Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0006476

Physical Location & Seq

Genomic Coordinates Reverse (-)

52401023 .. 52412491

Gene Structure 11469 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG396200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 423 bp

ATGTGTATTTTGCACCAAATAGAAAAAACGAGACTAAATGGGTTCTTCATAATTTTTGGTGCCACGGTGTCTCCAACCGACACAGAGAGAATTAAGCCAAGTCTGGAATTTTATGAGGATCTCTTTCAAGAGCTGAGTAAGTATGGAGAAATTGAAAGCCTGAATGTCTGCGACAACCTAGCTGACCACATGGTGGGCAATGTGTATGTTCAGTTCAGGGAGGGAGAACATGCTGCAAATACACTCAAGAATCTGACTGGAAGATTTTATGCTGGGCGTCCTATCATTGTGGGCTTCTCTCCGGTGACAGACTTCCGTGAAGCCACATGCAGGCAATATGAGGAAAATACGTGCAATCGTGGTGGATACTGGATACTGCAATTTTATGCATCTGAAAAGGATTGGGAGGGAATTGAGGCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03040 ko05131 map03040 map05131

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

140

Amino Acids

16.14

Weight (kDa)

4.84

Isoelectric Point (pI)

40.9

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0006476)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G27650 AT1G27650
fragaria_vesca	FvH4_3g29970 FvH4_3g29970 FvH4_3g29970 FvH4_3g29970
malus_domestica	MD03G1134200.v1.1 MD11G1156400.v1.1
prunus_persica	Prupe.6G118600_v2.0.a1 Prupe.6G118600_v2.0.a1
pyrus_communis	pycom03g09020 pycom11g12700
rosa_chinensis	RchiOBHm_Chr5g0055381 RchiOBHm_Chr5g0055431
rosa_laevigata	RLG00000034985
rosa_multiflora	Rmu_sc0001673.1_g000027 Rmu_sc0014407.1_g000001
rosa_roxburghii	Rroxscaffold_1G00024920 Rroxscaffold_1G00024960
rosa_samantha	Rh5AG362400 Rh5BG374600 Rh5CG396200 Rh5CG396400 Rh5DG387700
rosa_wichuraiana	Rw5G034090 Rw5G034120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	59
AccB7I	CCANNNNNTGG	1 cut(s)	193
AclWI	GGATC	1 cut(s)	126
AcsI	RAATTY	1 cut(s)	107
AcyI	GRCGYC	1 cut(s)	277
AdeI	CACNNNGTG	1 cut(s)	193
AfiI	CCNNNNNNNGG	2 cut(s)	193, 330
AgsI	TTSAA	2 cut(s)	128, 155
AluBI	AGCT	2 cut(s)	133, 182
AluI	AGCT	2 cut(s)	133, 182
Alw26I	GTCTC	2 cut(s)	25, 75
AlwI	GGATC	1 cut(s)	126
ApeKI	GCWGC	1 cut(s)	233
ApoI	RAATTY	1 cut(s)	107
AsuHPI	GGTGA	1 cut(s)	316
BanI	GGYRCC	1 cut(s)	59
BbvI	GCAGC	1 cut(s)	220
BciVI	GTATCC	2 cut(s)	359, 366
BcoDI	GTCTC	2 cut(s)	25, 75
BfaI	CTAG	1 cut(s)	179
BfuI	GTATCC	2 cut(s)	359, 366
BisI	GCNGC	1 cut(s)	234
BlsI	GCNGC	1 cut(s)	235
BmiI	GGNNCC	1 cut(s)	61
BmsI	GCATC	1 cut(s)	398
BpuEI	CTTGAG	1 cut(s)	230
BsaAI	YACGTR	1 cut(s)	351
BsaHI	GRCGYC	1 cut(s)	277
BsaJI	CCNNGG	1 cut(s)	63
BsaWI	WCCGGW	1 cut(s)	301
BsaXI	ACNNNNNCTCC	2 cut(s)	55, 85
Bsc4I	CCNNNNNNNGG	2 cut(s)	193, 330
Bse1I	ACTGG	2 cut(s)	262, 374
Bse3DI	GCAATG	1 cut(s)	205
BseDI	CCNNGG	1 cut(s)	63
BseLI	CCNNNNNNNGG	2 cut(s)	193, 330
BseMI	GCAATG	1 cut(s)	205
BseMII	CTCAG	1 cut(s)	125
BseNI	ACTGG	2 cut(s)	262, 374
BseXI	GCAGC	1 cut(s)	220
BseYI	CCCAGC	1 cut(s)	272
BshNI	GGYRCC	1 cut(s)	59
BsiSI	CCGG	1 cut(s)	302
BslI	CCNNNNNNNGG	2 cut(s)	193, 330
BsmAI	GTCTC	2 cut(s)	25, 75
Bsp143I	GATC	1 cut(s)	118
BspCNI	CTCAG	1 cut(s)	126
BspLI	GGNNCC	1 cut(s)	61
BspPI	GGATC	1 cut(s)	126
BspT107I	GGYRCC	1 cut(s)	59
BsrDI	GCAATG	1 cut(s)	205
BsrI	ACTGG	2 cut(s)	262, 374
BssECI	CCNNGG	1 cut(s)	63
BssMI	GATC	1 cut(s)	118
BssNI	GRCGYC	1 cut(s)	277
Bst4CI	ACNGT	1 cut(s)	67
BstACI	GRCGYC	1 cut(s)	277
BstBAI	YACGTR	1 cut(s)	351
BstC8I	GCNNGC	1 cut(s)	332
BstDEI	CTNAG	1 cut(s)	134
BstDSI	CCRYGG	1 cut(s)	63
BstKTI	GATC	1 cut(s)	121
BstMAI	GTCTC	2 cut(s)	25, 75
BstMBI	GATC	1 cut(s)	118
BstNSI	RCATGY	2 cut(s)	233, 330
BstV1I	GCAGC	1 cut(s)	220
BstX2I	RGATCY	1 cut(s)	118
BstYI	RGATCY	1 cut(s)	118
BsuI	GTATCC	2 cut(s)	359, 366
BtgI	CCRYGG	1 cut(s)	63
Cac8I	GCNNGC	1 cut(s)	332
CseI	GACGC	1 cut(s)	266
CspCI	CAANNNNNGTGG	2 cut(s)	343, 378
CviAII	CATG	3 cut(s)	190, 230, 327
CviJI	RGCY	6 cut(s)	97, 133, 159, 182, 294, 323
CviKI_1	RGCY	6 cut(s)	97, 133, 159, 182, 294, 323
DdeI	CTNAG	1 cut(s)	134
DpnI	GATC	1 cut(s)	120
DpnII	GATC	1 cut(s)	118
DraIII	CACNNNGTG	1 cut(s)	193
EcoT22I	ATGCAT	1 cut(s)	391
FaeI	CATG	3 cut(s)	193, 233, 330
FatI	CATG	3 cut(s)	189, 229, 326
Fnu4HI	GCNGC	1 cut(s)	234
Fsp4HI	GCNGC	1 cut(s)	234
FspBI	CTAG	1 cut(s)	179
GluI	GCNGC	1 cut(s)	234
GsaI	CCCAGC	1 cut(s)	276
HapII	CCGG	1 cut(s)	302
HgaI	GACGC	1 cut(s)	266
Hin1I	GRCGYC	1 cut(s)	277
Hin1II	CATG	3 cut(s)	193, 233, 330
HinfI	GANTC	1 cut(s)	250
HpaII	CCGG	1 cut(s)	302
HphI	GGTGA	1 cut(s)	316
Hpy188I	TCNGA	2 cut(s)	255, 394
Hpy188III	TCNNGA	3 cut(s)	104, 128, 247
HpyCH4III	ACNGT	1 cut(s)	67
HpyCH4IV	ACGT	1 cut(s)	350
HpyCH4V	TGCA	6 cut(s)	13, 236, 330, 354, 379, 389
HpyF3I	CTNAG	1 cut(s)	134
HpySE526I	ACGT	1 cut(s)	350
Hsp92I	GRCGYC	1 cut(s)	277
Hsp92II	CATG	3 cut(s)	193, 233, 330
Kzo9I	GATC	1 cut(s)	118
LpnPI	CCDG	8 cut(s)	89, 173, 202, 243, 258, 315, 316, 355
Lsp1109I	GCAGC	1 cut(s)	220
LweI	GCATC	1 cut(s)	398
MaeI	CTAG	1 cut(s)	179
MaeII	ACGT	1 cut(s)	350
MaeIII	GTNAC	1 cut(s)	304
MalI	GATC	1 cut(s)	120
MboI	GATC	1 cut(s)	118
MboII	GAAGA	2 cut(s)	37, 273
MflI	RGATCY	1 cut(s)	118
MluCI	AATT	6 cut(s)	51, 90, 107, 150, 380, 411
MmeI	TCCRAC	1 cut(s)	98
MnlI	CCTC	5 cut(s)	109, 214, 334, 400, 409
Mph1103I	ATGCAT	1 cut(s)	391
MseI	TTAA	1 cut(s)	93
MspI	CCGG	1 cut(s)	302
NdeII	GATC	1 cut(s)	118
NlaIII	CATG	3 cut(s)	193, 233, 330
NlaIV	GGNNCC	1 cut(s)	61
NmuCI	GTSAC	1 cut(s)	304
NsiI	ATGCAT	1 cut(s)	391
NspI	RCATGY	2 cut(s)	233, 330
PfeI	GAWTC	1 cut(s)	250
PflMI	CCANNNNNTGG	1 cut(s)	193
PkrI	GCNGC	1 cut(s)	235
Ppu21I	YACGTR	1 cut(s)	351
PspFI	CCCAGC	1 cut(s)	272
PspN4I	GGNNCC	1 cut(s)	61
PsrI	GAACNNNNNNTAC	2 cut(s)	197, 229
PsuI	RGATCY	1 cut(s)	118
SaqAI	TTAA	1 cut(s)	93
SatI	GCNGC	1 cut(s)	234
Sau3AI	GATC	1 cut(s)	118
SetI	ASST	4 cut(s)	135, 180, 184, 353
SfaNI	GCATC	1 cut(s)	398
SmlI	CTYRAG	1 cut(s)	245
SmoI	CTYRAG	1 cut(s)	245
Sse9I	AATT	6 cut(s)	51, 90, 107, 150, 380, 411
SspMI	CTAG	1 cut(s)	179
TaaI	ACNGT	1 cut(s)	67
TaiI	ACGT	1 cut(s)	353
TasI	AATT	6 cut(s)	51, 90, 107, 150, 380, 411
TfiI	GAWTC	1 cut(s)	250
Tru1I	TTAA	1 cut(s)	93
Tru9I	TTAA	1 cut(s)	93
TseFI	GTSAC	1 cut(s)	304
TseI	GCWGC	1 cut(s)	233
Tsp45I	GTSAC	1 cut(s)	304
TspDTI	ATGAA	1 cut(s)	37
TspGWI	ACGGA	1 cut(s)	305
Van91I	CCANNNNNTGG	1 cut(s)	193
XapI	RAATTY	1 cut(s)	107
XceI	RCATGY	2 cut(s)	233, 330
XspI	CTAG	1 cut(s)	179
Zsp2I	ATGCAT	1 cut(s)	391

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