Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0003420

Physical Location & Seq

Genomic Coordinates Forward (+)

61729462 .. 61731735

Gene Structure 2274 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010011

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGGGAAGTAGATACGGTGAGTACACATATGAGAACCTGGAGAGGGAACCATACTGGCCTTCTGAGAAGCTTCGGATTTCTGTAACTGGGGCTGGTGGTTTCATTGCTTCACATATTGCCAGGCGACTGAAGAGTGAGGGTCATTACATTATTGCTTCCGACTGGAAGAAAAATGAGCACATACCGAGGACATGTTCTGTTACTGCTTGTGTGAACCATGTTTTCAACCTTGCTGCTAATATGGGAGGTATGGGGTTCATTCAGTCCAACCATTCCGTCATTATGTATAACAATACAATGATCAGCTTTAATATGCTTGAGGCAACAAGGATCAATGGAGCTAAGAGGTTCTTTTATGCCTCTAGTGCTTGCATTTACCCTGAATTTAAACAGTTGGATACTAATGTGAGCTTGAAGGAGTCTGATGCTTGGCCTGCAGAGCCTCAAGACGCCTATGGCTTGGAGAAGCTCATGACTGAAGAATTATACAAGCACTTTAATAAGGATTTCAGTATTGAATGTCGGATTGGACGGTTTCACAACATTTATGGACCCTTGGGCACTTGGAAAGAGAAGGCCCCTGCTGCATTTTGTAGAAAAACCCTTACTTCCACTGATAGGTTTGAGATGTGGGGAAACGGGCTACAGACTCAGTCTTTCGCCTTCATTGATGAATGTGTAGAAGGTGTCCTGAGATTGACAAAGTCTGACTTCCGGGATCCGGTAAATATTGGAAGTGATGAGATGATTAGCATGAATGAGATGGCTGAAATGGTCCTAAGCATTAAAAACAAGAAGCTTCCCATCCACCATATTCCTGGCCCTGAGGGTGTTCGTGGTCGAAGCTCAGACAACACTTTGATTAAGGAGAAGCTTGGATGGGCTCCTACTATGAAATTGAAGGACGGGCTGAGGATAACATACTTTTGGATAAAGGAACAACTTGAGAAAGAGGAGGCTCAGGGAATTAAAGTGTCAGGTTATGGCATATCAAAAGTAGTAGGAACACAAGCACCAGTTCAACTCGGCTCTCTTCGAGCTGCTGTTGGGAAAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00053 ko00520 ko01100 ko01110 map00053 map00520 map01100 map01110

Pfam Domains

Protein Families

Epimerase

Protein Analysis

353

Amino Acids

39.77

Weight (kDa)

8.38

Isoelectric Point (pI)

39.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	26 - 245	4.2e-32	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	71 - 306	1e-17	GDP-mannose 4,6 dehydratase

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003420)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28840 AT5G28840
fragaria_vesca	FvH4_6g02980
malus_domestica	MD04G1224100.v1.1 MD04G1224200.v1.1 MD12G1240900.v1.1
prunus_persica	Prupe.1G025100_v2.0.a1 Prupe.1G025100_v2.0.a1 Prupe.6G342800_v2.0.a1
pyrus_communis	pycom04g19750
rosa_chinensis	RchiOBHm_Chr3g0451161 RchiOBHm_Chr4g0388911
rosa_laevigata	RLG00000010008 RLG00000010011 RLG00000025681 RLG00000025682
rosa_multiflora	Rmu_co8299443.1_g000001 Rmu_sc0005486.1_g000010 Rmu_ssc0000028.1_g000003
rosa_roxburghii	Rroxscaffold_5G00335220 Rroxscaffold_6G00428630
rosa_rugosa	Rorug02G0632400 Rorug02G0632500 Rorug03G0321000 Rorug03G0321000 Rorug03G0321100
rosa_samantha	Rh3AG034900 Rh3BG035300 Rh3CG033800 Rh3CG033900 Rh3DG034900 Rh4BG018800 Rh4CG028600 Rh4DG019300
rosa_wichuraiana	Rw3G002560 Rw4G001840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	338, 713, 726
AcsI	RAATTY	1 cut(s)	383
AcuI	CTGAAG	2 cut(s)	149, 498
AcyI	GRCGYC	1 cut(s)	450
AfaI	GTAC	1 cut(s)	23
AfiI	CCNNNNNNNGG	3 cut(s)	43, 618, 721
AflIII	ACRYGT	1 cut(s)	191
AgsI	TTSAA	5 cut(s)	226, 415, 518, 901, 1022
AjnI	CCWGG	3 cut(s)	36, 119, 817
AjuI	GAANNNNNNNTTGG	2 cut(s)	510, 542
AluBI	AGCT	9 cut(s)	70, 306, 341, 411, 469, 799, 846, 874, 1040
AluI	AGCT	9 cut(s)	70, 306, 341, 411, 469, 799, 846, 874, 1040
Alw21I	GWGCWC	1 cut(s)	180
AlwI	GGATC	3 cut(s)	338, 713, 726
AoxI	GGCC	4 cut(s)	56, 431, 576, 820
ApeKI	GCWGC	3 cut(s)	233, 584, 1040
ApoI	RAATTY	1 cut(s)	383
AspS9I	GGNCC	4 cut(s)	551, 577, 775, 821
AsuC2I	CCSGG	1 cut(s)	716
AsuHPI	GGTGA	1 cut(s)	29
AvaII	GGWCC	2 cut(s)	551, 775
AxyI	CCTNAGG	1 cut(s)	825
BaeGI	GKGCMC	1 cut(s)	563
BaeI	ACNNNNGTAYC	2 cut(s)	390, 423
BamHI	GGATCC	1 cut(s)	718
BanII	GRGCYC	1 cut(s)	886
Bbv12I	GWGCWC	1 cut(s)	180
BbvCI	CCTCAGC	1 cut(s)	911
BbvI	GCAGC	3 cut(s)	220, 571, 1027
BccI	CCATC	3 cut(s)	757, 812, 873
BciT130I	CCWGG	3 cut(s)	38, 121, 819
BciVI	GTATCC	1 cut(s)	391
BclI	TGATCA	1 cut(s)	300
BcnI	CCSGG	1 cut(s)	716
BfaI	CTAG	1 cut(s)	363
BfmI	CTRYAG	2 cut(s)	435, 644
BfuI	GTATCC	1 cut(s)	391
BisI	GCNGC	3 cut(s)	234, 585, 1041
BlsI	GCNGC	3 cut(s)	235, 586, 1042
Bme1390I	CCNGG	4 cut(s)	38, 121, 716, 819
Bme18I	GGWCC	2 cut(s)	551, 775
BmgT120I	GGNCC	4 cut(s)	551, 577, 775, 821
BmiI	GGNNCC	5 cut(s)	48, 553, 579, 720, 885
BmrFI	CCNGG	4 cut(s)	38, 121, 716, 819
BmrI	ACTGGG	1 cut(s)	96
BmsI	GCATC	1 cut(s)	415
BmuI	ACTGGG	1 cut(s)	96
BpmI	CTGGAG	1 cut(s)	59
Bpu10I	CCTNAGC	3 cut(s)	779, 911, 960
BpuEI	CTTGAG	3 cut(s)	338, 429, 965
BpuMI	CCSGG	1 cut(s)	716
BsaHI	GRCGYC	1 cut(s)	450
BsaJI	CCNNGG	2 cut(s)	185, 555
BsaWI	WCCGGW	1 cut(s)	721
Bsc4I	CCNNNNNNNGG	3 cut(s)	43, 618, 721
Bse1I	ACTGG	4 cut(s)	59, 91, 167, 1016
Bse21I	CCTNAGG	1 cut(s)	825
Bse3DI	GCAATG	1 cut(s)	102
BseBI	CCWGG	3 cut(s)	38, 121, 819
BseDI	CCNNGG	2 cut(s)	185, 555
BseGI	GGATG	2 cut(s)	804, 884
BseLI	CCNNNNNNNGG	3 cut(s)	43, 618, 721
BseMI	GCAATG	1 cut(s)	102
BseMII	CTCAG	7 cut(s)	54, 665, 683, 816, 861, 902, 974
BseNI	ACTGG	4 cut(s)	59, 91, 167, 1016
BseRI	GAGGAG	1 cut(s)	968
BseSI	GKGCMC	1 cut(s)	563
BseXI	GCAGC	3 cut(s)	220, 571, 1027
BshFI	GGCC	4 cut(s)	58, 433, 578, 822
BsiHKAI	GWGCWC	1 cut(s)	180
BsiSI	CCGG	2 cut(s)	715, 722
BslI	CCNNNNNNNGG	3 cut(s)	43, 618, 721
BsnI	GGCC	4 cut(s)	58, 433, 578, 822
Bsp1286I	GDGCHC	3 cut(s)	180, 563, 886
Bsp143I	GATC	3 cut(s)	300, 330, 718
BspANI	GGCC	4 cut(s)	58, 433, 578, 822
BspCNI	CTCAG	7 cut(s)	55, 664, 684, 817, 860, 903, 973
BspHI	TCATGA	1 cut(s)	471
BspLI	GGNNCC	5 cut(s)	48, 553, 579, 720, 885
BspMAI	CTGCAG	1 cut(s)	439
BspPI	GGATC	3 cut(s)	338, 713, 726
BsrDI	GCAATG	1 cut(s)	102
BsrI	ACTGG	4 cut(s)	59, 91, 167, 1016
BssECI	CCNNGG	2 cut(s)	185, 555
BssMI	GATC	3 cut(s)	300, 330, 718
BssNI	GRCGYC	1 cut(s)	450
BssT1I	CCWWGG	1 cut(s)	555
Bst2UI	CCWGG	3 cut(s)	38, 121, 819
Bst4CI	ACNGT	3 cut(s)	17, 393, 534
Bst6I	CTCTTC	2 cut(s)	125, 1038
BstACI	GRCGYC	1 cut(s)	450
BstC8I	GCNNGC	2 cut(s)	370, 435
BstDEI	CTNAG	9 cut(s)	63, 342, 651, 692, 779, 825, 847, 911, 960
BstF5I	GGATG	2 cut(s)	804, 884
BstKTI	GATC	3 cut(s)	303, 333, 721
BstMBI	GATC	3 cut(s)	300, 330, 718
BstMWI	GCNNNNNNNGC	4 cut(s)	365, 434, 439, 584
BstNI	CCWGG	3 cut(s)	38, 121, 819
BstNSI	RCATGY	1 cut(s)	195
BstSCI	CCNGG	4 cut(s)	36, 119, 714, 817
BstSFI	CTRYAG	2 cut(s)	435, 644
BstSLI	GKGCMC	1 cut(s)	563
BstV1I	GCAGC	3 cut(s)	220, 571, 1027
BstX2I	RGATCY	1 cut(s)	718
BstXI	CCANNNNNNTGG	1 cut(s)	818
BstYI	RGATCY	1 cut(s)	718
Bsu36I	CCTNAGG	1 cut(s)	825
BsuI	GTATCC	1 cut(s)	391
BsuRI	GGCC	4 cut(s)	58, 433, 578, 822
BtsCI	GGATG	2 cut(s)	804, 884
BtsIMutI	CAGTG	1 cut(s)	612
Cac8I	GCNNGC	2 cut(s)	370, 435
CciI	TCATGA	1 cut(s)	471
Cfr13I	GGNCC	4 cut(s)	551, 577, 775, 821
CseI	GACGC	1 cut(s)	458
Csp6I	GTAC	1 cut(s)	22
CviAII	CATG	4 cut(s)	192, 218, 472, 754
CviQI	GTAC	1 cut(s)	22
DdeI	CTNAG	9 cut(s)	63, 342, 651, 692, 779, 825, 847, 911, 960
DpnI	GATC	3 cut(s)	302, 332, 720
DpnII	GATC	3 cut(s)	300, 330, 718
DraI	TTTAAA	1 cut(s)	388
Eam1104I	CTCTTC	2 cut(s)	125, 1038
EarI	CTCTTC	2 cut(s)	125, 1038
Eco130I	CCWWGG	1 cut(s)	555
Eco24I	GRGCYC	1 cut(s)	886
Eco47I	GGWCC	2 cut(s)	551, 775
Eco57I	CTGAAG	2 cut(s)	149, 498
Eco81I	CCTNAGG	1 cut(s)	825
EcoO109I	RGGNCCY	1 cut(s)	577
EcoRII	CCWGG	3 cut(s)	36, 119, 817
EcoT14I	CCWWGG	1 cut(s)	555
EcoT38I	GRGCYC	1 cut(s)	886
ErhI	CCWWGG	1 cut(s)	555
FaeI	CATG	4 cut(s)	195, 221, 475, 757
FalI	AAGNNNNNCTT	4 cut(s)	335, 367, 695, 727
FatI	CATG	4 cut(s)	191, 217, 471, 753
FauNDI	CATATG	1 cut(s)	28
FbaI	TGATCA	1 cut(s)	300
Fnu4HI	GCNGC	3 cut(s)	234, 585, 1041
FokI	GGATG	2 cut(s)	791, 891
FriOI	GRGCYC	1 cut(s)	886
Fsp4HI	GCNGC	3 cut(s)	234, 585, 1041
FspBI	CTAG	1 cut(s)	363
GluI	GCNGC	3 cut(s)	234, 585, 1041
GsuI	CTGGAG	1 cut(s)	59
HaeIII	GGCC	4 cut(s)	58, 433, 578, 822
HapII	CCGG	2 cut(s)	715, 722
HgaI	GACGC	1 cut(s)	458
Hin1I	GRCGYC	1 cut(s)	450
Hin1II	CATG	4 cut(s)	195, 221, 475, 757
HindIII	AAGCTT	3 cut(s)	68, 797, 872
HinfI	GANTC	2 cut(s)	419, 649
HpaII	CCGG	2 cut(s)	715, 722
HphI	GGTGA	1 cut(s)	29
Hpy166II	GTNNAC	2 cut(s)	24, 214
Hpy188I	TCNGA	7 cut(s)	64, 75, 160, 424, 525, 709, 850
Hpy188III	TCNNGA	3 cut(s)	446, 472, 691
Hpy8I	GTNNAC	2 cut(s)	24, 214
HpyAV	CCTTC	6 cut(s)	69, 409, 568, 673, 677, 895
HpyCH4III	ACNGT	3 cut(s)	17, 393, 534
HpyCH4V	TGCA	3 cut(s)	372, 437, 587
HpyF10VI	GCNNNNNNNGC	4 cut(s)	365, 434, 439, 584
HpyF3I	CTNAG	9 cut(s)	63, 342, 651, 692, 779, 825, 847, 911, 960
Hsp92I	GRCGYC	1 cut(s)	450
Hsp92II	CATG	4 cut(s)	195, 221, 475, 757
Ksp22I	TGATCA	1 cut(s)	300
Kzo9I	GATC	3 cut(s)	300, 330, 718
LmnI	GCTCC	2 cut(s)	338, 889
Lsp1109I	GCAGC	3 cut(s)	220, 571, 1027
LweI	GCATC	1 cut(s)	415
MaeI	CTAG	1 cut(s)	363
MaeIII	GTNAC	2 cut(s)	82, 199
MalI	GATC	3 cut(s)	302, 332, 720
MboI	GATC	3 cut(s)	300, 330, 718
MboII	GAAGA	4 cut(s)	142, 178, 491, 1025
MflI	RGATCY	1 cut(s)	718
MhlI	GDGCHC	3 cut(s)	180, 563, 886
MluCI	AATT	4 cut(s)	383, 482, 896, 966
MlyI	GAGTC	2 cut(s)	428, 643
MmeI	TCCRAC	4 cut(s)	183, 291, 375, 503
MseI	TTAA	6 cut(s)	309, 387, 498, 786, 864, 969
MspI	CCGG	2 cut(s)	715, 722
MspR9I	CCNGG	4 cut(s)	38, 121, 716, 819
MvaI	CCWGG	3 cut(s)	38, 121, 819
MwoI	GCNNNNNNNGC	4 cut(s)	365, 434, 439, 584
NciI	CCSGG	1 cut(s)	716
NdeI	CATATG	1 cut(s)	28
NdeII	GATC	3 cut(s)	300, 330, 718
NlaIII	CATG	4 cut(s)	195, 221, 475, 757
NlaIV	GGNNCC	5 cut(s)	48, 553, 579, 720, 885
NmeAIII	GCCGAG	1 cut(s)	1005
NspI	RCATGY	1 cut(s)	195
PagI	TCATGA	1 cut(s)	471
PciI	ACATGT	1 cut(s)	191
PflFI	GACNNNGTC	2 cut(s)	652, 703
PfoI	TCCNGGA	1 cut(s)	714
PkrI	GCNGC	3 cut(s)	235, 586, 1042
PleI	GAGTC	2 cut(s)	427, 643
PpsI	GAGTC	2 cut(s)	427, 643
PscI	ACATGT	1 cut(s)	191
Psp6I	CCWGG	3 cut(s)	36, 119, 817
PspGI	CCWGG	3 cut(s)	36, 119, 817
PspN4I	GGNNCC	5 cut(s)	48, 553, 579, 720, 885
PspPI	GGNCC	4 cut(s)	551, 577, 775, 821
PstI	CTGCAG	1 cut(s)	439
PsuI	RGATCY	1 cut(s)	718
PsyI	GACNNNGTC	2 cut(s)	652, 703
RsaI	GTAC	1 cut(s)	23
RsaNI	GTAC	1 cut(s)	22
SaqAI	TTAA	6 cut(s)	309, 387, 498, 786, 864, 969
SatI	GCNGC	3 cut(s)	234, 585, 1041
Sau3AI	GATC	3 cut(s)	300, 330, 718
Sau96I	GGNCC	4 cut(s)	551, 577, 775, 821
SchI	GAGTC	2 cut(s)	428, 643
ScrFI	CCNGG	4 cut(s)	38, 121, 716, 819
SduI	GDGCHC	3 cut(s)	180, 563, 886
SfaNI	GCATC	1 cut(s)	415
SfcI	CTRYAG	2 cut(s)	435, 644
SinI	GGWCC	2 cut(s)	551, 775
SmlI	CTYRAG	3 cut(s)	317, 444, 944
SmoI	CTYRAG	3 cut(s)	317, 444, 944
Sse9I	AATT	4 cut(s)	383, 482, 896, 966
SspI	AATATT	1 cut(s)	730
SspMI	CTAG	1 cut(s)	363
StyD4I	CCNGG	4 cut(s)	36, 119, 714, 817
StyI	CCWWGG	1 cut(s)	555
TaaI	ACNGT	3 cut(s)	17, 393, 534
TaqI	TCGA	2 cut(s)	841, 1036
TasI	AATT	4 cut(s)	383, 482, 896, 966
TatI	WGTACW	1 cut(s)	21
Tru1I	TTAA	6 cut(s)	309, 387, 498, 786, 864, 969
Tru9I	TTAA	6 cut(s)	309, 387, 498, 786, 864, 969
TscAI	CASTG	1 cut(s)	619
TseI	GCWGC	3 cut(s)	233, 584, 1040
TspDTI	ATGAA	6 cut(s)	91, 247, 655, 687, 770, 908
TspGWI	ACGGA	1 cut(s)	265
TspRI	CASTG	1 cut(s)	619
Tth111I	GACNNNGTC	2 cut(s)	652, 703
VpaK11BI	GGWCC	2 cut(s)	551, 775
XapI	RAATTY	1 cut(s)	383
XceI	RCATGY	1 cut(s)	195
XcmI	CCANNNNNNNNNTGG	1 cut(s)	815
XspI	CTAG	1 cut(s)	363

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