Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0004365

Physical Location & Seq

Genomic Coordinates Reverse (-)

18355623 .. 18360899

Gene Structure 5277 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00396820.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1215 bp

ATGCCCCCAAGTATCTCCATTGGTTATTTTCTGGTAGACATAGCAATGATTTTTTTTGGCATTTTCCTCGCTTTAGATGGACTGGAGTACTTGGATATTGCCGGTAAGAAGAACTCTAAGCTGTACGTCCGCAATGGTGTAGCATTGTTCCCTGGGTGGCTGTGTGATTATGATCGTCCGCAATTATCAACTAGTCCATTTCTAGAGAGGAATATGGAATTTCTTATTGAGTGCATGGATGATTTGTCAATGGAACAGCAGAAGCTGATTCTGAAGCATGGTGCTGCTGCTAGTGCCATAAAGATTACGCAGATGGACCAAGTAAGAATTGATCCGTGCATTGCAATCCCCATTTTCCAGAAAACAGTCCTTATATTTTCAAAAAGTAATACTTATCATTACAAGTATACATTCTCAGTTGAAATCTCCCCCATTTTCCGTGAGGATTTGATCTGTCTGCCACCCATGGTTAGACTTAGATCTAGTTTTGGGAATCCTGGTCCTCTAGTGATTTGCACAAAAGTGACAAACAGCATTGCTTTGCTTGATCCTTTGACTTTGAGGCATTGTTACTTGGATGCTGATCAATATTGGAGGTCAACCTTTAAGTCTCTACATACGAGCCCGGAGTTAGTGGAGTTTATAGTGCTCGATGTAGAGATGGTTTCATCCGAAGTTAATGTTGGTGGCACAAGGTATGCTTTAGCTGACGCACAAGTTGCCCGTGTGTCTGATTTTGGGAAGAATGACACTATTTTCAACATAAAAACACAAATAGGCTATATTTTAAACCCTGGGGATTATGCTCTTGGTTATGATTTATATGGGGCAAACAGTAATGACGAGGAACTAGTCATTCCAGATGTAATTTTGATAAAGAAGAGCTATGAAGAAAAGCGCCGGAAGAAGCGTGCAAAGCCTCGTGCATGGAAGCTTAAATCCCTAGCCATGGAAGTGGATGCTAAAGGTAGAGGCGTGCTAGAAAAGGAGGCCTCAGAGTATGAACAGTTCTTGAAAGATCTGGAAGAGAATCCTGACATCAGGTTCAATATTGATTTGTACCGTGATGGAGGATACCAGCCATCCGAGATGGCATCTGTGACTGATGGGGAAGATGCACCTTCTGTGCCCTTTGATGAGTTGCTTGCCGACATGGATAACCTCCAATTAAGAGAGTATGAAGATGATGAGGACAGTGGCAGCATGAGGGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03008 ko03013 map03008 map03013

Pfam Domains

Protein Families

NMD3

Protein Analysis

404

Amino Acids

45.87

Weight (kDa)

4.77

Isoelectric Point (pI)

39.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NMD_SH3	PF21193	147 - 193	2.1e-12	NMD3 SH3 domain
OB_NMD3	PF21192	211 - 294	1.3e-24	NMD3 OB-fold 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

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

Orthologous Genes (Group: OG0004365)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G03820
fragaria_vesca	FvH4_1g26190 FvH4_1g26190 FvH4_4g00390 FvH4_4g00390
prunus_persica	Prupe.4G217800_v2.0.a1 Prupe.4G217800_v2.0.a1 Prupe.4G273200_v2.0.a1
pyrus_communis	pycom04g00430
rosa_chinensis	RchiOBHm_Chr3g0485681 RchiOBHm_Chr3g0485701 RchiOBHm_Chr4g0385341
rosa_laevigata	RLG00000010236 RLG00000023132
rosa_multiflora	Rmu_sc0001259.1_g000008 Rmu_sc0003005.1_g000028
rosa_roxburghii	Rroxscaffold_5G00333270 Rroxscaffold_6G00396510 Rroxscaffold_6G00396820 Rroxscaffold_6G00396840
rosa_rugosa	Rorug03G0220700 Rorug03G0300500
rosa_samantha	Rh3AG269900 Rh3BG305700 Rh3CG303800 Rh3DG300100 Rh4AG004200 Rh4BG003600 Rh4CG005300 Rh4DG003800
rosa_wichuraiana	Rw3G024040 Rw4G000480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	36, 407
AciI	CCGC	2 cut(s)	130, 179
AclWI	GGATC	2 cut(s)	326, 542
AcsI	RAATTY	1 cut(s)	218
AcuI	CTGAAG	1 cut(s)	293
AfaI	GTAC	3 cut(s)	89, 125, 1061
AfiI	CCNNNNNNNGG	1 cut(s)	949
AgsI	TTSAA	5 cut(s)	381, 422, 760, 1015, 1048
AhlI	ACTAGT	2 cut(s)	191, 850
AjnI	CCWGG	3 cut(s)	151, 496, 793
AjuI	GAANNNNNNNTTGG	2 cut(s)	666, 698
AleI	CACNNNNGTG	1 cut(s)	521
AluBI	AGCT	5 cut(s)	121, 265, 707, 885, 934
AluI	AGCT	5 cut(s)	121, 265, 707, 885, 934
Alw21I	GWGCWC	1 cut(s)	651
Alw26I	GTCTC	1 cut(s)	615
AlwI	GGATC	2 cut(s)	326, 542
AlwNI	CAGNNNCTG	1 cut(s)	265
AoxI	GGCC	1 cut(s)	990
ApeKI	GCWGC	3 cut(s)	284, 287, 1200
ApoI	RAATTY	1 cut(s)	218
AspLEI	GCGC	1 cut(s)	900
AspS9I	GGNCC	2 cut(s)	316, 500
AsuC2I	CCSGG	1 cut(s)	626
AvaII	GGWCC	2 cut(s)	316, 500
BaeGI	GKGCMC	1 cut(s)	1131
BanII	GRGCYC	1 cut(s)	626
BauI	CACGAG	1 cut(s)	921
Bbv12I	GWGCWC	1 cut(s)	651
BbvI	GCAGC	2 cut(s)	271, 274
BccI	CCATC	7 cut(s)	71, 307, 655, 1061, 1084, 1090, 1100
BcgI	CGANNNNNNTGC	2 cut(s)	49, 83
BciT130I	CCWGG	3 cut(s)	153, 498, 795
BciVI	GTATCC	1 cut(s)	1067
BclI	TGATCA	1 cut(s)	583
BcnI	CCSGG	1 cut(s)	626
BcoDI	GTCTC	1 cut(s)	615
BcuI	ACTAGT	2 cut(s)	191, 850
BfaI	CTAG	8 cut(s)	192, 203, 291, 483, 506, 851, 944, 980
BfoI	RGCGCY	1 cut(s)	901
BfuI	GTATCC	1 cut(s)	1067
BglII	AGATCT	2 cut(s)	479, 1018
BisI	GCNGC	3 cut(s)	285, 288, 1201
BlsI	GCNGC	3 cut(s)	286, 289, 1202
BmcAI	AGTACT	1 cut(s)	89
Bme1390I	CCNGG	4 cut(s)	153, 498, 626, 795
Bme18I	GGWCC	2 cut(s)	316, 500
BmgT120I	GGNCC	2 cut(s)	316, 500
BmrFI	CCNGG	4 cut(s)	153, 498, 626, 795
BmsI	GCATC	4 cut(s)	568, 949, 1103, 1105
BpmI	CTGGAG	1 cut(s)	104
BpuMI	CCSGG	1 cut(s)	626
BsaBI	GATNNNNATC	2 cut(s)	171, 582
BsaJI	CCNNGG	6 cut(s)	151, 152, 465, 793, 794, 948
Bsc4I	CCNNNNNNNGG	1 cut(s)	949
Bse118I	RCCGGY	1 cut(s)	101
Bse1I	ACTGG	1 cut(s)	87
Bse3DI	GCAATG	4 cut(s)	51, 139, 339, 534
Bse8I	GATNNNNATC	2 cut(s)	171, 582
BseBI	CCWGG	3 cut(s)	153, 498, 795
BseDI	CCNNGG	6 cut(s)	151, 152, 465, 793, 794, 948
BseGI	GGATG	5 cut(s)	244, 583, 668, 964, 1082
BseJI	GATNNNNATC	2 cut(s)	171, 582
BseLI	CCNNNNNNNGG	1 cut(s)	949
BseMI	GCAATG	4 cut(s)	51, 139, 339, 534
BseMII	CTCAG	2 cut(s)	429, 1008
BseNI	ACTGG	1 cut(s)	87
BseSI	GKGCMC	1 cut(s)	1131
BseXI	GCAGC	2 cut(s)	271, 274
BshFI	GGCC	1 cut(s)	992
BsiHKAI	GWGCWC	1 cut(s)	651
BsiSI	CCGG	3 cut(s)	102, 626, 901
BslI	CCNNNNNNNGG	1 cut(s)	949
BsmAI	GTCTC	1 cut(s)	615
BsnI	GGCC	1 cut(s)	992
Bsp1286I	GDGCHC	3 cut(s)	626, 651, 1131
Bsp143I	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
Bsp19I	CCATGG	2 cut(s)	465, 948
BspACI	CCGC	2 cut(s)	130, 179
BspANI	GGCC	1 cut(s)	992
BspCNI	CTCAG	2 cut(s)	428, 1007
BspPI	GGATC	2 cut(s)	326, 542
BspQI	GCTCTTC	1 cut(s)	875
BsrDI	GCAATG	4 cut(s)	51, 139, 339, 534
BsrFI	RCCGGY	1 cut(s)	101
BsrI	ACTGG	1 cut(s)	87
BssAI	RCCGGY	1 cut(s)	101
BssECI	CCNNGG	6 cut(s)	151, 152, 465, 793, 794, 948
BssMI	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
BssNAI	GTATAC	1 cut(s)	408
BssSI	CACGAG	1 cut(s)	921
BssT1I	CCWWGG	2 cut(s)	465, 948
Bst1107I	GTATAC	1 cut(s)	408
Bst2BI	CACGAG	1 cut(s)	921
Bst2UI	CCWGG	3 cut(s)	153, 498, 795
Bst4CI	ACNGT	5 cut(s)	367, 836, 1008, 1064, 1196
Bst6I	CTCTTC	2 cut(s)	875, 1020
BstAPI	GCANNNNNTGC	1 cut(s)	719
BstC8I	GCNNGC	3 cut(s)	912, 977, 1146
BstDEI	CTNAG	4 cut(s)	117, 415, 476, 994
BstDSI	CCRYGG	2 cut(s)	465, 948
BstF5I	GGATG	5 cut(s)	244, 583, 668, 964, 1082
BstH2I	RGCGCY	1 cut(s)	901
BstHHI	GCGC	1 cut(s)	900
BstKTI	GATC	7 cut(s)	175, 334, 453, 482, 550, 586, 1021
BstMAI	GTCTC	1 cut(s)	615
BstMBI	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
BstMWI	GCNNNNNNNGC	3 cut(s)	293, 719, 916
BstNI	CCWGG	3 cut(s)	153, 498, 795
BstSCI	CCNGG	4 cut(s)	151, 496, 624, 793
BstSLI	GKGCMC	1 cut(s)	1131
BstV1I	GCAGC	2 cut(s)	271, 274
BstX2I	RGATCY	2 cut(s)	479, 1018
BstXI	CCANNNNNNTGG	1 cut(s)	955
BstYI	RGATCY	2 cut(s)	479, 1018
BstZ17I	GTATAC	1 cut(s)	408
BsuI	GTATCC	1 cut(s)	1067
BsuRI	GGCC	1 cut(s)	992
BtgI	CCRYGG	2 cut(s)	465, 948
BtsCI	GGATG	5 cut(s)	244, 583, 668, 964, 1082
BtsIMutI	CAGTG	1 cut(s)	1201
Cac8I	GCNNGC	3 cut(s)	912, 977, 1146
CaiI	CAGNNNCTG	1 cut(s)	265
CfoI	GCGC	1 cut(s)	900
Cfr10I	RCCGGY	1 cut(s)	101
Cfr13I	GGNCC	2 cut(s)	316, 500
CseI	GACGC	1 cut(s)	719
Csp6I	GTAC	3 cut(s)	88, 124, 1060
CviAII	CATG	7 cut(s)	235, 278, 466, 927, 949, 1153, 1204
CviQI	GTAC	3 cut(s)	88, 124, 1060
DdeI	CTNAG	4 cut(s)	117, 415, 476, 994
DpnI	GATC	7 cut(s)	174, 333, 452, 481, 549, 585, 1020
DpnII	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
DraI	TTTAAA	1 cut(s)	789
Eam1104I	CTCTTC	2 cut(s)	875, 1020
EarI	CTCTTC	2 cut(s)	875, 1020
Eco130I	CCWWGG	2 cut(s)	465, 948
Eco147I	AGGCCT	1 cut(s)	992
Eco24I	GRGCYC	1 cut(s)	626
Eco47I	GGWCC	2 cut(s)	316, 500
Eco57I	CTGAAG	1 cut(s)	293
EcoRII	CCWGG	3 cut(s)	151, 496, 793
EcoT14I	CCWWGG	2 cut(s)	465, 948
EcoT38I	GRGCYC	1 cut(s)	626
ErhI	CCWWGG	2 cut(s)	465, 948
FaeI	CATG	7 cut(s)	238, 281, 469, 930, 952, 1156, 1207
FalI	AAGNNNNNCTT	4 cut(s)	376, 408, 685, 717
FatI	CATG	7 cut(s)	234, 277, 465, 926, 948, 1152, 1203
FbaI	TGATCA	1 cut(s)	583
FblI	GTMKAC	2 cut(s)	36, 407
Fnu4HI	GCNGC	3 cut(s)	285, 288, 1201
FokI	GGATG	5 cut(s)	251, 590, 655, 971, 1069
FriOI	GRGCYC	1 cut(s)	626
Fsp4HI	GCNGC	3 cut(s)	285, 288, 1201
FspBI	CTAG	8 cut(s)	192, 203, 291, 483, 506, 851, 944, 980
GlaI	GCGC	1 cut(s)	899
GluI	GCNGC	3 cut(s)	285, 288, 1201
GsuI	CTGGAG	1 cut(s)	104
HaeII	RGCGCY	1 cut(s)	901
HaeIII	GGCC	1 cut(s)	992
HapII	CCGG	3 cut(s)	102, 626, 901
HgaI	GACGC	1 cut(s)	719
HhaI	GCGC	1 cut(s)	900
Hin1II	CATG	7 cut(s)	238, 281, 469, 930, 952, 1156, 1207
Hin6I	GCGC	1 cut(s)	898
HinP1I	GCGC	1 cut(s)	898
HincII	GTYRAC	1 cut(s)	600
HindII	GTYRAC	1 cut(s)	600
HindIII	AAGCTT	1 cut(s)	932
HinfI	GANTC	3 cut(s)	268, 493, 1030
HpaII	CCGG	3 cut(s)	102, 626, 901
Hpy166II	GTNNAC	3 cut(s)	37, 408, 600
Hpy188I	TCNGA	5 cut(s)	273, 673, 733, 997, 1087
Hpy188III	TCNNGA	6 cut(s)	203, 358, 860, 1012, 1022, 1034
Hpy8I	GTNNAC	3 cut(s)	37, 408, 600
HpyAV	CCTTC	1 cut(s)	1131
HpyCH4III	ACNGT	5 cut(s)	367, 836, 1008, 1064, 1196
HpyCH4IV	ACGT	1 cut(s)	126
HpyCH4V	TGCA	7 cut(s)	234, 339, 344, 516, 914, 926, 1118
HpyF10VI	GCNNNNNNNGC	3 cut(s)	293, 719, 916
HpyF3I	CTNAG	4 cut(s)	117, 415, 476, 994
HpySE526I	ACGT	1 cut(s)	126
Hsp92II	CATG	7 cut(s)	238, 281, 469, 930, 952, 1156, 1207
HspAI	GCGC	1 cut(s)	898
Ksp22I	TGATCA	1 cut(s)	583
Kzo9I	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
LguI	GCTCTTC	1 cut(s)	875
Lsp1109I	GCAGC	2 cut(s)	271, 274
LweI	GCATC	4 cut(s)	568, 949, 1103, 1105
MaeI	CTAG	8 cut(s)	192, 203, 291, 483, 506, 851, 944, 980
MaeII	ACGT	1 cut(s)	126
MaeIII	GTNAC	3 cut(s)	523, 569, 1099
MalI	GATC	7 cut(s)	174, 333, 452, 481, 549, 585, 1020
MboI	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
MboII	GAAGA	8 cut(s)	121, 754, 892, 902, 916, 1037, 1124, 1193
MflI	RGATCY	2 cut(s)	479, 1018
MhlI	GDGCHC	3 cut(s)	626, 651, 1131
MluCI	AATT	5 cut(s)	182, 218, 327, 867, 1166
MseI	TTAA	5 cut(s)	606, 678, 788, 936, 1169
MslI	CAYNNNNRTG	3 cut(s)	44, 521, 953
MspI	CCGG	3 cut(s)	102, 626, 901
MspR9I	CCNGG	4 cut(s)	153, 498, 626, 795
MvaI	CCWGG	3 cut(s)	153, 498, 795
MwoI	GCNNNNNNNGC	3 cut(s)	293, 719, 916
NciI	CCSGG	1 cut(s)	626
NcoI	CCATGG	2 cut(s)	465, 948
NdeII	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
NlaIII	CATG	7 cut(s)	238, 281, 469, 930, 952, 1156, 1207
NmuCI	GTSAC	2 cut(s)	523, 1099
OliI	CACNNNNGTG	1 cut(s)	521
PasI	CCCWGGG	2 cut(s)	152, 794
PceI	AGGCCT	1 cut(s)	992
PciSI	GCTCTTC	1 cut(s)	875
PfeI	GAWTC	3 cut(s)	268, 493, 1030
PkrI	GCNGC	3 cut(s)	286, 289, 1202
Psp6I	CCWGG	3 cut(s)	151, 496, 793
PspGI	CCWGG	3 cut(s)	151, 496, 793
PspPI	GGNCC	2 cut(s)	316, 500
PsrI	GAACNNNNNNTAC	2 cut(s)	992, 1024
PstNI	CAGNNNCTG	1 cut(s)	265
PsuI	RGATCY	2 cut(s)	479, 1018
RsaI	GTAC	3 cut(s)	89, 125, 1061
RsaNI	GTAC	3 cut(s)	88, 124, 1060
RseI	CAYNNNNRTG	3 cut(s)	44, 521, 953
SapI	GCTCTTC	1 cut(s)	875
SaqAI	TTAA	5 cut(s)	606, 678, 788, 936, 1169
SatI	GCNGC	3 cut(s)	285, 288, 1201
Sau3AI	GATC	7 cut(s)	172, 331, 450, 479, 547, 583, 1018
Sau96I	GGNCC	2 cut(s)	316, 500
ScaI	AGTACT	1 cut(s)	89
ScrFI	CCNGG	4 cut(s)	153, 498, 626, 795
SduI	GDGCHC	3 cut(s)	626, 651, 1131
SfaNI	GCATC	4 cut(s)	568, 949, 1103, 1105
SinI	GGWCC	2 cut(s)	316, 500
SmiMI	CAYNNNNRTG	3 cut(s)	44, 521, 953
SpeI	ACTAGT	2 cut(s)	191, 850
Sse9I	AATT	5 cut(s)	182, 218, 327, 867, 1166
SseBI	AGGCCT	1 cut(s)	992
SsiI	CCGC	2 cut(s)	130, 179
SspI	AATATT	2 cut(s)	590, 1051
SspMI	CTAG	8 cut(s)	192, 203, 291, 483, 506, 851, 944, 980
StuI	AGGCCT	1 cut(s)	992
StyD4I	CCNGG	4 cut(s)	151, 496, 624, 793
StyI	CCWWGG	2 cut(s)	465, 948
TaaI	ACNGT	5 cut(s)	367, 836, 1008, 1064, 1196
TaiI	ACGT	1 cut(s)	129
TaqI	TCGA	1 cut(s)	651
TasI	AATT	5 cut(s)	182, 218, 327, 867, 1166
TatI	WGTACW	1 cut(s)	87
TfiI	GAWTC	3 cut(s)	268, 493, 1030
Tru1I	TTAA	5 cut(s)	606, 678, 788, 936, 1169
Tru9I	TTAA	5 cut(s)	606, 678, 788, 936, 1169
TscAI	CASTG	1 cut(s)	1201
TseFI	GTSAC	2 cut(s)	523, 1099
TseI	GCWGC	3 cut(s)	284, 287, 1200
Tsp45I	GTSAC	2 cut(s)	523, 1099
TspDTI	ATGAA	4 cut(s)	657, 903, 1017, 1194
TspGWI	ACGGA	2 cut(s)	324, 428
TspRI	CASTG	1 cut(s)	1201
VpaK11BI	GGWCC	2 cut(s)	316, 500
XapI	RAATTY	1 cut(s)	218
XbaI	TCTAGA	1 cut(s)	202
XmiI	GTMKAC	2 cut(s)	36, 407
XspI	CTAG	8 cut(s)	192, 203, 291, 483, 506, 851, 944, 980
ZrmI	AGTACT	1 cut(s)	89

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