	1 cut(s)	219
XapI	RAATTY	2 cut(s)	616, 859
XcmI	CCANNNNNNNNNTGG	1 cut(s)	526
XspI	CTAG	2 cut(s)	597, 738
ZrmI	AGTACT	1 cut(s)	146

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