Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001558

Physical Location & Seq

Genomic Coordinates Reverse (-)

16347564 .. 16357760

Gene Structure 10197 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG184500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGTATATGGTTACCAAAAACAGAACTTTCACTTGGCCTATATGGTCATACACGAGAGCAAAAAGGTCTGCTTCACCACAAACCTCTGTCTCACCTGTCAAAGGCCGCCGATCGAGATCATTGTCGAGGTCTAGAAGGAGTCGTTCTAGGAGCCCATCTGTGGATGCAACCAATCCTGGAAACAACTTGTATGTAACAGGCTTATCCACAAGGGTTACCTCTGCTGATGTTGAGAAATTCTTTAACAAAGAATGCAAGGTGTTGGAGTGCCATCTTGTAACTAACCCTCGCTCCAGAGAATCTCGTGGATTTGCATTTGTCACAATGGAAACTGTAGAGGATGCAGAGCGATGCATTAAGTACTTGAATCGCTCTGTGCTTGAAGGTCGACTAGTCACTGTGGAAAAGAAGTTGGAGAAACTTCAGGAAGAGGATCTTGTTGAAAGGCCGTTCAAGAAGAAACAGATCAAGATCAGGTTTCCTGAATGGGGAAGAAGTGGGAGATTTGCTCCATTTGGAGGTAAGGTGTTGTTTAGCAGAGCAAATCTCACAATTGAAAAAGGAGAGAAACTGGCCATTATTGGCCCAAATGGATGTGGCAAGAGTACTTTGCTTAAACTAATAATGGGTTTACAAAAGCCAATAGCAAGTGAAGTTCTGCTTGGGGAGCATAATGTCCTAACAAACTTTTTTGAGCAAAATCAGGTGTGTACTGCCATTACTATTTGCTACTTTGAAATAACTAATAGCATGGGGTTTCTTCTTAGTAAAAGAGGAACCGGATCTGTGTTTGCCGAGGCCCGAGGGTGTCTTCTGTTGTGCCTGCAATGGGTTCATGATGATTCAAGTGTTTGGGAGTCGAGAGAAGAGGTAGACAACGCCAGAGTTAAATTGAAGAAATGGTATTCGATAGTCAAAGGTAAATCAGATGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0006325 GO:0006464 GO:0006473 GO:0006475 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016569 GO:0016570 GO:0016573 GO:0018193 GO:0018205 GO:0018393 GO:0018394 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0043543 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0051276 GO:0071704 GO:0071840 GO:0097159 GO:1901363 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

311

Amino Acids

35.35

Weight (kDa)

9.78

Isoelectric Point (pI)

52.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	63 - 132	4.7e-14	RNA recognition motif
ABC_tran	PF00005	180 - 228	2.6e-13	ABC transporter

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001558)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35785 AT4G35785 AT4G35785 AT4G35785 AT4G35785 AT4G35785
fragaria_vesca	FvH4_1g10991 FvH4_1g10991 FvH4_5g02820
malus_domestica	MD02G1123000.v1.1 MD06G1087700.v1.1 MD15G1237000.v1.1
prunus_persica	Prupe.5G103800_v2.0.a1 Prupe.5G103800_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1
pyrus_communis	pycom02g09590 pycom06g08380 pycom15g21080
rosa_chinensis	RchiOBHm_Chr2g0098261 RchiOBHm_Chr4g0436561 RchiOBHm_Chr5g0052501 RchiOBHm_Chr6g0253581 RchiOBHm_Chr7g0197131
rosa_laevigata	RLG00000016780
rosa_multiflora	Rmu_sc0000441.1_g000019 Rmu_sc0002754.1_g000021 Rmu_sc0009183.1_g000006 Rmu_ssc0000465.1_g000024
rosa_roxburghii	Rroxscaffold_2G00144110 Rroxscaffold_3G00258670
rosa_rugosa	Rorug02G0071700 Rorug07G0037800 Rorug07G0037900 Rorug07G0038000
rosa_samantha	Rh2AG118700 Rh2AG118800 Rh2DG123400 Rh3DG184500 Rh3DG353300 Rh6DG075300 Rh7AG162600 Rh7BG164600
rosa_wichuraiana	Rw0G023370 Rw1G013400 Rw4G028610 Rw5G028060 Rw7G014190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	388, 873
AciI	CCGC	1 cut(s)	106
AclWI	GGATC	2 cut(s)	441, 790
AcoI	YGGCCR	1 cut(s)	573
AcsI	RAATTY	1 cut(s)	236
AcuI	CTGAAG	1 cut(s)	407
AfaI	GTAC	3 cut(s)	362, 607, 712
AfiI	CCNNNNNNNGG	5 cut(s)	101, 160, 488, 518, 829
AgsI	TTSAA	8 cut(s)	367, 383, 443, 454, 557, 737, 846, 895
AhlI	ACTAGT	1 cut(s)	391
AjnI	CCWGG	1 cut(s)	175
AjuI	GAANNNNNNNTTGG	4 cut(s)	16, 48, 645, 677
Alw26I	GTCTC	1 cut(s)	94
AlwI	GGATC	2 cut(s)	441, 790
Ama87I	CYCGRG	1 cut(s)	801
AoxI	GGCC	6 cut(s)	35, 103, 446, 573, 583, 798
ApoI	RAATTY	1 cut(s)	236
AspS9I	GGNCC	2 cut(s)	584, 799
AsuHPI	GGTGA	2 cut(s)	66, 84
AvaI	CYCGRG	1 cut(s)	801
BalI	TGGCCA	1 cut(s)	575
BanII	GRGCYC	1 cut(s)	155
BauI	CACGAG	2 cut(s)	52, 303
BbsI	GAAGAC	1 cut(s)	803
BccI	CCATC	2 cut(s)	163, 279
BceAI	ACGGC	1 cut(s)	433
BciT130I	CCWGG	1 cut(s)	177
BcoDI	GTCTC	1 cut(s)	94
BcuI	ACTAGT	1 cut(s)	391
BfaI	CTAG	3 cut(s)	132, 147, 392
BfmI	CTRYAG	1 cut(s)	333
BisI	GCNGC	1 cut(s)	106
BlsI	GCNGC	1 cut(s)	107
BmcAI	AGTACT	2 cut(s)	362, 607
Bme1390I	CCNGG	1 cut(s)	177
BmeT110I	CYCGRG	1 cut(s)	801
BmgT120I	GGNCC	2 cut(s)	584, 799
BmiI	GGNNCC	2 cut(s)	152, 778
BmrFI	CCNGG	1 cut(s)	177
BmsI	GCATC	3 cut(s)	154, 331, 341
BpiI	GAAGAC	1 cut(s)	803
BplI	GAGNNNNNCTC	4 cut(s)	493, 525, 531, 563
BpmI	CTGGAG	1 cut(s)	277
BsaBI	GATNNNNATC	2 cut(s)	115, 470
BsaJI	CCNNGG	2 cut(s)	795, 802
BsaWI	WCCGGW	1 cut(s)	779
BsaXI	ACNNNNNCTCC	4 cut(s)	275, 305, 510, 540
Bsc4I	CCNNNNNNNGG	5 cut(s)	101, 160, 488, 518, 829
Bse1I	ACTGG	1 cut(s)	576
Bse3DI	GCAATG	1 cut(s)	833
Bse8I	GATNNNNATC	2 cut(s)	115, 470
BseBI	CCWGG	1 cut(s)	177
BseDI	CCNNGG	2 cut(s)	795, 802
BseGI	GGATG	3 cut(s)	169, 346, 599
BseJI	GATNNNNATC	2 cut(s)	115, 470
BseLI	CCNNNNNNNGG	5 cut(s)	101, 160, 488, 518, 829
BseMI	GCAATG	1 cut(s)	833
BseNI	ACTGG	1 cut(s)	576
Bsh1285I	CGRYCG	1 cut(s)	113
BshFI	GGCC	6 cut(s)	37, 105, 448, 575, 585, 800
BsiEI	CGRYCG	1 cut(s)	113
BsiHKCI	CYCGRG	1 cut(s)	801
BsiSI	CCGG	1 cut(s)	780
BslI	CCNNNNNNNGG	5 cut(s)	101, 160, 488, 518, 829
BsmAI	GTCTC	1 cut(s)	94
BsmI	GAATGC	1 cut(s)	257
BsnI	GGCC	6 cut(s)	37, 105, 448, 575, 585, 800
BsoBI	CYCGRG	1 cut(s)	801
Bsp1286I	GDGCHC	1 cut(s)	155
Bsp143I	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
BspACI	CCGC	1 cut(s)	106
BspANI	GGCC	6 cut(s)	37, 105, 448, 575, 585, 800
BspHI	TCATGA	1 cut(s)	835
BspLI	GGNNCC	2 cut(s)	152, 778
BspPI	GGATC	2 cut(s)	441, 790
BsrDI	GCAATG	1 cut(s)	833
BsrI	ACTGG	1 cut(s)	576
BssECI	CCNNGG	2 cut(s)	795, 802
BssMI	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
BssSI	CACGAG	2 cut(s)	52, 303
Bst2BI	CACGAG	2 cut(s)	52, 303
Bst2UI	CCWGG	1 cut(s)	177
Bst4CI	ACNGT	2 cut(s)	334, 400
Bst6I	CTCTTC	2 cut(s)	423, 861
BstC8I	GCNNGC	1 cut(s)	824
BstDEI	CTNAG	1 cut(s)	764
BstEII	GGTNACC	2 cut(s)	10, 214
BstENI	CCTNNNNNAGG	1 cut(s)	99
BstF5I	GGATG	3 cut(s)	169, 346, 599
BstKTI	GATC	6 cut(s)	113, 119, 436, 468, 474, 785
BstMAI	GTCTC	1 cut(s)	94
BstMBI	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
BstMCI	CGRYCG	1 cut(s)	113
BstMWI	GCNNNNNNNGC	1 cut(s)	667
BstNI	CCWGG	1 cut(s)	177
BstPI	GGTNACC	2 cut(s)	10, 214
BstSCI	CCNGG	1 cut(s)	175
BstSFI	CTRYAG	1 cut(s)	333
BstV2I	GAAGAC	1 cut(s)	803
BstX2I	RGATCY	2 cut(s)	433, 782
BstYI	RGATCY	2 cut(s)	433, 782
BsuRI	GGCC	6 cut(s)	37, 105, 448, 575, 585, 800
BtgZI	GCGATG	1 cut(s)	364
BtsCI	GGATG	3 cut(s)	169, 346, 599
BtsIMutI	CAGTG	1 cut(s)	396
Cac8I	GCNNGC	1 cut(s)	824
CciI	TCATGA	1 cut(s)	835
Cfr13I	GGNCC	2 cut(s)	584, 799
Csp6I	GTAC	3 cut(s)	361, 606, 711
CviAII	CATG	2 cut(s)	751, 836
CviJI	RGCY	9 cut(s)	37, 105, 153, 201, 448, 575, 585, 640, 800
CviKI_1	RGCY	9 cut(s)	37, 105, 153, 201, 448, 575, 585, 640, 800
CviQI	GTAC	3 cut(s)	361, 606, 711
DdeI	CTNAG	1 cut(s)	764
DpnI	GATC	6 cut(s)	112, 118, 435, 467, 473, 784
DpnII	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
EaeI	YGGCCR	1 cut(s)	573
Eam1104I	CTCTTC	2 cut(s)	423, 861
EarI	CTCTTC	2 cut(s)	423, 861
Eco24I	GRGCYC	1 cut(s)	155
Eco57I	CTGAAG	1 cut(s)	407
Eco88I	CYCGRG	1 cut(s)	801
Eco91I	GGTNACC	2 cut(s)	10, 214
EcoNI	CCTNNNNNAGG	1 cut(s)	99
EcoO65I	GGTNACC	2 cut(s)	10, 214
EcoRII	CCWGG	1 cut(s)	175
EcoT22I	ATGCAT	1 cut(s)	356
EcoT38I	GRGCYC	1 cut(s)	155
FaeI	CATG	2 cut(s)	754, 839
FaiI	YATR	9 cut(s)	6, 8, 41, 43, 49, 192, 672, 752, 837
FalI	AAGNNNNNCTT	6 cut(s)	55, 87, 420, 452, 645, 677
FatI	CATG	2 cut(s)	750, 835
FblI	GTMKAC	2 cut(s)	388, 873
Fnu4HI	GCNGC	1 cut(s)	106
FokI	GGATG	3 cut(s)	176, 353, 606
FriOI	GRGCYC	1 cut(s)	155
Fsp4HI	GCNGC	1 cut(s)	106
FspBI	CTAG	3 cut(s)	132, 147, 392
GluI	GCNGC	1 cut(s)	106
GsuI	CTGGAG	1 cut(s)	277
HaeIII	GGCC	6 cut(s)	37, 105, 448, 575, 585, 800
HapII	CCGG	1 cut(s)	780
Hin1II	CATG	2 cut(s)	754, 839
HincII	GTYRAC	1 cut(s)	389
HindII	GTYRAC	1 cut(s)	389
HinfI	GANTC	5 cut(s)	139, 299, 367, 842, 857
HpaII	CCGG	1 cut(s)	780
HphI	GGTGA	2 cut(s)	66, 84
Hpy166II	GTNNAC	4 cut(s)	389, 632, 711, 874
Hpy188I	TCNGA	1 cut(s)	928
Hpy188III	TCNNGA	9 cut(s)	114, 132, 294, 425, 454, 469, 482, 836, 861
Hpy8I	GTNNAC	4 cut(s)	389, 632, 711, 874
HpyAV	CCTTC	2 cut(s)	129, 377
HpyCH4III	ACNGT	2 cut(s)	334, 400
HpyCH4V	TGCA	6 cut(s)	167, 255, 314, 344, 354, 826
HpyF10VI	GCNNNNNNNGC	1 cut(s)	667
HpyF3I	CTNAG	1 cut(s)	764
Hsp92II	CATG	2 cut(s)	754, 839
Kzo9I	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
LmnI	GCTCC	4 cut(s)	150, 296, 514, 667
LweI	GCATC	3 cut(s)	154, 331, 341
MaeI	CTAG	3 cut(s)	132, 147, 392
MaeIII	GTNAC	6 cut(s)	10, 193, 214, 277, 319, 394
MalI	GATC	6 cut(s)	112, 118, 435, 467, 473, 784
MboI	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
MboII	GAAGA	7 cut(s)	440, 469, 504, 752, 803, 878, 907
MfeI	CAATTG	1 cut(s)	552
MflI	RGATCY	2 cut(s)	433, 782
MhlI	GDGCHC	1 cut(s)	155
MlsI	TGGCCA	1 cut(s)	575
MluCI	AATT	3 cut(s)	236, 552, 890
MluNI	TGGCCA	1 cut(s)	575
MlyI	GAGTC	2 cut(s)	148, 866
MmeI	TCCRAC	2 cut(s)	243, 393
Mox20I	TGGCCA	1 cut(s)	575
Mph1103I	ATGCAT	1 cut(s)	356
MscI	TGGCCA	1 cut(s)	575
MseI	TTAA	5 cut(s)	243, 357, 615, 888, 934
Msp20I	TGGCCA	1 cut(s)	575
MspI	CCGG	1 cut(s)	780
MspR9I	CCNGG	1 cut(s)	177
MunI	CAATTG	1 cut(s)	552
Mva1269I	GAATGC	1 cut(s)	257
MvaI	CCWGG	1 cut(s)	177
MwoI	GCNNNNNNNGC	1 cut(s)	667
NdeII	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
NlaIII	CATG	2 cut(s)	754, 839
NlaIV	GGNNCC	2 cut(s)	152, 778
NmeAIII	GCCGAG	1 cut(s)	820
NmuCI	GTSAC	2 cut(s)	319, 394
NsiI	ATGCAT	1 cut(s)	356
PagI	TCATGA	1 cut(s)	835
PctI	GAATGC	1 cut(s)	257
PfeI	GAWTC	3 cut(s)	299, 367, 842
PfoI	TCCNGGA	1 cut(s)	175
PkrI	GCNGC	1 cut(s)	107
Ple19I	CGATCG	1 cut(s)	113
PleI	GAGTC	2 cut(s)	147, 865
PpsI	GAGTC	2 cut(s)	147, 865
Psp6I	CCWGG	1 cut(s)	175
PspEI	GGTNACC	2 cut(s)	10, 214
PspGI	CCWGG	1 cut(s)	175
PspN4I	GGNNCC	2 cut(s)	152, 778
PspPI	GGNCC	2 cut(s)	584, 799
PsuI	RGATCY	2 cut(s)	433, 782
PvuI	CGATCG	1 cut(s)	113
RsaI	GTAC	3 cut(s)	362, 607, 712
RsaNI	GTAC	3 cut(s)	361, 606, 711
SalI	GTCGAC	1 cut(s)	387
SaqAI	TTAA	5 cut(s)	243, 357, 615, 888, 934
SatI	GCNGC	1 cut(s)	106
Sau3AI	GATC	6 cut(s)	110, 116, 433, 465, 471, 782
Sau96I	GGNCC	2 cut(s)	584, 799
ScaI	AGTACT	2 cut(s)	362, 607
SchI	GAGTC	2 cut(s)	148, 866
ScrFI	CCNGG	1 cut(s)	177
SduI	GDGCHC	1 cut(s)	155
SfaNI	GCATC	3 cut(s)	154, 331, 341
SfcI	CTRYAG	1 cut(s)	333
SpeI	ACTAGT	1 cut(s)	391
Sse9I	AATT	3 cut(s)	236, 552, 890
SsiI	CCGC	1 cut(s)	106
SspMI	CTAG	3 cut(s)	132, 147, 392
StyD4I	CCNGG	1 cut(s)	175
TaaI	ACNGT	2 cut(s)	334, 400
TaqI	TCGA	5 cut(s)	113, 125, 388, 860, 908
TasI	AATT	3 cut(s)	236, 552, 890
TatI	WGTACW	3 cut(s)	360, 605, 710
TauI	GCSGC	1 cut(s)	108
TfiI	GAWTC	3 cut(s)	299, 367, 842
Tru1I	TTAA	5 cut(s)	243, 357, 615, 888, 934
Tru9I	TTAA	5 cut(s)	243, 357, 615, 888, 934
TscAI	CASTG	1 cut(s)	403
TseFI	GTSAC	2 cut(s)	319, 394
Tsp45I	GTSAC	2 cut(s)	319, 394
TspDTI	ATGAA	1 cut(s)	824
TspRI	CASTG	1 cut(s)	403
XagI	CCTNNNNNAGG	1 cut(s)	99
XapI	RAATTY	1 cut(s)	236
XbaI	TCTAGA	1 cut(s)	131
XmiI	GTMKAC	2 cut(s)	388, 873
XspI	CTAG	3 cut(s)	132, 147, 392
ZrmI	AGTACT	2 cut(s)	362, 607
Zsp2I	ATGCAT	1 cut(s)	356

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