Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0017335

Physical Location & Seq

Genomic Coordinates Reverse (-)

26303791 .. 26304692

Gene Structure 902 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G021690.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGGCTTCTTCTCGCCGCATTTTCGTTGGGAACATCCCTTATGATGCCACCGAGCAACAGGTCAAGGCTCTCTGCGAGGAGGTTGGCCCTGTTGTGACTTTCAGAATGGTTACGGATAAAGACACCGGGAAGCCAAAGGGTTTTGGGTTCTGTGAGTACAGGGATGAAGCGACGGCGTTTAGTGCGCTGCGAAATCTTCAGGATTGTGAGCTCAATGGCCGGCGTTTGAAGGTTAATTTTGCTGCTAATGATAAGGCCAATCATCAGCCGATTGGTCTCCAAGCAGCTGTTGATGCAGCCGCCGCGTTGGCGGGAGCTCTAGGTGGTTCTCAGCAGCAGGCATTGGCTAATGATCCTTTGACAGTCCACCTGTCCAAAATGTCGAGGAATCAGTTGGCGCAAATGGTCTCGGAGATGAAGGGAATTGCTGTGGAAAATAAGGAGATGGCTCAGGAGCTGTTGCTTGCAAAGCCGCAGTTAAACAGGGCTCTGCTTCAGGCACAAATGATGCTAGGAATGGTCACACCACAAATTACAGATCTCGGAGGTCAGACTGTGGTCACCCCACAAATGATGCAAAAGAGGCCAATGCCTCCATTGAATATGGGCCAGCAGCAAGTTCCAAAATCAGAACCAGTGCAAATCTCTGAGCCTCAGATTCTTCCAACGGGGGTGGACCCTGCTCTGTTGCAACAAGTTTTGAGCCTACCTCCCGAAACGGTGGCTTCATTGGCACCCGAACTGCGACAACAGGTCATTCAACTCCAACAGATGTATAGGCAAGATCAGAGGATCGCTTGCAGCAGTGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005847 GO:0005849 GO:0006139 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016604 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071920 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0098787 GO:0098789 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

CSTF2_hinge CSTF_C RRM_1

Protein Analysis

270

Amino Acids

29.42

Weight (kDa)

6.74

Isoelectric Point (pI)

55.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	7 - 77	2.1e-20	RNA recognition motif
CSTF2_hinge	PF14327	113 - 178	8.1e-14	Hinge domain of cleavage stimulation factor subunit 2
CSTF_C	PF14304	228 - 261	1.8e-07	Transcription termination and cleavage factor C-terminal

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: OG0017335)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g22940 FvH4_6g23390
rosa_chinensis	RchiOBHm_Chr3g0481441
rosa_laevigata	RLG00000023400
rosa_multiflora	Rmu_sc0000064.1_g000026 Rmu_sc0021886.1_g000005
rosa_roxburghii	Rroxscaffold_6G00400450
rosa_rugosa	Rorug03G0191800
rosa_samantha	Rh3AG242700 Rh3BG277700 Rh3CG272700 Rh3DG269700
rosa_wichuraiana	Rw3G021690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	733
AccII	CGCG	1 cut(s)	305
AciI	CCGC	5 cut(s)	16, 300, 303, 311, 473
AclWI	GGATC	2 cut(s)	347, 800
AcoI	YGGCCR	1 cut(s)	217
AcuI	CTGAAG	2 cut(s)	182, 479
AfaI	GTAC	1 cut(s)	158
AgsI	TTSAA	3 cut(s)	229, 601, 761
AhdI	GACNNNNNGTC	1 cut(s)	752
AluBI	AGCT	4 cut(s)	211, 287, 317, 457
AluI	AGCT	4 cut(s)	211, 287, 317, 457
Alw21I	GWGCWC	2 cut(s)	213, 319
Alw26I	GTCTC	2 cut(s)	281, 412
AlwI	GGATC	2 cut(s)	347, 800
AlwNI	CAGNNNCTG	1 cut(s)	457
AoxI	GGCC	5 cut(s)	85, 217, 255, 584, 607
ApeKI	GCWGC	7 cut(s)	187, 242, 284, 296, 334, 613, 801
AspLEI	GCGC	2 cut(s)	187, 400
AspS9I	GGNCC	3 cut(s)	86, 607, 676
AsuC2I	CCSGG	1 cut(s)	127
AsuHPI	GGTGA	1 cut(s)	553
AvaII	GGWCC	1 cut(s)	676
BanI	GGYRCC	1 cut(s)	733
BanII	GRGCYC	3 cut(s)	213, 319, 490
Bbv12I	GWGCWC	2 cut(s)	213, 319
BbvI	GCAGC	6 cut(s)	174, 229, 296, 308, 346, 625
BccI	CCATC	1 cut(s)	439
BceAI	ACGGC	1 cut(s)	189
BcnI	CCSGG	1 cut(s)	127
BcoDI	GTCTC	2 cut(s)	281, 412
BfaI	CTAG	2 cut(s)	320, 512
BglI	GCCNNNNNGGC	1 cut(s)	308
BglII	AGATCT	1 cut(s)	538
Bme1390I	CCNGG	1 cut(s)	127
Bme18I	GGWCC	1 cut(s)	676
BmeRI	GACNNNNNGTC	1 cut(s)	752
BmgT120I	GGNCC	3 cut(s)	86, 607, 676
BmiI	GGNNCC	2 cut(s)	678, 735
BmrFI	CCNGG	1 cut(s)	127
BmsI	GCATC	4 cut(s)	34, 283, 498, 564
BoxI	GACNNNNGTC	1 cut(s)	557
BplI	GAGNNNNNCTC	2 cut(s)	694, 726
Bpu10I	CCTNAGC	1 cut(s)	450
BpuMI	CCSGG	1 cut(s)	127
BsaI	GGTCTC	2 cut(s)	281, 412
Bse118I	RCCGGY	1 cut(s)	219
Bse1I	ACTGG	1 cut(s)	635
BseGI	GGATG	2 cut(s)	33, 169
BseMII	CTCAG	4 cut(s)	344, 464, 639, 668
BseNI	ACTGG	1 cut(s)	635
BseRI	GAGGAG	1 cut(s)	92
BseXI	GCAGC	6 cut(s)	174, 229, 296, 308, 346, 625
Bsh1236I	CGCG	1 cut(s)	305
BshFI	GGCC	5 cut(s)	87, 219, 257, 586, 609
BshNI	GGYRCC	1 cut(s)	733
BsiHKAI	GWGCWC	2 cut(s)	213, 319
BsiSI	CCGG	2 cut(s)	126, 220
BsmAI	GTCTC	2 cut(s)	281, 412
BsnI	GGCC	5 cut(s)	87, 219, 257, 586, 609
Bso31I	GGTCTC	2 cut(s)	281, 412
Bsp1286I	GDGCHC	3 cut(s)	213, 319, 490
Bsp143I	GATC	4 cut(s)	352, 538, 784, 792
BspACI	CCGC	5 cut(s)	16, 300, 303, 311, 473
BspANI	GGCC	5 cut(s)	87, 219, 257, 586, 609
BspCNI	CTCAG	4 cut(s)	343, 463, 640, 667
BspFNI	CGCG	1 cut(s)	305
BspLI	GGNNCC	2 cut(s)	678, 735
BspPI	GGATC	2 cut(s)	347, 800
BspT107I	GGYRCC	1 cut(s)	733
BspTNI	GGTCTC	2 cut(s)	281, 412
BsrFI	RCCGGY	1 cut(s)	219
BsrI	ACTGG	1 cut(s)	635
BssAI	RCCGGY	1 cut(s)	219
BssMI	GATC	4 cut(s)	352, 538, 784, 792
Bst4CI	ACNGT	3 cut(s)	364, 556, 721
BstC8I	GCNNGC	5 cut(s)	221, 339, 465, 611, 799
BstDEI	CTNAG	4 cut(s)	330, 450, 648, 654
BstEII	GGTNACC	1 cut(s)	559
BstF5I	GGATG	2 cut(s)	33, 169
BstFNI	CGCG	1 cut(s)	305
BstHHI	GCGC	2 cut(s)	187, 400
BstKTI	GATC	4 cut(s)	355, 541, 787, 795
BstMAI	GTCTC	2 cut(s)	281, 412
BstMBI	GATC	4 cut(s)	352, 538, 784, 792
BstMWI	GCNNNNNNNGC	7 cut(s)	182, 293, 302, 308, 469, 583, 731
BstPAI	GACNNNNGTC	1 cut(s)	557
BstPI	GGTNACC	1 cut(s)	559
BstSCI	CCNGG	1 cut(s)	125
BstUI	CGCG	1 cut(s)	305
BstV1I	GCAGC	6 cut(s)	174, 229, 296, 308, 346, 625
BstX2I	RGATCY	1 cut(s)	538
BstYI	RGATCY	1 cut(s)	538
BsuRI	GGCC	5 cut(s)	87, 219, 257, 586, 609
BtsCI	GGATG	2 cut(s)	33, 169
BtsI	GCAGTG	1 cut(s)	811
BtsIMutI	CAGTG	2 cut(s)	642, 811
Cac8I	GCNNGC	5 cut(s)	221, 339, 465, 611, 799
CaiI	CAGNNNCTG	1 cut(s)	457
CfoI	GCGC	2 cut(s)	187, 400
Cfr10I	RCCGGY	1 cut(s)	219
Cfr13I	GGNCC	3 cut(s)	86, 607, 676
Csp6I	GTAC	1 cut(s)	157
CspCI	CAANNNNNGTGG	2 cut(s)	654, 689
CviQI	GTAC	1 cut(s)	157
DdeI	CTNAG	4 cut(s)	330, 450, 648, 654
DpnI	GATC	4 cut(s)	354, 540, 786, 794
DpnII	GATC	4 cut(s)	352, 538, 784, 792
DriI	GACNNNNNGTC	1 cut(s)	752
EaeI	YGGCCR	1 cut(s)	217
Eam1105I	GACNNNNNGTC	1 cut(s)	752
Ecl136II	GAGCTC	2 cut(s)	211, 317
Eco24I	GRGCYC	3 cut(s)	213, 319, 490
Eco31I	GGTCTC	2 cut(s)	281, 412
Eco47I	GGWCC	1 cut(s)	676
Eco53kI	GAGCTC	2 cut(s)	211, 317
Eco57I	CTGAAG	2 cut(s)	182, 479
Eco91I	GGTNACC	1 cut(s)	559
EcoICRI	GAGCTC	2 cut(s)	211, 317
EcoO65I	GGTNACC	1 cut(s)	559
EcoT38I	GRGCYC	3 cut(s)	213, 319, 490
FaiI	YATR	3 cut(s)	42, 605, 777
FauI	CCCGC	1 cut(s)	304
FokI	GGATG	2 cut(s)	20, 176
FriOI	GRGCYC	3 cut(s)	213, 319, 490
FspBI	CTAG	2 cut(s)	320, 512
GlaI	GCGC	2 cut(s)	186, 399
HaeIII	GGCC	5 cut(s)	87, 219, 257, 586, 609
HapII	CCGG	2 cut(s)	126, 220
HhaI	GCGC	2 cut(s)	187, 400
Hin6I	GCGC	2 cut(s)	185, 398
HinP1I	GCGC	2 cut(s)	185, 398
HinfI	GANTC	2 cut(s)	388, 658
HpaII	CCGG	2 cut(s)	126, 220
HphI	GGTGA	1 cut(s)	553
Hpy166II	GTNNAC	2 cut(s)	367, 676
Hpy188I	TCNGA	8 cut(s)	104, 412, 545, 552, 631, 649, 657, 789
Hpy188III	TCNNGA	3 cut(s)	200, 452, 713
Hpy8I	GTNNAC	2 cut(s)	367, 676
Hpy99I	CGWCG	1 cut(s)	175
HpyAV	CCTTC	2 cut(s)	223, 412
HpyCH4III	ACNGT	3 cut(s)	364, 556, 721
HpyCH4V	TGCA	6 cut(s)	296, 467, 577, 640, 691, 801
HpyF10VI	GCNNNNNNNGC	7 cut(s)	182, 293, 302, 308, 469, 583, 731
HpyF3I	CTNAG	4 cut(s)	330, 450, 648, 654
HspAI	GCGC	2 cut(s)	185, 398
KroI	GCCGGC	1 cut(s)	219
KroNI	GCCGGC	1 cut(s)	221
Kzo9I	GATC	4 cut(s)	352, 538, 784, 792
LmnI	GCTCC	2 cut(s)	314, 454
Lsp1109I	GCAGC	6 cut(s)	174, 229, 296, 308, 346, 625
LweI	GCATC	4 cut(s)	34, 283, 498, 564
MaeI	CTAG	2 cut(s)	320, 512
MaeIII	GTNAC	4 cut(s)	94, 109, 520, 559
MalI	GATC	4 cut(s)	354, 540, 786, 794
MboI	GATC	4 cut(s)	352, 538, 784, 792
MboII	GAAGA	2 cut(s)	188, 653
MflI	RGATCY	1 cut(s)	538
MhlI	GDGCHC	3 cut(s)	213, 319, 490
MluCI	AATT	3 cut(s)	235, 423, 531
MmeI	TCCRAC	2 cut(s)	689, 790
MnlI	CCTC	9 cut(s)	70, 73, 378, 539, 576, 603, 663, 720, 783
MroNI	GCCGGC	1 cut(s)	219
MseI	TTAA	2 cut(s)	234, 479
MspA1I	CMGCKG	1 cut(s)	287
MspI	CCGG	2 cut(s)	126, 220
MspR9I	CCNGG	1 cut(s)	127
MvnI	CGCG	1 cut(s)	305
MwoI	GCNNNNNNNGC	7 cut(s)	182, 293, 302, 308, 469, 583, 731
NaeI	GCCGGC	1 cut(s)	221
NciI	CCSGG	1 cut(s)	127
NdeII	GATC	4 cut(s)	352, 538, 784, 792
NgoMIV	GCCGGC	1 cut(s)	219
NlaIV	GGNNCC	2 cut(s)	678, 735
NmuCI	GTSAC	3 cut(s)	94, 520, 559
PdiI	GCCGGC	1 cut(s)	221
PfeI	GAWTC	2 cut(s)	388, 658
PshAI	GACNNNNGTC	1 cut(s)	557
Psp124BI	GAGCTC	2 cut(s)	213, 319
PspEI	GGTNACC	1 cut(s)	559
PspN4I	GGNNCC	2 cut(s)	678, 735
PspPI	GGNCC	3 cut(s)	86, 607, 676
PstNI	CAGNNNCTG	1 cut(s)	457
PsuI	RGATCY	1 cut(s)	538
PvuII	CAGCTG	1 cut(s)	287
RsaI	GTAC	1 cut(s)	158
RsaNI	GTAC	1 cut(s)	157
SacI	GAGCTC	2 cut(s)	213, 319
SaqAI	TTAA	2 cut(s)	234, 479
Sau3AI	GATC	4 cut(s)	352, 538, 784, 792
Sau96I	GGNCC	3 cut(s)	86, 607, 676
ScrFI	CCNGG	1 cut(s)	127
SduI	GDGCHC	3 cut(s)	213, 319, 490
SfaNI	GCATC	4 cut(s)	34, 283, 498, 564
SinI	GGWCC	1 cut(s)	676
Sse9I	AATT	3 cut(s)	235, 423, 531
SsiI	CCGC	5 cut(s)	16, 300, 303, 311, 473
SspMI	CTAG	2 cut(s)	320, 512
SstI	GAGCTC	2 cut(s)	213, 319
StyD4I	CCNGG	1 cut(s)	125
TaaI	ACNGT	3 cut(s)	364, 556, 721
TaqI	TCGA	1 cut(s)	383
TasI	AATT	3 cut(s)	235, 423, 531
TatI	WGTACW	1 cut(s)	156
TauI	GCSGC	4 cut(s)	18, 302, 305, 475
TfiI	GAWTC	2 cut(s)	388, 658
Tru1I	TTAA	2 cut(s)	234, 479
Tru9I	TTAA	2 cut(s)	234, 479
TscAI	CASTG	2 cut(s)	642, 811
TseFI	GTSAC	3 cut(s)	94, 520, 559
TseI	GCWGC	7 cut(s)	187, 242, 284, 296, 334, 613, 801
Tsp45I	GTSAC	3 cut(s)	94, 520, 559
TspDTI	ATGAA	3 cut(s)	180, 431, 717
TspGWI	ACGGA	1 cut(s)	128
TspRI	CASTG	2 cut(s)	642, 811
VpaK11BI	GGWCC	1 cut(s)	676
XspI	CTAG	2 cut(s)	320, 512

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