Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002232

Physical Location & Seq

Genomic Coordinates Forward (+)

5709266 .. 5711298

Gene Structure 2033 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00222660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 669 bp

ATGAATCAATGGAGGCTTCGTTTCGTTTGGCTTTTGAATGAACTGTTTTGTGTTTATATGGAGGATTTAGGTCACTTTCCGGAGCCGGAGGTCGTCGCCGTGGCATGTGCTGATCCAACTCCGCTATTGATGGCCGCCGCGCTAATTGTAATCGGCTTCACTCCGGCGCCCTCGGCCGCATATGAGTTATGGAACTGGGATCAATTTGAAACAAATGAAGCATTATTTGGGGTAAAAAGCACATTTGATGAGGAACTTTACACAACAAAGCTTGAGAAAGGTCCTAAAATGAGAGAGTTGGAAAGGGAAGCTTTACGAATAGCAAGAGAAATTGAGGGTGAGGATACCCAGGATCTGCATGCAGCAGAGGAAAGAGGCATGCAGCCGTATGAAAATTTTGATATTGATGAGGAGACCGATACTCCTCTCGTTTATCGGGGTGAGGTAGTTGATGATAGTGGATACGATGAAGATGAGGATATTTTATTGGATTCACGTAATACCGAGACCTTTGGAGGTTCTCCCGGTTCCGAGCAAAAGAGTTCAATCGATTGGACCGGTGGAAAAGGCAACCATGGAGTTCAGGTGCCTTCAAGCTCTTCATCCGTGGTACTTCCTCACTATTATCTCATTATTCTGACCATAGTTGGCTGGGACTGGTGGGTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006996 GO:0008150 GO:0009987 GO:0010494 GO:0010603 GO:0016043 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0033043 GO:0034063 GO:0034622 GO:0035770 GO:0036464 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043254 GO:0043933 GO:0044085 GO:0044087 GO:0044424 GO:0044444 GO:0044464 GO:0050789 GO:0050794 GO:0051128 GO:0065003 GO:0065007 GO:0070925 GO:0071826 GO:0071840 GO:0097159 GO:1901363 GO:1902115 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LsmAD PAM2 SM-ATX

Protein Analysis

222

Amino Acids

25.22

Weight (kDa)

4.19

Isoelectric Point (pI)

45.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LsmAD	PF06741	76 - 139	7.2e-21	LsmAD domain

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: OG0002232)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G54170 AT3G14010 AT3G14010 AT3G14010 AT3G14010 AT3G14010
fragaria_vesca	FvH4_6g34380 FvH4_6g34380 FvH4_6g34380 FvH4_6g34380 FvH4_6g34380 FvH4_6g34380 FvH4_6g34380
malus_domestica	MD09G1186100.v1.1 MD17G1171000.v1.1
prunus_persica	Prupe.7G067500_v2.0.a1 Prupe.7G067500_v2.0.a1 Prupe.7G067500_v2.0.a1
pyrus_communis	pycom09g10330 pycom12419g00200 pycom12419g00210
rosa_chinensis	RchiOBHm_Chr2g0110201 RchiOBHm_Chr2g0144721
rosa_laevigata	RLG00000020103
rosa_multiflora	Rmu_co8157946.1_g000001 Rmu_sc0013504.1_g000008 Rmu_sc0020351.1_g000001
rosa_roxburghii	Rroxscaffold_2G00101040 Rroxscaffold_3G00222660 Rroxscaffold_7G00205460
rosa_rugosa	Rorug02G0389100 Rorug02G0389100 Rorug02G0389200 Rorug02G0389300
rosa_samantha	Rh2AG440900 Rh2BG451300 Rh2CG220200 Rh2CG428200 Rh2DG461300 Rh3DG266300
rosa_wichuraiana	Rw2G021150 Rw2G036070 Rw7G020140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	166, 586
AccII	CGCG	1 cut(s)	140
AccIII	TCCGGA	1 cut(s)	79
AciI	CCGC	4 cut(s)	122, 135, 138, 177
AclWI	GGATC	3 cut(s)	107, 207, 360
AcoI	YGGCCR	2 cut(s)	132, 174
AcsI	RAATTY	1 cut(s)	394
AcyI	GRCGYC	1 cut(s)	167
AfaI	GTAC	1 cut(s)	612
AgeI	ACCGGT	1 cut(s)	557
AgsI	TTSAA	4 cut(s)	37, 209, 546, 594
AjnI	CCWGG	1 cut(s)	348
AjuI	GAANNNNNNNTTGG	2 cut(s)	210, 242
AluBI	AGCT	3 cut(s)	271, 311, 597
AluI	AGCT	3 cut(s)	271, 311, 597
Alw26I	GTCTC	2 cut(s)	407, 500
AlwI	GGATC	3 cut(s)	107, 207, 360
AlwNI	CAGNNNCTG	1 cut(s)	355
Aor13HI	TCCGGA	1 cut(s)	79
AoxI	GGCC	2 cut(s)	132, 174
ApeKI	GCWGC	2 cut(s)	362, 382
ApoI	RAATTY	1 cut(s)	394
AsiGI	ACCGGT	1 cut(s)	557
AspLEI	GCGC	2 cut(s)	142, 169
AspS9I	GGNCC	2 cut(s)	281, 555
AsuC2I	CCSGG	1 cut(s)	525
AsuHPI	GGTGA	2 cut(s)	350, 452
AvaII	GGWCC	2 cut(s)	281, 555
BanI	GGYRCC	2 cut(s)	166, 586
BbvI	GCAGC	2 cut(s)	374, 394
BccI	CCATC	1 cut(s)	124
BceAI	ACGGC	2 cut(s)	83, 370
BciT130I	CCWGG	1 cut(s)	350
BciVI	GTATCC	2 cut(s)	337, 455
BcnI	CCSGG	1 cut(s)	525
BcoDI	GTCTC	2 cut(s)	407, 500
BfoI	RGCGCY	1 cut(s)	170
BfuI	GTATCC	2 cut(s)	337, 455
BisI	GCNGC	5 cut(s)	135, 138, 177, 363, 383
BlsI	GCNGC	5 cut(s)	136, 139, 178, 364, 384
Bme1390I	CCNGG	2 cut(s)	350, 525
Bme18I	GGWCC	2 cut(s)	281, 555
BmgT120I	GGNCC	2 cut(s)	281, 555
BmiI	GGNNCC	4 cut(s)	84, 168, 529, 588
BmrFI	CCNGG	2 cut(s)	350, 525
BmrI	ACTGGG	1 cut(s)	205
BmuI	ACTGGG	1 cut(s)	205
BpuEI	CTTGAG	1 cut(s)	293
BpuMI	CCSGG	1 cut(s)	525
Bsa29I	ATCGAT	1 cut(s)	549
BsaAI	YACGTR	1 cut(s)	497
BsaHI	GRCGYC	1 cut(s)	167
BsaI	GGTCTC	2 cut(s)	407, 500
BsaJI	CCNNGG	5 cut(s)	99, 171, 348, 574, 606
BsaWI	WCCGGW	2 cut(s)	79, 557
BsaXI	ACNNNNNCTCC	5 cut(s)	34, 406, 436, 570, 600
Bse118I	RCCGGY	1 cut(s)	557
Bse1I	ACTGG	2 cut(s)	200, 662
BseAI	TCCGGA	1 cut(s)	79
BseBI	CCWGG	1 cut(s)	350
BseCI	ATCGAT	1 cut(s)	549
BseDI	CCNNGG	5 cut(s)	99, 171, 348, 574, 606
BseGI	GGATG	1 cut(s)	602
BseNI	ACTGG	2 cut(s)	200, 662
BseRI	GAGGAG	2 cut(s)	414, 425
BseX3I	CGGCCG	1 cut(s)	174
BseXI	GCAGC	2 cut(s)	374, 394
BseYI	CCCAGC	1 cut(s)	651
Bsh1236I	CGCG	1 cut(s)	140
Bsh1285I	CGRYCG	1 cut(s)	177
BshFI	GGCC	2 cut(s)	134, 176
BshNI	GGYRCC	2 cut(s)	166, 586
BshTI	ACCGGT	1 cut(s)	557
BshVI	ATCGAT	1 cut(s)	549
BsiEI	CGRYCG	1 cut(s)	177
BsiSI	CCGG	5 cut(s)	80, 86, 164, 525, 558
BsmAI	GTCTC	2 cut(s)	407, 500
BsnI	GGCC	2 cut(s)	134, 176
Bso31I	GGTCTC	2 cut(s)	407, 500
Bsp13I	TCCGGA	1 cut(s)	79
Bsp143I	GATC	3 cut(s)	112, 199, 352
Bsp19I	CCATGG	1 cut(s)	574
BspACI	CCGC	4 cut(s)	122, 135, 138, 177
BspANI	GGCC	2 cut(s)	134, 176
BspDI	ATCGAT	1 cut(s)	549
BspEI	TCCGGA	1 cut(s)	79
BspFNI	CGCG	1 cut(s)	140
BspLI	GGNNCC	4 cut(s)	84, 168, 529, 588
BspPI	GGATC	3 cut(s)	107, 207, 360
BspQI	GCTCTTC	1 cut(s)	604
BspT107I	GGYRCC	2 cut(s)	166, 586
BspTNI	GGTCTC	2 cut(s)	407, 500
BsrFI	RCCGGY	1 cut(s)	557
BsrI	ACTGG	2 cut(s)	200, 662
BssAI	RCCGGY	1 cut(s)	557
BssECI	CCNNGG	5 cut(s)	99, 171, 348, 574, 606
BssMI	GATC	3 cut(s)	112, 199, 352
BssNI	GRCGYC	1 cut(s)	167
BssT1I	CCWWGG	1 cut(s)	574
Bst2UI	CCWGG	1 cut(s)	350
Bst4CI	ACNGT	1 cut(s)	45
Bst6I	CTCTTC	1 cut(s)	604
BstACI	GRCGYC	1 cut(s)	167
BstBAI	YACGTR	1 cut(s)	497
BstC8I	GCNNGC	2 cut(s)	360, 380
BstDSI	CCRYGG	3 cut(s)	99, 574, 606
BstF5I	GGATG	1 cut(s)	602
BstFNI	CGCG	1 cut(s)	140
BstH2I	RGCGCY	1 cut(s)	170
BstHHI	GCGC	2 cut(s)	142, 169
BstKTI	GATC	3 cut(s)	115, 202, 355
BstMAI	GTCTC	2 cut(s)	407, 500
BstMBI	GATC	3 cut(s)	112, 199, 352
BstMCI	CGRYCG	1 cut(s)	177
BstMWI	GCNNNNNNNGC	1 cut(s)	173
BstNI	CCWGG	1 cut(s)	350
BstNSI	RCATGY	3 cut(s)	108, 362, 382
BstSCI	CCNGG	2 cut(s)	348, 523
BstUI	CGCG	1 cut(s)	140
BstV1I	GCAGC	2 cut(s)	374, 394
BstX2I	RGATCY	1 cut(s)	352
BstYI	RGATCY	1 cut(s)	352
BstZI	CGGCCG	1 cut(s)	174
Bsu15I	ATCGAT	1 cut(s)	549
BsuI	GTATCC	2 cut(s)	337, 455
BsuRI	GGCC	2 cut(s)	134, 176
BsuTUI	ATCGAT	1 cut(s)	549
BtgI	CCRYGG	3 cut(s)	99, 574, 606
BtsCI	GGATG	1 cut(s)	602
Cac8I	GCNNGC	2 cut(s)	360, 380
CaiI	CAGNNNCTG	1 cut(s)	355
CfoI	GCGC	2 cut(s)	142, 169
Cfr10I	RCCGGY	1 cut(s)	557
Cfr13I	GGNCC	2 cut(s)	281, 555
ClaI	ATCGAT	1 cut(s)	549
Csp6I	GTAC	1 cut(s)	611
CspAI	ACCGGT	1 cut(s)	557
CviAII	CATG	4 cut(s)	105, 359, 379, 575
CviQI	GTAC	1 cut(s)	611
DinI	GGCGCC	1 cut(s)	168
DpnI	GATC	3 cut(s)	114, 201, 354
DpnII	GATC	3 cut(s)	112, 199, 352
EaeI	YGGCCR	2 cut(s)	132, 174
EagI	CGGCCG	1 cut(s)	174
Eam1104I	CTCTTC	1 cut(s)	604
EarI	CTCTTC	1 cut(s)	604
EclXI	CGGCCG	1 cut(s)	174
Eco130I	CCWWGG	1 cut(s)	574
Eco31I	GGTCTC	2 cut(s)	407, 500
Eco47I	GGWCC	2 cut(s)	281, 555
Eco52I	CGGCCG	1 cut(s)	174
EcoO109I	RGGNCCY	1 cut(s)	281
EcoRII	CCWGG	1 cut(s)	348
EcoT14I	CCWWGG	1 cut(s)	574
EgeI	GGCGCC	1 cut(s)	168
EheI	GGCGCC	1 cut(s)	168
ErhI	CCWWGG	1 cut(s)	574
FaeI	CATG	4 cut(s)	108, 362, 382, 578
FalI	AAGNNNNNCTT	2 cut(s)	295, 327
FatI	CATG	4 cut(s)	104, 358, 378, 574
FauNDI	CATATG	1 cut(s)	181
Fnu4HI	GCNGC	5 cut(s)	135, 138, 177, 363, 383
FokI	GGATG	1 cut(s)	589
Fsp4HI	GCNGC	5 cut(s)	135, 138, 177, 363, 383
GlaI	GCGC	2 cut(s)	141, 168
GluI	GCNGC	5 cut(s)	135, 138, 177, 363, 383
GsaI	CCCAGC	1 cut(s)	655
HaeII	RGCGCY	1 cut(s)	170
HaeIII	GGCC	2 cut(s)	134, 176
HapII	CCGG	5 cut(s)	80, 86, 164, 525, 558
HhaI	GCGC	2 cut(s)	142, 169
Hin1I	GRCGYC	1 cut(s)	167
Hin1II	CATG	4 cut(s)	108, 362, 382, 578
Hin6I	GCGC	2 cut(s)	140, 167
HinP1I	GCGC	2 cut(s)	140, 167
HindIII	AAGCTT	2 cut(s)	269, 309
HinfI	GANTC	2 cut(s)	4, 491
HpaII	CCGG	5 cut(s)	80, 86, 164, 525, 558
HphI	GGTGA	2 cut(s)	350, 452
Hpy188I	TCNGA	2 cut(s)	532, 639
Hpy188III	TCNNGA	1 cut(s)	80
Hpy99I	CGWCG	1 cut(s)	98
HpyAV	CCTTC	1 cut(s)	600
HpyCH4III	ACNGT	1 cut(s)	45
HpyCH4IV	ACGT	1 cut(s)	496
HpyCH4V	TGCA	3 cut(s)	358, 362, 382
HpyF10VI	GCNNNNNNNGC	1 cut(s)	173
HpySE526I	ACGT	1 cut(s)	496
Hsp92I	GRCGYC	1 cut(s)	167
Hsp92II	CATG	4 cut(s)	108, 362, 382, 578
HspAI	GCGC	2 cut(s)	140, 167
KasI	GGCGCC	1 cut(s)	166
Kpn2I	TCCGGA	1 cut(s)	79
Kzo9I	GATC	3 cut(s)	112, 199, 352
LguI	GCTCTTC	1 cut(s)	604
LmnI	GCTCC	1 cut(s)	82
Lsp1109I	GCAGC	2 cut(s)	374, 394
MaeII	ACGT	1 cut(s)	496
MaeIII	GTNAC	1 cut(s)	71
MalI	GATC	3 cut(s)	114, 201, 354
MboI	GATC	3 cut(s)	112, 199, 352
MboII	GAAGA	2 cut(s)	482, 591
MflI	RGATCY	1 cut(s)	352
MluCI	AATT	4 cut(s)	144, 203, 330, 394
Mly113I	GGCGCC	1 cut(s)	167
MmeI	TCCRAC	2 cut(s)	140, 279
MroI	TCCGGA	1 cut(s)	79
MspI	CCGG	5 cut(s)	80, 86, 164, 525, 558
MspR9I	CCNGG	2 cut(s)	350, 525
MvaI	CCWGG	1 cut(s)	350
MvnI	CGCG	1 cut(s)	140
MwoI	GCNNNNNNNGC	1 cut(s)	173
NarI	GGCGCC	1 cut(s)	167
NciI	CCSGG	1 cut(s)	525
NcoI	CCATGG	1 cut(s)	574
NdeI	CATATG	1 cut(s)	181
NdeII	GATC	3 cut(s)	112, 199, 352
NlaIII	CATG	4 cut(s)	108, 362, 382, 578
NlaIV	GGNNCC	4 cut(s)	84, 168, 529, 588
NmeAIII	GCCGAG	1 cut(s)	152
NmuCI	GTSAC	1 cut(s)	71
NspI	RCATGY	3 cut(s)	108, 362, 382
PaeI	GCATGC	2 cut(s)	362, 382
PciSI	GCTCTTC	1 cut(s)	604
PfeI	GAWTC	2 cut(s)	4, 491
PinAI	ACCGGT	1 cut(s)	557
PkrI	GCNGC	5 cut(s)	136, 139, 178, 364, 384
PluTI	GGCGCC	1 cut(s)	170
Ppu21I	YACGTR	1 cut(s)	497
PpuMI	RGGWCCY	1 cut(s)	281
Psp5II	RGGWCCY	1 cut(s)	281
Psp6I	CCWGG	1 cut(s)	348
PspFI	CCCAGC	1 cut(s)	651
PspGI	CCWGG	1 cut(s)	348
PspN4I	GGNNCC	4 cut(s)	84, 168, 529, 588
PspPI	GGNCC	2 cut(s)	281, 555
PspPPI	RGGWCCY	1 cut(s)	281
PstNI	CAGNNNCTG	1 cut(s)	355
PsuI	RGATCY	1 cut(s)	352
RsaI	GTAC	1 cut(s)	612
RsaNI	GTAC	1 cut(s)	611
SapI	GCTCTTC	1 cut(s)	604
SatI	GCNGC	5 cut(s)	135, 138, 177, 363, 383
Sau3AI	GATC	3 cut(s)	112, 199, 352
Sau96I	GGNCC	2 cut(s)	281, 555
ScrFI	CCNGG	2 cut(s)	350, 525
SfoI	GGCGCC	1 cut(s)	168
SinI	GGWCC	2 cut(s)	281, 555
SmlI	CTYRAG	1 cut(s)	272
SmoI	CTYRAG	1 cut(s)	272
SphI	GCATGC	2 cut(s)	362, 382
Sse9I	AATT	4 cut(s)	144, 203, 330, 394
SsiI	CCGC	4 cut(s)	122, 135, 138, 177
SspDI	GGCGCC	1 cut(s)	166
StyD4I	CCNGG	2 cut(s)	348, 523
StyI	CCWWGG	1 cut(s)	574
TaaI	ACNGT	1 cut(s)	45
TaiI	ACGT	1 cut(s)	499
TaqI	TCGA	1 cut(s)	549
TaqII	GACCGA	1 cut(s)	431
TasI	AATT	4 cut(s)	144, 203, 330, 394
TauI	GCSGC	3 cut(s)	137, 140, 179
TfiI	GAWTC	2 cut(s)	4, 491
TseFI	GTSAC	1 cut(s)	71
TseI	GCWGC	2 cut(s)	362, 382
Tsp45I	GTSAC	1 cut(s)	71
TspDTI	ATGAA	6 cut(s)	17, 54, 231, 405, 483, 591
TspGWI	ACGGA	1 cut(s)	595
VpaK11BI	GGWCC	2 cut(s)	281, 555
XapI	RAATTY	1 cut(s)	394
XceI	RCATGY	3 cut(s)	108, 362, 382

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