Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0009677

Physical Location & Seq

Genomic Coordinates Reverse (-)

13160571 .. 13165774

Gene Structure 5204 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG062100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1176 bp

ATGGCCACTCCCTTCACCATTCCCGTCACTGCTGCTCAGGTTGGGACTTACTTTGTGGGGCAGTACTATCAAGTGCTTCAGCAGCAGCCAGACTATGTGCACCAATTCTACTCCGAGTCCAGCACTATGCTTCGCATTGATGGCAACACCAGGGACACCGCCTCTGGAATGCTGCAAATCCATACAGTTGTTATGTCACTCGGGTATTCTGGAGTTGAAATCAAGACAGCGCATTCTTTGGAATCTTGGAATGGAGGTGTTCTTGTGATGGTTTCTGGCTCTGTGCATTTGAAAAATTTTGGAGGGAGGAGGAACTTTGTTCAGACTTTTTTCCTTGCACCCCAGGAGAAAGGTTATTTTGTACTCAATGATATATTTCACTTCATTGATGAGGATCAAGTTCATCAGCATCCAGCAGTCTTATTAGCCCATAGCACTCTTGACTCCAAACTGAGTGCCCCTACTACAATTCCTGAGCCAGTGGCTAATTATATGATGAGTGGAGAAACTCATACCAGAGACTATGTGGTGCCTGATGTCAATGGAAATGGTCCAGTTGACAACTATGGCTATGCAGAGCAACGGTTGCAGCAGGTTGTTGAATCTGAGAATATCATGGAGGATCCTGCTGCAGAATTGTCTAACGGTTCATTTCAAAGTGCAGTGAATGTTGTACAAGAACAGCTGCCTGCATCTGTTGAGGAACCTATTGGAGAGCCCCAGAAGCAGACCTATGCCTCTATATTACGCGTTGCTAAAGGACAACCTGCACCATCTGTAGCTCCTCAGCCTTCAGTTAACAAGAGTGCACCACCGGCTTCAGATTGGAATGACTTTTCACAGCCCATTGCATCGTCCAATGCAGTTGAAAGGCCTGTAGCAGAGACAGCAGATGAAGTTTCTGCCCTAGAAGATGAAGATGAAATCAAGTCCGTCTATGTACGAAACTTGCCACCTAACGTGGACCCATCTGAAGTTGAGGAGGAATTTGTTAATTTTGGAAAACTCAAGCAGCCTGAAGGAGTGGTCATTAGGAGTCGCAAGGATGTTGGTGTTTGCTATGCATTTGTTGAATTCGAAGACATGTCTGGTGTTCGTAATGCTGTCAAGGTTGAAGATGCTCTGGAAAAGATCCATTTAGTATCCCTATTTATAAAAATTGAATTTATACAATGA

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

391

Amino Acids

43.13

Weight (kDa)

4.65

Isoelectric Point (pI)

52.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NTF2	PF02136	14 - 128	1.8e-27	Nuclear transport factor 2 (NTF2) domain
RRM_1	PF00076	312 - 370	2.4e-07	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)
AanI	TTATAA	1 cut(s)	1154
Acc36I	ACCTGC	2 cut(s)	583, 775
AccB1I	GGYRCC	1 cut(s)	529
AccII	CGCG	1 cut(s)	750
AciI	CCGC	1 cut(s)	159
AclWI	GGATC	4 cut(s)	402, 617, 630, 1126
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	4 cut(s)	295, 986, 1073, 1163
AcuI	CTGAAG	5 cut(s)	62, 777, 804, 993, 1038
AfaI	GTAC	4 cut(s)	65, 363, 675, 942
AflIII	ACRYGT	2 cut(s)	748, 1083
AgsI	TTSAA	8 cut(s)	218, 292, 602, 656, 869, 1073, 1115, 1163
AjnI	CCWGG	2 cut(s)	149, 342
AluBI	AGCT	2 cut(s)	685, 782
AluI	AGCT	2 cut(s)	685, 782
Alw21I	GWGCWC	2 cut(s)	102, 811
Alw26I	GTCTC	2 cut(s)	513, 878
Alw44I	GTGCAC	2 cut(s)	98, 807
AlwI	GGATC	4 cut(s)	402, 617, 630, 1126
Ama87I	CYCGRG	1 cut(s)	200
AoxI	GGCC	2 cut(s)	3, 872
ApaLI	GTGCAC	2 cut(s)	98, 807
ApeKI	GCWGC	8 cut(s)	32, 82, 85, 172, 589, 629, 685, 1012
ApoI	RAATTY	4 cut(s)	295, 986, 1073, 1163
AspLEI	GCGC	1 cut(s)	232
AspS9I	GGNCC	2 cut(s)	551, 964
AsuHPI	GGTGA	1 cut(s)	7
AsuII	TTCGAA	1 cut(s)	1077
AvaI	CYCGRG	1 cut(s)	200
AvaII	GGWCC	2 cut(s)	551, 964
BaeGI	GKGCMC	3 cut(s)	102, 460, 811
BalI	TGGCCA	1 cut(s)	5
BamHI	GGATCC	1 cut(s)	622
BanI	GGYRCC	1 cut(s)	529
BanII	GRGCYC	1 cut(s)	720
BbsI	GAAGAC	1 cut(s)	1086
Bbv12I	GWGCWC	2 cut(s)	102, 811
BbvCI	CCTCAGC	1 cut(s)	786
BbvI	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 672, 1024
BccI	CCATC	4 cut(s)	134, 262, 781, 976
BciT130I	CCWGG	2 cut(s)	151, 344
BciVI	GTATCC	1 cut(s)	1153
BcoDI	GTCTC	2 cut(s)	513, 878
BfaI	CTAG	1 cut(s)	908
BfmI	CTRYAG	3 cut(s)	630, 777, 876
BfuAI	ACCTGC	2 cut(s)	583, 775
BfuI	GTATCC	1 cut(s)	1153
BisI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 686, 1013
BlsI	GCNGC	8 cut(s)	34, 84, 87, 174, 591, 631, 687, 1014
BmcAI	AGTACT	1 cut(s)	65
Bme1390I	CCNGG	2 cut(s)	151, 344
Bme18I	GGWCC	2 cut(s)	551, 964
BmeT110I	CYCGRG	1 cut(s)	200
BmgT120I	GGNCC	2 cut(s)	551, 964
BmiI	GGNNCC	4 cut(s)	531, 624, 705, 966
BmrFI	CCNGG	2 cut(s)	151, 344
BmsI	GCATC	4 cut(s)	418, 701, 860, 1108
BpiI	GAAGAC	1 cut(s)	1086
BpmI	CTGGAG	1 cut(s)	231
Bpu10I	CCTNAGC	3 cut(s)	36, 474, 786
Bpu14I	TTCGAA	1 cut(s)	1077
BpuEI	CTTGAG	1 cut(s)	992
BsaBI	GATNNNNATC	1 cut(s)	393
BsaJI	CCNNGG	2 cut(s)	150, 342
Bse118I	RCCGGY	1 cut(s)	814
Bse1I	ACTGG	2 cut(s)	479, 554
Bse3DI	GCAATG	1 cut(s)	846
Bse8I	GATNNNNATC	1 cut(s)	393
BseBI	CCWGG	2 cut(s)	151, 344
BseDI	CCNNGG	2 cut(s)	150, 342
BseGI	GGATG	2 cut(s)	409, 1051
BseJI	GATNNNNATC	1 cut(s)	393
BseMI	GCAATG	1 cut(s)	846
BseMII	CTCAG	5 cut(s)	50, 443, 465, 597, 800
BseNI	ACTGG	2 cut(s)	479, 554
BseRI	GAGGAG	3 cut(s)	322, 774, 995
BseSI	GKGCMC	3 cut(s)	102, 460, 811
BseXI	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 672, 1024
BsgI	GTGCAG	2 cut(s)	681, 753
Bsh1236I	CGCG	1 cut(s)	750
BshFI	GGCC	2 cut(s)	5, 874
BshNI	GGYRCC	1 cut(s)	529
BsiHKAI	GWGCWC	2 cut(s)	102, 811
BsiHKCI	CYCGRG	1 cut(s)	200
BsiSI	CCGG	1 cut(s)	815
BslFI	GGGAC	2 cut(s)	58, 167
BsmAI	GTCTC	2 cut(s)	513, 878
BsmFI	GGGAC	2 cut(s)	58, 167
BsmI	GAATGC	2 cut(s)	174, 232
BsnI	GGCC	2 cut(s)	5, 874
BsoBI	CYCGRG	1 cut(s)	200
Bsp119I	TTCGAA	1 cut(s)	1077
Bsp1286I	GDGCHC	4 cut(s)	102, 460, 720, 811
Bsp1407I	TGTACA	1 cut(s)	673
Bsp143I	GATC	3 cut(s)	394, 622, 1131
BspACI	CCGC	1 cut(s)	159
BspANI	GGCC	2 cut(s)	5, 874
BspCNI	CTCAG	5 cut(s)	49, 444, 466, 598, 799
BspFNI	CGCG	1 cut(s)	750
BspLI	GGNNCC	4 cut(s)	531, 624, 705, 966
BspMAI	CTGCAG	1 cut(s)	634
BspMI	ACCTGC	2 cut(s)	583, 775
BspPI	GGATC	4 cut(s)	402, 617, 630, 1126
BspT104I	TTCGAA	1 cut(s)	1077
BspT107I	GGYRCC	1 cut(s)	529
BsrDI	GCAATG	1 cut(s)	846
BsrFI	RCCGGY	1 cut(s)	814
BsrGI	TGTACA	1 cut(s)	673
BsrI	ACTGG	2 cut(s)	479, 554
BssAI	RCCGGY	1 cut(s)	814
BssECI	CCNNGG	2 cut(s)	150, 342
BssMI	GATC	3 cut(s)	394, 622, 1131
Bst2UI	CCWGG	2 cut(s)	151, 344
Bst4CI	ACNGT	3 cut(s)	187, 585, 647
BstAPI	GCANNNNNTGC	1 cut(s)	586
BstAUI	TGTACA	1 cut(s)	673
BstBI	TTCGAA	1 cut(s)	1077
BstC8I	GCNNGC	1 cut(s)	690
BstDEI	CTNAG	5 cut(s)	36, 452, 474, 606, 786
BstF5I	GGATG	2 cut(s)	409, 1051
BstFNI	CGCG	1 cut(s)	750
BstHHI	GCGC	1 cut(s)	232
BstKTI	GATC	3 cut(s)	397, 625, 1134
BstMAI	GTCTC	2 cut(s)	513, 878
BstMBI	GATC	3 cut(s)	394, 622, 1131
BstMWI	GCNNNNNNNGC	6 cut(s)	82, 141, 586, 724, 815, 887
BstNI	CCWGG	2 cut(s)	151, 344
BstNSI	RCATGY	1 cut(s)	1087
BstSCI	CCNGG	2 cut(s)	149, 342
BstSFI	CTRYAG	3 cut(s)	630, 777, 876
BstSLI	GKGCMC	3 cut(s)	102, 460, 811
BstUI	CGCG	1 cut(s)	750
BstV1I	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 672, 1024
BstV2I	GAAGAC	1 cut(s)	1086
BstX2I	RGATCY	2 cut(s)	622, 1131
BstYI	RGATCY	2 cut(s)	622, 1131
BsuI	GTATCC	1 cut(s)	1153
BsuRI	GGCC	2 cut(s)	5, 874
BtsCI	GGATG	2 cut(s)	409, 1051
BtsI	GCAGTG	2 cut(s)	27, 669
BtsIMutI	CAGTG	3 cut(s)	27, 486, 669
BveI	ACCTGC	2 cut(s)	583, 775
Cac8I	GCNNGC	1 cut(s)	690
CfoI	GCGC	1 cut(s)	232
Cfr10I	RCCGGY	1 cut(s)	814
Cfr13I	GGNCC	2 cut(s)	551, 964
Csp6I	GTAC	4 cut(s)	64, 362, 674, 941
CviAII	CATG	2 cut(s)	616, 1084
CviQI	GTAC	4 cut(s)	64, 362, 674, 941
DdeI	CTNAG	5 cut(s)	36, 452, 474, 606, 786
DpnI	GATC	3 cut(s)	396, 624, 1133
DpnII	GATC	3 cut(s)	394, 622, 1131
EaeI	YGGCCR	1 cut(s)	3
Eco147I	AGGCCT	1 cut(s)	874
Eco24I	GRGCYC	1 cut(s)	720
Eco47I	GGWCC	2 cut(s)	551, 964
Eco57I	CTGAAG	5 cut(s)	62, 777, 804, 993, 1038
Eco88I	CYCGRG	1 cut(s)	200
EcoRI	GAATTC	1 cut(s)	1073
EcoRII	CCWGG	2 cut(s)	149, 342
EcoT22I	ATGCAT	1 cut(s)	1066
EcoT38I	GRGCYC	1 cut(s)	720
FaeI	CATG	2 cut(s)	619, 1087
FaqI	GGGAC	2 cut(s)	58, 167
FatI	CATG	2 cut(s)	615, 1083
Fnu4HI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 686, 1013
FokI	GGATG	2 cut(s)	396, 1058
FriOI	GRGCYC	1 cut(s)	720
Fsp4HI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 686, 1013
FspBI	CTAG	1 cut(s)	908
GlaI	GCGC	1 cut(s)	231
GluI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 686, 1013
GsuI	CTGGAG	1 cut(s)	231
HaeIII	GGCC	2 cut(s)	5, 874
HapII	CCGG	1 cut(s)	815
HhaI	GCGC	1 cut(s)	232
Hin1II	CATG	2 cut(s)	619, 1087
Hin6I	GCGC	1 cut(s)	230
HinP1I	GCGC	1 cut(s)	230
HincII	GTYRAC	2 cut(s)	559, 799
HindII	GTYRAC	2 cut(s)	559, 799
HinfI	GANTC	5 cut(s)	116, 242, 443, 602, 1036
HpaI	GTTAAC	1 cut(s)	799
HpaII	CCGG	1 cut(s)	815
HphI	GGTGA	1 cut(s)	7
Hpy166II	GTNNAC	5 cut(s)	100, 559, 799, 809, 964
Hpy188I	TCNGA	5 cut(s)	115, 324, 607, 823, 973
Hpy188III	TCNNGA	6 cut(s)	165, 210, 223, 440, 473, 1124
Hpy8I	GTNNAC	5 cut(s)	100, 559, 799, 809, 964
HpyAV	CCTTC	3 cut(s)	22, 801, 1013
HpyCH4III	ACNGT	3 cut(s)	187, 585, 647
HpyCH4IV	ACGT	1 cut(s)	960
HpyF10VI	GCNNNNNNNGC	6 cut(s)	82, 141, 586, 724, 815, 887
HpyF3I	CTNAG	5 cut(s)	36, 452, 474, 606, 786
HpySE526I	ACGT	1 cut(s)	960
Hsp92II	CATG	2 cut(s)	619, 1087
HspAI	GCGC	1 cut(s)	230
KspAI	GTTAAC	1 cut(s)	799
Kzo9I	GATC	3 cut(s)	394, 622, 1131
LmnI	GCTCC	1 cut(s)	787
Lsp1109I	GCAGC	8 cut(s)	19, 94, 97, 159, 601, 616, 672, 1024
LweI	GCATC	4 cut(s)	418, 701, 860, 1108
MaeI	CTAG	1 cut(s)	908
MaeII	ACGT	1 cut(s)	960
MaeIII	GTNAC	2 cut(s)	25, 195
MalI	GATC	3 cut(s)	396, 624, 1133
MboI	GATC	3 cut(s)	394, 622, 1131
MboII	GAAGA	4 cut(s)	923, 929, 1091, 1127
MflI	RGATCY	2 cut(s)	622, 1131
MhlI	GDGCHC	4 cut(s)	102, 460, 720, 811
MlsI	TGGCCA	1 cut(s)	5
MluI	ACGCGT	1 cut(s)	748
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	3 cut(s)	125, 437, 1045
Mox20I	TGGCCA	1 cut(s)	5
Mph1103I	ATGCAT	1 cut(s)	1066
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	2 cut(s)	798, 993
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	685
MspI	CCGG	1 cut(s)	815
MspR9I	CCNGG	2 cut(s)	151, 344
Mva1269I	GAATGC	2 cut(s)	174, 232
MvaI	CCWGG	2 cut(s)	151, 344
MvnI	CGCG	1 cut(s)	750
MwoI	GCNNNNNNNGC	6 cut(s)	82, 141, 586, 724, 815, 887
NdeII	GATC	3 cut(s)	394, 622, 1131
NlaIII	CATG	2 cut(s)	619, 1087
NlaIV	GGNNCC	4 cut(s)	531, 624, 705, 966
NmuCI	GTSAC	2 cut(s)	25, 195
NsiI	ATGCAT	1 cut(s)	1066
NspI	RCATGY	1 cut(s)	1087
NspV	TTCGAA	1 cut(s)	1077
PceI	AGGCCT	1 cut(s)	874
PciI	ACATGT	1 cut(s)	1083
PctI	GAATGC	2 cut(s)	174, 232
PfeI	GAWTC	2 cut(s)	242, 602
PkrI	GCNGC	8 cut(s)	34, 84, 87, 174, 591, 631, 687, 1014
PleI	GAGTC	3 cut(s)	124, 437, 1044
PpsI	GAGTC	3 cut(s)	124, 437, 1044
PscI	ACATGT	1 cut(s)	1083
PsiI	TTATAA	1 cut(s)	1154
Psp6I	CCWGG	2 cut(s)	149, 342
PspGI	CCWGG	2 cut(s)	149, 342
PspN4I	GGNNCC	4 cut(s)	531, 624, 705, 966
PspPI	GGNCC	2 cut(s)	551, 964
PstI	CTGCAG	1 cut(s)	634
PsuI	RGATCY	2 cut(s)	622, 1131
PvuII	CAGCTG	1 cut(s)	685
RsaI	GTAC	4 cut(s)	65, 363, 675, 942
RsaNI	GTAC	4 cut(s)	64, 362, 674, 941
SaqAI	TTAA	2 cut(s)	798, 993
SatI	GCNGC	8 cut(s)	33, 83, 86, 173, 590, 630, 686, 1013
Sau3AI	GATC	3 cut(s)	394, 622, 1131
Sau96I	GGNCC	2 cut(s)	551, 964
ScaI	AGTACT	1 cut(s)	65
SchI	GAGTC	3 cut(s)	125, 437, 1045
ScrFI	CCNGG	2 cut(s)	151, 344
SduI	GDGCHC	4 cut(s)	102, 460, 720, 811
SfaNI	GCATC	4 cut(s)	418, 701, 860, 1108
SfcI	CTRYAG	3 cut(s)	630, 777, 876
SfuI	TTCGAA	1 cut(s)	1077
SinI	GGWCC	2 cut(s)	551, 964
SmlI	CTYRAG	1 cut(s)	1007
SmoI	CTYRAG	1 cut(s)	1007
SseBI	AGGCCT	1 cut(s)	874
SsiI	CCGC	1 cut(s)	159
SspMI	CTAG	1 cut(s)	908
StuI	AGGCCT	1 cut(s)	874
StyD4I	CCNGG	2 cut(s)	149, 342
TaaI	ACNGT	3 cut(s)	187, 585, 647
TaiI	ACGT	1 cut(s)	963
TaqI	TCGA	1 cut(s)	1077
TatI	WGTACW	3 cut(s)	63, 361, 673
TfiI	GAWTC	2 cut(s)	242, 602
Tru1I	TTAA	2 cut(s)	798, 993
Tru9I	TTAA	2 cut(s)	798, 993
TscAI	CASTG	3 cut(s)	34, 486, 669
TseFI	GTSAC	2 cut(s)	25, 195
TseI	GCWGC	8 cut(s)	32, 82, 85, 172, 589, 629, 685, 1012
Tsp45I	GTSAC	2 cut(s)	25, 195
TspDTI	ATGAA	6 cut(s)	373, 392, 639, 909, 930, 936
TspGWI	ACGGA	1 cut(s)	922
TspRI	CASTG	3 cut(s)	34, 486, 669
VneI	GTGCAC	2 cut(s)	98, 807
VpaK11BI	GGWCC	2 cut(s)	551, 964
XapI	RAATTY	4 cut(s)	295, 986, 1073, 1163
XceI	RCATGY	1 cut(s)	1087
XcmI	CCANNNNNNNNNTGG	1 cut(s)	523
XspI	CTAG	1 cut(s)	908
ZrmI	AGTACT	1 cut(s)	65
Zsp2I	ATGCAT	1 cut(s)	1066

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