Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0009332

Physical Location & Seq

Genomic Coordinates Reverse (-)

4179593 .. 4193082

Gene Structure 13490 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG031100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 669 bp

ATGATCTCATTAGAGGGGAGTTGGAACTTGGACACTCTTGGAGATTTTGTAATTATGAGAAGCAATGGGCAATTGGTGTACAATTTTTGTGTTACAGTTGATGATGCTAGCATGGCTATCTCACATGTTATTAGAGCAGATGAGCATTTACCAAATACTCTAAGGCATGCATTAATATATAAGGCACTAGGATTTCCAATGCCTTACTTTGCACATGTATCCTTGATTCTTGCACCTGATAGAAAAGCAAAATCGAATTCTCCCTCAAAATCAAAACCAAAATCGAGGTCTTGGTCTGTGTACCTCATCCTTTCCACCAATGCACCCATCAAAACATACGCTGGTGTCACCACCGATTTCTCTCCCCGTCTGAAACAACACAATGGTGAACTAAAAGGTGGTGCAAAGGCATCCCGTGCTGGAAGACCGTGGATTTGTGCATGCCTAATACATGGTTTCAAGGACCAAAATGAAGCATGTGCATTTGAATCAAAATGGAAAACTTTATCAAGGAGTTTGCCTCGCAAAAGAAAGGACGATAACAAGGTAGAGCAAGTAAATGATTTGTCGCGTCCTCTACTACAACATAGGCAAGCAGCTCTAAATAGAGTCAAAGGTAAATTTGATTGTACTCGCTTAGAAATTGACTGGAAACTGAATCCTTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03460 map03460

Pfam Domains

Protein Families

GIY-YIG

Protein Analysis

222

Amino Acids

25.03

Weight (kDa)

9.75

Isoelectric Point (pI)

39.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	11 - 84	8.1e-16	tRNA synthetases class I (E and Q), catalytic domain
GIY-YIG	PF01541	98 - 172	1.2e-12	GIY-YIG catalytic domain

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: OG0009332)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43210
fragaria_vesca	FvH4_7g01930
malus_domestica	MD02G1299300.v1.1
prunus_persica	Prupe.2G025000_v2.0.a1 Prupe.2G025000_v2.0.a1
pyrus_communis	pycom02g25170
rosa_chinensis	RchiOBHm_Chr1g0318641 RchiOBHm_Chr1g0318771
rosa_laevigata	RLG00000030521
rosa_multiflora	Rmu_sc0001304.1_g000040 Rmu_sc0002545.1_g000016
rosa_roxburghii	Rroxscaffold_4G00329010
rosa_rugosa	Rorug01G0022400 Rorug01G0022400
rosa_samantha	Rh1AG035500 Rh1AG238000 Rh1BG031100 Rh1CG034400 Rh1CG222400 Rh1DG036000 Rh5DG414300
rosa_wichuraiana	Rw1G002770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	667
AccII	CGCG	1 cut(s)	571
AcsI	RAATTY	2 cut(s)	256, 620
AfaI	GTAC	3 cut(s)	80, 302, 631
AflIII	ACRYGT	2 cut(s)	124, 214
AgsI	TTSAA	2 cut(s)	460, 488
AleI	CACNNNNGTG	1 cut(s)	384
AluBI	AGCT	1 cut(s)	599
AluI	AGCT	1 cut(s)	599
ApeKI	GCWGC	1 cut(s)	596
ApoI	RAATTY	2 cut(s)	256, 620
ArsI	GACNNNNNNTTYG	4 cut(s)	272, 304, 417, 449
AseI	ATTAAT	1 cut(s)	173
AspS9I	GGNCC	1 cut(s)	463
AsuHPI	GGTGA	2 cut(s)	340, 398
AsuNHI	GCTAGC	1 cut(s)	107
AvaII	GGWCC	1 cut(s)	463
BbsI	GAAGAC	1 cut(s)	430
BbvI	GCAGC	1 cut(s)	608
BccI	CCATC	1 cut(s)	335
BciVI	GTATCC	1 cut(s)	229
BfaI	CTAG	2 cut(s)	108, 188
BfuI	GTATCC	1 cut(s)	229
BisI	GCNGC	1 cut(s)	597
BlsI	GCNGC	1 cut(s)	598
Bme18I	GGWCC	1 cut(s)	463
BmgT120I	GGNCC	1 cut(s)	463
BmsI	GCATC	2 cut(s)	94, 419
BmtI	GCTAGC	1 cut(s)	111
BpiI	GAAGAC	1 cut(s)	430
BplI	GAGNNNNNCTC	2 cut(s)	505, 537
BsaJI	CCNNGG	1 cut(s)	428
BsaXI	ACNNNNNCTCC	2 cut(s)	33, 63
Bse1I	ACTGG	1 cut(s)	653
Bse3DI	GCAATG	1 cut(s)	70
BseDI	CCNNGG	1 cut(s)	428
BseGI	GGATG	2 cut(s)	306, 410
BseMI	GCAATG	1 cut(s)	70
BseNI	ACTGG	1 cut(s)	653
BseXI	GCAGC	1 cut(s)	608
Bsh1236I	CGCG	1 cut(s)	571
Bsp1407I	TGTACA	1 cut(s)	78
Bsp143I	GATC	1 cut(s)	3
BspFNI	CGCG	1 cut(s)	571
BspOI	GCTAGC	1 cut(s)	111
BsrDI	GCAATG	1 cut(s)	70
BsrGI	TGTACA	1 cut(s)	78
BsrI	ACTGG	1 cut(s)	653
BssECI	CCNNGG	1 cut(s)	428
BssMI	GATC	1 cut(s)	3
Bst4CI	ACNGT	2 cut(s)	97, 429
BstAPI	GCANNNNNTGC	1 cut(s)	416
BstAUI	TGTACA	1 cut(s)	78
BstC8I	GCNNGC	4 cut(s)	109, 168, 442, 594
BstDEI	CTNAG	2 cut(s)	161, 637
BstDSI	CCRYGG	1 cut(s)	428
BstF5I	GGATG	2 cut(s)	306, 410
BstFNI	CGCG	1 cut(s)	571
BstKTI	GATC	1 cut(s)	6
BstMBI	GATC	1 cut(s)	3
BstMWI	GCNNNNNNNGC	2 cut(s)	113, 416
BstNSI	RCATGY	5 cut(s)	128, 170, 218, 444, 480
BstUI	CGCG	1 cut(s)	571
BstV1I	GCAGC	1 cut(s)	608
BstV2I	GAAGAC	1 cut(s)	430
BsuI	GTATCC	1 cut(s)	229
BtgI	CCRYGG	1 cut(s)	428
BtsCI	GGATG	2 cut(s)	306, 410
Cac8I	GCNNGC	4 cut(s)	109, 168, 442, 594
Cfr13I	GGNCC	1 cut(s)	463
CseI	GACGC	1 cut(s)	560
Csp6I	GTAC	3 cut(s)	79, 301, 630
CviAII	CATG	7 cut(s)	112, 125, 167, 215, 441, 452, 477
CviJI	RGCY	2 cut(s)	116, 599
CviKI_1	RGCY	2 cut(s)	116, 599
CviQI	GTAC	3 cut(s)	79, 301, 630
DdeI	CTNAG	2 cut(s)	161, 637
DpnI	GATC	1 cut(s)	5
DpnII	GATC	1 cut(s)	3
Eco47I	GGWCC	1 cut(s)	463
EcoRI	GAATTC	1 cut(s)	256
EcoT22I	ATGCAT	1 cut(s)	172
FaeI	CATG	7 cut(s)	115, 128, 170, 218, 444, 455, 480
FatI	CATG	7 cut(s)	111, 124, 166, 214, 440, 451, 476
Fnu4HI	GCNGC	1 cut(s)	597
FokI	GGATG	2 cut(s)	293, 397
Fsp4HI	GCNGC	1 cut(s)	597
FspBI	CTAG	2 cut(s)	108, 188
GluI	GCNGC	1 cut(s)	597
HgaI	GACGC	1 cut(s)	560
Hin1II	CATG	7 cut(s)	115, 128, 170, 218, 444, 455, 480
HinfI	GANTC	4 cut(s)	226, 488, 609, 658
HphI	GGTGA	2 cut(s)	340, 398
Hpy166II	GTNNAC	3 cut(s)	79, 301, 389
Hpy188I	TCNGA	1 cut(s)	372
Hpy8I	GTNNAC	3 cut(s)	79, 301, 389
HpyCH4III	ACNGT	2 cut(s)	97, 429
HpyCH4V	TGCA	7 cut(s)	170, 212, 233, 323, 404, 440, 482
HpyF10VI	GCNNNNNNNGC	2 cut(s)	113, 416
HpyF3I	CTNAG	2 cut(s)	161, 637
Hsp92II	CATG	7 cut(s)	115, 128, 170, 218, 444, 455, 480
Kzo9I	GATC	1 cut(s)	3
LpnPI	CCDG	4 cut(s)	249, 327, 405, 634
Lsp1109I	GCAGC	1 cut(s)	608
LweI	GCATC	2 cut(s)	94, 419
MaeI	CTAG	2 cut(s)	108, 188
MaeIII	GTNAC	2 cut(s)	91, 346
MalI	GATC	1 cut(s)	5
MboI	GATC	1 cut(s)	3
MboII	GAAGA	1 cut(s)	435
MfeI	CAATTG	1 cut(s)	71
MluCI	AATT	6 cut(s)	51, 71, 82, 256, 620, 642
MlyI	GAGTC	1 cut(s)	618
MnlI	CCTC	6 cut(s)	7, 274, 279, 314, 531, 585
Mph1103I	ATGCAT	1 cut(s)	172
MseI	TTAA	1 cut(s)	173
MslI	CAYNNNNRTG	1 cut(s)	384
MunI	CAATTG	1 cut(s)	71
MvnI	CGCG	1 cut(s)	571
MwoI	GCNNNNNNNGC	2 cut(s)	113, 416
NdeII	GATC	1 cut(s)	3
NheI	GCTAGC	1 cut(s)	107
NlaIII	CATG	7 cut(s)	115, 128, 170, 218, 444, 455, 480
NmuCI	GTSAC	1 cut(s)	346
NsiI	ATGCAT	1 cut(s)	172
NspI	RCATGY	5 cut(s)	128, 170, 218, 444, 480
OliI	CACNNNNGTG	1 cut(s)	384
PaeI	GCATGC	2 cut(s)	170, 444
PciI	ACATGT	2 cut(s)	124, 214
PfeI	GAWTC	3 cut(s)	226, 488, 658
PkrI	GCNGC	1 cut(s)	598
PleI	GAGTC	1 cut(s)	617
PpsI	GAGTC	1 cut(s)	617
PscI	ACATGT	2 cut(s)	124, 214
PshBI	ATTAAT	1 cut(s)	173
PsiI	TTATAA	1 cut(s)	667
PspPI	GGNCC	1 cut(s)	463
RsaI	GTAC	3 cut(s)	80, 302, 631
RsaNI	GTAC	3 cut(s)	79, 301, 630
RseI	CAYNNNNRTG	1 cut(s)	384
SaqAI	TTAA	1 cut(s)	173
SatI	GCNGC	1 cut(s)	597
Sau3AI	GATC	1 cut(s)	3
Sau96I	GGNCC	1 cut(s)	463
SchI	GAGTC	1 cut(s)	618
SetI	ASST	7 cut(s)	238, 290, 306, 400, 549, 601, 619
SfaNI	GCATC	2 cut(s)	94, 419
SinI	GGWCC	1 cut(s)	463
SmiMI	CAYNNNNRTG	1 cut(s)	384
SphI	GCATGC	2 cut(s)	170, 444
Sse9I	AATT	6 cut(s)	51, 71, 82, 256, 620, 642
SspMI	CTAG	2 cut(s)	108, 188
TaaI	ACNGT	2 cut(s)	97, 429
TaqI	TCGA	2 cut(s)	254, 284
TasI	AATT	6 cut(s)	51, 71, 82, 256, 620, 642
TatI	WGTACW	2 cut(s)	78, 629
TfiI	GAWTC	3 cut(s)	226, 488, 658
Tru1I	TTAA	1 cut(s)	173
Tru9I	TTAA	1 cut(s)	173
TseFI	GTSAC	1 cut(s)	346
TseI	GCWGC	1 cut(s)	596
Tsp45I	GTSAC	1 cut(s)	346
TspDTI	ATGAA	1 cut(s)	486
VpaK11BI	GGWCC	1 cut(s)	463
VspI	ATTAAT	1 cut(s)	173
XapI	RAATTY	2 cut(s)	256, 620
XceI	RCATGY	5 cut(s)	128, 170, 218, 444, 480
XspI	CTAG	2 cut(s)	108, 188
Zsp2I	ATGCAT	1 cut(s)	172

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