Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0015305

Physical Location & Seq

Genomic Coordinates Forward (+)

5829017 .. 5830928

Gene Structure 1912 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010984

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGAGCAGAAGCTTGGGAATTCCGGTGAAGCTTCTTCACGAGGCGTCAGGGCACATCGTGACGGTGGAGCTCAAAAGCGGCGAGCTTTACAGAGGAAGCATGGTCGAGTGTGAGGACAACTGGAACTGTCAGCTTGAGAGCATCACCTACACCGCCAAGGATGGGAAGGTTTCACAACTTGAGCATGTCTTCATTCGTGGGAGCAAAGTGAGGTTTATGGTCATTCCAGACATGCTGAAGAATGCTCCAATGTTTAAACGTCTAGATGCTAGAATCAAGGGTAAGGGTGCTTCACTTGGAGTTGGCCGAGGTAGAGCTGTTGCAATGCGGGCCAAAGCTCAAGCTGCTGGTCGTGGAACAGCTGGTAGAGGAGTTGTGCCACCGGTACGGAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000243 GO:0000245 GO:0000375 GO:0000377 GO:0000387 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0005684 GO:0005685 GO:0005686 GO:0005687 GO:0005689 GO:0005730 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:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0031974 GO:0031981 GO:0032502 GO:0032991 GO:0034622 GO:0034641 GO:0034715 GO:0034719 GO:0040007 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0048589 GO:0065003 GO:0070013 GO:0071010 GO:0071011 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko04139 ko05322 map03040 map04139 map05322

Pfam Domains

Protein Families

LSM

Protein Analysis

132

Amino Acids

14.26

Weight (kDa)

10.43

Isoelectric Point (pI)

22.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	10 - 74	3.2e-18	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0015305)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G20580
fragaria_vesca	FvH4_2g37310
malus_domestica	MD08G1002200.v1.1 MD15G1001300.v1.1
prunus_persica	Prupe.1G353900_v2.0.a1
pyrus_communis	pycom15g00060
rosa_chinensis	RchiOBHm_Chr6g0304391
rosa_laevigata	RLG00000010984
rosa_multiflora	Rmu_ssc0000218.1_g000044
rosa_roxburghii	Rroxscaffold_7G00163780
rosa_rugosa	Rorug06G0331100
rosa_samantha	Rh6AG444000 Rh6BG458400 Rh6CG456800 Rh6DG443500
rosa_wichuraiana	Rw6G038540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	78, 153, 328
AcoI	YGGCCR	1 cut(s)	304
AcsI	RAATTY	1 cut(s)	18
AcuI	CTGAAG	1 cut(s)	257
AcyI	GRCGYC	1 cut(s)	44
AdeI	CACNNNGTG	1 cut(s)	58
AfaI	GTAC	1 cut(s)	387
AfiI	CCNNNNNNNGG	1 cut(s)	162
AgeI	ACCGGT	1 cut(s)	382
AluBI	AGCT	9 cut(s)	12, 31, 70, 85, 133, 317, 338, 344, 362
AluI	AGCT	9 cut(s)	12, 31, 70, 85, 133, 317, 338, 344, 362
Alw21I	GWGCWC	1 cut(s)	72
AoxI	GGCC	2 cut(s)	304, 330
ApeKI	GCWGC	1 cut(s)	344
ApoI	RAATTY	1 cut(s)	18
AsiGI	ACCGGT	1 cut(s)	382
AspS9I	GGNCC	1 cut(s)	330
AsuHPI	GGTGA	2 cut(s)	37, 136
BaeGI	GKGCMC	1 cut(s)	54
BaeI	ACNNNNGTAYC	1 cut(s)	377
BanII	GRGCYC	1 cut(s)	72
BarI	GAAGNNNNNNTAC	2 cut(s)	274, 306
BauI	CACGAG	1 cut(s)	38
BbsI	GAAGAC	1 cut(s)	181
Bbv12I	GWGCWC	1 cut(s)	72
BbvI	GCAGC	1 cut(s)	331
BccI	CCATC	1 cut(s)	155
BfaI	CTAG	2 cut(s)	263, 270
BisI	GCNGC	2 cut(s)	79, 345
BlsI	GCNGC	2 cut(s)	80, 346
BmgT120I	GGNCC	1 cut(s)	330
BmsI	GCATC	2 cut(s)	150, 256
BpiI	GAAGAC	1 cut(s)	181
BpuEI	CTTGAG	3 cut(s)	155, 200, 324
BsaHI	GRCGYC	1 cut(s)	44
BsaJI	CCNNGG	2 cut(s)	156, 307
BsaWI	WCCGGW	2 cut(s)	22, 382
Bsc4I	CCNNNNNNNGG	1 cut(s)	162
Bse118I	RCCGGY	1 cut(s)	382
Bse1I	ACTGG	1 cut(s)	125
Bse3DI	GCAATG	1 cut(s)	330
BseDI	CCNNGG	2 cut(s)	156, 307
BseGI	GGATG	1 cut(s)	166
BseLI	CCNNNNNNNGG	1 cut(s)	162
BseMI	GCAATG	1 cut(s)	330
BseNI	ACTGG	1 cut(s)	125
BseRI	GAGGAG	1 cut(s)	384
BseSI	GKGCMC	1 cut(s)	54
BseXI	GCAGC	1 cut(s)	331
BshFI	GGCC	2 cut(s)	306, 332
BshTI	ACCGGT	1 cut(s)	382
BsiHKAI	GWGCWC	1 cut(s)	72
BsiSI	CCGG	2 cut(s)	23, 383
BslI	CCNNNNNNNGG	1 cut(s)	162
BsmI	GAATGC	1 cut(s)	247
BsnI	GGCC	2 cut(s)	306, 332
Bsp1286I	GDGCHC	2 cut(s)	54, 72
BspACI	CCGC	3 cut(s)	78, 153, 328
BspANI	GGCC	2 cut(s)	306, 332
BsrDI	GCAATG	1 cut(s)	330
BsrFI	RCCGGY	1 cut(s)	382
BsrI	ACTGG	1 cut(s)	125
BssAI	RCCGGY	1 cut(s)	382
BssECI	CCNNGG	2 cut(s)	156, 307
BssNI	GRCGYC	1 cut(s)	44
BssSI	CACGAG	1 cut(s)	38
BssT1I	CCWWGG	1 cut(s)	156
Bst2BI	CACGAG	1 cut(s)	38
Bst4CI	ACNGT	2 cut(s)	64, 128
BstACI	GRCGYC	1 cut(s)	44
BstC8I	GCNNGC	2 cut(s)	83, 330
BstF5I	GGATG	1 cut(s)	166
BstMWI	GCNNNNNNNGC	2 cut(s)	329, 344
BstNSI	RCATGY	2 cut(s)	188, 235
BstSLI	GKGCMC	1 cut(s)	54
BstV1I	GCAGC	1 cut(s)	331
BstV2I	GAAGAC	1 cut(s)	181
BsuRI	GGCC	2 cut(s)	306, 332
BtsCI	GGATG	1 cut(s)	166
Cac8I	GCNNGC	2 cut(s)	83, 330
Cfr10I	RCCGGY	1 cut(s)	382
Cfr13I	GGNCC	1 cut(s)	330
CseI	GACGC	1 cut(s)	33
Csp6I	GTAC	1 cut(s)	386
CspAI	ACCGGT	1 cut(s)	382
CviAII	CATG	3 cut(s)	100, 185, 232
CviQI	GTAC	1 cut(s)	386
DraI	TTTAAA	1 cut(s)	256
DraIII	CACNNNGTG	1 cut(s)	58
EaeI	YGGCCR	1 cut(s)	304
Ecl136II	GAGCTC	1 cut(s)	70
Eco130I	CCWWGG	1 cut(s)	156
Eco24I	GRGCYC	1 cut(s)	72
Eco53kI	GAGCTC	1 cut(s)	70
Eco57I	CTGAAG	1 cut(s)	257
EcoICRI	GAGCTC	1 cut(s)	70
EcoRI	GAATTC	1 cut(s)	18
EcoT14I	CCWWGG	1 cut(s)	156
EcoT38I	GRGCYC	1 cut(s)	72
ErhI	CCWWGG	1 cut(s)	156
FaeI	CATG	3 cut(s)	103, 188, 235
FaiI	YATR	4 cut(s)	101, 186, 218, 233
FatI	CATG	3 cut(s)	99, 184, 231
FauI	CCCGC	1 cut(s)	321
Fnu4HI	GCNGC	2 cut(s)	79, 345
FokI	GGATG	1 cut(s)	173
FriOI	GRGCYC	1 cut(s)	72
Fsp4HI	GCNGC	2 cut(s)	79, 345
FspBI	CTAG	2 cut(s)	263, 270
GluI	GCNGC	2 cut(s)	79, 345
HaeIII	GGCC	2 cut(s)	306, 332
HapII	CCGG	2 cut(s)	23, 383
HgaI	GACGC	1 cut(s)	33
Hin1I	GRCGYC	1 cut(s)	44
Hin1II	CATG	3 cut(s)	103, 188, 235
HindIII	AAGCTT	2 cut(s)	10, 29
HinfI	GANTC	1 cut(s)	273
HpaII	CCGG	2 cut(s)	23, 383
HphI	GGTGA	2 cut(s)	37, 136
Hpy188III	TCNNGA	4 cut(s)	38, 58, 227, 263
HpyAV	CCTTC	1 cut(s)	160
HpyCH4III	ACNGT	2 cut(s)	64, 128
HpyCH4IV	ACGT	1 cut(s)	259
HpyCH4V	TGCA	1 cut(s)	323
HpyF10VI	GCNNNNNNNGC	2 cut(s)	329, 344
HpySE526I	ACGT	1 cut(s)	259
Hsp92I	GRCGYC	1 cut(s)	44
Hsp92II	CATG	3 cut(s)	103, 188, 235
LmnI	GCTCC	3 cut(s)	67, 201, 250
LpnPI	CCDG	6 cut(s)	33, 36, 106, 240, 333, 348
Lsp1109I	GCAGC	1 cut(s)	331
LweI	GCATC	2 cut(s)	150, 256
MaeI	CTAG	2 cut(s)	263, 270
MaeII	ACGT	1 cut(s)	259
MaeIII	GTNAC	1 cut(s)	58
MboII	GAAGA	3 cut(s)	26, 181, 250
MhlI	GDGCHC	2 cut(s)	54, 72
MluCI	AATT	1 cut(s)	18
MnlI	CCTC	7 cut(s)	34, 86, 106, 204, 302, 362, 384
MseI	TTAA	1 cut(s)	255
MspA1I	CMGCKG	1 cut(s)	362
MspI	CCGG	2 cut(s)	23, 383
MssI	GTTTAAAC	1 cut(s)	256
Mva1269I	GAATGC	1 cut(s)	247
MwoI	GCNNNNNNNGC	2 cut(s)	329, 344
NlaIII	CATG	3 cut(s)	103, 188, 235
NmeAIII	GCCGAG	1 cut(s)	332
NmuCI	GTSAC	1 cut(s)	58
NspI	RCATGY	2 cut(s)	188, 235
PctI	GAATGC	1 cut(s)	247
PfeI	GAWTC	1 cut(s)	273
PinAI	ACCGGT	1 cut(s)	382
PkrI	GCNGC	2 cut(s)	80, 346
PmeI	GTTTAAAC	1 cut(s)	256
Psp124BI	GAGCTC	1 cut(s)	72
PspPI	GGNCC	1 cut(s)	330
PvuII	CAGCTG	1 cut(s)	362
RsaI	GTAC	1 cut(s)	387
RsaNI	GTAC	1 cut(s)	386
SacI	GAGCTC	1 cut(s)	72
SaqAI	TTAA	1 cut(s)	255
SatI	GCNGC	2 cut(s)	79, 345
Sau96I	GGNCC	1 cut(s)	330
SduI	GDGCHC	2 cut(s)	54, 72
SfaNI	GCATC	2 cut(s)	150, 256
SmlI	CTYRAG	3 cut(s)	134, 179, 339
SmoI	CTYRAG	3 cut(s)	134, 179, 339
Sse9I	AATT	1 cut(s)	18
SsiI	CCGC	3 cut(s)	78, 153, 328
SspMI	CTAG	2 cut(s)	263, 270
SstI	GAGCTC	1 cut(s)	72
StyI	CCWWGG	1 cut(s)	156
TaaI	ACNGT	2 cut(s)	64, 128
TaiI	ACGT	1 cut(s)	262
TaqI	TCGA	1 cut(s)	105
TasI	AATT	1 cut(s)	18
TauI	GCSGC	1 cut(s)	81
TfiI	GAWTC	1 cut(s)	273
Tru1I	TTAA	1 cut(s)	255
Tru9I	TTAA	1 cut(s)	255
TseFI	GTSAC	1 cut(s)	58
TseI	GCWGC	1 cut(s)	344
Tsp45I	GTSAC	1 cut(s)	58
TspDTI	ATGAA	1 cut(s)	181
XapI	RAATTY	1 cut(s)	18
XbaI	TCTAGA	1 cut(s)	262
XceI	RCATGY	2 cut(s)	188, 235
XspI	CTAG	2 cut(s)	263, 270

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