Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0011411

Physical Location & Seq

Genomic Coordinates Forward (+)

3016704 .. 3020802

Gene Structure 4099 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG045700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1320 bp

ATGCTTCTGTTGTTTGAAAACCCTGGAGGGTTTATGCTCTTCAAAGTTTTGAAAGATGATGGCAAGTTCACAAAAGCTGAGGCGCAGGACATAGCGAAGGAATTTGCAACTGGAGAGTCAGCAAGAAAGGTTGTAAAACTGAAAGCTTTCTCCAAGTTTGAGAATATGTCAGAAGCTTTGGAGGCAGCAACGATGTTGATCGAGAGTAAAACCACAAAAGATCTGCGCAAGTTCTTGAAAAAGCACTGCGAGGGTGAAATTCTGGGTGTTGCAGATTCAAAGCTAGGAAATATCATTAAGGAGAAACTGAAAATCGAATGTGTTCATGACAATGCTGTTATGGAGTTGATGAGAGGTGTTAGAAGTCAGTTGAATGAACTTATAACGGGTTTACAAGTTCAAGATATGGCACCAATGAGCCTGGGTTTATCTCATAGTTTATCTCGATACAAGCTCAAGTTCAGTGCCGATAAGGTTGATACAATGGTTATCCAAGCCATTGGTTTGCTTGATGATCTTGATAAAGAGCTAAATACATATGCAATGAGAGTTCGAGAATGGTACGGTTGGCATTTCCCAGAACTCGCAAAGATCGTACAGGACAATATTGCTTATGCCAAGGTAGTAAAGCTGATGGGCTTTCGTGTTAATGCTGCGAAGCTTGATTTCTCAGAGATATTATCAGATGAGGTTGAGACTGAATTGAAGGAAGCAGCTGTTATATCTATGGGAACTGAAATTAGTGACCTTGATTTGATTAACATCAAAGAACTCTGTGAACAAGTCCTTTCTCTAGCCGAGTATAGAGCCCAGCTATTTGATTATCTAAAAACAAGGATGAACACCATTGCACCAAATTTGACTGCTTTGGTTGGGGAGCTTGTTGGTGCTCGCCTAATTGCTCATGGTGGTAGCTTGGTGAACCTTGCAAAGCAGCCTGGGAGCACAATTCAGATTCTTGGTGCTGAAAAGGCTCTCTTTAGGGCACTCAAGACTAAGCATGCAACTCCAAAATATGGGCTTATCTACCATGCATCCTTGGTTGGTCAGGCAGCACCAAAGCTTAAGGGTAAAATCTCTCGGACACTTGCTAACAAAGCTGTGCTTTCAATAAGAATTGATGCTCTTAGGGAGGGAGATAGCCAAGATAACTCAGTGGGAGTGGAAAGTCGAGGCAAGGTGGAAGCACGGATAAGGAGTCTTGAAGGCAAAGCGTTGAGCCAGTCTGCTGGATCGGCTAAAGGAAAACCATTGATAGAAGCCTATGACAAGGATCGCAAGAAGGGGGCTGGAGGATTGATAACTGCTGCCAAGGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005732 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016072 GO:0022613 GO:0030515 GO:0030684 GO:0031428 GO:0031974 GO:0031981 GO:0032040 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

NOP5NT Nop

Protein Analysis

439

Amino Acids

48.2

Weight (kDa)

9.11

Isoelectric Point (pI)

26.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NOP5NT	PF08156	2 - 69	1.5e-15	NOP5NT (NUC127) domain
Nop	PF01798	169 - 399	2.7e-85	snoRNA binding domain, fibrillarin

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: OG0011411)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05060 AT5G27120
fragaria_vesca	FvH4_6g04090 FvH4_6g04090
malus_domestica	MD04G1216600.v1.1 MD12G1233200.v1.1
prunus_persica	Prupe.6G336300_v2.0.a1
pyrus_communis	pycom04g19260 pycom12g21570
rosa_chinensis	RchiOBHm_Chr3g0452641
rosa_laevigata	RLG00000025576
rosa_multiflora	Rmu_sc0022184.1_g000001
rosa_roxburghii	Rroxscaffold_6G00429680
rosa_rugosa	Rorug02G0642100 Rorug02G0642100
rosa_samantha	Rh3AG044500 Rh3BG046800 Rh3CG045300 Rh3DG045700
rosa_wichuraiana	Rw3G003470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	383
Acc16I	TGCGCA	1 cut(s)	227
AccB1I	GGYRCC	1 cut(s)	409
AccB7I	CCANNNNNTGG	1 cut(s)	1016
AclWI	GGATC	2 cut(s)	1240, 1281
AcsI	RAATTY	3 cut(s)	101, 258, 856
AfaI	GTAC	2 cut(s)	563, 597
AfiI	CCNNNNNNNGG	1 cut(s)	1016
AflII	CTTAAG	1 cut(s)	1064
AjnI	CCWGG	3 cut(s)	22, 420, 937
Alw21I	GWGCWC	2 cut(s)	892, 947
Alw26I	GTCTC	1 cut(s)	689
AlwI	GGATC	2 cut(s)	1240, 1281
ApeKI	GCWGC	6 cut(s)	185, 653, 713, 934, 1052, 1307
ApoI	RAATTY	3 cut(s)	101, 258, 856
Asp700I	GAANNNNTTC	2 cut(s)	146, 321
AspLEI	GCGC	2 cut(s)	85, 228
AsuHPI	GGTGA	2 cut(s)	266, 931
BaeGI	GKGCMC	1 cut(s)	988
BaeI	ACNNNNGTAYC	2 cut(s)	471, 504
BanI	GGYRCC	1 cut(s)	409
BanII	GRGCYC	1 cut(s)	811
Bbv12I	GWGCWC	2 cut(s)	892, 947
BbvCI	CCTCAGC	1 cut(s)	78
BbvI	GCAGC	6 cut(s)	197, 640, 725, 946, 1064, 1294
BccI	CCATC	2 cut(s)	53, 628
BciT130I	CCWGG	3 cut(s)	24, 422, 939
BcoDI	GTCTC	1 cut(s)	689
BfaI	CTAG	2 cut(s)	284, 794
BfrI	CTTAAG	1 cut(s)	1064
BglII	AGATCT	1 cut(s)	220
BisI	GCNGC	6 cut(s)	186, 654, 714, 935, 1053, 1308
BlsI	GCNGC	6 cut(s)	187, 655, 715, 936, 1054, 1309
Bme1390I	CCNGG	3 cut(s)	24, 422, 939
BmiI	GGNNCC	1 cut(s)	411
BmrFI	CCNGG	3 cut(s)	24, 422, 939
BmsI	GCATC	2 cut(s)	1043, 1111
BpmI	CTGGAG	3 cut(s)	45, 132, 1311
Bpu10I	CCTNAGC	1 cut(s)	78
BpuEI	CTTGAG	2 cut(s)	440, 974
BsaBI	GATNNNNATC	2 cut(s)	197, 761
BsaJI	CCNNGG	6 cut(s)	22, 421, 618, 938, 1038, 1311
Bsc4I	CCNNNNNNNGG	1 cut(s)	1016
Bse1I	ACTGG	2 cut(s)	115, 1222
Bse3DI	GCAATG	2 cut(s)	549, 846
Bse8I	GATNNNNATC	2 cut(s)	197, 761
BseBI	CCWGG	3 cut(s)	24, 422, 939
BseDI	CCNNGG	6 cut(s)	22, 421, 618, 938, 1038, 1311
BseGI	GGATG	2 cut(s)	843, 1034
BseJI	GATNNNNATC	2 cut(s)	197, 761
BseLI	CCNNNNNNNGG	1 cut(s)	1016
BseMI	GCAATG	2 cut(s)	549, 846
BseMII	CTCAG	3 cut(s)	69, 684, 1167
BseNI	ACTGG	2 cut(s)	115, 1222
BseSI	GKGCMC	1 cut(s)	988
BseXI	GCAGC	6 cut(s)	197, 640, 725, 946, 1064, 1294
BseYI	CCCAGC	1 cut(s)	810
BshNI	GGYRCC	1 cut(s)	409
BsiHKAI	GWGCWC	2 cut(s)	892, 947
BslI	CCNNNNNNNGG	1 cut(s)	1016
BsmAI	GTCTC	1 cut(s)	689
Bsp1286I	GDGCHC	4 cut(s)	811, 892, 947, 988
Bsp143I	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
BspCNI	CTCAG	3 cut(s)	70, 683, 1166
BspHI	TCATGA	1 cut(s)	325
BspLI	GGNNCC	1 cut(s)	411
BspPI	GGATC	2 cut(s)	1240, 1281
BspQI	GCTCTTC	1 cut(s)	44
BspT107I	GGYRCC	1 cut(s)	409
BspTI	CTTAAG	1 cut(s)	1064
BsrDI	GCAATG	2 cut(s)	549, 846
BsrI	ACTGG	2 cut(s)	115, 1222
BssECI	CCNNGG	6 cut(s)	22, 421, 618, 938, 1038, 1311
BssMI	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
BssT1I	CCWWGG	3 cut(s)	618, 1038, 1311
Bst2UI	CCWGG	3 cut(s)	24, 422, 939
Bst4CI	ACNGT	1 cut(s)	566
Bst6I	CTCTTC	1 cut(s)	44
BstAFI	CTTAAG	1 cut(s)	1064
BstC8I	GCNNGC	2 cut(s)	892, 1002
BstDEI	CTNAG	5 cut(s)	78, 670, 996, 1127, 1153
BstF5I	GGATG	2 cut(s)	843, 1034
BstHHI	GCGC	2 cut(s)	85, 228
BstKTI	GATC	6 cut(s)	201, 223, 517, 594, 1235, 1276
BstMAI	GTCTC	1 cut(s)	689
BstMBI	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
BstMWI	GCNNNNNNNGC	4 cut(s)	182, 971, 1097, 1235
BstNI	CCWGG	3 cut(s)	24, 422, 939
BstNSI	RCATGY	1 cut(s)	1004
BstSCI	CCNGG	3 cut(s)	22, 420, 937
BstSLI	GKGCMC	1 cut(s)	988
BstV1I	GCAGC	6 cut(s)	197, 640, 725, 946, 1064, 1294
BstX2I	RGATCY	1 cut(s)	220
BstXI	CCANNNNNNTGG	2 cut(s)	500, 1229
BstYI	RGATCY	1 cut(s)	220
BtsCI	GGATG	2 cut(s)	843, 1034
BtsI	GCAGTG	1 cut(s)	244
BtsIMutI	CAGTG	3 cut(s)	244, 469, 1161
Cac8I	GCNNGC	2 cut(s)	892, 1002
CciI	TCATGA	1 cut(s)	325
CfoI	GCGC	2 cut(s)	85, 228
Csp6I	GTAC	2 cut(s)	562, 596
CviAII	CATG	4 cut(s)	326, 905, 1001, 1031
CviQI	GTAC	2 cut(s)	562, 596
DdeI	CTNAG	5 cut(s)	78, 670, 996, 1127, 1153
DpnI	GATC	6 cut(s)	200, 222, 516, 593, 1234, 1275
DpnII	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
Eam1104I	CTCTTC	1 cut(s)	44
EarI	CTCTTC	1 cut(s)	44
Eco130I	CCWWGG	3 cut(s)	618, 1038, 1311
Eco24I	GRGCYC	1 cut(s)	811
EcoRII	CCWGG	3 cut(s)	22, 420, 937
EcoT14I	CCWWGG	3 cut(s)	618, 1038, 1311
EcoT22I	ATGCAT	1 cut(s)	1036
EcoT38I	GRGCYC	1 cut(s)	811
ErhI	CCWWGG	3 cut(s)	618, 1038, 1311
FaeI	CATG	4 cut(s)	329, 908, 1004, 1034
FalI	AAGNNNNNCTT	4 cut(s)	962, 994, 1089, 1121
FatI	CATG	4 cut(s)	325, 904, 1000, 1030
FauNDI	CATATG	1 cut(s)	538
Fnu4HI	GCNGC	6 cut(s)	186, 654, 714, 935, 1053, 1308
FokI	GGATG	2 cut(s)	850, 1021
FriOI	GRGCYC	1 cut(s)	811
Fsp4HI	GCNGC	6 cut(s)	186, 654, 714, 935, 1053, 1308
FspBI	CTAG	2 cut(s)	284, 794
FspI	TGCGCA	1 cut(s)	227
GlaI	GCGC	2 cut(s)	84, 227
GluI	GCNGC	6 cut(s)	186, 654, 714, 935, 1053, 1308
GsaI	CCCAGC	1 cut(s)	814
GsuI	CTGGAG	3 cut(s)	45, 132, 1311
HhaI	GCGC	2 cut(s)	85, 228
Hin1II	CATG	4 cut(s)	329, 908, 1004, 1034
Hin6I	GCGC	2 cut(s)	83, 226
HinP1I	GCGC	2 cut(s)	83, 226
HindIII	AAGCTT	4 cut(s)	144, 174, 659, 1061
HinfI	GANTC	4 cut(s)	116, 275, 955, 1198
HphI	GGTGA	2 cut(s)	266, 931
Hpy166II	GTNNAC	4 cut(s)	69, 392, 779, 922
Hpy188I	TCNGA	6 cut(s)	172, 673, 685, 954, 1083, 1319
Hpy188III	TCNNGA	9 cut(s)	202, 235, 326, 401, 444, 518, 554, 991, 1202
Hpy8I	GTNNAC	4 cut(s)	69, 392, 779, 922
HpyAV	CCTTC	4 cut(s)	91, 700, 1199, 1276
HpyCH4III	ACNGT	1 cut(s)	566
HpyCH4V	TGCA	7 cut(s)	107, 272, 542, 851, 929, 1004, 1034
HpyF10VI	GCNNNNNNNGC	4 cut(s)	182, 971, 1097, 1235
HpyF3I	CTNAG	5 cut(s)	78, 670, 996, 1127, 1153
Hsp92II	CATG	4 cut(s)	329, 908, 1004, 1034
HspAI	GCGC	2 cut(s)	83, 226
Kzo9I	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
LguI	GCTCTTC	1 cut(s)	44
LmnI	GCTCC	2 cut(s)	877, 942
Lsp1109I	GCAGC	6 cut(s)	197, 640, 725, 946, 1064, 1294
LweI	GCATC	2 cut(s)	1043, 1111
MaeI	CTAG	2 cut(s)	284, 794
MaeIII	GTNAC	1 cut(s)	743
MalI	GATC	6 cut(s)	200, 222, 516, 593, 1234, 1275
MboI	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
MboII	GAAGA	1 cut(s)	31
MflI	RGATCY	1 cut(s)	220
MhlI	GDGCHC	4 cut(s)	811, 892, 947, 988
MluCI	AATT	8 cut(s)	101, 258, 701, 738, 856, 897, 948, 1116
MlyI	GAGTC	2 cut(s)	125, 1207
MnlI	CCTC	9 cut(s)	20, 73, 175, 244, 347, 682, 1126, 1166, 1286
Mph1103I	ATGCAT	1 cut(s)	1036
MroXI	GAANNNNTTC	2 cut(s)	146, 321
MseI	TTAA	4 cut(s)	297, 648, 759, 1065
MslI	CAYNNNNRTG	1 cut(s)	330
MspA1I	CMGCKG	1 cut(s)	716
MspCI	CTTAAG	1 cut(s)	1064
MspR9I	CCNGG	3 cut(s)	24, 422, 939
MvaI	CCWGG	3 cut(s)	24, 422, 939
MwoI	GCNNNNNNNGC	4 cut(s)	182, 971, 1097, 1235
NdeI	CATATG	1 cut(s)	538
NdeII	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
NlaIII	CATG	4 cut(s)	329, 908, 1004, 1034
NlaIV	GGNNCC	1 cut(s)	411
NmeAIII	GCCGAG	1 cut(s)	823
NmuCI	GTSAC	1 cut(s)	743
NsbI	TGCGCA	1 cut(s)	227
NsiI	ATGCAT	1 cut(s)	1036
NspI	RCATGY	1 cut(s)	1004
PaeI	GCATGC	1 cut(s)	1004
PagI	TCATGA	1 cut(s)	325
PciSI	GCTCTTC	1 cut(s)	44
PcsI	WCGNNNNNNNCGW	1 cut(s)	591
PdmI	GAANNNNTTC	2 cut(s)	146, 321
PfeI	GAWTC	2 cut(s)	275, 955
PflMI	CCANNNNNTGG	1 cut(s)	1016
PkrI	GCNGC	6 cut(s)	187, 655, 715, 936, 1054, 1309
PleI	GAGTC	2 cut(s)	124, 1206
PpsI	GAGTC	2 cut(s)	124, 1206
PsiI	TTATAA	1 cut(s)	383
Psp6I	CCWGG	3 cut(s)	22, 420, 937
PspFI	CCCAGC	1 cut(s)	810
PspGI	CCWGG	3 cut(s)	22, 420, 937
PspN4I	GGNNCC	1 cut(s)	411
PsuI	RGATCY	1 cut(s)	220
PvuII	CAGCTG	1 cut(s)	716
RsaI	GTAC	2 cut(s)	563, 597
RsaNI	GTAC	2 cut(s)	562, 596
RseI	CAYNNNNRTG	1 cut(s)	330
SapI	GCTCTTC	1 cut(s)	44
SaqAI	TTAA	4 cut(s)	297, 648, 759, 1065
SatI	GCNGC	6 cut(s)	186, 654, 714, 935, 1053, 1308
Sau3AI	GATC	6 cut(s)	198, 220, 514, 591, 1232, 1273
SchI	GAGTC	2 cut(s)	125, 1207
ScrFI	CCNGG	3 cut(s)	24, 422, 939
SduI	GDGCHC	4 cut(s)	811, 892, 947, 988
SfaNI	GCATC	2 cut(s)	1043, 1111
SmiMI	CAYNNNNRTG	1 cut(s)	330
SmlI	CTYRAG	3 cut(s)	455, 989, 1064
SmoI	CTYRAG	3 cut(s)	455, 989, 1064
SphI	GCATGC	1 cut(s)	1004
Sse9I	AATT	8 cut(s)	101, 258, 701, 738, 856, 897, 948, 1116
SspI	AATATT	1 cut(s)	607
SspMI	CTAG	2 cut(s)	284, 794
StyD4I	CCNGG	3 cut(s)	22, 420, 937
StyI	CCWWGG	3 cut(s)	618, 1038, 1311
TaaI	ACNGT	1 cut(s)	566
TaqI	TCGA	5 cut(s)	201, 315, 445, 553, 1171
TasI	AATT	8 cut(s)	101, 258, 701, 738, 856, 897, 948, 1116
TfiI	GAWTC	2 cut(s)	275, 955
Tru1I	TTAA	4 cut(s)	297, 648, 759, 1065
Tru9I	TTAA	4 cut(s)	297, 648, 759, 1065
TscAI	CASTG	3 cut(s)	251, 469, 1161
TseFI	GTSAC	1 cut(s)	743
TseI	GCWGC	6 cut(s)	185, 653, 713, 934, 1052, 1307
Tsp45I	GTSAC	1 cut(s)	743
TspDTI	ATGAA	3 cut(s)	314, 390, 854
TspGWI	ACGGA	1 cut(s)	1204
TspRI	CASTG	3 cut(s)	251, 469, 1161
Van91I	CCANNNNNTGG	1 cut(s)	1016
Vha464I	CTTAAG	1 cut(s)	1064
XapI	RAATTY	3 cut(s)	101, 258, 856
XceI	RCATGY	1 cut(s)	1004
XmnI	GAANNNNTTC	2 cut(s)	146, 321
XspI	CTAG	2 cut(s)	284, 794
Zsp2I	ATGCAT	1 cut(s)	1036

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