Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004233

Physical Location & Seq

Genomic Coordinates Reverse (-)

5994693 .. 5999074

Gene Structure 4382 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG058300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1326 bp

ATGGCTGAGCAGTACATGAGGCGTTCGAATCCCACTACTGCTAACAATGGAATACTCAATCCCCATAGTTGGAATCGGAATAGCACCAGTAGTAGTAGGAGCACTAGTCAATCAATTTATGGGGATCAATTTGGATTTGGTTTTAACCAAATTAGGTCTAGTTCTAGTTCTCAGCGGAATGGGGTTAGCAGGGGATCGAGGTTTGCTAACGGGGCTGGAAGACAGCGTTTCGGGCAAGAAGAAAGGAGCCGAGGCCTAAATTTGATGTCCACCAAAGATCAAAGGCTTGGCAATGGGTCTGCACGGCGGCATATACCAAGTTATTACTCTGTCCCTTTGGAAGAGTTGAGGGGCCAAATTGCTTTTGTGGCCAAAGATCATGTTGGATGTCAATTTTTACAAAAGAAGATTGAGGAGGGTAAGATGGAAGAGATTGAAATGATTTTTAATGAGGTTATGAAGGAGGGTCATGATCTTTTGCGCAAGCTAATGGTAGATCAATTTGGGACTGAATTTATTCAGAAACTTGTGGAGGGGACTAACAGGGACGGATGGACCAAAATGCTTGATTTGGTGATGAGTGATGAGAGGAAACTCAAGGATATGTGCACTGACCAGCATGGAAGTCGTGCCATGCAGAAGTTGCTGGAGTGGGTTGAAACCCGAGCGCAACAGTCCTCGTTTATGCGGGTTCTGAAGCGAATCACAATTCCGCTGAGCAAAACCCAGCCTGGTTATTATGTGATTCAAGTTTGCTTGAAAAATTTCTCTCCTGACTGCACCAAGGGTGTTCTGGAATTAGTGCTAGATAACTGCATTGCATTAGCAAAAGACAAATTTGGGTGTTGCTTAGTGCAAAGCAGTGTCCATTATGCGTATACTGAAGCTAAGGAGCGTCTTGTGGCTGACATAACTGAGCATGCTCGAGTCCTCTCCGAAGATCCTTACGGGAACTATGTTGTGCAGTACATAATTGGACTAAAAATACCTTGTGTAACAGCAGACATTTTAGGTCAGCTTCAGGGGTATTTTGTTAATCTGTCGATGAACAAGCATGGAAGTAATGTAGTCGAGAAAACCCTGAAAGAGGCTGGAGAAGAACATGCCAATATGATTATTAACGAGATGATTAACAGTCCTGAGTTTCCGAATGTTCTTCAAAATCCTTATGGGAATTATGTTGCTCAGTCTGCTCTTGCAGTATCCAAGGGATCTGTTCACAATGCTCTTGTTAACCTCATTCGGAGCAATTACCCTCATCTGCACAGCCATCTGTATGGGAAAAGAGTGCTCGACAAAACCAGAGGAGGCAGGCATCGTGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PUF zf-CCCH

Protein Analysis

441

Amino Acids

49.83

Weight (kDa)

9.16

Isoelectric Point (pI)

46.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PUF	PF00806	122 - 153	2.7e-06	Pumilio-family RNA binding repeat
PUF	PF00806	271 - 304	4e-06	Pumilio-family RNA binding repeat
PUF	PF00806	343 - 377	4.1e-08	Pumilio-family RNA binding repeat

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: OG0004233)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g30780 FvH4_5g30780
malus_domestica	MD05G1093500.v1.1
prunus_persica	Prupe.8G138200_v2.0.a1 Prupe.8G138200_v2.0.a1
pyrus_communis	pycom15g06920
rosa_chinensis	RchiOBHm_Chr6g0254321 RchiOBHm_Chr6g0254351
rosa_laevigata	RLG00000014133 RLG00000014918 RLG00000014919 RLG00000014923 RLG00000014926
rosa_multiflora	Rmu_sc0006565.1_g000002 Rmu_sc0007138.1_g000009 Rmu_sc0027609.1_g000002
rosa_roxburghii	Rroxscaffold_7G00210870 Rroxscaffold_7G00210910 Rroxscaffold_7G00210930
rosa_rugosa	Rorug05G0552000
rosa_samantha	Rh6AG068500 Rh6AG068800 Rh6AG068900 Rh6BG061200 Rh6CG061000 Rh6CG061100 Rh6CG061500 Rh6DG058000 Rh6DG058300 Rh6DG058400 Rh6DG058700
rosa_wichuraiana	Rw6G006000 Rw6G006040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	482
AccI	GTMKAC	1 cut(s)	878
AciI	CCGC	4 cut(s)	175, 307, 688, 713
AclWI	GGATC	4 cut(s)	132, 202, 935, 1219
AcoI	YGGCCR	1 cut(s)	369
AcsI	RAATTY	4 cut(s)	259, 512, 763, 836
AcuI	CTGAAG	3 cut(s)	716, 903, 1004
AfaI	GTAC	2 cut(s)	14, 968
AfiI	CCNNNNNNNGG	2 cut(s)	69, 1087
AgsI	TTSAA	5 cut(s)	437, 659, 749, 760, 1160
AhlI	ACTAGT	1 cut(s)	104
AjnI	CCWGG	1 cut(s)	730
AluBI	AGCT	3 cut(s)	487, 887, 1018
AluI	AGCT	3 cut(s)	487, 887, 1018
Alw21I	GWGCWC	3 cut(s)	104, 611, 1293
Alw44I	GTGCAC	1 cut(s)	607
AlwI	GGATC	4 cut(s)	132, 202, 935, 1219
Ama87I	CYCGRG	2 cut(s)	663, 924
AoxI	GGCC	3 cut(s)	253, 352, 369
ApaLI	GTGCAC	1 cut(s)	607
ApoI	RAATTY	4 cut(s)	259, 512, 763, 836
Asp700I	GAANNNNTTC	2 cut(s)	516, 764
AspLEI	GCGC	2 cut(s)	483, 670
AspS9I	GGNCC	2 cut(s)	352, 555
AsuHPI	GGTGA	1 cut(s)	586
AsuII	TTCGAA	1 cut(s)	26
AvaI	CYCGRG	2 cut(s)	663, 924
AvaII	GGWCC	1 cut(s)	555
BaeGI	GKGCMC	1 cut(s)	611
BalI	TGGCCA	1 cut(s)	371
BbsI	GAAGAC	1 cut(s)	226
Bbv12I	GWGCWC	3 cut(s)	104, 611, 1293
BccI	CCATC	3 cut(s)	418, 546, 1278
BceAI	ACGGC	1 cut(s)	320
BcgI	CGANNNNNNTGC	2 cut(s)	608, 642
BciT130I	CCWGG	1 cut(s)	732
BciVI	GTATCC	1 cut(s)	1213
BcuI	ACTAGT	1 cut(s)	104
BfaI	CTAG	4 cut(s)	105, 159, 165, 806
BfuI	GTATCC	1 cut(s)	1213
BisI	GCNGC	1 cut(s)	308
BlpI	GCTNAGC	2 cut(s)	6, 716
BlsI	GCNGC	1 cut(s)	309
Bme1390I	CCNGG	1 cut(s)	732
Bme18I	GGWCC	1 cut(s)	555
BmeT110I	CYCGRG	2 cut(s)	663, 924
BmgT120I	GGNCC	2 cut(s)	352, 555
BmiI	GGNNCC	2 cut(s)	248, 353
BmrFI	CCNGG	1 cut(s)	732
BpiI	GAAGAC	1 cut(s)	226
BpmI	CTGGAG	2 cut(s)	668, 1113
Bpu10I	CCTNAGC	1 cut(s)	888
Bpu1102I	GCTNAGC	2 cut(s)	6, 716
Bpu14I	TTCGAA	1 cut(s)	26
BpuEI	CTTGAG	1 cut(s)	581
BsaJI	CCNNGG	3 cut(s)	250, 783, 1206
BsaXI	ACNNNNNCTCC	2 cut(s)	91, 121
Bsc4I	CCNNNNNNNGG	2 cut(s)	69, 1087
Bse1I	ACTGG	1 cut(s)	87
Bse3DI	GCAATG	2 cut(s)	298, 816
BseBI	CCWGG	1 cut(s)	732
BseDI	CCNNGG	3 cut(s)	250, 783, 1206
BseGI	GGATG	2 cut(s)	392, 557
BseLI	CCNNNNNNNGG	2 cut(s)	69, 1087
BseMI	GCAATG	2 cut(s)	298, 816
BseMII	CTCAG	5 cut(s)	185, 707, 906, 1131, 1199
BseNI	ACTGG	1 cut(s)	87
BseRI	GAGGAG	2 cut(s)	428, 1320
BseSI	GKGCMC	1 cut(s)	611
BseYI	CCCAGC	1 cut(s)	726
BsgI	GTGCAG	4 cut(s)	285, 763, 983, 1247
BshFI	GGCC	3 cut(s)	255, 354, 371
BsiHKAI	GWGCWC	3 cut(s)	104, 611, 1293
BsiHKCI	CYCGRG	2 cut(s)	663, 924
BslFI	GGGAC	4 cut(s)	317, 520, 550, 560
BslI	CCNNNNNNNGG	2 cut(s)	69, 1087
BsmFI	GGGAC	4 cut(s)	317, 520, 550, 560
BsnI	GGCC	3 cut(s)	255, 354, 371
BsoBI	CYCGRG	2 cut(s)	663, 924
Bsp119I	TTCGAA	1 cut(s)	26
Bsp1286I	GDGCHC	3 cut(s)	104, 611, 1293
Bsp143I	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
Bsp1720I	GCTNAGC	2 cut(s)	6, 716
BspACI	CCGC	4 cut(s)	175, 307, 688, 713
BspANI	GGCC	3 cut(s)	255, 354, 371
BspCNI	CTCAG	5 cut(s)	184, 708, 907, 1132, 1198
BspHI	TCATGA	1 cut(s)	469
BspLI	GGNNCC	2 cut(s)	248, 353
BspPI	GGATC	4 cut(s)	132, 202, 935, 1219
BspT104I	TTCGAA	1 cut(s)	26
BsrDI	GCAATG	2 cut(s)	298, 816
BsrI	ACTGG	1 cut(s)	87
BssECI	CCNNGG	3 cut(s)	250, 783, 1206
BssMI	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
BssNAI	GTATAC	1 cut(s)	879
BssT1I	CCWWGG	2 cut(s)	783, 1206
Bst1107I	GTATAC	1 cut(s)	879
Bst2UI	CCWGG	1 cut(s)	732
Bst4CI	ACNGT	2 cut(s)	675, 1136
Bst6I	CTCTTC	2 cut(s)	336, 423
BstAPI	GCANNNNNTGC	1 cut(s)	643
BstBI	TTCGAA	1 cut(s)	26
BstC8I	GCNNGC	3 cut(s)	485, 921, 1313
BstDEI	CTNAG	8 cut(s)	6, 171, 716, 850, 888, 915, 1140, 1185
BstENI	CCTNNNNNAGG	1 cut(s)	1085
BstF5I	GGATG	2 cut(s)	392, 557
BstHHI	GCGC	2 cut(s)	483, 670
BstKTI	GATC	8 cut(s)	127, 197, 280, 379, 475, 499, 943, 1214
BstMBI	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
BstMWI	GCNNNNNNNGC	5 cut(s)	212, 232, 368, 643, 1190
BstNI	CCWGG	1 cut(s)	732
BstNSI	RCATGY	2 cut(s)	923, 1106
BstSCI	CCNGG	1 cut(s)	730
BstSLI	GKGCMC	1 cut(s)	611
BstV2I	GAAGAC	1 cut(s)	226
BstX2I	RGATCY	2 cut(s)	940, 1211
BstXI	CCANNNNNNTGG	1 cut(s)	1277
BstYI	RGATCY	2 cut(s)	940, 1211
BstZ17I	GTATAC	1 cut(s)	879
BsuI	GTATCC	1 cut(s)	1213
BsuRI	GGCC	3 cut(s)	255, 354, 371
BtsCI	GGATG	2 cut(s)	392, 557
BtsI	GCAGTG	1 cut(s)	868
BtsIMutI	CAGTG	2 cut(s)	609, 868
Cac8I	GCNNGC	3 cut(s)	485, 921, 1313
CciI	TCATGA	1 cut(s)	469
CfoI	GCGC	2 cut(s)	483, 670
Cfr13I	GGNCC	2 cut(s)	352, 555
CseI	GACGC	1 cut(s)	884
Csp6I	GTAC	2 cut(s)	13, 967
CviAII	CATG	8 cut(s)	16, 380, 470, 620, 634, 920, 1055, 1103
CviQI	GTAC	2 cut(s)	13, 967
DdeI	CTNAG	8 cut(s)	6, 171, 716, 850, 888, 915, 1140, 1185
DpnI	GATC	8 cut(s)	126, 196, 279, 378, 474, 498, 942, 1213
DpnII	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
EaeI	YGGCCR	1 cut(s)	369
Eam1104I	CTCTTC	2 cut(s)	336, 423
EarI	CTCTTC	2 cut(s)	336, 423
Eco130I	CCWWGG	2 cut(s)	783, 1206
Eco147I	AGGCCT	1 cut(s)	255
Eco47I	GGWCC	1 cut(s)	555
Eco57I	CTGAAG	3 cut(s)	716, 903, 1004
Eco88I	CYCGRG	2 cut(s)	663, 924
EcoNI	CCTNNNNNAGG	1 cut(s)	1085
EcoRII	CCWGG	1 cut(s)	730
EcoT14I	CCWWGG	2 cut(s)	783, 1206
ErhI	CCWWGG	2 cut(s)	783, 1206
FaeI	CATG	8 cut(s)	19, 383, 473, 623, 637, 923, 1058, 1106
FaqI	GGGAC	4 cut(s)	317, 520, 550, 560
FatI	CATG	8 cut(s)	15, 379, 469, 619, 633, 919, 1054, 1102
FauI	CCCGC	1 cut(s)	681
FblI	GTMKAC	1 cut(s)	878
Fnu4HI	GCNGC	1 cut(s)	308
FokI	GGATG	2 cut(s)	399, 564
Fsp4HI	GCNGC	1 cut(s)	308
FspBI	CTAG	4 cut(s)	105, 159, 165, 806
FspI	TGCGCA	1 cut(s)	482
GlaI	GCGC	2 cut(s)	482, 669
GluI	GCNGC	1 cut(s)	308
GsaI	CCCAGC	1 cut(s)	730
GsuI	CTGGAG	2 cut(s)	668, 1113
HaeIII	GGCC	3 cut(s)	255, 354, 371
HgaI	GACGC	1 cut(s)	884
HhaI	GCGC	2 cut(s)	483, 670
Hin1II	CATG	8 cut(s)	19, 383, 473, 623, 637, 923, 1058, 1106
Hin6I	GCGC	2 cut(s)	481, 668
HinP1I	GCGC	2 cut(s)	481, 668
HincII	GTYRAC	1 cut(s)	1234
HindII	GTYRAC	1 cut(s)	1234
HinfI	GANTC	5 cut(s)	28, 73, 702, 745, 927
HpaI	GTTAAC	1 cut(s)	1234
HphI	GGTGA	1 cut(s)	586
Hpy166II	GTNNAC	5 cut(s)	270, 609, 879, 1219, 1234
Hpy188I	TCNGA	6 cut(s)	78, 522, 696, 937, 1149, 1245
Hpy188III	TCNNGA	5 cut(s)	470, 773, 794, 1072, 1139
Hpy8I	GTNNAC	5 cut(s)	270, 609, 879, 1219, 1234
HpyAV	CCTTC	1 cut(s)	454
HpyCH4III	ACNGT	2 cut(s)	675, 1136
HpyF10VI	GCNNNNNNNGC	5 cut(s)	212, 232, 368, 643, 1190
HpyF3I	CTNAG	8 cut(s)	6, 171, 716, 850, 888, 915, 1140, 1185
Hsp92II	CATG	8 cut(s)	19, 383, 473, 623, 637, 923, 1058, 1106
HspAI	GCGC	2 cut(s)	481, 668
KspAI	GTTAAC	1 cut(s)	1234
Kzo9I	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
LmnI	GCTCC	4 cut(s)	99, 246, 892, 1245
MaeI	CTAG	4 cut(s)	105, 159, 165, 806
MaeIII	GTNAC	1 cut(s)	994
MalI	GATC	8 cut(s)	126, 196, 279, 378, 474, 498, 942, 1213
MboI	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
MboII	GAAGA	8 cut(s)	231, 251, 353, 418, 440, 950, 1109, 1148
MflI	RGATCY	2 cut(s)	940, 1211
MhlI	GDGCHC	3 cut(s)	104, 611, 1293
MlsI	TGGCCA	1 cut(s)	371
MluNI	TGGCCA	1 cut(s)	371
MlyI	GAGTC	1 cut(s)	936
MmeI	TCCRAC	2 cut(s)	50, 364
Mox20I	TGGCCA	1 cut(s)	371
MroXI	GAANNNNTTC	2 cut(s)	516, 764
MscI	TGGCCA	1 cut(s)	371
MseI	TTAA	6 cut(s)	144, 447, 1035, 1119, 1131, 1233
MslI	CAYNNNNRTG	1 cut(s)	1275
Msp20I	TGGCCA	1 cut(s)	371
MspA1I	CMGCKG	2 cut(s)	175, 715
MspR9I	CCNGG	1 cut(s)	732
MvaI	CCWGG	1 cut(s)	732
MwoI	GCNNNNNNNGC	5 cut(s)	212, 232, 368, 643, 1190
NdeII	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
NlaIII	CATG	8 cut(s)	19, 383, 473, 623, 637, 923, 1058, 1106
NlaIV	GGNNCC	2 cut(s)	248, 353
NmeAIII	GCCGAG	1 cut(s)	275
NsbI	TGCGCA	1 cut(s)	482
NspI	RCATGY	2 cut(s)	923, 1106
NspV	TTCGAA	1 cut(s)	26
PaeI	GCATGC	1 cut(s)	923
PaeR7I	CTCGAG	1 cut(s)	924
PagI	TCATGA	1 cut(s)	469
PceI	AGGCCT	1 cut(s)	255
PdmI	GAANNNNTTC	2 cut(s)	516, 764
PfeI	GAWTC	4 cut(s)	28, 73, 702, 745
PkrI	GCNGC	1 cut(s)	309
PleI	GAGTC	1 cut(s)	935
PpsI	GAGTC	1 cut(s)	935
Psp6I	CCWGG	1 cut(s)	730
PspFI	CCCAGC	1 cut(s)	726
PspGI	CCWGG	1 cut(s)	730
PspN4I	GGNNCC	2 cut(s)	248, 353
PspPI	GGNCC	2 cut(s)	352, 555
PspXI	VCTCGAGB	1 cut(s)	924
PsuI	RGATCY	2 cut(s)	940, 1211
RsaI	GTAC	2 cut(s)	14, 968
RsaNI	GTAC	2 cut(s)	13, 967
RseI	CAYNNNNRTG	1 cut(s)	1275
SaqAI	TTAA	6 cut(s)	144, 447, 1035, 1119, 1131, 1233
SatI	GCNGC	1 cut(s)	308
Sau3AI	GATC	8 cut(s)	124, 194, 277, 376, 472, 496, 940, 1211
Sau96I	GGNCC	2 cut(s)	352, 555
SchI	GAGTC	1 cut(s)	936
ScrFI	CCNGG	1 cut(s)	732
SduI	GDGCHC	3 cut(s)	104, 611, 1293
SetI	ASST	9 cut(s)	158, 203, 456, 489, 889, 991, 1015, 1020, 1239
Sfr274I	CTCGAG	1 cut(s)	924
SfuI	TTCGAA	1 cut(s)	26
SinI	GGWCC	1 cut(s)	555
SlaI	CTCGAG	1 cut(s)	924
SmiMI	CAYNNNNRTG	1 cut(s)	1275
SmlI	CTYRAG	2 cut(s)	596, 924
SmoI	CTYRAG	2 cut(s)	596, 924
SpeI	ACTAGT	1 cut(s)	104
SphI	GCATGC	1 cut(s)	923
SseBI	AGGCCT	1 cut(s)	255
SsiI	CCGC	4 cut(s)	175, 307, 688, 713
SspMI	CTAG	4 cut(s)	105, 159, 165, 806
StuI	AGGCCT	1 cut(s)	255
StyD4I	CCNGG	1 cut(s)	730
StyI	CCWWGG	2 cut(s)	783, 1206
TaaI	ACNGT	2 cut(s)	675, 1136
TaqI	TCGA	6 cut(s)	26, 197, 925, 1043, 1071, 1293
TatI	WGTACW	2 cut(s)	12, 966
TauI	GCSGC	1 cut(s)	310
TfiI	GAWTC	4 cut(s)	28, 73, 702, 745
Tru1I	TTAA	6 cut(s)	144, 447, 1035, 1119, 1131, 1233
Tru9I	TTAA	6 cut(s)	144, 447, 1035, 1119, 1131, 1233
TscAI	CASTG	2 cut(s)	616, 868
TspDTI	ATGAA	2 cut(s)	473, 1061
TspGWI	ACGGA	1 cut(s)	564
TspRI	CASTG	2 cut(s)	616, 868
VneI	GTGCAC	1 cut(s)	607
VpaK11BI	GGWCC	1 cut(s)	555
XagI	CCTNNNNNAGG	1 cut(s)	1085
XapI	RAATTY	4 cut(s)	259, 512, 763, 836
XceI	RCATGY	2 cut(s)	923, 1106
XcmI	CCANNNNNNNNNTGG	1 cut(s)	790
XhoI	CTCGAG	1 cut(s)	924
XmiI	GTMKAC	1 cut(s)	878
XmnI	GAANNNNTTC	2 cut(s)	516, 764
XspI	CTAG	4 cut(s)	105, 159, 165, 806

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