Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0009677

Physical Location & Seq

Genomic Coordinates Forward (+)

10648809 .. 10652783

Gene Structure 3975 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG059300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1134 bp

ATGGCCACTCCCTTCACCATTCCCGTCACTGCTGCTCAGGTTGGGACTTACTTTGTGGGGCAGTACTATCAAGTGCTTCAGCAGCAGCCAGACTATGTGCACCAATTCTACTCCGAGTCCAGCACTATGCTTCGCATTGATGGCAACACCAGGGACACCGCCTCTGGAATGCTGCAAATCCATACAGTTGTTATGTCACTCGGGTATTCTGGAGTTGAAATCAAGACAGCGCATTCTTTGGAATCTTGGAATGGAGGTGTTCTTGTGATGGTTTCTGGCTCTGTGCATTTGAAAAATTTTGGAGGGAGGAGGAACTTTGTTCAGACTTTTTTCCTTGCACCCCAGGAGAAAGGTTATTTTGTACTCAATGATATATTTCACTTCATTGATGAGGATCAAGTTCATCAGCATCCAGCAGTCTTATTAGCCCATAGCACTCTTGACTCCAAACTGAGTGCCCCTACTACAATTCCTGAGCCAGTGGCTAATTATATGATGAGTGGAGAAACTCATACCAGAGACTATGTGGTGCCTGATGTCAATGGAAATGGTCCAGTTGACAACTATGGCTATGCAGAGCAACGGTTGCAGCAGGTTGTTGAATCTGAGAATATCATGGAGGATCCTGCTGCAGAATTGTCTAACGATGAAATCAAGTCCGTCTATGTACGAAACTTGCCACCTAACGTGGACCCATCTGAAGTTGAGGAGGAATTTGTTAATTTTGGAAAACTCAAGCAGCCTGAAGGAGTGGTCATTAGGAGTCGCAAGGATGTTGGTGTTTGCTATGCATTTGTTGAATTCGAAGACATGTCTGGTGTTCGTAATGCTGTCAAGGCCGGTAGTGTTCAGATTGCTGGGCGACAAGTATACATTGAAGAGCGGAGACCAAACAGCCACATTCCCTCTCGAATGGGAAGAGGAAGGGGTAGAGGAAGGGGCAGCTACCAATCAGAGGTGCCAAGAGGTCGTTTTGTCTCTCGGAATTTTGGGAGGAGTGGAAGCTACGATGGAGGTGACCAGGACTACGGCAGACCAAGAGGAAATGGATTCTATCGTCCAAGTGGCCGACAAGACAGGGCAAACCCAAGCTACCAATCGTCAAGAAACGGGCAATATTCATCTGAGTACTAA

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:0006464 GO:0006508 GO:0006807 GO:0006914 GO:0008150 GO:0008152 GO:0009056 GO:0009987 GO:0010494 GO:0016236 GO:0016579 GO:0019538 GO:0032386 GO:0032879 GO:0032991 GO:0034517 GO:0035770 GO:0035973 GO:0036211 GO:0036464 GO:0043021 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043412 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0044877 GO:0050789 GO:0050794 GO:0051049 GO:0060341 GO:0060627 GO:0060628 GO:0061912 GO:0061919 GO:0065007 GO:0070646 GO:0070647 GO:0071704 GO:0097159 GO:1901363 GO:1901564 GO:1905538 GO:1990861 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NTF2 RRM_1

Protein Analysis

377

Amino Acids

42.13

Weight (kDa)

5.96

Isoelectric Point (pI)

51.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NTF2	PF02136	14 - 128	1.7e-27	Nuclear transport factor 2 (NTF2) domain
RRM_1	PF00076	221 - 286	8.5e-08	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009677)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g04660 FvH4_4g04660
malus_domestica	MD13G1221800.v1.1 MD16G1226700.v1.1
prunus_persica	Prupe.1G048900_v2.0.a1 Prupe.1G048900_v2.0.a1
pyrus_communis	pycom13g19610 pycom16g18980
rosa_chinensis	RchiOBHm_Chr4g0395471
rosa_laevigata	RLG00000009620
rosa_multiflora	Rmu_sc0001951.1_g000003 Rmu_sc0011701.1_g000032
rosa_roxburghii	Rroxscaffold_5G00340410
rosa_rugosa	Rorug03G0356000 Rorug03G0356000 Rorug03G0356000
rosa_samantha	Rh4AG060400 Rh4AG062100 Rh4BG059300 Rh4CG065000 Rh4DG055300
rosa_wichuraiana	Rw4G005070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	583
AccB1I	GGYRCC	2 cut(s)	529, 958
AccBSI	CCGCTC	1 cut(s)	883
AccI	GTMKAC	1 cut(s)	870
AciI	CCGC	2 cut(s)	159, 883
AclWI	GGATC	3 cut(s)	402, 617, 630
AcoI	YGGCCR	2 cut(s)	3, 1066
AcsI	RAATTY	4 cut(s)	295, 713, 800, 985
AcuI	CTGAAG	3 cut(s)	62, 720, 765
AfaI	GTAC	4 cut(s)	65, 363, 669, 1130
AfiI	CCNNNNNNNGG	1 cut(s)	955
AflIII	ACRYGT	1 cut(s)	810
AgsI	TTSAA	5 cut(s)	218, 292, 602, 800, 878
AjnI	CCWGG	3 cut(s)	149, 342, 1020
AluBI	AGCT	3 cut(s)	945, 1005, 1092
AluI	AGCT	3 cut(s)	945, 1005, 1092
Alw21I	GWGCWC	1 cut(s)	102
Alw26I	GTCTC	3 cut(s)	513, 880, 982
Alw44I	GTGCAC	1 cut(s)	98
AlwI	GGATC	3 cut(s)	402, 617, 630
Ama87I	CYCGRG	1 cut(s)	200
AoxI	GGCC	3 cut(s)	3, 837, 1066
ApaLI	GTGCAC	1 cut(s)	98
ApeKI	GCWGC	8 cut(s)	32, 82, 85, 172, 589, 629, 739, 942
ApoI	RAATTY	4 cut(s)	295, 713, 800, 985
AspLEI	GCGC	1 cut(s)	232
AspS9I	GGNCC	2 cut(s)	551, 691
AsuHPI	GGTGA	2 cut(s)	7, 1028
AsuII	TTCGAA	1 cut(s)	804
AvaI	CYCGRG	1 cut(s)	200
AvaII	GGWCC	2 cut(s)	551, 691
BaeGI	GKGCMC	2 cut(s)	102, 460
BalI	TGGCCA	1 cut(s)	5
BamHI	GGATCC	1 cut(s)	622
BanI	GGYRCC	2 cut(s)	529, 958
BbsI	GAAGAC	1 cut(s)	813
Bbv12I	GWGCWC	1 cut(s)	102
BbvI	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 751, 954
BccI	CCATC	4 cut(s)	134, 262, 703, 1004
BceAI	ACGGC	1 cut(s)	1045
BciT130I	CCWGG	3 cut(s)	151, 344, 1022
BcoDI	GTCTC	3 cut(s)	513, 880, 982
BfmI	CTRYAG	1 cut(s)	630
BfuAI	ACCTGC	1 cut(s)	583
BisI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 740, 943
BlsI	GCNGC	8 cut(s)	34, 84, 87, 174, 591, 631, 741, 944
BmcAI	AGTACT	2 cut(s)	65, 1130
Bme1390I	CCNGG	3 cut(s)	151, 344, 1022
Bme18I	GGWCC	2 cut(s)	551, 691
BmeT110I	CYCGRG	1 cut(s)	200
BmgT120I	GGNCC	2 cut(s)	551, 691
BmiI	GGNNCC	4 cut(s)	531, 624, 693, 960
BmrFI	CCNGG	3 cut(s)	151, 344, 1022
BmsI	GCATC	1 cut(s)	418
BpiI	GAAGAC	1 cut(s)	813
BpmI	CTGGAG	1 cut(s)	231
Bpu10I	CCTNAGC	2 cut(s)	36, 474
Bpu14I	TTCGAA	1 cut(s)	804
BpuEI	CTTGAG	1 cut(s)	719
BsaBI	GATNNNNATC	1 cut(s)	393
BsaI	GGTCTC	1 cut(s)	880
BsaJI	CCNNGG	2 cut(s)	150, 342
Bsc4I	CCNNNNNNNGG	1 cut(s)	955
Bse118I	RCCGGY	1 cut(s)	839
Bse1I	ACTGG	2 cut(s)	479, 554
Bse8I	GATNNNNATC	1 cut(s)	393
BseBI	CCWGG	3 cut(s)	151, 344, 1022
BseDI	CCNNGG	2 cut(s)	150, 342
BseGI	GGATG	2 cut(s)	409, 778
BseJI	GATNNNNATC	1 cut(s)	393
BseLI	CCNNNNNNNGG	1 cut(s)	955
BseMII	CTCAG	5 cut(s)	50, 443, 465, 597, 1116
BseNI	ACTGG	2 cut(s)	479, 554
BseRI	GAGGAG	3 cut(s)	322, 722, 1009
BseSI	GKGCMC	2 cut(s)	102, 460
BseXI	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 751, 954
BseYI	CCCAGC	1 cut(s)	857
BshFI	GGCC	3 cut(s)	5, 839, 1068
BshNI	GGYRCC	2 cut(s)	529, 958
BsiHKAI	GWGCWC	1 cut(s)	102
BsiHKCI	CYCGRG	1 cut(s)	200
BsiSI	CCGG	1 cut(s)	840
BslFI	GGGAC	2 cut(s)	58, 167
BslI	CCNNNNNNNGG	1 cut(s)	955
BsmAI	GTCTC	3 cut(s)	513, 880, 982
BsmFI	GGGAC	2 cut(s)	58, 167
BsmI	GAATGC	2 cut(s)	174, 232
BsnI	GGCC	3 cut(s)	5, 839, 1068
Bso31I	GGTCTC	1 cut(s)	880
BsoBI	CYCGRG	1 cut(s)	200
Bsp119I	TTCGAA	1 cut(s)	804
Bsp1286I	GDGCHC	2 cut(s)	102, 460
Bsp143I	GATC	2 cut(s)	394, 622
BspACI	CCGC	2 cut(s)	159, 883
BspANI	GGCC	3 cut(s)	5, 839, 1068
BspCNI	CTCAG	5 cut(s)	49, 444, 466, 598, 1117
BspLI	GGNNCC	4 cut(s)	531, 624, 693, 960
BspMAI	CTGCAG	1 cut(s)	634
BspMI	ACCTGC	1 cut(s)	583
BspPI	GGATC	3 cut(s)	402, 617, 630
BspQI	GCTCTTC	1 cut(s)	873
BspT104I	TTCGAA	1 cut(s)	804
BspT107I	GGYRCC	2 cut(s)	529, 958
BspTNI	GGTCTC	1 cut(s)	880
BsrBI	CCGCTC	1 cut(s)	883
BsrFI	RCCGGY	1 cut(s)	839
BsrI	ACTGG	2 cut(s)	479, 554
BssAI	RCCGGY	1 cut(s)	839
BssECI	CCNNGG	2 cut(s)	150, 342
BssMI	GATC	2 cut(s)	394, 622
BssNAI	GTATAC	1 cut(s)	871
Bst1107I	GTATAC	1 cut(s)	871
Bst2UI	CCWGG	3 cut(s)	151, 344, 1022
Bst4CI	ACNGT	2 cut(s)	187, 585
Bst6I	CTCTTC	2 cut(s)	873, 913
BstAPI	GCANNNNNTGC	1 cut(s)	586
BstBI	TTCGAA	1 cut(s)	804
BstDEI	CTNAG	5 cut(s)	36, 452, 474, 606, 1125
BstEII	GGTNACC	1 cut(s)	1016
BstF5I	GGATG	2 cut(s)	409, 778
BstHHI	GCGC	1 cut(s)	232
BstKTI	GATC	2 cut(s)	397, 625
BstMAI	GTCTC	3 cut(s)	513, 880, 982
BstMBI	GATC	2 cut(s)	394, 622
BstMWI	GCNNNNNNNGC	4 cut(s)	82, 141, 586, 836
BstNI	CCWGG	3 cut(s)	151, 344, 1022
BstNSI	RCATGY	1 cut(s)	814
BstPI	GGTNACC	1 cut(s)	1016
BstSCI	CCNGG	3 cut(s)	149, 342, 1020
BstSFI	CTRYAG	1 cut(s)	630
BstSLI	GKGCMC	2 cut(s)	102, 460
BstV1I	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 751, 954
BstV2I	GAAGAC	1 cut(s)	813
BstX2I	RGATCY	1 cut(s)	622
BstYI	RGATCY	1 cut(s)	622
BstZ17I	GTATAC	1 cut(s)	871
BsuRI	GGCC	3 cut(s)	5, 839, 1068
BtsCI	GGATG	2 cut(s)	409, 778
BtsI	GCAGTG	1 cut(s)	27
BtsIMutI	CAGTG	2 cut(s)	27, 486
BveI	ACCTGC	1 cut(s)	583
CfoI	GCGC	1 cut(s)	232
Cfr10I	RCCGGY	1 cut(s)	839
Cfr13I	GGNCC	2 cut(s)	551, 691
Csp6I	GTAC	4 cut(s)	64, 362, 668, 1129
CviAII	CATG	2 cut(s)	616, 811
CviQI	GTAC	4 cut(s)	64, 362, 668, 1129
DdeI	CTNAG	5 cut(s)	36, 452, 474, 606, 1125
DpnI	GATC	2 cut(s)	396, 624
DpnII	GATC	2 cut(s)	394, 622
EaeI	YGGCCR	2 cut(s)	3, 1066
Eam1104I	CTCTTC	2 cut(s)	873, 913
EarI	CTCTTC	2 cut(s)	873, 913
Eco31I	GGTCTC	1 cut(s)	880
Eco47I	GGWCC	2 cut(s)	551, 691
Eco57I	CTGAAG	3 cut(s)	62, 720, 765
Eco88I	CYCGRG	1 cut(s)	200
Eco91I	GGTNACC	1 cut(s)	1016
EcoO65I	GGTNACC	1 cut(s)	1016
EcoRI	GAATTC	1 cut(s)	800
EcoRII	CCWGG	3 cut(s)	149, 342, 1020
EcoT22I	ATGCAT	1 cut(s)	793
FaeI	CATG	2 cut(s)	619, 814
FaqI	GGGAC	2 cut(s)	58, 167
FatI	CATG	2 cut(s)	615, 810
FblI	GTMKAC	1 cut(s)	870
Fnu4HI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 740, 943
FokI	GGATG	2 cut(s)	396, 785
Fsp4HI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 740, 943
GlaI	GCGC	1 cut(s)	231
GluI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 740, 943
GsaI	CCCAGC	1 cut(s)	861
GsuI	CTGGAG	1 cut(s)	231
HaeIII	GGCC	3 cut(s)	5, 839, 1068
HapII	CCGG	1 cut(s)	840
HhaI	GCGC	1 cut(s)	232
Hin1II	CATG	2 cut(s)	619, 814
Hin6I	GCGC	1 cut(s)	230
HinP1I	GCGC	1 cut(s)	230
HincII	GTYRAC	1 cut(s)	559
HindII	GTYRAC	1 cut(s)	559
HinfI	GANTC	6 cut(s)	116, 242, 443, 602, 763, 1050
HpaII	CCGG	1 cut(s)	840
HphI	GGTGA	2 cut(s)	7, 1028
Hpy166II	GTNNAC	4 cut(s)	100, 559, 691, 871
Hpy188I	TCNGA	8 cut(s)	115, 324, 607, 700, 852, 955, 984, 1126
Hpy188III	TCNNGA	7 cut(s)	165, 210, 223, 440, 473, 909, 1104
Hpy8I	GTNNAC	4 cut(s)	100, 559, 691, 871
HpyAV	CCTTC	4 cut(s)	22, 740, 918, 930
HpyCH4III	ACNGT	2 cut(s)	187, 585
HpyCH4IV	ACGT	1 cut(s)	687
HpyCH4V	TGCA	8 cut(s)	100, 175, 286, 338, 575, 589, 632, 791
HpyF10VI	GCNNNNNNNGC	4 cut(s)	82, 141, 586, 836
HpyF3I	CTNAG	5 cut(s)	36, 452, 474, 606, 1125
HpySE526I	ACGT	1 cut(s)	687
Hsp92II	CATG	2 cut(s)	619, 814
HspAI	GCGC	1 cut(s)	230
Kzo9I	GATC	2 cut(s)	394, 622
LguI	GCTCTTC	1 cut(s)	873
Lsp1109I	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 751, 954
LweI	GCATC	1 cut(s)	418
MaeII	ACGT	1 cut(s)	687
MaeIII	GTNAC	3 cut(s)	25, 195, 1016
MalI	GATC	2 cut(s)	396, 624
MbiI	CCGCTC	1 cut(s)	883
MboI	GATC	2 cut(s)	394, 622
MboII	GAAGA	3 cut(s)	818, 890, 930
MflI	RGATCY	1 cut(s)	622
MhlI	GDGCHC	2 cut(s)	102, 460
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	9 cut(s)	104, 295, 468, 487, 635, 713, 721, 800, 985
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	3 cut(s)	125, 437, 772
Mox20I	TGGCCA	1 cut(s)	5
Mph1103I	ATGCAT	1 cut(s)	793
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	720
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	1 cut(s)	840
MspR9I	CCNGG	3 cut(s)	151, 344, 1022
Mva1269I	GAATGC	2 cut(s)	174, 232
MvaI	CCWGG	3 cut(s)	151, 344, 1022
MwoI	GCNNNNNNNGC	4 cut(s)	82, 141, 586, 836
NdeII	GATC	2 cut(s)	394, 622
NlaIII	CATG	2 cut(s)	619, 814
NlaIV	GGNNCC	4 cut(s)	531, 624, 693, 960
NmuCI	GTSAC	3 cut(s)	25, 195, 1016
NsiI	ATGCAT	1 cut(s)	793
NspI	RCATGY	1 cut(s)	814
NspV	TTCGAA	1 cut(s)	804
PciI	ACATGT	1 cut(s)	810
PciSI	GCTCTTC	1 cut(s)	873
PctI	GAATGC	2 cut(s)	174, 232
PfeI	GAWTC	3 cut(s)	242, 602, 1050
PkrI	GCNGC	8 cut(s)	34, 84, 87, 174, 591, 631, 741, 944
PleI	GAGTC	3 cut(s)	124, 437, 771
PpsI	GAGTC	3 cut(s)	124, 437, 771
PscI	ACATGT	1 cut(s)	810
Psp6I	CCWGG	3 cut(s)	149, 342, 1020
PspEI	GGTNACC	1 cut(s)	1016
PspFI	CCCAGC	1 cut(s)	857
PspGI	CCWGG	3 cut(s)	149, 342, 1020
PspN4I	GGNNCC	4 cut(s)	531, 624, 693, 960
PspPI	GGNCC	2 cut(s)	551, 691
PstI	CTGCAG	1 cut(s)	634
PsuI	RGATCY	1 cut(s)	622
RsaI	GTAC	4 cut(s)	65, 363, 669, 1130
RsaNI	GTAC	4 cut(s)	64, 362, 668, 1129
SapI	GCTCTTC	1 cut(s)	873
SaqAI	TTAA	1 cut(s)	720
SatI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 740, 943
Sau3AI	GATC	2 cut(s)	394, 622
Sau96I	GGNCC	2 cut(s)	551, 691
ScaI	AGTACT	2 cut(s)	65, 1130
SchI	GAGTC	3 cut(s)	125, 437, 772
ScrFI	CCNGG	3 cut(s)	151, 344, 1022
SduI	GDGCHC	2 cut(s)	102, 460
SfaNI	GCATC	1 cut(s)	418
SfcI	CTRYAG	1 cut(s)	630
SfuI	TTCGAA	1 cut(s)	804
SinI	GGWCC	2 cut(s)	551, 691
SmlI	CTYRAG	1 cut(s)	734
SmoI	CTYRAG	1 cut(s)	734
Sse9I	AATT	9 cut(s)	104, 295, 468, 487, 635, 713, 721, 800, 985
SsiI	CCGC	2 cut(s)	159, 883
SspI	AATATT	1 cut(s)	1118
StyD4I	CCNGG	3 cut(s)	149, 342, 1020
TaaI	ACNGT	2 cut(s)	187, 585
TaiI	ACGT	1 cut(s)	690
TaqI	TCGA	2 cut(s)	804, 910
TasI	AATT	9 cut(s)	104, 295, 468, 487, 635, 713, 721, 800, 985
TatI	WGTACW	3 cut(s)	63, 361, 1128
TfiI	GAWTC	3 cut(s)	242, 602, 1050
Tru1I	TTAA	1 cut(s)	720
Tru9I	TTAA	1 cut(s)	720
TscAI	CASTG	2 cut(s)	34, 486
TseFI	GTSAC	3 cut(s)	25, 195, 1016
TseI	GCWGC	8 cut(s)	32, 82, 85, 172, 589, 629, 739, 942
Tsp45I	GTSAC	3 cut(s)	25, 195, 1016
TspDTI	ATGAA	4 cut(s)	373, 392, 663, 1110
TspGWI	ACGGA	1 cut(s)	649
TspRI	CASTG	2 cut(s)	34, 486
VneI	GTGCAC	1 cut(s)	98
VpaK11BI	GGWCC	2 cut(s)	551, 691
XapI	RAATTY	4 cut(s)	295, 713, 800, 985
XceI	RCATGY	1 cut(s)	814
XcmI	CCANNNNNNNNNTGG	1 cut(s)	523
XmiI	GTMKAC	1 cut(s)	870
ZrmI	AGTACT	2 cut(s)	65, 1130
Zsp2I	ATGCAT	1 cut(s)	793

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