Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000929

Physical Location & Seq

Genomic Coordinates Reverse (-)

33291895 .. 33292454

Gene Structure 560 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG161500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 243 bp

ATGGGGTCTTTGGTGCCTCCGGAGGACGAAAGCATTCGGACTTTGTATGTGGGGGTTGTGGTTGATGGGAGAGTTTCGGAGCAGGACTTGAGGGATTGCTTTTGGGTTCATGGCGAGATCGAATCGATTAGGGTGGTGGGGCAAAGAGGATGTGCTTTTGTGAGTTATGCAACAAGAGAAGGTGCAGAGGAGGAACTTTGTAATAAGCTGGTGGTGAAGGGTTTGAGATTGAAGCTGGCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000387 GO:0000398 GO:0000974 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008380 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0017069 GO:0017070 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0034622 GO:0034641 GO:0036002 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0051704 GO:0051707 GO:0065003 GO:0071006 GO:0071007 GO:0071012 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0098542 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 Torus

Protein Analysis

80

Amino Acids

8.88

Weight (kDa)

5.07

Isoelectric Point (pI)

44.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	24 - 64	5.5e-07	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0000929)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07360 AT2G29580 AT5G04210 AT5G07060 AT5G07060
fragaria_vesca	FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g36530 FvH4_4g36530 FvH4_7g07370
malus_domestica	MD01G1110000.v1.1 MD07G1175800.v1.1 MD16G1006600.v1.1
prunus_persica	Prupe.2G214800_v2.0.a1 Prupe.8G143100_v2.0.a1 Prupe.8G143100_v2.0.a1 Prupe.8G143100_v2.0.a1
pyrus_communis	pycom01g13690 pycom07g17000 pycom16g00630
rosa_chinensis	RchiOBHm_Chr1g0337351 RchiOBHm_Chr4g0408701 RchiOBHm_Chr4g0446281
rosa_laevigata	RLG00000005673 RLG00000008640 RLG00000029280 RLG00000029283
rosa_multiflora	Rmu_co8341103.1_g000001 Rmu_co8350441.1_g000001 Rmu_co8408813.1_g000001 Rmu_co8519167.1_g000003 Rmu_co8522047.1_g000002 Rmu_sc0002266.1_g000007 Rmu_sc0003060.1_g000002 Rmu_sc0005878.1_g000023 Rmu_sc0021927.1_g000001
rosa_roxburghii	Rroxscaffold_4G00314450 Rroxscaffold_4G00314490 Rroxscaffold_5G00353060 Rroxscaffold_5G00386720
rosa_rugosa	Rorug01G0134600.1 Rorug01G0134800.1 Rorug04G0086900 Rorug04G0369600 Rorug04G0369600
rosa_samantha	Rh1AG153600 Rh1BG122900 Rh1BG123100 Rh1CG144600 Rh1DG161300 Rh1DG161500 Rh4AG431500 Rh4BG148400 Rh4BG440900 Rh4CG159100 Rh4CG458200 Rh4DG144000 Rh4DG439400
rosa_wichuraiana	Rw1G012580 Rw4G012370 Rw4G036850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	13
AccIII	TCCGGA	1 cut(s)	19
AgsI	TTSAA	1 cut(s)	232
AluBI	AGCT	2 cut(s)	208, 235
AluI	AGCT	2 cut(s)	208, 235
Aor13HI	TCCGGA	1 cut(s)	19
AoxI	GGCC	1 cut(s)	237
Asp700I	GAANNNNTTC	1 cut(s)	33
AsuHPI	GGTGA	1 cut(s)	226
BanI	GGYRCC	1 cut(s)	13
BccI	CCATC	1 cut(s)	59
BmiI	GGNNCC	1 cut(s)	15
BpuEI	CTTGAG	1 cut(s)	109
Bsa29I	ATCGAT	1 cut(s)	125
BsaWI	WCCGGW	1 cut(s)	19
BseAI	TCCGGA	1 cut(s)	19
BseCI	ATCGAT	1 cut(s)	125
BseGI	GGATG	1 cut(s)	155
BseRI	GAGGAG	1 cut(s)	203
BsgI	GTGCAG	1 cut(s)	204
BshFI	GGCC	1 cut(s)	239
BshNI	GGYRCC	1 cut(s)	13
BshVI	ATCGAT	1 cut(s)	125
BsiSI	CCGG	1 cut(s)	20
BsmI	GAATGC	1 cut(s)	33
BsnI	GGCC	1 cut(s)	239
Bsp13I	TCCGGA	1 cut(s)	19
Bsp143I	GATC	1 cut(s)	117
BspANI	GGCC	1 cut(s)	239
BspDI	ATCGAT	1 cut(s)	125
BspEI	TCCGGA	1 cut(s)	19
BspLI	GGNNCC	1 cut(s)	15
BspT107I	GGYRCC	1 cut(s)	13
BssMI	GATC	1 cut(s)	117
BstC8I	GCNNGC	1 cut(s)	237
BstF5I	GGATG	1 cut(s)	155
BstKTI	GATC	1 cut(s)	120
BstMBI	GATC	1 cut(s)	117
Bsu15I	ATCGAT	1 cut(s)	125
BsuRI	GGCC	1 cut(s)	239
BsuTUI	ATCGAT	1 cut(s)	125
BtsCI	GGATG	1 cut(s)	155
Cac8I	GCNNGC	1 cut(s)	237
ClaI	ATCGAT	1 cut(s)	125
CviAII	CATG	1 cut(s)	110
CviJI	RGCY	3 cut(s)	208, 235, 239
CviKI_1	RGCY	3 cut(s)	208, 235, 239
DpnI	GATC	1 cut(s)	119
DpnII	GATC	1 cut(s)	117
FaeI	CATG	1 cut(s)	113
FaiI	YATR	3 cut(s)	48, 111, 168
FatI	CATG	1 cut(s)	109
FokI	GGATG	1 cut(s)	162
HaeIII	GGCC	1 cut(s)	239
HapII	CCGG	1 cut(s)	20
Hin1II	CATG	1 cut(s)	113
HinfI	GANTC	1 cut(s)	122
HpaII	CCGG	1 cut(s)	20
HphI	GGTGA	1 cut(s)	226
Hpy188I	TCNGA	2 cut(s)	39, 79
Hpy188III	TCNNGA	1 cut(s)	20
HpyAV	CCTTC	2 cut(s)	173, 211
HpyCH4V	TGCA	2 cut(s)	170, 185
Hsp92II	CATG	1 cut(s)	113
Kpn2I	TCCGGA	1 cut(s)	19
Kzo9I	GATC	1 cut(s)	117
LmnI	GCTCC	1 cut(s)	79
LpnPI	CCDG	4 cut(s)	33, 68, 194, 221
MalI	GATC	1 cut(s)	119
MboI	GATC	1 cut(s)	117
MnlI	CCTC	6 cut(s)	16, 27, 84, 140, 181, 184
MroI	TCCGGA	1 cut(s)	19
MroXI	GAANNNNTTC	1 cut(s)	33
MspI	CCGG	1 cut(s)	20
Mva1269I	GAATGC	1 cut(s)	33
NdeII	GATC	1 cut(s)	117
NlaIII	CATG	1 cut(s)	113
NlaIV	GGNNCC	1 cut(s)	15
PctI	GAATGC	1 cut(s)	33
PdmI	GAANNNNTTC	1 cut(s)	33
PfeI	GAWTC	1 cut(s)	122
PspN4I	GGNNCC	1 cut(s)	15
Sau3AI	GATC	1 cut(s)	117
SetI	ASST	3 cut(s)	184, 210, 237
SgeI	CNNG	7 cut(s)	32, 95, 100, 122, 127, 186, 221
SmlI	CTYRAG	1 cut(s)	88
SmoI	CTYRAG	1 cut(s)	88
TaqI	TCGA	2 cut(s)	120, 125
TfiI	GAWTC	1 cut(s)	122
TspDTI	ATGAA	1 cut(s)	98
XmnI	GAANNNNTTC	1 cut(s)	33

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