Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0011085

Physical Location & Seq

Genomic Coordinates Forward (+)

54835044 .. 54836841

Gene Structure 1798 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG278600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGCTATGGCAGCCACATGCTTAAACATAACACCCTCTCCTCCCTCTTGGATTACTAACAACACCAGCCCGAACACCGGAGTCATAGTTTCACTTAAACGATTCGTTTTCAGTTCCGTTCCATTTTCTTCCTTGCATCGCCGGCTCAGGTACTCGAAGAACAGAGCCGGGGTTTTGACGGCGTTGGCCGTAGTGGAACAGGAACAGGCGGTGAGTTCAGTGGCTGAGGAAGAAGAACAAGATGTGGACGATAATGGGTATGAAGAGCAGTATGAGCACGAGAGACACAGCGCCGATGTTTCAGGTGAGGAGGGATTGGATATGGAGAAGCAGAATCGGCAGCCAAGACCGTGTGAGTTGTACGTGTGCAATCTTCCCAGAAGCTCTGACATTGAGGACTTGATGGAGATGTTTAAGCCACACGGGACTGTTTTCTCCGTCGAGATTTCCCGGAGTCCGGAGACCGGTTTAAGCAGAGGCTGTGGTTACATTACAATGGGCTCTATAGACTCTGCTAAAGCCGCCATTGCTGCATTGGATGGGATTGATGTTGCAGGGAGGGAGATGCGGGTTAGGTTTTCGGTTCATATGAGTCCGAGGACTAGGAACTCCGTGGCATTGAATTCCGCACCGGTGAAGAACTTGGTGTACGAAAGCCCTTATAAGCTCTATGTTGGTAACCTGGCCTGGGCTGTCCAGCCTCATGCTTTGAGGAGCCATTTCAGCAAGTTTGGGACTCTGGCTAGTGCAAGAGTGTTGCATGATCGAAAAGCTGGGAAGAACCGGGCTTATGGGTTTATCTCATTCTCTTCGGCTGCAGAGCGTGATAAAGCGGCCACTTTGGATGGAACGGTAATGTACATGAATTCTGACCCGATTTGA

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

293

Amino Acids

32.31

Weight (kDa)

6.26

Isoelectric Point (pI)

48.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	120 - 190	9.5e-14	RNA recognition motif
RRM_1	PF00076	223 - 285	6.6e-12	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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)	663
AccIII	TCCGGA	1 cut(s)	457
AciI	CCGC	5 cut(s)	209, 522, 568, 627, 833
AcoI	YGGCCR	2 cut(s)	186, 834
AcsI	RAATTY	2 cut(s)	622, 865
AfaI	GTAC	4 cut(s)	152, 362, 650, 860
AfiI	CCNNNNNNNGG	4 cut(s)	77, 457, 464, 688
AflIII	ACRYGT	1 cut(s)	363
AgeI	ACCGGT	2 cut(s)	464, 631
AgsI	TTSAA	1 cut(s)	622
AjnI	CCWGG	2 cut(s)	681, 686
AluBI	AGCT	3 cut(s)	384, 667, 773
AluI	AGCT	3 cut(s)	384, 667, 773
Alw21I	GWGCWC	1 cut(s)	279
Alw26I	GTCTC	2 cut(s)	277, 455
AlwNI	CAGNNNCTG	2 cut(s)	224, 480
Aor13HI	TCCGGA	1 cut(s)	457
AoxI	GGCC	3 cut(s)	186, 684, 834
ApeKI	GCWGC	4 cut(s)	11, 340, 530, 815
ApoI	RAATTY	2 cut(s)	622, 865
AsiGI	ACCGGT	2 cut(s)	464, 631
AspLEI	GCGC	1 cut(s)	293
AsuC2I	CCSGG	3 cut(s)	169, 451, 785
AsuHPI	GGTGA	3 cut(s)	223, 317, 646
BanII	GRGCYC	1 cut(s)	503
BauI	CACGAG	1 cut(s)	278
Bbv12I	GWGCWC	1 cut(s)	279
BbvCI	CCTCAGC	1 cut(s)	225
BbvI	GCAGC	4 cut(s)	23, 352, 517, 802
BccI	CCATC	3 cut(s)	397, 533, 839
BceAI	ACGGC	2 cut(s)	173, 195
BciT130I	CCWGG	2 cut(s)	683, 688
BcnI	CCSGG	3 cut(s)	169, 451, 785
BcoDI	GTCTC	2 cut(s)	277, 455
BfaI	CTAG	2 cut(s)	603, 744
BfmI	CTRYAG	2 cut(s)	504, 816
BfoI	RGCGCY	1 cut(s)	294
BisI	GCNGC	6 cut(s)	12, 341, 522, 531, 816, 834
BlsI	GCNGC	6 cut(s)	13, 342, 523, 532, 817, 835
Bme1390I	CCNGG	5 cut(s)	169, 451, 683, 688, 785
BmiI	GGNNCC	1 cut(s)	716
BmrFI	CCNGG	5 cut(s)	169, 451, 683, 688, 785
BmsI	GCATC	2 cut(s)	145, 555
Bpu10I	CCTNAGC	2 cut(s)	146, 225
BpuMI	CCSGG	3 cut(s)	169, 451, 785
BsaAI	YACGTR	1 cut(s)	364
BsaI	GGTCTC	1 cut(s)	455
BsaJI	CCNNGG	4 cut(s)	168, 596, 612, 687
BsaWI	WCCGGW	4 cut(s)	77, 457, 464, 631
BsaXI	ACNNNNNCTCC	4 cut(s)	22, 52, 72, 102
Bsc4I	CCNNNNNNNGG	4 cut(s)	77, 457, 464, 688
Bse118I	RCCGGY	3 cut(s)	141, 464, 631
Bse3DI	GCAATG	1 cut(s)	525
BseAI	TCCGGA	1 cut(s)	457
BseBI	CCWGG	2 cut(s)	683, 688
BseDI	CCNNGG	4 cut(s)	168, 596, 612, 687
BseGI	GGATG	2 cut(s)	544, 850
BseLI	CCNNNNNNNGG	4 cut(s)	77, 457, 464, 688
BseMI	GCAATG	1 cut(s)	525
BseMII	CTCAG	2 cut(s)	160, 216
BseRI	GAGGAG	3 cut(s)	30, 323, 727
BseXI	GCAGC	4 cut(s)	23, 352, 517, 802
BseYI	CCCAGC	1 cut(s)	773
BshFI	GGCC	3 cut(s)	188, 686, 836
BshTI	ACCGGT	2 cut(s)	464, 631
BsiHKAI	GWGCWC	1 cut(s)	279
BsiSI	CCGG	8 cut(s)	78, 142, 168, 451, 458, 465, 632, 784
BslFI	GGGAC	2 cut(s)	439, 748
BslI	CCNNNNNNNGG	4 cut(s)	77, 457, 464, 688
BsmAI	GTCTC	2 cut(s)	277, 455
BsmFI	GGGAC	2 cut(s)	439, 748
BsnI	GGCC	3 cut(s)	188, 686, 836
Bso31I	GGTCTC	1 cut(s)	455
Bsp1286I	GDGCHC	2 cut(s)	279, 503
Bsp13I	TCCGGA	1 cut(s)	457
Bsp1407I	TGTACA	1 cut(s)	858
Bsp143I	GATC	1 cut(s)	763
BspACI	CCGC	5 cut(s)	209, 522, 568, 627, 833
BspANI	GGCC	3 cut(s)	188, 686, 836
BspCNI	CTCAG	2 cut(s)	159, 217
BspEI	TCCGGA	1 cut(s)	457
BspLI	GGNNCC	1 cut(s)	716
BspMAI	CTGCAG	1 cut(s)	820
BspQI	GCTCTTC	1 cut(s)	258
BspTNI	GGTCTC	1 cut(s)	455
BsrDI	GCAATG	1 cut(s)	525
BsrFI	RCCGGY	3 cut(s)	141, 464, 631
BsrGI	TGTACA	1 cut(s)	858
BssAI	RCCGGY	3 cut(s)	141, 464, 631
BssECI	CCNNGG	4 cut(s)	168, 596, 612, 687
BssMI	GATC	1 cut(s)	763
BssSI	CACGAG	1 cut(s)	278
Bst2BI	CACGAG	1 cut(s)	278
Bst2UI	CCWGG	2 cut(s)	683, 688
Bst4CI	ACNGT	3 cut(s)	351, 430, 853
Bst6I	CTCTTC	2 cut(s)	258, 814
BstAUI	TGTACA	1 cut(s)	858
BstBAI	YACGTR	1 cut(s)	364
BstC8I	GCNNGC	1 cut(s)	143
BstDEI	CTNAG	2 cut(s)	146, 225
BstDSI	CCRYGG	1 cut(s)	612
BstEII	GGTNACC	1 cut(s)	677
BstF5I	GGATG	2 cut(s)	544, 850
BstH2I	RGCGCY	1 cut(s)	294
BstHHI	GCGC	1 cut(s)	293
BstKTI	GATC	1 cut(s)	766
BstMAI	GTCTC	2 cut(s)	277, 455
BstMBI	GATC	1 cut(s)	763
BstMWI	GCNNNNNNNGC	8 cut(s)	11, 142, 274, 337, 521, 527, 530, 723
BstNI	CCWGG	2 cut(s)	683, 688
BstNSI	RCATGY	1 cut(s)	21
BstPI	GGTNACC	1 cut(s)	677
BstSCI	CCNGG	5 cut(s)	167, 449, 681, 686, 783
BstSFI	CTRYAG	2 cut(s)	504, 816
BstV1I	GCAGC	4 cut(s)	23, 352, 517, 802
BsuRI	GGCC	3 cut(s)	188, 686, 836
BtgI	CCRYGG	1 cut(s)	612
BtgZI	GCGATG	1 cut(s)	122
BtsCI	GGATG	2 cut(s)	544, 850
BtsIMutI	CAGTG	1 cut(s)	225
Cac8I	GCNNGC	1 cut(s)	143
CaiI	CAGNNNCTG	2 cut(s)	224, 480
CfoI	GCGC	1 cut(s)	293
Cfr10I	RCCGGY	3 cut(s)	141, 464, 631
Csp6I	GTAC	4 cut(s)	151, 361, 649, 859
CspAI	ACCGGT	2 cut(s)	464, 631
CviAII	CATG	4 cut(s)	18, 704, 761, 862
CviQI	GTAC	4 cut(s)	151, 361, 649, 859
DdeI	CTNAG	2 cut(s)	146, 225
DpnI	GATC	1 cut(s)	765
DpnII	GATC	1 cut(s)	763
EaeI	YGGCCR	2 cut(s)	186, 834
Eam1104I	CTCTTC	2 cut(s)	258, 814
EarI	CTCTTC	2 cut(s)	258, 814
Eco24I	GRGCYC	1 cut(s)	503
Eco31I	GGTCTC	1 cut(s)	455
Eco91I	GGTNACC	1 cut(s)	677
EcoO65I	GGTNACC	1 cut(s)	677
EcoRI	GAATTC	2 cut(s)	622, 865
EcoRII	CCWGG	2 cut(s)	681, 686
EcoT38I	GRGCYC	1 cut(s)	503
FaeI	CATG	4 cut(s)	21, 707, 764, 865
FaqI	GGGAC	2 cut(s)	439, 748
FatI	CATG	4 cut(s)	17, 703, 760, 861
FauI	CCCGC	1 cut(s)	561
FauNDI	CATATG	1 cut(s)	588
Fnu4HI	GCNGC	6 cut(s)	12, 341, 522, 531, 816, 834
FokI	GGATG	2 cut(s)	551, 857
FriOI	GRGCYC	1 cut(s)	503
Fsp4HI	GCNGC	6 cut(s)	12, 341, 522, 531, 816, 834
FspBI	CTAG	2 cut(s)	603, 744
GlaI	GCGC	1 cut(s)	292
GluI	GCNGC	6 cut(s)	12, 341, 522, 531, 816, 834
GsaI	CCCAGC	1 cut(s)	777
HaeII	RGCGCY	1 cut(s)	294
HaeIII	GGCC	3 cut(s)	188, 686, 836
HapII	CCGG	8 cut(s)	78, 142, 168, 451, 458, 465, 632, 784
HhaI	GCGC	1 cut(s)	293
Hin1II	CATG	4 cut(s)	21, 707, 764, 865
Hin6I	GCGC	1 cut(s)	291
HinP1I	GCGC	1 cut(s)	291
HinfI	GANTC	7 cut(s)	81, 102, 334, 454, 509, 592, 736
HpaII	CCGG	8 cut(s)	78, 142, 168, 451, 458, 465, 632, 784
HphI	GGTGA	3 cut(s)	223, 317, 646
Hpy166II	GTNNAC	2 cut(s)	247, 649
Hpy188I	TCNGA	3 cut(s)	388, 597, 871
Hpy188III	TCNNGA	2 cut(s)	442, 458
Hpy8I	GTNNAC	2 cut(s)	247, 649
Hpy99I	CGWCG	1 cut(s)	443
HpyCH4III	ACNGT	3 cut(s)	351, 430, 853
HpyCH4IV	ACGT	1 cut(s)	363
HpyCH4V	TGCA	7 cut(s)	136, 369, 533, 554, 749, 760, 818
HpyF10VI	GCNNNNNNNGC	8 cut(s)	11, 142, 274, 337, 521, 527, 530, 723
HpyF3I	CTNAG	2 cut(s)	146, 225
HpySE526I	ACGT	1 cut(s)	363
Hsp92II	CATG	4 cut(s)	21, 707, 764, 865
HspAI	GCGC	1 cut(s)	291
Kpn2I	TCCGGA	1 cut(s)	457
KroI	GCCGGC	1 cut(s)	141
KroNI	GCCGGC	1 cut(s)	143
Kzo9I	GATC	1 cut(s)	763
LguI	GCTCTTC	1 cut(s)	258
LmnI	GCTCC	1 cut(s)	714
Lsp1109I	GCAGC	4 cut(s)	23, 352, 517, 802
LweI	GCATC	2 cut(s)	145, 555
MaeI	CTAG	2 cut(s)	603, 744
MaeII	ACGT	1 cut(s)	363
MaeIII	GTNAC	2 cut(s)	485, 677
MalI	GATC	1 cut(s)	765
MboI	GATC	1 cut(s)	763
MboII	GAAGA	9 cut(s)	120, 169, 242, 245, 275, 365, 649, 790, 801
MhlI	GDGCHC	2 cut(s)	279, 503
MluCI	AATT	2 cut(s)	622, 865
MlyI	GAGTC	5 cut(s)	90, 463, 503, 601, 730
MroI	TCCGGA	1 cut(s)	457
MroNI	GCCGGC	1 cut(s)	141
MseI	TTAA	4 cut(s)	23, 96, 414, 470
MslI	CAYNNNNRTG	1 cut(s)	494
MspI	CCGG	8 cut(s)	78, 142, 168, 451, 458, 465, 632, 784
MspR9I	CCNGG	5 cut(s)	169, 451, 683, 688, 785
MvaI	CCWGG	2 cut(s)	683, 688
MwoI	GCNNNNNNNGC	8 cut(s)	11, 142, 274, 337, 521, 527, 530, 723
NaeI	GCCGGC	1 cut(s)	143
NciI	CCSGG	3 cut(s)	169, 451, 785
NdeI	CATATG	1 cut(s)	588
NdeII	GATC	1 cut(s)	763
NgoMIV	GCCGGC	1 cut(s)	141
NlaIII	CATG	4 cut(s)	21, 707, 764, 865
NlaIV	GGNNCC	1 cut(s)	716
NspI	RCATGY	1 cut(s)	21
PciSI	GCTCTTC	1 cut(s)	258
PdiI	GCCGGC	1 cut(s)	143
PfeI	GAWTC	2 cut(s)	102, 334
PfoI	TCCNGGA	1 cut(s)	449
PinAI	ACCGGT	2 cut(s)	464, 631
PkrI	GCNGC	6 cut(s)	13, 342, 523, 532, 817, 835
PleI	GAGTC	5 cut(s)	89, 462, 503, 600, 730
PpsI	GAGTC	5 cut(s)	89, 462, 503, 600, 730
Ppu21I	YACGTR	1 cut(s)	364
PsiI	TTATAA	1 cut(s)	663
Psp6I	CCWGG	2 cut(s)	681, 686
PspEI	GGTNACC	1 cut(s)	677
PspFI	CCCAGC	1 cut(s)	773
PspGI	CCWGG	2 cut(s)	681, 686
PspN4I	GGNNCC	1 cut(s)	716
PsrI	GAACNNNNNNTAC	2 cut(s)	632, 664
PstI	CTGCAG	1 cut(s)	820
PstNI	CAGNNNCTG	2 cut(s)	224, 480
RsaI	GTAC	4 cut(s)	152, 362, 650, 860
RsaNI	GTAC	4 cut(s)	151, 361, 649, 859
RseI	CAYNNNNRTG	1 cut(s)	494
SapI	GCTCTTC	1 cut(s)	258
SaqAI	TTAA	4 cut(s)	23, 96, 414, 470
SatI	GCNGC	6 cut(s)	12, 341, 522, 531, 816, 834
Sau3AI	GATC	1 cut(s)	763
SchI	GAGTC	5 cut(s)	90, 463, 503, 601, 730
ScrFI	CCNGG	5 cut(s)	169, 451, 683, 688, 785
SduI	GDGCHC	2 cut(s)	279, 503
SetI	ASST	8 cut(s)	152, 307, 366, 386, 578, 669, 684, 775
SfaNI	GCATC	2 cut(s)	145, 555
SfcI	CTRYAG	2 cut(s)	504, 816
SgrAI	CRCCGGYG	1 cut(s)	631
SmiMI	CAYNNNNRTG	1 cut(s)	494
Sse9I	AATT	2 cut(s)	622, 865
SsiI	CCGC	5 cut(s)	209, 522, 568, 627, 833
SspMI	CTAG	2 cut(s)	603, 744
StyD4I	CCNGG	5 cut(s)	167, 449, 681, 686, 783
TaaI	ACNGT	3 cut(s)	351, 430, 853
TaiI	ACGT	1 cut(s)	366
TaqI	TCGA	3 cut(s)	155, 441, 766
TasI	AATT	2 cut(s)	622, 865
TatI	WGTACW	1 cut(s)	858
TauI	GCSGC	2 cut(s)	524, 836
TfiI	GAWTC	2 cut(s)	102, 334
Tru1I	TTAA	4 cut(s)	23, 96, 414, 470
Tru9I	TTAA	4 cut(s)	23, 96, 414, 470
TscAI	CASTG	1 cut(s)	225
TseI	GCWGC	4 cut(s)	11, 340, 530, 815
TspDTI	ATGAA	3 cut(s)	276, 575, 878
TspGWI	ACGGA	3 cut(s)	106, 427, 601
TspRI	CASTG	1 cut(s)	225
XapI	RAATTY	2 cut(s)	622, 865
XceI	RCATGY	1 cut(s)	21
XcmI	CCANNNNNNNNNTGG	1 cut(s)	532
XspI	CTAG	2 cut(s)	603, 744

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