Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0011799

Physical Location & Seq

Genomic Coordinates Reverse (-)

67439790 .. 67443088

Gene Structure 3299 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG436500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGACTCGCGTTTACGTTGGGAACTTGGATCCTCGAGTGAGTGATAGGGATCTTGAAGATGAGTTTCGCATGTTCGGCGTTCTTCGCAGTGTGTGGGTTGCTCGGAGGCCACCGGGATATGCCTTTGTTGAATTTGATGATCACAGGGATGCTCTTGATGCCATTCAGAGATTGGATGGTTTGTCCAACTCTCCATATCATCGTTTCTTATTTTCGATTAATTCCGATGCACCATTCTATTTAGGATTAAAGCTCCCTATTTGTGTCTCTGCAGGAAAAAATGGTTGGCGTGTGGAACTGTCCCATAACTCTAAGGGTGGTGGTGGTGGTGGTGGAGGCCGTGGCGGGCGTGGTGGAGGTGACGACTTGAAGTGTTATGAATGTGGTGAACCTGGTCACTTTGCTCGAGAGTGTCGTATGCGTGTTGGTTCACGAGGATTGGGTAGCGGAAGGCGCAGAAGTCCTTCCCCTCGACGTGGCCGCACAAGTCCCAGTTACGATGGTTATGGGCATGGGCGCAGGTGCGATGAATACTGTTTTAGCTTGTGCTGTATACATTTTTTTCTTCTTCTTTATGGTTATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0019904 GO:0031323 GO:0031324 GO:0031974 GO:0031981 GO:0033119 GO:0034097 GO:0034641 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043484 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0071310 GO:0071345 GO:0071704 GO:0080090 GO:0090304 GO:1901360 GO:1903311 GO:1903312 GO:1990823 GO:1990830

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

194

Amino Acids

21.64

Weight (kDa)

9.09

Isoelectric Point (pI)

55.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 60	1.2e-15	RNA recognition motif
zf-CCHC	PF00098	124 - 139	1.4e-07	Zinc knuckle

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: OG0011799)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23860 AT1G23860 AT1G23860 AT1G23860
fragaria_vesca	FvH4_4g34770
malus_domestica	MD13G1089900.v1.1 MD16G1090200.v1.1
prunus_persica	Prupe.1G255900_v2.0.a1 Prupe.1G255900_v2.0.a1
pyrus_communis	pycom13g07840 pycom16g07730
rosa_chinensis	RchiOBHm_Chr4g0444111
rosa_roxburghii	Rroxscaffold_5G00384700
rosa_rugosa	Rorug04G0349600 Rorug04G0349700
rosa_samantha	Rh4AG410700 Rh4BG422100 Rh4CG436500
rosa_wichuraiana	Rw4G035280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	510
Acc36I	ACCTGC	1 cut(s)	510
AccI	GTMKAC	1 cut(s)	553
AccII	CGCG	1 cut(s)	9
AciI	CCGC	3 cut(s)	345, 447, 481
AclWI	GGATC	3 cut(s)	23, 36, 57
AcoI	YGGCCR	1 cut(s)	478
AcsI	RAATTY	1 cut(s)	131
AfiI	CCNNNNNNNGG	1 cut(s)	476
AgsI	TTSAA	3 cut(s)	56, 131, 370
AjiI	CACGTC	1 cut(s)	476
AjnI	CCWGG	1 cut(s)	391
AjuI	GAANNNNNNNTTGG	2 cut(s)	268, 300
AluBI	AGCT	2 cut(s)	253, 543
AluI	AGCT	2 cut(s)	253, 543
Alw26I	GTCTC	1 cut(s)	271
AlwI	GGATC	3 cut(s)	23, 36, 57
Ama87I	CYCGRG	2 cut(s)	33, 405
AoxI	GGCC	3 cut(s)	107, 337, 478
ApoI	RAATTY	1 cut(s)	131
AseI	ATTAAT	1 cut(s)	219
Asp700I	GAANNNNTTC	1 cut(s)	463
AspLEI	GCGC	2 cut(s)	456, 519
AsuC2I	CCSGG	1 cut(s)	114
AsuHPI	GGTGA	2 cut(s)	371, 398
AvaI	CYCGRG	2 cut(s)	33, 405
BamHI	GGATCC	1 cut(s)	28
BauI	CACGAG	1 cut(s)	432
BccI	CCATC	2 cut(s)	170, 494
BceAI	ACGGC	1 cut(s)	324
BciT130I	CCWGG	1 cut(s)	393
BclI	TGATCA	1 cut(s)	139
BcnI	CCSGG	1 cut(s)	114
BcoDI	GTCTC	1 cut(s)	271
BfmI	CTRYAG	1 cut(s)	270
BfuAI	ACCTGC	1 cut(s)	510
BisI	GCNGC	1 cut(s)	481
BlsI	GCNGC	1 cut(s)	482
Bme1390I	CCNGG	2 cut(s)	114, 393
BmeT110I	CYCGRG	2 cut(s)	33, 405
BmgBI	CACGTC	1 cut(s)	476
BmiI	GGNNCC	1 cut(s)	30
BmrFI	CCNGG	2 cut(s)	114, 393
BmrI	ACTGGG	1 cut(s)	486
BmsI	GCATC	3 cut(s)	139, 148, 217
BmuI	ACTGGG	1 cut(s)	486
BpuMI	CCSGG	1 cut(s)	114
BsaBI	GATNNNNATC	1 cut(s)	48
BsaJI	CCNNGG	1 cut(s)	340
Bsc4I	CCNNNNNNNGG	1 cut(s)	476
Bse1I	ACTGG	1 cut(s)	492
Bse8I	GATNNNNATC	1 cut(s)	48
BseBI	CCWGG	1 cut(s)	393
BseDI	CCNNGG	1 cut(s)	340
BseGI	GGATG	2 cut(s)	154, 181
BseJI	GATNNNNATC	1 cut(s)	48
BseLI	CCNNNNNNNGG	1 cut(s)	476
BseNI	ACTGG	1 cut(s)	492
Bsh1236I	CGCG	1 cut(s)	9
BshFI	GGCC	3 cut(s)	109, 339, 480
BsiHKCI	CYCGRG	2 cut(s)	33, 405
BsiSI	CCGG	1 cut(s)	113
BslFI	GGGAC	2 cut(s)	286, 474
BslI	CCNNNNNNNGG	1 cut(s)	476
BsmAI	GTCTC	1 cut(s)	271
BsmFI	GGGAC	2 cut(s)	286, 474
BsnI	GGCC	3 cut(s)	109, 339, 480
BsoBI	CYCGRG	2 cut(s)	33, 405
Bsp143I	GATC	3 cut(s)	28, 49, 139
BspACI	CCGC	3 cut(s)	345, 447, 481
BspANI	GGCC	3 cut(s)	109, 339, 480
BspFNI	CGCG	1 cut(s)	9
BspLI	GGNNCC	1 cut(s)	30
BspMAI	CTGCAG	1 cut(s)	274
BspMI	ACCTGC	1 cut(s)	510
BspPI	GGATC	3 cut(s)	23, 36, 57
BsrI	ACTGG	1 cut(s)	492
BssECI	CCNNGG	1 cut(s)	340
BssMI	GATC	3 cut(s)	28, 49, 139
BssNAI	GTATAC	1 cut(s)	554
BssSI	CACGAG	1 cut(s)	432
Bst1107I	GTATAC	1 cut(s)	554
Bst2BI	CACGAG	1 cut(s)	432
Bst2UI	CCWGG	1 cut(s)	393
Bst4CI	ACNGT	2 cut(s)	300, 536
BstC8I	GCNNGC	1 cut(s)	347
BstDEI	CTNAG	1 cut(s)	312
BstDSI	CCRYGG	1 cut(s)	340
BstF5I	GGATG	2 cut(s)	154, 181
BstFNI	CGCG	1 cut(s)	9
BstHHI	GCGC	2 cut(s)	456, 519
BstKTI	GATC	3 cut(s)	31, 52, 142
BstMAI	GTCTC	1 cut(s)	271
BstMBI	GATC	3 cut(s)	28, 49, 139
BstMWI	GCNNNNNNNGC	4 cut(s)	75, 84, 158, 453
BstNI	CCWGG	1 cut(s)	393
BstNSI	RCATGY	1 cut(s)	73
BstSCI	CCNGG	2 cut(s)	112, 391
BstSFI	CTRYAG	1 cut(s)	270
BstUI	CGCG	1 cut(s)	9
BstX2I	RGATCY	2 cut(s)	28, 49
BstYI	RGATCY	2 cut(s)	28, 49
BstZ17I	GTATAC	1 cut(s)	554
BsuRI	GGCC	3 cut(s)	109, 339, 480
BtgI	CCRYGG	1 cut(s)	340
BtgZI	GCGATG	1 cut(s)	540
BtrI	CACGTC	1 cut(s)	476
BtsCI	GGATG	2 cut(s)	154, 181
BtsI	GCAGTG	1 cut(s)	94
BtsIMutI	CAGTG	1 cut(s)	94
BveI	ACCTGC	1 cut(s)	510
Cac8I	GCNNGC	1 cut(s)	347
CfoI	GCGC	2 cut(s)	456, 519
CsiI	ACCWGGT	1 cut(s)	391
CviAII	CATG	2 cut(s)	70, 512
CviJI	RGCY	5 cut(s)	109, 253, 339, 480, 543
CviKI_1	RGCY	5 cut(s)	109, 253, 339, 480, 543
DdeI	CTNAG	1 cut(s)	312
DpnI	GATC	3 cut(s)	30, 51, 141
DpnII	GATC	3 cut(s)	28, 49, 139
EaeI	YGGCCR	1 cut(s)	478
Eco88I	CYCGRG	2 cut(s)	33, 405
EcoRII	CCWGG	1 cut(s)	391
FaeI	CATG	2 cut(s)	73, 515
FaqI	GGGAC	2 cut(s)	286, 474
FatI	CATG	2 cut(s)	69, 511
FauI	CCCGC	1 cut(s)	338
FbaI	TGATCA	1 cut(s)	139
FblI	GTMKAC	1 cut(s)	553
Fnu4HI	GCNGC	1 cut(s)	481
FokI	GGATG	2 cut(s)	161, 188
Fsp4HI	GCNGC	1 cut(s)	481
GlaI	GCGC	2 cut(s)	455, 518
GluI	GCNGC	1 cut(s)	481
HaeIII	GGCC	3 cut(s)	109, 339, 480
HapII	CCGG	1 cut(s)	113
HhaI	GCGC	2 cut(s)	456, 519
Hin1II	CATG	2 cut(s)	73, 515
Hin6I	GCGC	2 cut(s)	454, 517
HinP1I	GCGC	2 cut(s)	454, 517
HinfI	GANTC	1 cut(s)	4
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	2 cut(s)	371, 398
Hpy166II	GTNNAC	4 cut(s)	13, 389, 431, 554
Hpy188I	TCNGA	3 cut(s)	105, 168, 226
Hpy188III	TCNNGA	4 cut(s)	53, 155, 407, 432
Hpy8I	GTNNAC	4 cut(s)	13, 389, 431, 554
Hpy99I	CGWCG	1 cut(s)	477
HpyAV	CCTTC	2 cut(s)	444, 474
HpyCH4III	ACNGT	2 cut(s)	300, 536
HpyCH4IV	ACGT	2 cut(s)	15, 475
HpyCH4V	TGCA	2 cut(s)	230, 272
HpyF10VI	GCNNNNNNNGC	4 cut(s)	75, 84, 158, 453
HpyF3I	CTNAG	1 cut(s)	312
HpySE526I	ACGT	2 cut(s)	15, 475
Hsp92II	CATG	2 cut(s)	73, 515
HspAI	GCGC	2 cut(s)	454, 517
Ksp22I	TGATCA	1 cut(s)	139
Kzo9I	GATC	3 cut(s)	28, 49, 139
LmnI	GCTCC	1 cut(s)	258
LpnPI	CCDG	7 cut(s)	126, 130, 258, 378, 405, 505, 505
LweI	GCATC	3 cut(s)	139, 148, 217
MabI	ACCWGGT	1 cut(s)	391
MaeII	ACGT	2 cut(s)	15, 475
MaeIII	GTNAC	3 cut(s)	359, 395, 494
MalI	GATC	3 cut(s)	30, 51, 141
MboI	GATC	3 cut(s)	28, 49, 139
MboII	GAAGA	4 cut(s)	68, 74, 557, 560
MflI	RGATCY	2 cut(s)	28, 49
MluCI	AATT	2 cut(s)	131, 220
MmeI	TCCRAC	1 cut(s)	210
MnlI	CCTC	6 cut(s)	42, 99, 329, 350, 428, 480
MroXI	GAANNNNTTC	1 cut(s)	463
MseI	TTAA	2 cut(s)	219, 248
MslI	CAYNNNNRTG	1 cut(s)	147
MspI	CCGG	1 cut(s)	113
MspR9I	CCNGG	2 cut(s)	114, 393
MvaI	CCWGG	1 cut(s)	393
MvnI	CGCG	1 cut(s)	9
MwoI	GCNNNNNNNGC	4 cut(s)	75, 84, 158, 453
NciI	CCSGG	1 cut(s)	114
NdeII	GATC	3 cut(s)	28, 49, 139
NlaIII	CATG	2 cut(s)	73, 515
NlaIV	GGNNCC	1 cut(s)	30
NmuCI	GTSAC	2 cut(s)	359, 395
NspI	RCATGY	1 cut(s)	73
PaeR7I	CTCGAG	2 cut(s)	33, 405
PaqCI	CACCTGC	1 cut(s)	510
PcsI	WCGNNNNNNNCGW	1 cut(s)	412
PdmI	GAANNNNTTC	1 cut(s)	463
PkrI	GCNGC	1 cut(s)	482
PshBI	ATTAAT	1 cut(s)	219
Psp6I	CCWGG	1 cut(s)	391
PspGI	CCWGG	1 cut(s)	391
PspN4I	GGNNCC	1 cut(s)	30
PspXI	VCTCGAGB	1 cut(s)	33
PstI	CTGCAG	1 cut(s)	274
PsuI	RGATCY	2 cut(s)	28, 49
RseI	CAYNNNNRTG	1 cut(s)	147
SaqAI	TTAA	2 cut(s)	219, 248
SatI	GCNGC	1 cut(s)	481
Sau3AI	GATC	3 cut(s)	28, 49, 139
ScrFI	CCNGG	2 cut(s)	114, 393
SetI	ASST	7 cut(s)	18, 255, 361, 394, 478, 524, 545
SexAI	ACCWGGT	1 cut(s)	391
SfaNI	GCATC	3 cut(s)	139, 148, 217
SfcI	CTRYAG	1 cut(s)	270
Sfr274I	CTCGAG	2 cut(s)	33, 405
SlaI	CTCGAG	2 cut(s)	33, 405
SmiMI	CAYNNNNRTG	1 cut(s)	147
SmlI	CTYRAG	2 cut(s)	33, 405
SmoI	CTYRAG	2 cut(s)	33, 405
Sse9I	AATT	2 cut(s)	131, 220
SsiI	CCGC	3 cut(s)	345, 447, 481
StyD4I	CCNGG	2 cut(s)	112, 391
TaaI	ACNGT	2 cut(s)	300, 536
TaiI	ACGT	2 cut(s)	18, 478
TaqI	TCGA	4 cut(s)	34, 215, 406, 472
TasI	AATT	2 cut(s)	131, 220
TauI	GCSGC	1 cut(s)	483
Tru1I	TTAA	2 cut(s)	219, 248
Tru9I	TTAA	2 cut(s)	219, 248
TscAI	CASTG	1 cut(s)	94
TseFI	GTSAC	2 cut(s)	359, 395
Tsp45I	GTSAC	2 cut(s)	359, 395
TspDTI	ATGAA	2 cut(s)	393, 543
TspRI	CASTG	1 cut(s)	94
VspI	ATTAAT	1 cut(s)	219
XapI	RAATTY	1 cut(s)	131
XceI	RCATGY	1 cut(s)	73
XcmI	CCANNNNNNNNNTGG	1 cut(s)	169
XhoI	CTCGAG	2 cut(s)	33, 405
XmiI	GTMKAC	1 cut(s)	553
XmnI	GAANNNNTTC	1 cut(s)	463

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