Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000510

Physical Location & Seq

Genomic Coordinates Forward (+)

46443573 .. 46450759

Gene Structure 7187 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG250600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 324 bp

ATGGGAATTCACCCATTTACACACTCTCTTCGCCCAATGGGTTTTGGTCCAAGCATTGCGACGATGTCAGCTACAATCAGCTCCAGAAGGTCAGGTCAGCCCCCGAATCTGAAGAAGTACATGGACAAGAAGCTTCAAATCAAGCTAAATGCAAACCGAATGATTGTTGGAACCTTGCGTGGATTTGACCAGTTCATGAATCTGGTGGTTGATAATACTGTAGAAGTGAATGGTGATGAAAAGACTAACATAGGCATGGTGGTGATCAGAGGAAACAGTGTGGTTAATGTTGAAGCACTTGAACCTGTGGCCAAAATGCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005682 GO:0005684 GO:0005685 GO:0005686 GO:0005687 GO:0005689 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030532 GO:0032991 GO:0034641 GO:0034719 GO:0035770 GO:0036464 GO:0043170 GO:0043186 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045495 GO:0046483 GO:0060293 GO:0071004 GO:0071010 GO:0071011 GO:0071013 GO:0071704 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

107

Amino Acids

11.79

Weight (kDa)

9.99

Isoelectric Point (pI)

42.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	36 - 97	7.9e-22	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000510)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g08341 FvH4_3g08360 FvH4_3g13460 FvH4_5g23070 FvH4_6g03920 FvH4_7g24190
malus_domestica	MD05G1307700.v1.1 MD05G1307800.v1.1 MD05G1307900.v1.1 MD05G1308000.v1.1 MD10G1286900.v1.1 MD10G1287000.v1.1 MD10G1287100.v1.1
prunus_persica	Prupe.4G054800_v2.0.a1
pyrus_communis	pycom05g28450 pycom05g28470 pycom10g23980 pycom10g24010
rosa_chinensis	RchiOBHm_Chr3g0452471 RchiOBHm_Chr5g0009541 RchiOBHm_Chr5g0009571 RchiOBHm_Chr5g0009591 RchiOBHm_Chr5g0009631 RchiOBHm_Chr5g0009641
rosa_laevigata	RLG00000025599 RLG00000031670 RLG00000031671 RLG00000031673 RLG00000031674 RLG00000031676 RLG00000031677
rosa_multiflora	Rmu_co8094034.1_g000001 Rmu_co8292439.1_g000001 Rmu_co8399121.1_g000001 Rmu_co8467919.1_g000001 Rmu_sc0002711.1_g000003 Rmu_sc0002711.1_g000007 Rmu_sc0006311.1_g000004 Rmu_sc0006311.1_g000008 Rmu_sc0011680.1_g000005 Rmu_sc0025450.1_g000001 Rmu_sc0025487.1_g000001 Rmu_sc0034739.1_g000001 Rmu_sc0034740.1_g000001 Rmu_sc0036612.1_g000001 Rmu_sc0036650.1_g000001
rosa_roxburghii	Rroxscaffold_1G00066560 Rroxscaffold_1G00066570 Rroxscaffold_1G00066590 Rroxscaffold_1G00067280 Rroxscaffold_1G00067290 Rroxscaffold_6G00429480 Rroxscaffold_6G00429490
rosa_rugosa	Rorug02G0641100 Rorug02G0641200 Rorug04G0444300 Rorug04G0444400 Rorug04G0444500
rosa_samantha	Rh3AG042900 Rh3BG044600 Rh3CG043200 Rh3DG044000 Rh4DG097500 Rh4DG250600 Rh5AG075400 Rh5AG075700 Rh5AG076000 Rh5AG076100 Rh5BG070900 Rh5BG071000 Rh5BG071100 Rh5BG071200 Rh5CG083100 Rh5CG083600 Rh5CG083700 Rh5CG083800 Rh5DG070900 Rh5DG071400 Rh5DG071500 Rh5DG071600 Rh5DG071700 Rh5DG071800
rosa_wichuraiana	Rw3G003320 Rw5G006950 Rw5G006980 Rw5G006990 Rw5G007000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcoI	YGGCCR	1 cut(s)	309
AcsI	RAATTY	1 cut(s)	6
AcuI	CTGAAG	1 cut(s)	131
AfaI	GTAC	1 cut(s)	119
AgsI	TTSAA	3 cut(s)	137, 293, 302
AluBI	AGCT	4 cut(s)	71, 81, 133, 145
AluI	AGCT	4 cut(s)	71, 81, 133, 145
AoxI	GGCC	1 cut(s)	309
ApoI	RAATTY	1 cut(s)	6
AspS9I	GGNCC	1 cut(s)	47
AsuHPI	GGTGA	2 cut(s)	245, 274
AvaII	GGWCC	1 cut(s)	47
BalI	TGGCCA	1 cut(s)	311
BclI	TGATCA	1 cut(s)	264
BfmI	CTRYAG	1 cut(s)	219
Bme18I	GGWCC	1 cut(s)	47
BmgT120I	GGNCC	1 cut(s)	47
BmiI	GGNNCC	1 cut(s)	172
BpmI	CTGGAG	1 cut(s)	67
Bse1I	ACTGG	1 cut(s)	190
Bse3DI	GCAATG	1 cut(s)	54
BseMI	GCAATG	1 cut(s)	54
BseNI	ACTGG	1 cut(s)	190
BshFI	GGCC	1 cut(s)	311
BsnI	GGCC	1 cut(s)	311
Bsp143I	GATC	1 cut(s)	264
BspANI	GGCC	1 cut(s)	311
BspHI	TCATGA	1 cut(s)	195
BspLI	GGNNCC	1 cut(s)	172
BsrDI	GCAATG	1 cut(s)	54
BsrI	ACTGG	1 cut(s)	190
BssMI	GATC	1 cut(s)	264
Bst4CI	ACNGT	2 cut(s)	220, 278
Bst6I	CTCTTC	1 cut(s)	33
BstKTI	GATC	1 cut(s)	267
BstMBI	GATC	1 cut(s)	264
BstSFI	CTRYAG	1 cut(s)	219
BsuRI	GGCC	1 cut(s)	311
BtsIMutI	CAGTG	1 cut(s)	283
CciI	TCATGA	1 cut(s)	195
Cfr13I	GGNCC	1 cut(s)	47
Csp6I	GTAC	1 cut(s)	118
CviAII	CATG	3 cut(s)	121, 196, 256
CviJI	RGCY	6 cut(s)	71, 81, 100, 133, 145, 311
CviKI_1	RGCY	6 cut(s)	71, 81, 100, 133, 145, 311
CviQI	GTAC	1 cut(s)	118
DpnI	GATC	1 cut(s)	266
DpnII	GATC	1 cut(s)	264
EaeI	YGGCCR	1 cut(s)	309
Eam1104I	CTCTTC	1 cut(s)	33
EarI	CTCTTC	1 cut(s)	33
Eco47I	GGWCC	1 cut(s)	47
Eco57I	CTGAAG	1 cut(s)	131
EcoRI	GAATTC	1 cut(s)	6
FaeI	CATG	3 cut(s)	124, 199, 259
FaiI	YATR	4 cut(s)	122, 197, 251, 257
FatI	CATG	3 cut(s)	120, 195, 255
FbaI	TGATCA	1 cut(s)	264
GsuI	CTGGAG	1 cut(s)	67
HaeIII	GGCC	1 cut(s)	311
Hin1II	CATG	3 cut(s)	124, 199, 259
HindIII	AAGCTT	1 cut(s)	131
HinfI	GANTC	2 cut(s)	106, 199
HphI	GGTGA	2 cut(s)	245, 274
Hpy188I	TCNGA	2 cut(s)	111, 269
Hpy188III	TCNNGA	2 cut(s)	84, 196
Hpy99I	CGWCG	1 cut(s)	64
HpyAV	CCTTC	1 cut(s)	81
HpyCH4III	ACNGT	2 cut(s)	220, 278
HpyCH4V	TGCA	2 cut(s)	152, 319
Hsp92II	CATG	3 cut(s)	124, 199, 259
Ksp22I	TGATCA	1 cut(s)	264
Kzo9I	GATC	1 cut(s)	264
LmnI	GCTCC	1 cut(s)	86
LpnPI	CCDG	5 cut(s)	78, 97, 188, 203, 318
MalI	GATC	1 cut(s)	266
MboI	GATC	1 cut(s)	264
MboII	GAAGA	2 cut(s)	20, 124
MlsI	TGGCCA	1 cut(s)	311
MluCI	AATT	1 cut(s)	6
MluNI	TGGCCA	1 cut(s)	311
MmeI	TCCRAC	1 cut(s)	148
MnlI	CCTC	1 cut(s)	263
Mox20I	TGGCCA	1 cut(s)	311
MscI	TGGCCA	1 cut(s)	311
MseI	TTAA	1 cut(s)	285
MslI	CAYNNNNRTG	2 cut(s)	254, 260
Msp20I	TGGCCA	1 cut(s)	311
NdeII	GATC	1 cut(s)	264
NlaIII	CATG	3 cut(s)	124, 199, 259
NlaIV	GGNNCC	1 cut(s)	172
PagI	TCATGA	1 cut(s)	195
PfeI	GAWTC	2 cut(s)	106, 199
PflFI	GACNNNGTC	1 cut(s)	64
PspN4I	GGNNCC	1 cut(s)	172
PspPI	GGNCC	1 cut(s)	47
PsyI	GACNNNGTC	1 cut(s)	64
RsaI	GTAC	1 cut(s)	119
RsaNI	GTAC	1 cut(s)	118
RseI	CAYNNNNRTG	2 cut(s)	254, 260
SaqAI	TTAA	1 cut(s)	285
Sau3AI	GATC	1 cut(s)	264
Sau96I	GGNCC	1 cut(s)	47
SetI	ASST	8 cut(s)	73, 83, 92, 97, 135, 147, 176, 307
SfcI	CTRYAG	1 cut(s)	219
SinI	GGWCC	1 cut(s)	47
SmiMI	CAYNNNNRTG	2 cut(s)	254, 260
Sse9I	AATT	1 cut(s)	6
TaaI	ACNGT	2 cut(s)	220, 278
TasI	AATT	1 cut(s)	6
TatI	WGTACW	1 cut(s)	117
TfiI	GAWTC	2 cut(s)	106, 199
Tru1I	TTAA	1 cut(s)	285
Tru9I	TTAA	1 cut(s)	285
TscAI	CASTG	1 cut(s)	283
TspDTI	ATGAA	3 cut(s)	184, 212, 252
TspRI	CASTG	1 cut(s)	283
Tth111I	GACNNNGTC	1 cut(s)	64
VpaK11BI	GGWCC	1 cut(s)	47
XapI	RAATTY	1 cut(s)	6

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