Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0011085

Physical Location & Seq

Genomic Coordinates Forward (+)

52862765 .. 52864743

Gene Structure 1979 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG297200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGGCTATGGCAGCCACATGCTTAAACATAACACCCTCTCCTCCCTCTTGGATTACTAACAACACCAGCCCGAACACCGGAGTCACAATTTCACTTAAACGATTCGTTTTCAGTTCCGTTCCATTTTCTTCCTTGCATCGCCGGCTCAGGTACTCGAAGAACAGAGCCGGGGTTTTGACGGCGTTGGCCGTAGTGGAACAGGAACAGGCGGTAAGTTCAGTGGCTGAGGAAGAAGAACAAGGTGTGGACGATAATGGGTATGAAGAGCAGTATGAGTACGAGAGACACAAGTCACACAACGCCGATGTTTCAGGCGAGGGATTGGAAATGGAGAAGCAGAATCGGCAGCCAAGACCGTGTGAGTTGTACGTGTGCAATCTTCCCAGAAGCTCTGACATTGAGGACTTGATGGAGATGTTTAAGCCACACGGGACTGTTTTCTCCGTCGAGATTTCCCGGAATCCGGAGACCGGTTTAAGTAGAGGCTGTGGTTACATTACAATGGGCTCTATAGACTCTGCTAAAGCCGCCATTGCTGCATTGGATGGGATTGATGTTGCAGGGAGGGAGATGCGGGTTAGGTTTTCGGTTCATATGAGTCCGAGGACTAGGAACTCCGAGGCATTGAATTCGGCACCGGTGAAGAACTTGGTGTACGAAAGCCCTTATAAGCTCTATGTTGGTAACCTGGCCTGGGCTGTCCAGCCTCATGCTTTGAGGAGCCATTTCAGCAAGTTTGGGACTCTGGCTAGTGCAAGAGTGTTGCATGATCGAAAAGCTGGGAAGAACCGGGCTTATGGGTTTATCTCATTCTCTTCGGCTGCAGAGCGTGATAAAGCGGCCACTTTGGATGGAACGGTAATGTACATGAATTCTGACCCGATTTGA

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

295

Amino Acids

32.61

Weight (kDa)

6.72

Isoelectric Point (pI)

46.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	122 - 192	2e-14	RNA recognition motif
RRM_1	PF00076	225 - 287	6.6e-12	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: 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)	669
AccB1I	GGYRCC	1 cut(s)	634
AccIII	TCCGGA	1 cut(s)	463
AciI	CCGC	4 cut(s)	209, 528, 574, 839
AcoI	YGGCCR	2 cut(s)	186, 840
AcsI	RAATTY	2 cut(s)	628, 871
AfaI	GTAC	5 cut(s)	152, 278, 368, 656, 866
AfiI	CCNNNNNNNGG	4 cut(s)	77, 463, 470, 694
AflIII	ACRYGT	1 cut(s)	369
AgeI	ACCGGT	2 cut(s)	470, 637
AgsI	TTSAA	1 cut(s)	628
AjnI	CCWGG	2 cut(s)	687, 692
AluBI	AGCT	3 cut(s)	390, 673, 779
AluI	AGCT	3 cut(s)	390, 673, 779
Alw26I	GTCTC	2 cut(s)	277, 461
AlwNI	CAGNNNCTG	1 cut(s)	224
Aor13HI	TCCGGA	1 cut(s)	463
AoxI	GGCC	3 cut(s)	186, 690, 840
ApeKI	GCWGC	4 cut(s)	11, 346, 536, 821
ApoI	RAATTY	2 cut(s)	628, 871
AsiGI	ACCGGT	2 cut(s)	470, 637
AsuC2I	CCSGG	3 cut(s)	169, 457, 791
AsuHPI	GGTGA	1 cut(s)	652
BanI	GGYRCC	1 cut(s)	634
BanII	GRGCYC	1 cut(s)	509
BbvCI	CCTCAGC	1 cut(s)	225
BbvI	GCAGC	4 cut(s)	23, 358, 523, 808
BccI	CCATC	3 cut(s)	403, 539, 845
BceAI	ACGGC	2 cut(s)	173, 195
BcgI	CGANNNNNNTGC	2 cut(s)	612, 646
BciT130I	CCWGG	2 cut(s)	689, 694
BcnI	CCSGG	3 cut(s)	169, 457, 791
BcoDI	GTCTC	2 cut(s)	277, 461
BfaI	CTAG	2 cut(s)	609, 750
BfmI	CTRYAG	2 cut(s)	510, 822
BisI	GCNGC	6 cut(s)	12, 347, 528, 537, 822, 840
BlsI	GCNGC	6 cut(s)	13, 348, 529, 538, 823, 841
Bme1390I	CCNGG	5 cut(s)	169, 457, 689, 694, 791
BmiI	GGNNCC	2 cut(s)	636, 722
BmrFI	CCNGG	5 cut(s)	169, 457, 689, 694, 791
BmsI	GCATC	2 cut(s)	145, 561
BoxI	GACNNNNGTC	1 cut(s)	289
Bpu10I	CCTNAGC	2 cut(s)	146, 225
BpuMI	CCSGG	3 cut(s)	169, 457, 791
BsaAI	YACGTR	1 cut(s)	370
BsaI	GGTCTC	1 cut(s)	461
BsaJI	CCNNGG	4 cut(s)	168, 602, 618, 693
BsaWI	WCCGGW	4 cut(s)	77, 463, 470, 637
BsaXI	ACNNNNNCTCC	2 cut(s)	22, 52
Bsc4I	CCNNNNNNNGG	4 cut(s)	77, 463, 470, 694
Bse118I	RCCGGY	3 cut(s)	141, 470, 637
Bse3DI	GCAATG	1 cut(s)	531
BseAI	TCCGGA	1 cut(s)	463
BseBI	CCWGG	2 cut(s)	689, 694
BseDI	CCNNGG	4 cut(s)	168, 602, 618, 693
BseGI	GGATG	2 cut(s)	550, 856
BseLI	CCNNNNNNNGG	4 cut(s)	77, 463, 470, 694
BseMI	GCAATG	1 cut(s)	531
BseMII	CTCAG	2 cut(s)	160, 216
BseRI	GAGGAG	2 cut(s)	30, 733
BseXI	GCAGC	4 cut(s)	23, 358, 523, 808
BseYI	CCCAGC	1 cut(s)	779
BshFI	GGCC	3 cut(s)	188, 692, 842
BshNI	GGYRCC	1 cut(s)	634
BshTI	ACCGGT	2 cut(s)	470, 637
BsiSI	CCGG	8 cut(s)	78, 142, 168, 457, 464, 471, 638, 790
BslFI	GGGAC	2 cut(s)	445, 754
BslI	CCNNNNNNNGG	4 cut(s)	77, 463, 470, 694
BsmAI	GTCTC	2 cut(s)	277, 461
BsmFI	GGGAC	2 cut(s)	445, 754
BsnI	GGCC	3 cut(s)	188, 692, 842
Bso31I	GGTCTC	1 cut(s)	461
Bsp1286I	GDGCHC	1 cut(s)	509
Bsp13I	TCCGGA	1 cut(s)	463
Bsp1407I	TGTACA	1 cut(s)	864
Bsp143I	GATC	1 cut(s)	769
BspACI	CCGC	4 cut(s)	209, 528, 574, 839
BspANI	GGCC	3 cut(s)	188, 692, 842
BspCNI	CTCAG	2 cut(s)	159, 217
BspEI	TCCGGA	1 cut(s)	463
BspLI	GGNNCC	2 cut(s)	636, 722
BspMAI	CTGCAG	1 cut(s)	826
BspQI	GCTCTTC	1 cut(s)	258
BspT107I	GGYRCC	1 cut(s)	634
BspTNI	GGTCTC	1 cut(s)	461
BsrDI	GCAATG	1 cut(s)	531
BsrFI	RCCGGY	3 cut(s)	141, 470, 637
BsrGI	TGTACA	1 cut(s)	864
BssAI	RCCGGY	3 cut(s)	141, 470, 637
BssECI	CCNNGG	4 cut(s)	168, 602, 618, 693
BssMI	GATC	1 cut(s)	769
Bst2UI	CCWGG	2 cut(s)	689, 694
Bst4CI	ACNGT	3 cut(s)	357, 436, 859
Bst6I	CTCTTC	2 cut(s)	258, 820
BstAUI	TGTACA	1 cut(s)	864
BstBAI	YACGTR	1 cut(s)	370
BstC8I	GCNNGC	1 cut(s)	143
BstDEI	CTNAG	2 cut(s)	146, 225
BstEII	GGTNACC	1 cut(s)	683
BstF5I	GGATG	2 cut(s)	550, 856
BstKTI	GATC	1 cut(s)	772
BstMAI	GTCTC	2 cut(s)	277, 461
BstMBI	GATC	1 cut(s)	769
BstMWI	GCNNNNNNNGC	7 cut(s)	11, 142, 343, 527, 533, 536, 729
BstNI	CCWGG	2 cut(s)	689, 694
BstNSI	RCATGY	1 cut(s)	21
BstPAI	GACNNNNGTC	1 cut(s)	289
BstPI	GGTNACC	1 cut(s)	683
BstSCI	CCNGG	5 cut(s)	167, 455, 687, 692, 789
BstSFI	CTRYAG	2 cut(s)	510, 822
BstV1I	GCAGC	4 cut(s)	23, 358, 523, 808
BsuRI	GGCC	3 cut(s)	188, 692, 842
BtgZI	GCGATG	1 cut(s)	122
BtsCI	GGATG	2 cut(s)	550, 856
BtsIMutI	CAGTG	1 cut(s)	225
Cac8I	GCNNGC	1 cut(s)	143
CaiI	CAGNNNCTG	1 cut(s)	224
Cfr10I	RCCGGY	3 cut(s)	141, 470, 637
Csp6I	GTAC	5 cut(s)	151, 277, 367, 655, 865
CspAI	ACCGGT	2 cut(s)	470, 637
CviAII	CATG	4 cut(s)	18, 710, 767, 868
CviQI	GTAC	5 cut(s)	151, 277, 367, 655, 865
DdeI	CTNAG	2 cut(s)	146, 225
DpnI	GATC	1 cut(s)	771
DpnII	GATC	1 cut(s)	769
EaeI	YGGCCR	2 cut(s)	186, 840
Eam1104I	CTCTTC	2 cut(s)	258, 820
EarI	CTCTTC	2 cut(s)	258, 820
Eco24I	GRGCYC	1 cut(s)	509
Eco31I	GGTCTC	1 cut(s)	461
Eco91I	GGTNACC	1 cut(s)	683
EcoO65I	GGTNACC	1 cut(s)	683
EcoRI	GAATTC	2 cut(s)	628, 871
EcoRII	CCWGG	2 cut(s)	687, 692
EcoT38I	GRGCYC	1 cut(s)	509
FaeI	CATG	4 cut(s)	21, 713, 770, 871
FaqI	GGGAC	2 cut(s)	445, 754
FatI	CATG	4 cut(s)	17, 709, 766, 867
FauI	CCCGC	1 cut(s)	567
FauNDI	CATATG	1 cut(s)	594
Fnu4HI	GCNGC	6 cut(s)	12, 347, 528, 537, 822, 840
FokI	GGATG	2 cut(s)	557, 863
FriOI	GRGCYC	1 cut(s)	509
Fsp4HI	GCNGC	6 cut(s)	12, 347, 528, 537, 822, 840
FspBI	CTAG	2 cut(s)	609, 750
GluI	GCNGC	6 cut(s)	12, 347, 528, 537, 822, 840
GsaI	CCCAGC	1 cut(s)	783
HaeIII	GGCC	3 cut(s)	188, 692, 842
HapII	CCGG	8 cut(s)	78, 142, 168, 457, 464, 471, 638, 790
Hin1II	CATG	4 cut(s)	21, 713, 770, 871
HinfI	GANTC	7 cut(s)	81, 102, 340, 460, 515, 598, 742
HpaII	CCGG	8 cut(s)	78, 142, 168, 457, 464, 471, 638, 790
HphI	GGTGA	1 cut(s)	652
Hpy166II	GTNNAC	2 cut(s)	247, 655
Hpy188I	TCNGA	4 cut(s)	394, 603, 619, 877
Hpy188III	TCNNGA	2 cut(s)	448, 464
Hpy8I	GTNNAC	2 cut(s)	247, 655
Hpy99I	CGWCG	1 cut(s)	449
HpyCH4III	ACNGT	3 cut(s)	357, 436, 859
HpyCH4IV	ACGT	1 cut(s)	369
HpyCH4V	TGCA	7 cut(s)	136, 375, 539, 560, 755, 766, 824
HpyF10VI	GCNNNNNNNGC	7 cut(s)	11, 142, 343, 527, 533, 536, 729
HpyF3I	CTNAG	2 cut(s)	146, 225
HpySE526I	ACGT	1 cut(s)	369
Hsp92II	CATG	4 cut(s)	21, 713, 770, 871
Kpn2I	TCCGGA	1 cut(s)	463
KroI	GCCGGC	1 cut(s)	141
KroNI	GCCGGC	1 cut(s)	143
Kzo9I	GATC	1 cut(s)	769
LguI	GCTCTTC	1 cut(s)	258
LmnI	GCTCC	1 cut(s)	720
Lsp1109I	GCAGC	4 cut(s)	23, 358, 523, 808
LweI	GCATC	2 cut(s)	145, 561
MaeI	CTAG	2 cut(s)	609, 750
MaeII	ACGT	1 cut(s)	369
MaeIII	GTNAC	4 cut(s)	82, 291, 491, 683
MalI	GATC	1 cut(s)	771
MboI	GATC	1 cut(s)	769
MboII	GAAGA	9 cut(s)	120, 169, 242, 245, 275, 371, 655, 796, 807
MhlI	GDGCHC	1 cut(s)	509
MluCI	AATT	3 cut(s)	87, 628, 871
MlyI	GAGTC	4 cut(s)	90, 509, 607, 736
MroI	TCCGGA	1 cut(s)	463
MroNI	GCCGGC	1 cut(s)	141
MseI	TTAA	4 cut(s)	23, 96, 420, 476
MslI	CAYNNNNRTG	1 cut(s)	500
MspI	CCGG	8 cut(s)	78, 142, 168, 457, 464, 471, 638, 790
MspR9I	CCNGG	5 cut(s)	169, 457, 689, 694, 791
MvaI	CCWGG	2 cut(s)	689, 694
MwoI	GCNNNNNNNGC	7 cut(s)	11, 142, 343, 527, 533, 536, 729
NaeI	GCCGGC	1 cut(s)	143
NciI	CCSGG	3 cut(s)	169, 457, 791
NdeI	CATATG	1 cut(s)	594
NdeII	GATC	1 cut(s)	769
NgoMIV	GCCGGC	1 cut(s)	141
NlaIII	CATG	4 cut(s)	21, 713, 770, 871
NlaIV	GGNNCC	2 cut(s)	636, 722
NmuCI	GTSAC	2 cut(s)	82, 291
NspI	RCATGY	1 cut(s)	21
PciSI	GCTCTTC	1 cut(s)	258
PdiI	GCCGGC	1 cut(s)	143
PfeI	GAWTC	3 cut(s)	102, 340, 460
PfoI	TCCNGGA	1 cut(s)	455
PinAI	ACCGGT	2 cut(s)	470, 637
PkrI	GCNGC	6 cut(s)	13, 348, 529, 538, 823, 841
PleI	GAGTC	4 cut(s)	89, 509, 606, 736
PpsI	GAGTC	4 cut(s)	89, 509, 606, 736
Ppu21I	YACGTR	1 cut(s)	370
PshAI	GACNNNNGTC	1 cut(s)	289
PsiI	TTATAA	1 cut(s)	669
Psp6I	CCWGG	2 cut(s)	687, 692
PspEI	GGTNACC	1 cut(s)	683
PspFI	CCCAGC	1 cut(s)	779
PspGI	CCWGG	2 cut(s)	687, 692
PspN4I	GGNNCC	2 cut(s)	636, 722
PsrI	GAACNNNNNNTAC	2 cut(s)	638, 670
PstI	CTGCAG	1 cut(s)	826
PstNI	CAGNNNCTG	1 cut(s)	224
RsaI	GTAC	5 cut(s)	152, 278, 368, 656, 866
RsaNI	GTAC	5 cut(s)	151, 277, 367, 655, 865
RseI	CAYNNNNRTG	1 cut(s)	500
SapI	GCTCTTC	1 cut(s)	258
SaqAI	TTAA	4 cut(s)	23, 96, 420, 476
SatI	GCNGC	6 cut(s)	12, 347, 528, 537, 822, 840
Sau3AI	GATC	1 cut(s)	769
SchI	GAGTC	4 cut(s)	90, 509, 607, 736
ScrFI	CCNGG	5 cut(s)	169, 457, 689, 694, 791
SduI	GDGCHC	1 cut(s)	509
SetI	ASST	8 cut(s)	152, 244, 372, 392, 584, 675, 690, 781
SfaNI	GCATC	2 cut(s)	145, 561
SfcI	CTRYAG	2 cut(s)	510, 822
SgrAI	CRCCGGYG	1 cut(s)	637
SmiMI	CAYNNNNRTG	1 cut(s)	500
Sse9I	AATT	3 cut(s)	87, 628, 871
SsiI	CCGC	4 cut(s)	209, 528, 574, 839
SspMI	CTAG	2 cut(s)	609, 750
StyD4I	CCNGG	5 cut(s)	167, 455, 687, 692, 789
TaaI	ACNGT	3 cut(s)	357, 436, 859
TaiI	ACGT	1 cut(s)	372
TaqI	TCGA	3 cut(s)	155, 447, 772
TasI	AATT	3 cut(s)	87, 628, 871
TatI	WGTACW	1 cut(s)	864
TauI	GCSGC	2 cut(s)	530, 842
TfiI	GAWTC	3 cut(s)	102, 340, 460
Tru1I	TTAA	4 cut(s)	23, 96, 420, 476
Tru9I	TTAA	4 cut(s)	23, 96, 420, 476
TscAI	CASTG	1 cut(s)	225
TseFI	GTSAC	2 cut(s)	82, 291
TseI	GCWGC	4 cut(s)	11, 346, 536, 821
Tsp45I	GTSAC	2 cut(s)	82, 291
TspDTI	ATGAA	3 cut(s)	276, 581, 884
TspGWI	ACGGA	2 cut(s)	106, 433
TspRI	CASTG	1 cut(s)	225
XapI	RAATTY	2 cut(s)	628, 871
XceI	RCATGY	1 cut(s)	21
XcmI	CCANNNNNNNNNTGG	1 cut(s)	538
XspI	CTAG	2 cut(s)	609, 750

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