Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002232

Physical Location & Seq

Genomic Coordinates Forward (+)

26534272 .. 26537828

Gene Structure 3557 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG266300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1014 bp

ATGGTCGTGGCAATACCTGCCATTCAAGTTCTGGTCACTTTCCAGGAGCCGGAGGCTGCTGCCAGGGCATGTGCTGATCCAACTCCAGTTATTGATGGCCGCCGCGCTAATTGTAATCTGGCTTCACTCCGGTTCCCTCGGCCGCATATGAGTTATGTACGAACAGCACCGGCTTCTCCATACATTGGAAGCATGCAAGCTCCTCGTGGGGCTTATGTCGGAGCATATGGCTACCAGCAGCCTCTTACGTACAATTATACACAAGGGATGATGTTTCCTCCTTATGGGTGGCTGAGTTTTATGGAAAATATATTTGATGGACATTGGAATAGGAACTGGGATCAATTTGAAACAAATGAAGCATTATTTGGGGTAAAAAGCACATTTGATGAGGAACTTTACACAACAAAGCTTGAGAAAGGTCCTAAAATGAGAGAGTTGGAAAGGGAAGCTTTACGAATAGCAAGAGAAATTGAGGGTGAGGATACCCAGGATCTGCATGCAGCAGAGGAAAGAGGCATGCAGCCGTATGAAAATTTTGATATTGATGAGGAGACCAGATACTCCTCTGTTTATCGGGGTGAGGTAGTTGATGATAGTGGATACGATGAAGATGAGGATATTTTATTGGATTCACGTAATACTGAGACCTTTGGAGGTTCTCCTGGTTCTGAGCAAAAGAGTTCAATCGATTGGACCAGTGGAAAAGGCAACCATGGAGTTCAGGTGCCTTCAAGCTCTTCATCTGTGGATTACACACACTATTCTGAATCAAATGTCGCCCCAGAGTTATATCGTTCTGGATCTTATGACCATGCTAGGCAGCTGGCATCAGAACCACCTAATAAAAGTTTTGCCAGTACAGCCAGTGAAAGCAGTGAACATGTAGATACCGACAGTGCTACTGACTCTGTAGAAAAGCATATGCTGGCCGGGGACAGTCAAACGTCAAAACCAGATGGATTTAGCAAAAAGTTTGCACAAGGATTGTGTTGCAAGAAAGGAACCAGCTAA

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

337

Amino Acids

37.49

Weight (kDa)

4.73

Isoelectric Point (pI)

47.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LsmAD	PF06741	123 - 193	4.1e-25	LsmAD 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: 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)
Acc36I	ACCTGC	1 cut(s)	25
AccB1I	GGYRCC	1 cut(s)	727
AccB7I	CCANNNNNTGG	1 cut(s)	185
AccII	CGCG	1 cut(s)	105
AciI	CCGC	3 cut(s)	100, 103, 143
AclWI	GGATC	4 cut(s)	71, 348, 501, 811
AcoI	YGGCCR	3 cut(s)	97, 140, 930
AcsI	RAATTY	1 cut(s)	535
AfaI	GTAC	3 cut(s)	159, 251, 862
AfiI	CCNNNNNNNGG	3 cut(s)	49, 185, 284
AflIII	ACRYGT	1 cut(s)	883
AgsI	TTSAA	4 cut(s)	26, 350, 687, 735
AjnI	CCWGG	4 cut(s)	42, 62, 489, 664
AjuI	GAANNNNNNNTTGG	2 cut(s)	351, 383
AluBI	AGCT	6 cut(s)	200, 412, 452, 738, 826, 1011
AluI	AGCT	6 cut(s)	200, 412, 452, 738, 826, 1011
Alw26I	GTCTC	2 cut(s)	548, 641
AlwI	GGATC	4 cut(s)	71, 348, 501, 811
AlwNI	CAGNNNCTG	1 cut(s)	496
AoxI	GGCC	3 cut(s)	97, 140, 930
ApeKI	GCWGC	6 cut(s)	56, 59, 238, 503, 523, 823
ApoI	RAATTY	1 cut(s)	535
AspLEI	GCGC	1 cut(s)	107
AspS9I	GGNCC	2 cut(s)	422, 696
AsuC2I	CCSGG	1 cut(s)	934
AsuHPI	GGTGA	2 cut(s)	491, 593
AvaII	GGWCC	2 cut(s)	422, 696
BanI	GGYRCC	1 cut(s)	727
BarI	GAAGNNNNNNTAC	2 cut(s)	106, 138
BauI	CACGAG	1 cut(s)	204
BbvI	GCAGC	6 cut(s)	43, 46, 250, 515, 535, 835
BccI	CCATC	3 cut(s)	89, 311, 953
BceAI	ACGGC	1 cut(s)	511
BcgI	CGANNNNNNTGC	2 cut(s)	185, 219
BciT130I	CCWGG	4 cut(s)	44, 64, 491, 666
BciVI	GTATCC	2 cut(s)	478, 596
BcnI	CCSGG	1 cut(s)	934
BcoDI	GTCTC	2 cut(s)	548, 641
BfaI	CTAG	1 cut(s)	819
BfmI	CTRYAG	1 cut(s)	912
BfuAI	ACCTGC	1 cut(s)	25
BfuI	GTATCC	2 cut(s)	478, 596
BisI	GCNGC	9 cut(s)	57, 60, 100, 103, 143, 239, 504, 524, 824
BlsI	GCNGC	9 cut(s)	58, 61, 101, 104, 144, 240, 505, 525, 825
Bme1390I	CCNGG	5 cut(s)	44, 64, 491, 666, 934
Bme18I	GGWCC	2 cut(s)	422, 696
BmgT120I	GGNCC	2 cut(s)	422, 696
BmiI	GGNNCC	4 cut(s)	48, 134, 729, 1006
BmrFI	CCNGG	5 cut(s)	44, 64, 491, 666, 934
BmrI	ACTGGG	1 cut(s)	346
BmsI	GCATC	1 cut(s)	839
BmuI	ACTGGG	1 cut(s)	346
BpmI	CTGGAG	1 cut(s)	69
BpuEI	CTTGAG	1 cut(s)	434
BpuMI	CCSGG	1 cut(s)	934
Bsa29I	ATCGAT	1 cut(s)	690
BsaAI	YACGTR	2 cut(s)	249, 638
BsaI	GGTCTC	2 cut(s)	548, 641
BsaJI	CCNNGG	5 cut(s)	63, 137, 489, 715, 933
BsaWI	WCCGGW	1 cut(s)	129
BsaXI	ACNNNNNCTCC	2 cut(s)	711, 741
Bsc4I	CCNNNNNNNGG	3 cut(s)	49, 185, 284
Bse118I	RCCGGY	1 cut(s)	169
Bse1I	ACTGG	5 cut(s)	86, 341, 699, 858, 867
BseBI	CCWGG	4 cut(s)	44, 64, 491, 666
BseCI	ATCGAT	1 cut(s)	690
BseDI	CCNNGG	5 cut(s)	63, 137, 489, 715, 933
BseGI	GGATG	1 cut(s)	273
BseLI	CCNNNNNNNGG	3 cut(s)	49, 185, 284
BseMII	CTCAG	3 cut(s)	284, 636, 663
BseNI	ACTGG	5 cut(s)	86, 341, 699, 858, 867
BseRI	GAGGAG	3 cut(s)	192, 556, 566
BseX3I	CGGCCG	1 cut(s)	140
BseXI	GCAGC	6 cut(s)	43, 46, 250, 515, 535, 835
Bsh1236I	CGCG	1 cut(s)	105
Bsh1285I	CGRYCG	1 cut(s)	143
BshFI	GGCC	3 cut(s)	99, 142, 932
BshNI	GGYRCC	1 cut(s)	727
BshVI	ATCGAT	1 cut(s)	690
BsiEI	CGRYCG	1 cut(s)	143
BsiSI	CCGG	4 cut(s)	50, 130, 170, 933
BslFI	GGGAC	1 cut(s)	950
BslI	CCNNNNNNNGG	3 cut(s)	49, 185, 284
BsmAI	GTCTC	2 cut(s)	548, 641
BsmFI	GGGAC	1 cut(s)	950
BsnI	GGCC	3 cut(s)	99, 142, 932
Bso31I	GGTCTC	2 cut(s)	548, 641
Bsp143I	GATC	4 cut(s)	76, 340, 493, 803
Bsp19I	CCATGG	1 cut(s)	715
BspACI	CCGC	3 cut(s)	100, 103, 143
BspANI	GGCC	3 cut(s)	99, 142, 932
BspCNI	CTCAG	3 cut(s)	285, 637, 664
BspDI	ATCGAT	1 cut(s)	690
BspFNI	CGCG	1 cut(s)	105
BspLI	GGNNCC	4 cut(s)	48, 134, 729, 1006
BspMI	ACCTGC	1 cut(s)	25
BspPI	GGATC	4 cut(s)	71, 348, 501, 811
BspQI	GCTCTTC	1 cut(s)	745
BspT107I	GGYRCC	1 cut(s)	727
BspTNI	GGTCTC	2 cut(s)	548, 641
BsrFI	RCCGGY	1 cut(s)	169
BsrI	ACTGG	5 cut(s)	86, 341, 699, 858, 867
BssAI	RCCGGY	1 cut(s)	169
BssECI	CCNNGG	5 cut(s)	63, 137, 489, 715, 933
BssMI	GATC	4 cut(s)	76, 340, 493, 803
BssSI	CACGAG	1 cut(s)	204
BssT1I	CCWWGG	1 cut(s)	715
Bst2BI	CACGAG	1 cut(s)	204
Bst2UI	CCWGG	4 cut(s)	44, 64, 491, 666
Bst4CI	ACNGT	2 cut(s)	899, 941
Bst6I	CTCTTC	1 cut(s)	745
BstAPI	GCANNNNNTGC	1 cut(s)	17
BstBAI	YACGTR	2 cut(s)	249, 638
BstC8I	GCNNGC	6 cut(s)	194, 198, 501, 521, 828, 930
BstDEI	CTNAG	3 cut(s)	293, 645, 672
BstDSI	CCRYGG	1 cut(s)	715
BstF5I	GGATG	1 cut(s)	273
BstFNI	CGCG	1 cut(s)	105
BstHHI	GCGC	1 cut(s)	107
BstKTI	GATC	4 cut(s)	79, 343, 496, 806
BstMAI	GTCTC	2 cut(s)	548, 641
BstMBI	GATC	4 cut(s)	76, 340, 493, 803
BstMCI	CGRYCG	1 cut(s)	143
BstMWI	GCNNNNNNNGC	3 cut(s)	17, 65, 863
BstNI	CCWGG	4 cut(s)	44, 64, 491, 666
BstNSI	RCATGY	5 cut(s)	72, 196, 503, 523, 887
BstSCI	CCNGG	5 cut(s)	42, 62, 489, 664, 932
BstSFI	CTRYAG	1 cut(s)	912
BstSNI	TACGTA	1 cut(s)	249
BstUI	CGCG	1 cut(s)	105
BstV1I	GCAGC	6 cut(s)	43, 46, 250, 515, 535, 835
BstX2I	RGATCY	2 cut(s)	493, 803
BstYI	RGATCY	2 cut(s)	493, 803
BstZI	CGGCCG	1 cut(s)	140
Bsu15I	ATCGAT	1 cut(s)	690
BsuI	GTATCC	2 cut(s)	478, 596
BsuRI	GGCC	3 cut(s)	99, 142, 932
BsuTUI	ATCGAT	1 cut(s)	690
BtgI	CCRYGG	1 cut(s)	715
BtsCI	GGATG	1 cut(s)	273
BtsI	GCAGTG	1 cut(s)	883
BtsIMutI	CAGTG	4 cut(s)	706, 874, 883, 904
BveI	ACCTGC	1 cut(s)	25
Cac8I	GCNNGC	6 cut(s)	194, 198, 501, 521, 828, 930
CaiI	CAGNNNCTG	1 cut(s)	496
CfoI	GCGC	1 cut(s)	107
Cfr10I	RCCGGY	1 cut(s)	169
Cfr13I	GGNCC	2 cut(s)	422, 696
ClaI	ATCGAT	1 cut(s)	690
Csp6I	GTAC	3 cut(s)	158, 250, 861
CviAII	CATG	7 cut(s)	69, 193, 500, 520, 716, 815, 884
CviQI	GTAC	3 cut(s)	158, 250, 861
DdeI	CTNAG	3 cut(s)	293, 645, 672
DpnI	GATC	4 cut(s)	78, 342, 495, 805
DpnII	GATC	4 cut(s)	76, 340, 493, 803
EaeI	YGGCCR	3 cut(s)	97, 140, 930
EagI	CGGCCG	1 cut(s)	140
Eam1104I	CTCTTC	1 cut(s)	745
EarI	CTCTTC	1 cut(s)	745
EclXI	CGGCCG	1 cut(s)	140
Eco105I	TACGTA	1 cut(s)	249
Eco130I	CCWWGG	1 cut(s)	715
Eco31I	GGTCTC	2 cut(s)	548, 641
Eco47I	GGWCC	2 cut(s)	422, 696
Eco52I	CGGCCG	1 cut(s)	140
EcoO109I	RGGNCCY	1 cut(s)	422
EcoRII	CCWGG	4 cut(s)	42, 62, 489, 664
EcoT14I	CCWWGG	1 cut(s)	715
ErhI	CCWWGG	1 cut(s)	715
FaeI	CATG	7 cut(s)	72, 196, 503, 523, 719, 818, 887
FalI	AAGNNNNNCTT	2 cut(s)	436, 468
FaqI	GGGAC	1 cut(s)	950
FatI	CATG	7 cut(s)	68, 192, 499, 519, 715, 814, 883
FauNDI	CATATG	3 cut(s)	147, 226, 924
Fnu4HI	GCNGC	9 cut(s)	57, 60, 100, 103, 143, 239, 504, 524, 824
FokI	GGATG	1 cut(s)	280
Fsp4HI	GCNGC	9 cut(s)	57, 60, 100, 103, 143, 239, 504, 524, 824
FspBI	CTAG	1 cut(s)	819
GlaI	GCGC	1 cut(s)	106
GluI	GCNGC	9 cut(s)	57, 60, 100, 103, 143, 239, 504, 524, 824
GsuI	CTGGAG	1 cut(s)	69
HaeIII	GGCC	3 cut(s)	99, 142, 932
HapII	CCGG	4 cut(s)	50, 130, 170, 933
HhaI	GCGC	1 cut(s)	107
Hin1II	CATG	7 cut(s)	72, 196, 503, 523, 719, 818, 887
Hin6I	GCGC	1 cut(s)	105
HinP1I	GCGC	1 cut(s)	105
HindIII	AAGCTT	2 cut(s)	410, 450
HinfI	GANTC	3 cut(s)	632, 770, 908
HpaII	CCGG	4 cut(s)	50, 130, 170, 933
HphI	GGTGA	2 cut(s)	491, 593
Hpy166II	GTNNAC	1 cut(s)	881
Hpy188I	TCNGA	4 cut(s)	221, 673, 769, 835
Hpy188III	TCNNGA	1 cut(s)	801
Hpy8I	GTNNAC	1 cut(s)	881
HpyAV	CCTTC	1 cut(s)	741
HpyCH4III	ACNGT	2 cut(s)	899, 941
HpyCH4IV	ACGT	3 cut(s)	248, 637, 947
HpyCH4V	TGCA	6 cut(s)	196, 499, 503, 523, 980, 996
HpyF10VI	GCNNNNNNNGC	3 cut(s)	17, 65, 863
HpyF3I	CTNAG	3 cut(s)	293, 645, 672
HpySE526I	ACGT	3 cut(s)	248, 637, 947
Hsp92II	CATG	7 cut(s)	72, 196, 503, 523, 719, 818, 887
HspAI	GCGC	1 cut(s)	105
Kzo9I	GATC	4 cut(s)	76, 340, 493, 803
LguI	GCTCTTC	1 cut(s)	745
LmnI	GCTCC	3 cut(s)	46, 205, 221
Lsp1109I	GCAGC	6 cut(s)	43, 46, 250, 515, 535, 835
LweI	GCATC	1 cut(s)	839
MaeI	CTAG	1 cut(s)	819
MaeII	ACGT	3 cut(s)	248, 637, 947
MaeIII	GTNAC	1 cut(s)	34
MalI	GATC	4 cut(s)	78, 342, 495, 805
MboI	GATC	4 cut(s)	76, 340, 493, 803
MboII	GAAGA	2 cut(s)	623, 732
MflI	RGATCY	2 cut(s)	493, 803
MluCI	AATT	5 cut(s)	109, 253, 344, 471, 535
MlyI	GAGTC	1 cut(s)	902
MmeI	TCCRAC	3 cut(s)	104, 199, 420
MspA1I	CMGCKG	1 cut(s)	826
MspI	CCGG	4 cut(s)	50, 130, 170, 933
MspR9I	CCNGG	5 cut(s)	44, 64, 491, 666, 934
MvaI	CCWGG	4 cut(s)	44, 64, 491, 666
MvnI	CGCG	1 cut(s)	105
MwoI	GCNNNNNNNGC	3 cut(s)	17, 65, 863
NciI	CCSGG	1 cut(s)	934
NcoI	CCATGG	1 cut(s)	715
NdeI	CATATG	3 cut(s)	147, 226, 924
NdeII	GATC	4 cut(s)	76, 340, 493, 803
NlaIII	CATG	7 cut(s)	72, 196, 503, 523, 719, 818, 887
NlaIV	GGNNCC	4 cut(s)	48, 134, 729, 1006
NmeAIII	GCCGAG	1 cut(s)	118
NmuCI	GTSAC	1 cut(s)	34
NspI	RCATGY	5 cut(s)	72, 196, 503, 523, 887
PaeI	GCATGC	3 cut(s)	196, 503, 523
PciI	ACATGT	1 cut(s)	883
PciSI	GCTCTTC	1 cut(s)	745
PfeI	GAWTC	2 cut(s)	632, 770
PflMI	CCANNNNNTGG	1 cut(s)	185
PfoI	TCCNGGA	1 cut(s)	42
PkrI	GCNGC	9 cut(s)	58, 61, 101, 104, 144, 240, 505, 525, 825
PleI	GAGTC	1 cut(s)	902
PpsI	GAGTC	1 cut(s)	902
Ppu21I	YACGTR	2 cut(s)	249, 638
PpuMI	RGGWCCY	1 cut(s)	422
PscI	ACATGT	1 cut(s)	883
Psp5II	RGGWCCY	1 cut(s)	422
Psp6I	CCWGG	4 cut(s)	42, 62, 489, 664
PspGI	CCWGG	4 cut(s)	42, 62, 489, 664
PspN4I	GGNNCC	4 cut(s)	48, 134, 729, 1006
PspPI	GGNCC	2 cut(s)	422, 696
PspPPI	RGGWCCY	1 cut(s)	422
PstNI	CAGNNNCTG	1 cut(s)	496
PsuI	RGATCY	2 cut(s)	493, 803
PvuII	CAGCTG	1 cut(s)	826
RsaI	GTAC	3 cut(s)	159, 251, 862
RsaNI	GTAC	3 cut(s)	158, 250, 861
SapI	GCTCTTC	1 cut(s)	745
SatI	GCNGC	9 cut(s)	57, 60, 100, 103, 143, 239, 504, 524, 824
Sau3AI	GATC	4 cut(s)	76, 340, 493, 803
Sau96I	GGNCC	2 cut(s)	422, 696
SchI	GAGTC	1 cut(s)	902
ScrFI	CCNGG	5 cut(s)	44, 64, 491, 666, 934
SfaNI	GCATC	1 cut(s)	839
SfcI	CTRYAG	1 cut(s)	912
SinI	GGWCC	2 cut(s)	422, 696
SmlI	CTYRAG	1 cut(s)	413
SmoI	CTYRAG	1 cut(s)	413
SnaBI	TACGTA	1 cut(s)	249
SphI	GCATGC	3 cut(s)	196, 503, 523
Sse9I	AATT	5 cut(s)	109, 253, 344, 471, 535
SsiI	CCGC	3 cut(s)	100, 103, 143
SspMI	CTAG	1 cut(s)	819
StyD4I	CCNGG	5 cut(s)	42, 62, 489, 664, 932
StyI	CCWWGG	1 cut(s)	715
TaaI	ACNGT	2 cut(s)	899, 941
TaiI	ACGT	3 cut(s)	251, 640, 950
TaqI	TCGA	1 cut(s)	690
TasI	AATT	5 cut(s)	109, 253, 344, 471, 535
TatI	WGTACW	1 cut(s)	860
TauI	GCSGC	3 cut(s)	102, 105, 145
TfiI	GAWTC	2 cut(s)	632, 770
TscAI	CASTG	4 cut(s)	706, 874, 883, 904
TseFI	GTSAC	1 cut(s)	34
TseI	GCWGC	6 cut(s)	56, 59, 238, 503, 523, 823
Tsp45I	GTSAC	1 cut(s)	34
TspDTI	ATGAA	4 cut(s)	372, 546, 624, 732
TspRI	CASTG	4 cut(s)	706, 874, 883, 904
Van91I	CCANNNNNTGG	1 cut(s)	185
VpaK11BI	GGWCC	2 cut(s)	422, 696
XapI	RAATTY	1 cut(s)	535
XceI	RCATGY	5 cut(s)	72, 196, 503, 523, 887
XcmI	CCANNNNNNNNNTGG	1 cut(s)	28
XspI	CTAG	1 cut(s)	819

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