Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0007007

Physical Location & Seq

Genomic Coordinates Forward (+)

5031786 .. 5036599

Gene Structure 4814 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG074100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 774 bp

ATGAGTAGCCGATCGAGTCGTACTATTTACGTGGGGAATCTGCCTGGAGATATTCGTATGAGAGAAATTGAAGATCTATTCATGAAGTATGGACCGATTGTTGACATTGATCTTAAGATCCCTCCCAGACCACCGGGTTATGCTTTTATTGAGTTTGAAGATCCACGTGATGCTGATGATGCGATTTATGGCCGGGATGGTTGCAACTTTGACGGGTATCGCTTACGGGTTGAACTAGCACATGGTAGACGTGGATATTCATCATCAGCAGATCGATTCAGCAGTTACAGTTGTAGTAGCAGTAGCCGTGGAGCTTCCCGCCGTTCTGACTATCGTGTGCTGGTCACTGGATTACCTGCTTCTGCTTCATGGCAGGATCTGAAGGATCACATGCGTCAAGCTGGAGATGTTTGTTTTTCGCAAGTGTTCCGTGACCGCCGTGGCATGACGGGAGTTGTAGACTACACAAATTATGATGACATGAAATATGCGATCAGGAAATTGGATGATTCTGAATTTAGAAATGCTTTTTCTCAGTCCTACATACGGGTTGAGGAATATGATTCTAGTAGTGGGTATTCCAGAAGCCCCAGTTATGACTCAAGGCAGAGCTACTCTAGAAGTCCCAGTCGTAGTCCATATGTGTCGAGAAGTCGCAGTCGCAGCCGTAGCTTTGGGGGCCAGAGCAGAAGCATATCACCGGATGTGGAATATTCACGCCGCTCTCCTAGGTCTGCCTCACCTTCCCCTTCAAGGTATCTCACTTGCTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03040 ko04657 ko05168 map03040 map04657 map05168

Pfam Domains

Protein Families

RRM_1

Protein Analysis

257

Amino Acids

29.36

Weight (kDa)

9.31

Isoelectric Point (pI)

91.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	9 - 76	2.6e-16	RNA recognition motif
RRM_1	PF00076	113 - 175	1.2e-10	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: OG0007007)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09140 AT1G09140 AT1G09140
fragaria_vesca	FvH4_6g06650 FvH4_6g06650 FvH4_6g06650
malus_domestica	MD12G1212300.v1.1
prunus_persica	Prupe.6G320000_v2.0.a1 Prupe.6G320000_v2.0.a1
pyrus_communis	pycom04g17620
rosa_chinensis	RchiOBHm_Chr3g0455851
rosa_laevigata	RLG00000025327
rosa_multiflora	Rmu_sc0006888.1_g000001 Rmu_ssc0000046.1_g000012
rosa_roxburghii	Rroxscaffold_4G00300180 Rroxscaffold_6G00423400 Rroxscaffold_6G00423890
rosa_rugosa	Rorug03G0010600 Rorug03G0010700
rosa_samantha	Rh3AG070100 Rh3BG072700 Rh3CG070900 Rh3DG074100
rosa_wichuraiana	Rw3G005690 Rw3G006040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	364
AccBSI	CCGCTC	1 cut(s)	723
AccI	GTMKAC	2 cut(s)	247, 459
AciI	CCGC	3 cut(s)	319, 436, 721
AclWI	GGATC	4 cut(s)	112, 155, 384, 393
AcoI	YGGCCR	1 cut(s)	190
AcsI	RAATTY	1 cut(s)	515
AcuI	CTGAAG	1 cut(s)	401
AcvI	CACGTG	1 cut(s)	167
AfaI	GTAC	1 cut(s)	22
AfiI	CCNNNNNNNGG	2 cut(s)	546, 753
AflII	CTTAAG	1 cut(s)	113
AgsI	TTSAA	4 cut(s)	71, 158, 233, 753
AjiI	CACGTC	1 cut(s)	251
AjnI	CCWGG	1 cut(s)	43
AluBI	AGCT	4 cut(s)	314, 401, 612, 672
AluI	AGCT	4 cut(s)	314, 401, 612, 672
AlwI	GGATC	4 cut(s)	112, 155, 384, 393
AlwNI	CAGNNNCTG	1 cut(s)	379
AoxI	GGCC	2 cut(s)	190, 679
ApeKI	GCWGC	1 cut(s)	663
ApoI	RAATTY	1 cut(s)	515
AspA2I	CCTAGG	1 cut(s)	728
AspS9I	GGNCC	2 cut(s)	92, 679
AsuC2I	CCSGG	2 cut(s)	135, 194
AsuHPI	GGTGA	2 cut(s)	690, 732
AvaII	GGWCC	1 cut(s)	92
AvrII	CCTAGG	1 cut(s)	728
BbrPI	CACGTG	1 cut(s)	167
BbvI	GCAGC	1 cut(s)	675
BccI	CCATC	1 cut(s)	191
BceAI	ACGGC	4 cut(s)	291, 306, 423, 651
BciT130I	CCWGG	1 cut(s)	45
BcnI	CCSGG	2 cut(s)	135, 194
BfaI	CTAG	4 cut(s)	236, 567, 618, 729
BfrI	CTTAAG	1 cut(s)	113
BfuAI	ACCTGC	1 cut(s)	364
BglII	AGATCT	1 cut(s)	73
BisI	GCNGC	2 cut(s)	664, 721
BlnI	CCTAGG	1 cut(s)	728
BlsI	GCNGC	2 cut(s)	665, 722
Bme1390I	CCNGG	3 cut(s)	45, 135, 194
Bme18I	GGWCC	1 cut(s)	92
BmgBI	CACGTC	1 cut(s)	251
BmgT120I	GGNCC	2 cut(s)	92, 679
BmiI	GGNNCC	1 cut(s)	680
BmrFI	CCNGG	3 cut(s)	45, 135, 194
BmrI	ACTGGG	2 cut(s)	585, 621
BmsI	GCATC	2 cut(s)	160, 169
BmuI	ACTGGG	2 cut(s)	585, 621
BpmI	CTGGAG	2 cut(s)	66, 423
BpuEI	CTTGAG	1 cut(s)	586
BpuMI	CCSGG	2 cut(s)	135, 194
Bsa29I	ATCGAT	1 cut(s)	274
BsaAI	YACGTR	2 cut(s)	31, 167
BsaBI	GATNNNNATC	1 cut(s)	259
BsaJI	CCNNGG	3 cut(s)	307, 439, 728
BsaWI	WCCGGW	1 cut(s)	700
Bsc4I	CCNNNNNNNGG	2 cut(s)	546, 753
Bse1I	ACTGG	3 cut(s)	352, 591, 627
Bse8I	GATNNNNATC	1 cut(s)	259
BseBI	CCWGG	1 cut(s)	45
BseCI	ATCGAT	1 cut(s)	274
BseDI	CCNNGG	3 cut(s)	307, 439, 728
BseGI	GGATG	3 cut(s)	202, 511, 709
BseJI	GATNNNNATC	1 cut(s)	259
BseLI	CCNNNNNNNGG	2 cut(s)	546, 753
BseMII	CTCAG	1 cut(s)	548
BseNI	ACTGG	3 cut(s)	352, 591, 627
BseXI	GCAGC	1 cut(s)	675
Bsh1285I	CGRYCG	1 cut(s)	14
BshFI	GGCC	2 cut(s)	192, 681
BshVI	ATCGAT	1 cut(s)	274
BsiEI	CGRYCG	1 cut(s)	14
BsiSI	CCGG	3 cut(s)	134, 193, 701
BslFI	GGGAC	1 cut(s)	609
BslI	CCNNNNNNNGG	2 cut(s)	546, 753
BsmFI	GGGAC	1 cut(s)	609
BsnI	GGCC	2 cut(s)	192, 681
Bsp143I	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
BspACI	CCGC	3 cut(s)	319, 436, 721
BspANI	GGCC	2 cut(s)	192, 681
BspCNI	CTCAG	1 cut(s)	547
BspDI	ATCGAT	1 cut(s)	274
BspHI	TCATGA	1 cut(s)	81
BspLI	GGNNCC	1 cut(s)	680
BspMI	ACCTGC	1 cut(s)	364
BspPI	GGATC	4 cut(s)	112, 155, 384, 393
BspTI	CTTAAG	1 cut(s)	113
BsrBI	CCGCTC	1 cut(s)	723
BsrI	ACTGG	3 cut(s)	352, 591, 627
BssECI	CCNNGG	3 cut(s)	307, 439, 728
BssMI	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
BssT1I	CCWWGG	1 cut(s)	728
Bst2UI	CCWGG	1 cut(s)	45
Bst4CI	ACNGT	1 cut(s)	290
BstAFI	CTTAAG	1 cut(s)	113
BstBAI	YACGTR	2 cut(s)	31, 167
BstDEI	CTNAG	1 cut(s)	534
BstDSI	CCRYGG	2 cut(s)	307, 439
BstF5I	GGATG	3 cut(s)	202, 511, 709
BstKTI	GATC	9 cut(s)	14, 76, 112, 120, 163, 274, 379, 388, 495
BstMBI	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
BstMCI	CGRYCG	1 cut(s)	14
BstMWI	GCNNNNNNNGC	4 cut(s)	179, 663, 669, 678
BstNI	CCWGG	1 cut(s)	45
BstNSI	RCATGY	1 cut(s)	394
BstSCI	CCNGG	3 cut(s)	43, 133, 192
BstV1I	GCAGC	1 cut(s)	675
BstX2I	RGATCY	4 cut(s)	73, 117, 160, 376
BstYI	RGATCY	4 cut(s)	73, 117, 160, 376
Bsu15I	ATCGAT	1 cut(s)	274
BsuRI	GGCC	2 cut(s)	192, 681
BsuTUI	ATCGAT	1 cut(s)	274
BtgI	CCRYGG	2 cut(s)	307, 439
BtrI	CACGTC	1 cut(s)	251
BtsCI	GGATG	3 cut(s)	202, 511, 709
BtsIMutI	CAGTG	1 cut(s)	345
BveI	ACCTGC	1 cut(s)	364
CaiI	CAGNNNCTG	1 cut(s)	379
CciI	TCATGA	1 cut(s)	81
Cfr13I	GGNCC	2 cut(s)	92, 679
ClaI	ATCGAT	1 cut(s)	274
CseI	GACGC	1 cut(s)	383
Csp6I	GTAC	1 cut(s)	21
CviAII	CATG	6 cut(s)	82, 242, 369, 391, 445, 481
CviQI	GTAC	1 cut(s)	21
DdeI	CTNAG	1 cut(s)	534
DpnI	GATC	9 cut(s)	13, 75, 111, 119, 162, 273, 378, 387, 494
DpnII	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
EaeI	YGGCCR	1 cut(s)	190
Eco130I	CCWWGG	1 cut(s)	728
Eco47I	GGWCC	1 cut(s)	92
Eco57I	CTGAAG	1 cut(s)	401
Eco72I	CACGTG	1 cut(s)	167
EcoRII	CCWGG	1 cut(s)	43
EcoT14I	CCWWGG	1 cut(s)	728
ErhI	CCWWGG	1 cut(s)	728
FaeI	CATG	6 cut(s)	85, 245, 372, 394, 448, 484
FaqI	GGGAC	1 cut(s)	609
FatI	CATG	6 cut(s)	81, 241, 368, 390, 444, 480
FauI	CCCGC	1 cut(s)	326
FauNDI	CATATG	1 cut(s)	640
FblI	GTMKAC	2 cut(s)	247, 459
Fnu4HI	GCNGC	2 cut(s)	664, 721
FokI	GGATG	3 cut(s)	209, 518, 716
Fsp4HI	GCNGC	2 cut(s)	664, 721
FspBI	CTAG	4 cut(s)	236, 567, 618, 729
GluI	GCNGC	2 cut(s)	664, 721
GsuI	CTGGAG	2 cut(s)	66, 423
HaeIII	GGCC	2 cut(s)	192, 681
HapII	CCGG	3 cut(s)	134, 193, 701
HgaI	GACGC	1 cut(s)	383
Hin1II	CATG	6 cut(s)	85, 245, 372, 394, 448, 484
HincII	GTYRAC	1 cut(s)	103
HindII	GTYRAC	1 cut(s)	103
HinfI	GANTC	6 cut(s)	16, 37, 276, 509, 563, 599
HpaII	CCGG	3 cut(s)	134, 193, 701
HphI	GGTGA	2 cut(s)	690, 732
Hpy166II	GTNNAC	3 cut(s)	103, 248, 460
Hpy188I	TCNGA	3 cut(s)	328, 381, 514
Hpy188III	TCNNGA	5 cut(s)	82, 496, 582, 618, 648
Hpy8I	GTNNAC	3 cut(s)	103, 248, 460
HpyAV	CCTTC	3 cut(s)	376, 753, 759
HpyCH4III	ACNGT	1 cut(s)	290
HpyCH4IV	ACGT	3 cut(s)	30, 166, 250
HpyCH4V	TGCA	1 cut(s)	204
HpyF10VI	GCNNNNNNNGC	4 cut(s)	179, 663, 669, 678
HpyF3I	CTNAG	1 cut(s)	534
HpySE526I	ACGT	3 cut(s)	30, 166, 250
Hsp92II	CATG	6 cut(s)	85, 245, 372, 394, 448, 484
Kzo9I	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
LmnI	GCTCC	1 cut(s)	311
Lsp1109I	GCAGC	1 cut(s)	675
LweI	GCATC	2 cut(s)	160, 169
MaeI	CTAG	4 cut(s)	236, 567, 618, 729
MaeII	ACGT	3 cut(s)	30, 166, 250
MaeIII	GTNAC	3 cut(s)	284, 343, 431
MalI	GATC	9 cut(s)	13, 75, 111, 119, 162, 273, 378, 387, 494
MbiI	CCGCTC	1 cut(s)	723
MboI	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
MboII	GAAGA	2 cut(s)	83, 170
MflI	RGATCY	4 cut(s)	73, 117, 160, 376
MluCI	AATT	4 cut(s)	66, 469, 500, 515
MlyI	GAGTC	2 cut(s)	25, 593
MnlI	CCTC	3 cut(s)	132, 547, 748
MseI	TTAA	1 cut(s)	114
MspCI	CTTAAG	1 cut(s)	113
MspI	CCGG	3 cut(s)	134, 193, 701
MspR9I	CCNGG	3 cut(s)	45, 135, 194
MvaI	CCWGG	1 cut(s)	45
MwoI	GCNNNNNNNGC	4 cut(s)	179, 663, 669, 678
NciI	CCSGG	2 cut(s)	135, 194
NdeI	CATATG	1 cut(s)	640
NdeII	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
NlaIII	CATG	6 cut(s)	85, 245, 372, 394, 448, 484
NlaIV	GGNNCC	1 cut(s)	680
NmuCI	GTSAC	2 cut(s)	343, 431
NspI	RCATGY	1 cut(s)	394
PagI	TCATGA	1 cut(s)	81
PfeI	GAWTC	4 cut(s)	37, 276, 509, 563
PkrI	GCNGC	2 cut(s)	665, 722
Ple19I	CGATCG	1 cut(s)	14
PleI	GAGTC	2 cut(s)	24, 593
PmaCI	CACGTG	1 cut(s)	167
PmlI	CACGTG	1 cut(s)	167
PpsI	GAGTC	2 cut(s)	24, 593
Ppu21I	YACGTR	2 cut(s)	31, 167
Psp6I	CCWGG	1 cut(s)	43
PspCI	CACGTG	1 cut(s)	167
PspGI	CCWGG	1 cut(s)	43
PspN4I	GGNNCC	1 cut(s)	680
PspPI	GGNCC	2 cut(s)	92, 679
PstNI	CAGNNNCTG	1 cut(s)	379
PsuI	RGATCY	4 cut(s)	73, 117, 160, 376
PvuI	CGATCG	1 cut(s)	14
RsaI	GTAC	1 cut(s)	22
RsaNI	GTAC	1 cut(s)	21
SaqAI	TTAA	1 cut(s)	114
SatI	GCNGC	2 cut(s)	664, 721
Sau3AI	GATC	9 cut(s)	11, 73, 109, 117, 160, 271, 376, 385, 492
Sau96I	GGNCC	2 cut(s)	92, 679
SchI	GAGTC	2 cut(s)	25, 593
ScrFI	CCNGG	3 cut(s)	45, 135, 194
SfaNI	GCATC	2 cut(s)	160, 169
SinI	GGWCC	1 cut(s)	92
SmlI	CTYRAG	2 cut(s)	113, 601
SmoI	CTYRAG	2 cut(s)	113, 601
Sse9I	AATT	4 cut(s)	66, 469, 500, 515
SsiI	CCGC	3 cut(s)	319, 436, 721
SspI	AATATT	1 cut(s)	713
SspMI	CTAG	4 cut(s)	236, 567, 618, 729
StyD4I	CCNGG	3 cut(s)	43, 133, 192
StyI	CCWWGG	1 cut(s)	728
TaaI	ACNGT	1 cut(s)	290
TaiI	ACGT	3 cut(s)	33, 169, 253
TaqI	TCGA	3 cut(s)	14, 274, 647
TaqII	GACCGA	1 cut(s)	109
TasI	AATT	4 cut(s)	66, 469, 500, 515
TauI	GCSGC	1 cut(s)	723
TfiI	GAWTC	4 cut(s)	37, 276, 509, 563
Tru1I	TTAA	1 cut(s)	114
Tru9I	TTAA	1 cut(s)	114
TscAI	CASTG	1 cut(s)	352
TseFI	GTSAC	2 cut(s)	343, 431
TseI	GCWGC	1 cut(s)	663
Tsp45I	GTSAC	2 cut(s)	343, 431
TspDTI	ATGAA	5 cut(s)	70, 98, 249, 357, 497
TspGWI	ACGGA	1 cut(s)	419
TspRI	CASTG	1 cut(s)	352
Vha464I	CTTAAG	1 cut(s)	113
VpaK11BI	GGWCC	1 cut(s)	92
XapI	RAATTY	1 cut(s)	515
XbaI	TCTAGA	1 cut(s)	617
XceI	RCATGY	1 cut(s)	394
XmaJI	CCTAGG	1 cut(s)	728
XmiI	GTMKAC	2 cut(s)	247, 459
XspI	CTAG	4 cut(s)	236, 567, 618, 729

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