Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002205

Physical Location & Seq

Genomic Coordinates Reverse (-)

87487477 .. 87491323

Gene Structure 3847 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG568000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGAGGGGAAGGAGTTACAGTCCATCACCACCACCAAGGGGATATGGTAGGAGAGGACGGAGTCCTAGCCCAAGGGGTCGTTATGGTGGTCATAGTAGAGATAGAGATCTTCCTACAAGCCTCCTAGTTCGTAACCTTCGCCATGATTGCAGGCCAGATGATCTTCGCCGTCCATTTGGGCAGTTTGGTCCTCTGAAGGACATTTACCTGCCAAAGGATTATTATTCAGGGCAACCTCGTGGTTTCGGTTTTGTCCAATTTGTTGATCCTACTGATGCTGCGGAGGCTAAATATCAAATGGATGGTCACGTTCTTCTTGGTCGCGAGGTAACTGTTGTATTTGCAGAGGAGAACAGGAAGAAGCCGTCTGATATGAGGCAAAGGGAGGGTCCAAGCTCCAGGGGTAGTGGTCGACATCGTGATCGAAGAGGGTCTCCTCCACGCTATTCACGCTCTCCACCTCCACGTCATGCAAGATCTCGGCCCCGCAGCCCTTCTTATGATTCCCCTCCCCCAAAAAGAAGGGAATATTCGAGATCTGTCTCACCCCCAGGGAGAAGGTACAGTAGAGAGAGATCGTTTTCCCGATCTCCTCCTCAACCATATAATGGCTCAAGGGGCCGCAGTCAGAGTCCGGTTAGGGGTCCAAGCCGGAGCAGAAGCCAGAGTCCAAGGCAAATTGGTAGAAGCTTGAGTGGCAGGCCACAAAGTCCTGATCATGAAGATTACTCGAGGGAACCAAATGGAGACAGGTCTCCTAGTCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0005886 GO:0006139 GO:0006355 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0008150 GO:0008152 GO:0008380 GO:0009889 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010605 GO:0010629 GO:0016020 GO:0016043 GO:0016070 GO:0016071 GO:0016482 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0031323 GO:0031324 GO:0031326 GO:0031974 GO:0031981 GO:0033119 GO:0034622 GO:0034641 GO:0035061 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0046907 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0051082 GO:0051171 GO:0051172 GO:0051179 GO:0051234 GO:0051252 GO:0051253 GO:0051641 GO:0051649 GO:0060255 GO:0065003 GO:0065007 GO:0070013 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0080090 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903312 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

255

Amino Acids

29.07

Weight (kDa)

11.39

Isoelectric Point (pI)

106.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	41 - 110	1.3e-18	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

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Orthologous Genes (Group: OG0002205)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT3G13570
fragaria_vesca	FvH4_3g45331 FvH4_3g45331 FvH4_6g21490
malus_domestica	MD03G1005800.v1.1 MD11G1008700.v1.1 MD11G1008800.v1.1 MD14G1050400.v1.1 MD14G1050500.v1.1
prunus_persica	Prupe.6G005600_v2.0.a1 Prupe.6G005600_v2.0.a1 Prupe.6G005600_v2.0.a1 Prupe.7G085400_v2.0.a1
pyrus_communis	pycom03g00590 pycom11g00570
rosa_chinensis	RchiOBHm_Chr3g0478671 RchiOBHm_Chr5g0083131
rosa_laevigata	RLG00000023634 RLG00000037013
rosa_multiflora	Rmu_co8251633.1_g000001 Rmu_sc0002454.1_g000003 Rmu_sc0002900.1_g000004 Rmu_sc0008074.1_g000021
rosa_roxburghii	Rroxscaffold_1G00001380 Rroxscaffold_6G00403210
rosa_rugosa	Rorug03G0166900
rosa_samantha	Rh3AG219100 Rh3BG250800 Rh3CG247600 Rh3DG243900 Rh5AG532100 Rh5BG559200 Rh5CG582100 Rh5DG568000
rosa_wichuraiana	Rw3G019700 Rw5G049630

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	216
AccB7I	CCANNNNNTGG	1 cut(s)	608
AccI	GTMKAC	1 cut(s)	412
AccII	CGCG	1 cut(s)	324
AciI	CCGC	3 cut(s)	281, 487, 622
AclWI	GGATC	1 cut(s)	260
AcuI	CTGAAG	1 cut(s)	215
AfaI	GTAC	1 cut(s)	563
AfiI	CCNNNNNNNGG	4 cut(s)	38, 214, 608, 641
AjiI	CACGTC	1 cut(s)	467
AjnI	CCWGG	2 cut(s)	398, 550
AluBI	AGCT	2 cut(s)	396, 690
AluI	AGCT	2 cut(s)	396, 690
Alw26I	GTCTC	4 cut(s)	438, 547, 741, 759
AlwI	GGATC	1 cut(s)	260
Ama87I	CYCGRG	1 cut(s)	730
AoxI	GGCC	4 cut(s)	152, 482, 619, 701
ApeKI	GCWGC	2 cut(s)	278, 489
ArsI	GACNNNNNNTTYG	4 cut(s)	289, 321, 373, 405
AspS9I	GGNCC	5 cut(s)	188, 389, 483, 619, 644
AsuHPI	GGTGA	2 cut(s)	18, 537
AvaI	CYCGRG	1 cut(s)	730
AvaII	GGWCC	3 cut(s)	188, 389, 644
BarI	GAAGNNNNNNTAC	2 cut(s)	188, 220
BauI	CACGAG	1 cut(s)	237
BbvI	GCAGC	2 cut(s)	265, 501
BccI	CCATC	2 cut(s)	31, 296
BceAI	ACGGC	2 cut(s)	153, 349
BciT130I	CCWGG	2 cut(s)	400, 552
BclI	TGATCA	1 cut(s)	715
BcoDI	GTCTC	4 cut(s)	438, 547, 741, 759
BfaI	CTAG	3 cut(s)	66, 125, 759
BfuAI	ACCTGC	1 cut(s)	216
BglII	AGATCT	3 cut(s)	106, 476, 536
BisI	GCNGC	3 cut(s)	279, 490, 622
BlsI	GCNGC	3 cut(s)	280, 491, 623
Bme1390I	CCNGG	2 cut(s)	400, 552
Bme18I	GGWCC	3 cut(s)	188, 389, 644
BmeT110I	CYCGRG	1 cut(s)	730
BmgBI	CACGTC	1 cut(s)	467
BmgT120I	GGNCC	5 cut(s)	188, 389, 483, 619, 644
BmiI	GGNNCC	5 cut(s)	390, 485, 620, 645, 738
BmrFI	CCNGG	2 cut(s)	400, 552
BmsI	GCATC	1 cut(s)	265
BpmI	CTGGAG	1 cut(s)	382
BpuEI	CTTGAG	2 cut(s)	598, 712
BsaBI	GATNNNNATC	1 cut(s)	105
BsaI	GGTCTC	2 cut(s)	438, 759
BsaJI	CCNNGG	6 cut(s)	35, 71, 399, 550, 551, 671
BsaWI	WCCGGW	1 cut(s)	634
BsaXI	ACNNNNNCTCC	1 cut(s)	34
Bsc4I	CCNNNNNNNGG	4 cut(s)	38, 214, 608, 641
Bse8I	GATNNNNATC	1 cut(s)	105
BseBI	CCWGG	2 cut(s)	400, 552
BseDI	CCNNGG	6 cut(s)	35, 71, 399, 550, 551, 671
BseGI	GGATG	1 cut(s)	307
BseJI	GATNNNNATC	1 cut(s)	105
BseLI	CCNNNNNNNGG	4 cut(s)	38, 214, 608, 641
BseRI	GAGGAG	4 cut(s)	362, 426, 582, 585
BseXI	GCAGC	2 cut(s)	265, 501
Bsh1236I	CGCG	1 cut(s)	324
BshFI	GGCC	4 cut(s)	154, 484, 621, 703
BsiHKCI	CYCGRG	1 cut(s)	730
BsiSI	CCGG	2 cut(s)	635, 652
BslI	CCNNNNNNNGG	4 cut(s)	38, 214, 608, 641
BsmAI	GTCTC	4 cut(s)	438, 547, 741, 759
BsnI	GGCC	4 cut(s)	154, 484, 621, 703
Bso31I	GGTCTC	2 cut(s)	438, 759
BsoBI	CYCGRG	1 cut(s)	730
Bsp143I	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
Bsp68I	TCGCGA	1 cut(s)	324
BspACI	CCGC	3 cut(s)	281, 487, 622
BspANI	GGCC	4 cut(s)	154, 484, 621, 703
BspFNI	CGCG	1 cut(s)	324
BspHI	TCATGA	1 cut(s)	718
BspLI	GGNNCC	5 cut(s)	390, 485, 620, 645, 738
BspMI	ACCTGC	1 cut(s)	216
BspPI	GGATC	1 cut(s)	260
BspTNI	GGTCTC	2 cut(s)	438, 759
BssECI	CCNNGG	6 cut(s)	35, 71, 399, 550, 551, 671
BssMI	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
BssSI	CACGAG	1 cut(s)	237
BssT1I	CCWWGG	3 cut(s)	35, 71, 671
Bst2BI	CACGAG	1 cut(s)	237
Bst2UI	CCWGG	2 cut(s)	400, 552
Bst4CI	ACNGT	3 cut(s)	20, 334, 566
Bst6I	CTCTTC	1 cut(s)	421
BstC8I	GCNNGC	2 cut(s)	152, 701
BstENI	CCTNNNNNAGG	1 cut(s)	212
BstF5I	GGATG	1 cut(s)	307
BstFNI	CGCG	1 cut(s)	324
BstKTI	GATC	9 cut(s)	109, 163, 268, 424, 479, 539, 578, 590, 718
BstMAI	GTCTC	4 cut(s)	438, 547, 741, 759
BstMBI	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
BstMWI	GCNNNNNNNGC	5 cut(s)	147, 284, 450, 618, 696
BstNI	CCWGG	2 cut(s)	400, 552
BstSCI	CCNGG	2 cut(s)	398, 550
BstUI	CGCG	1 cut(s)	324
BstV1I	GCAGC	2 cut(s)	265, 501
BstX2I	RGATCY	3 cut(s)	106, 476, 536
BstYI	RGATCY	3 cut(s)	106, 476, 536
BsuRI	GGCC	4 cut(s)	154, 484, 621, 703
BtrI	CACGTC	1 cut(s)	467
BtsCI	GGATG	1 cut(s)	307
BtuMI	TCGCGA	1 cut(s)	324
BveI	ACCTGC	1 cut(s)	216
Cac8I	GCNNGC	2 cut(s)	152, 701
CciI	TCATGA	1 cut(s)	718
Cfr13I	GGNCC	5 cut(s)	188, 389, 483, 619, 644
Csp6I	GTAC	1 cut(s)	562
CviAII	CATG	4 cut(s)	143, 470, 719, 765
CviQI	GTAC	1 cut(s)	562
DpnI	GATC	9 cut(s)	108, 162, 267, 423, 478, 538, 577, 589, 717
DpnII	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
Eam1104I	CTCTTC	1 cut(s)	421
EarI	CTCTTC	1 cut(s)	421
Eco130I	CCWWGG	3 cut(s)	35, 71, 671
Eco31I	GGTCTC	2 cut(s)	438, 759
Eco47I	GGWCC	3 cut(s)	188, 389, 644
Eco57I	CTGAAG	1 cut(s)	215
Eco88I	CYCGRG	1 cut(s)	730
EcoNI	CCTNNNNNAGG	1 cut(s)	212
EcoRII	CCWGG	2 cut(s)	398, 550
EcoT14I	CCWWGG	3 cut(s)	35, 71, 671
ErhI	CCWWGG	3 cut(s)	35, 71, 671
FaeI	CATG	4 cut(s)	146, 473, 722, 768
FatI	CATG	4 cut(s)	142, 469, 718, 764
FauI	CCCGC	1 cut(s)	494
FbaI	TGATCA	1 cut(s)	715
FblI	GTMKAC	1 cut(s)	412
Fnu4HI	GCNGC	3 cut(s)	279, 490, 622
FokI	GGATG	1 cut(s)	314
Fsp4HI	GCNGC	3 cut(s)	279, 490, 622
FspBI	CTAG	3 cut(s)	66, 125, 759
GluI	GCNGC	3 cut(s)	279, 490, 622
GsuI	CTGGAG	1 cut(s)	382
HaeIII	GGCC	4 cut(s)	154, 484, 621, 703
HapII	CCGG	2 cut(s)	635, 652
Hin1II	CATG	4 cut(s)	146, 473, 722, 768
HincII	GTYRAC	1 cut(s)	413
HindII	GTYRAC	1 cut(s)	413
HindIII	AAGCTT	1 cut(s)	688
HinfI	GANTC	4 cut(s)	61, 503, 631, 667
HpaII	CCGG	2 cut(s)	635, 652
HphI	GGTGA	2 cut(s)	18, 537
Hpy166II	GTNNAC	1 cut(s)	413
Hpy188I	TCNGA	3 cut(s)	195, 370, 630
Hpy188III	TCNNGA	6 cut(s)	323, 419, 534, 585, 713, 719
Hpy8I	GTNNAC	1 cut(s)	413
HpyAV	CCTTC	6 cut(s)	3, 146, 190, 504, 516, 552
HpyCH4III	ACNGT	3 cut(s)	20, 334, 566
HpyCH4IV	ACGT	2 cut(s)	309, 466
HpyCH4V	TGCA	3 cut(s)	150, 344, 473
HpyF10VI	GCNNNNNNNGC	5 cut(s)	147, 284, 450, 618, 696
HpySE526I	ACGT	2 cut(s)	309, 466
Hsp92II	CATG	4 cut(s)	146, 473, 722, 768
Ksp22I	TGATCA	1 cut(s)	715
Kzo9I	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
LmnI	GCTCC	2 cut(s)	401, 654
Lsp1109I	GCAGC	2 cut(s)	265, 501
LweI	GCATC	1 cut(s)	265
MaeI	CTAG	3 cut(s)	66, 125, 759
MaeII	ACGT	2 cut(s)	309, 466
MaeIII	GTNAC	4 cut(s)	14, 131, 305, 328
MalI	GATC	9 cut(s)	108, 162, 267, 423, 478, 538, 577, 589, 717
MboI	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
MboII	GAAGA	6 cut(s)	101, 155, 305, 370, 438, 734
MflI	RGATCY	3 cut(s)	106, 476, 536
MluCI	AATT	2 cut(s)	257, 678
MlyI	GAGTC	3 cut(s)	70, 640, 676
MspI	CCGG	2 cut(s)	635, 652
MspR9I	CCNGG	2 cut(s)	400, 552
MvaI	CCWGG	2 cut(s)	400, 552
MvnI	CGCG	1 cut(s)	324
MwoI	GCNNNNNNNGC	5 cut(s)	147, 284, 450, 618, 696
NdeII	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
NlaIII	CATG	4 cut(s)	146, 473, 722, 768
NlaIV	GGNNCC	5 cut(s)	390, 485, 620, 645, 738
NmeAIII	GCCGAG	1 cut(s)	460
NmuCI	GTSAC	1 cut(s)	305
NruI	TCGCGA	1 cut(s)	324
PaeR7I	CTCGAG	1 cut(s)	730
PagI	TCATGA	1 cut(s)	718
PasI	CCCWGGG	1 cut(s)	551
PfeI	GAWTC	1 cut(s)	503
PflFI	GACNNNGTC	1 cut(s)	60
PflMI	CCANNNNNTGG	1 cut(s)	608
PkrI	GCNGC	3 cut(s)	280, 491, 623
PleI	GAGTC	3 cut(s)	69, 639, 675
PpsI	GAGTC	3 cut(s)	69, 639, 675
Psp6I	CCWGG	2 cut(s)	398, 550
PspGI	CCWGG	2 cut(s)	398, 550
PspN4I	GGNNCC	5 cut(s)	390, 485, 620, 645, 738
PspPI	GGNCC	5 cut(s)	188, 389, 483, 619, 644
PspXI	VCTCGAGB	1 cut(s)	730
PsuI	RGATCY	3 cut(s)	106, 476, 536
PsyI	GACNNNGTC	1 cut(s)	60
RruI	TCGCGA	1 cut(s)	324
RsaI	GTAC	1 cut(s)	563
RsaNI	GTAC	1 cut(s)	562
SalI	GTCGAC	1 cut(s)	411
SatI	GCNGC	3 cut(s)	279, 490, 622
Sau3AI	GATC	9 cut(s)	106, 160, 265, 421, 476, 536, 575, 587, 715
Sau96I	GGNCC	5 cut(s)	188, 389, 483, 619, 644
SchI	GAGTC	3 cut(s)	70, 640, 676
ScrFI	CCNGG	2 cut(s)	400, 552
SfaNI	GCATC	1 cut(s)	265
Sfr274I	CTCGAG	1 cut(s)	730
SinI	GGWCC	3 cut(s)	188, 389, 644
SlaI	CTCGAG	1 cut(s)	730
SmlI	CTYRAG	3 cut(s)	613, 691, 730
SmoI	CTYRAG	3 cut(s)	613, 691, 730
Sse9I	AATT	2 cut(s)	257, 678
SsiI	CCGC	3 cut(s)	281, 487, 622
SspI	AATATT	1 cut(s)	530
SspMI	CTAG	3 cut(s)	66, 125, 759
StyD4I	CCNGG	2 cut(s)	398, 550
StyI	CCWWGG	3 cut(s)	35, 71, 671
TaaI	ACNGT	3 cut(s)	20, 334, 566
TaiI	ACGT	2 cut(s)	312, 469
TaqI	TCGA	4 cut(s)	412, 424, 533, 731
TasI	AATT	2 cut(s)	257, 678
TauI	GCSGC	1 cut(s)	624
TfiI	GAWTC	1 cut(s)	503
TseFI	GTSAC	1 cut(s)	305
TseI	GCWGC	2 cut(s)	278, 489
Tsp45I	GTSAC	1 cut(s)	305
TspDTI	ATGAA	1 cut(s)	735
TspGWI	ACGGA	1 cut(s)	73
Tth111I	GACNNNGTC	1 cut(s)	60
Van91I	CCANNNNNTGG	1 cut(s)	608
VpaK11BI	GGWCC	3 cut(s)	188, 389, 644
XagI	CCTNNNNNAGG	1 cut(s)	212
XhoI	CTCGAG	1 cut(s)	730
XmiI	GTMKAC	1 cut(s)	412
XspI	CTAG	3 cut(s)	66, 125, 759

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