Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0003567

Physical Location & Seq

Genomic Coordinates Forward (+)

66885695 .. 66889583

Gene Structure 3889 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG358900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGGCAAATCAGACAGAGGATCCGCCGATCCCAAGTGCAGAGATTGTGGGCACTGCTTTTGTGCGTCAGTATTACACAATACTTAATCAAAGCCCTCATGAGGTTTACAAGTTTTATTCCAAAGACAGTCTCTTGAGCCGACCTGAGGCAGATGGTACAATGACAACAGTTGAAACTGTACAAGCCATCAATGAGAAGATATTATCGTTGGACTGTCCTTCTATACATATTTTGACGGTAGATTCTCAGTTTTCATTGGCCAATGGAGTAATTGTTTTAGTGACCGGGAATATAGTAGGAAACGACAAAGTGAAAAGAAGATTTACTCAAACTTTCTTTTTAGCCACGCAAGAGACAGGAGGATATTTCGTCTTAAATGACATGTTTAAGTTTGTCATCGATGATAATACAAATGAGTACACTCCTGGTTATGTTGCAGAAGAGACTCCAAATGTTCCTTTGAACCCAAATGATGAGTTATGTGCTGTTACTGACGAGCCTATTCCCACTCAAACAACTTATGTGGAGGTTGATAGTGCCAACGCAAATGAAGTTAATCATGTGTTGAAGAACTGTGAGGAGTCTGAGAAAAATGTTATTTCTGAAAAAAGTGTCGTTGCTGAGAAGAGTGTTGTTGTTGAAAAAGGTGTTGATGCAAGACAGGGTGTTGCTAACCATGTCAATGAAGCAGCTTCTTCAGCTTCTTCCAACATCCAGAAGGATGCTCCGAAAAAGACTTTTGCATCAGTTGTGAATGCCTTGAGTGTGAATAAAGCTCCCTTCAATGTGAGGGCACCCCCACCTAAACCTGTTGAGCGGCCACGTGCAACGGCCCCTGCACCTGTAGCACCTGAAGCTTTAACCCGAAACAACAGTACTGCTAGTTCTGTGGAAAAGAACAATGGTCCTGCAGTTAAAGTTCATGCCATTTTTGTTGCAAGTTTGCCTATGAGTGCAACTGTCGAAGAATTGGATAAGCTTTTCAAGCAGTTTGGATCCATCAAGCACGATGGGATTCAAGTTAGAAGCAATAAGATACAGGGAACATGCTTTGGATTTGTGGAATTTGAATCTGCTAGTTCCATGCAGAGTGCAATAAAGGTATAA

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

NTF2 RRM_1

Protein Analysis

368

Amino Acids

39.94

Weight (kDa)

5.16

Isoelectric Point (pI)

39.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NTF2	PF02136	16 - 131	5.9e-30	Nuclear transport factor 2 (NTF2) domain
RRM_1	PF00076	310 - 367	1.1e-10	RNA recognition motif

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: OG0003567)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13730 AT1G13730 AT2G03640 AT2G03640 AT2G03640 AT2G03640 AT2G03640
fragaria_vesca	FvH4_4g29890 FvH4_4g29890 FvH4_4g29890 FvH4_4g29890
malus_domestica	MD13G1061800.v1.1 MD16G1060300.v1.1
prunus_persica	Prupe.1G288100_v2.0.a1 Prupe.1G288100_v2.0.a1 Prupe.1G288100_v2.0.a1 Prupe.1G288100_v2.0.a1 Prupe.1G288100_v2.0.a1 Prupe.1G288100_v2.0.a1
pyrus_communis	pycom13g05430 pycom16g05250
rosa_chinensis	RchiOBHm_Chr4g0438161
rosa_laevigata	RLG00000006383
rosa_roxburghii	Rroxscaffold_5G00379300
rosa_rugosa	Rorug04G0307800 Rorug04G0307900 Rorug04G0308000 Rorug04G0308000 Rorug04G0308100
rosa_samantha	Rh4AG358900 Rh4BG369800 Rh4CG383900 Rh4DG364700
rosa_wichuraiana	Rw0G006350 Rw0G016290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	793
AccBSI	CCGCTC	1 cut(s)	817
AciI	CCGC	2 cut(s)	23, 817
AclWI	GGATC	5 cut(s)	14, 22, 27, 990, 1003
AcoI	YGGCCR	2 cut(s)	258, 818
AcsI	RAATTY	1 cut(s)	1064
AcuI	CTGAAG	2 cut(s)	681, 873
AcvI	CACGTG	1 cut(s)	824
AfaI	GTAC	4 cut(s)	157, 180, 419, 877
AfiI	CCNNNNNNNGG	2 cut(s)	100, 145
AflIII	ACRYGT	1 cut(s)	381
AgsI	TTSAA	8 cut(s)	173, 463, 568, 641, 784, 985, 1019, 1070
AjnI	CCWGG	1 cut(s)	424
AluBI	AGCT	5 cut(s)	692, 701, 776, 857, 979
AluI	AGCT	5 cut(s)	692, 701, 776, 857, 979
Alw26I	GTCTC	3 cut(s)	134, 347, 437
AlwI	GGATC	5 cut(s)	14, 22, 27, 990, 1003
AoxI	GGCC	3 cut(s)	258, 818, 831
ApeKI	GCWGC	1 cut(s)	689
ApoI	RAATTY	1 cut(s)	1064
AspS9I	GGNCC	2 cut(s)	832, 905
AsuC2I	CCSGG	1 cut(s)	286
AvaII	GGWCC	1 cut(s)	905
AxyI	CCTNAGG	1 cut(s)	144
BaeGI	GKGCMC	2 cut(s)	53, 796
BalI	TGGCCA	1 cut(s)	260
BamHI	GGATCC	2 cut(s)	19, 995
BanI	GGYRCC	1 cut(s)	793
BbrPI	CACGTG	1 cut(s)	824
BbvI	GCAGC	1 cut(s)	701
BccI	CCATC	4 cut(s)	146, 194, 1004, 1007
BceAI	ACGGC	1 cut(s)	846
BciT130I	CCWGG	1 cut(s)	426
BcnI	CCSGG	1 cut(s)	286
BcoDI	GTCTC	3 cut(s)	134, 347, 437
BfaI	CTAG	2 cut(s)	882, 1077
BfmI	CTRYAG	2 cut(s)	843, 909
BisI	GCNGC	2 cut(s)	690, 818
BlsI	GCNGC	2 cut(s)	691, 819
BmcAI	AGTACT	1 cut(s)	877
Bme1390I	CCNGG	2 cut(s)	286, 426
Bme18I	GGWCC	1 cut(s)	905
BmgT120I	GGNCC	2 cut(s)	832, 905
BmiI	GGNNCC	4 cut(s)	21, 795, 834, 997
BmrFI	CCNGG	2 cut(s)	286, 426
BmsI	GCATC	3 cut(s)	643, 712, 752
BpuEI	CTTGAG	2 cut(s)	154, 781
BpuMI	CCSGG	1 cut(s)	286
Bsa29I	ATCGAT	1 cut(s)	399
BsaAI	YACGTR	1 cut(s)	824
BsaXI	ACNNNNNCTCC	2 cut(s)	258, 288
Bsc4I	CCNNNNNNNGG	2 cut(s)	100, 145
Bse21I	CCTNAGG	1 cut(s)	144
BseBI	CCWGG	1 cut(s)	426
BseCI	ATCGAT	1 cut(s)	399
BseGI	GGATG	2 cut(s)	711, 727
BseLI	CCNNNNNNNGG	2 cut(s)	100, 145
BseMII	CTCAG	4 cut(s)	135, 260, 576, 612
BseRI	GAGGAG	1 cut(s)	593
BseSI	GKGCMC	2 cut(s)	53, 796
BseXI	GCAGC	1 cut(s)	701
BsgI	GTGCAG	2 cut(s)	57, 822
BshFI	GGCC	3 cut(s)	260, 820, 833
BshNI	GGYRCC	1 cut(s)	793
BshVI	ATCGAT	1 cut(s)	399
BsiSI	CCGG	1 cut(s)	285
BslI	CCNNNNNNNGG	2 cut(s)	100, 145
BsmAI	GTCTC	3 cut(s)	134, 347, 437
BsmI	GAATGC	1 cut(s)	760
BsnI	GGCC	3 cut(s)	260, 820, 833
Bsp1286I	GDGCHC	2 cut(s)	53, 796
Bsp1407I	TGTACA	1 cut(s)	178
Bsp143I	GATC	3 cut(s)	19, 27, 995
BspACI	CCGC	2 cut(s)	23, 817
BspANI	GGCC	3 cut(s)	260, 820, 833
BspCNI	CTCAG	4 cut(s)	136, 259, 577, 613
BspDI	ATCGAT	1 cut(s)	399
BspHI	TCATGA	1 cut(s)	97
BspLI	GGNNCC	4 cut(s)	21, 795, 834, 997
BspMAI	CTGCAG	1 cut(s)	913
BspPI	GGATC	5 cut(s)	14, 22, 27, 990, 1003
BspT107I	GGYRCC	1 cut(s)	793
BsrBI	CCGCTC	1 cut(s)	817
BsrGI	TGTACA	1 cut(s)	178
BssMI	GATC	3 cut(s)	19, 27, 995
Bst2UI	CCWGG	1 cut(s)	426
Bst4CI	ACNGT	8 cut(s)	128, 169, 178, 215, 238, 575, 875, 961
Bst6I	CTCTTC	2 cut(s)	435, 620
BstAUI	TGTACA	1 cut(s)	178
BstBAI	YACGTR	1 cut(s)	824
BstDEI	CTNAG	4 cut(s)	144, 246, 585, 621
BstF5I	GGATG	2 cut(s)	711, 727
BstKTI	GATC	3 cut(s)	22, 30, 998
BstMAI	GTCTC	3 cut(s)	134, 347, 437
BstMBI	GATC	3 cut(s)	19, 27, 995
BstMWI	GCNNNNNNNGC	4 cut(s)	698, 845, 854, 985
BstNI	CCWGG	1 cut(s)	426
BstNSI	RCATGY	2 cut(s)	385, 1050
BstSCI	CCNGG	2 cut(s)	284, 424
BstSFI	CTRYAG	2 cut(s)	843, 909
BstSLI	GKGCMC	2 cut(s)	53, 796
BstV1I	GCAGC	1 cut(s)	701
BstX2I	RGATCY	2 cut(s)	19, 995
BstYI	RGATCY	2 cut(s)	19, 995
Bsu15I	ATCGAT	1 cut(s)	399
Bsu36I	CCTNAGG	1 cut(s)	144
BsuRI	GGCC	3 cut(s)	260, 820, 833
BsuTUI	ATCGAT	1 cut(s)	399
BtsCI	GGATG	2 cut(s)	711, 727
BtsI	GCAGTG	1 cut(s)	51
BtsIMutI	CAGTG	1 cut(s)	51
CciI	TCATGA	1 cut(s)	97
Cfr13I	GGNCC	2 cut(s)	832, 905
ClaI	ATCGAT	1 cut(s)	399
CseI	GACGC	1 cut(s)	53
Csp6I	GTAC	4 cut(s)	156, 179, 418, 876
CspCI	CAANNNNNGTGG	2 cut(s)	504, 539
CviAII	CATG	7 cut(s)	98, 382, 560, 677, 923, 1047, 1084
CviQI	GTAC	4 cut(s)	156, 179, 418, 876
DdeI	CTNAG	4 cut(s)	144, 246, 585, 621
DpnI	GATC	3 cut(s)	21, 29, 997
DpnII	GATC	3 cut(s)	19, 27, 995
EaeI	YGGCCR	2 cut(s)	258, 818
Eam1104I	CTCTTC	2 cut(s)	435, 620
EarI	CTCTTC	2 cut(s)	435, 620
EciI	GGCGGA	1 cut(s)	12
Eco47I	GGWCC	1 cut(s)	905
Eco57I	CTGAAG	2 cut(s)	681, 873
Eco72I	CACGTG	1 cut(s)	824
Eco81I	CCTNAGG	1 cut(s)	144
EcoRII	CCWGG	1 cut(s)	424
FaeI	CATG	7 cut(s)	101, 385, 563, 680, 926, 1050, 1087
FatI	CATG	7 cut(s)	97, 381, 559, 676, 922, 1046, 1083
Fnu4HI	GCNGC	2 cut(s)	690, 818
FokI	GGATG	2 cut(s)	698, 734
Fsp4HI	GCNGC	2 cut(s)	690, 818
FspBI	CTAG	2 cut(s)	882, 1077
GluI	GCNGC	2 cut(s)	690, 818
HaeIII	GGCC	3 cut(s)	260, 820, 833
HapII	CCGG	1 cut(s)	285
HgaI	GACGC	1 cut(s)	53
Hin1II	CATG	7 cut(s)	101, 385, 563, 680, 926, 1050, 1087
HindIII	AAGCTT	2 cut(s)	855, 977
HinfI	GANTC	5 cut(s)	242, 445, 581, 1015, 1070
HpaII	CCGG	1 cut(s)	285
Hpy166II	GTNNAC	2 cut(s)	106, 420
Hpy188I	TCNGA	4 cut(s)	12, 586, 604, 729
Hpy188III	TCNNGA	3 cut(s)	98, 133, 715
Hpy8I	GTNNAC	2 cut(s)	106, 420
HpyAV	CCTTC	3 cut(s)	228, 712, 790
HpyCH4III	ACNGT	8 cut(s)	128, 169, 178, 215, 238, 575, 875, 961
HpyCH4IV	ACGT	1 cut(s)	823
HpyF10VI	GCNNNNNNNGC	4 cut(s)	698, 845, 854, 985
HpyF3I	CTNAG	4 cut(s)	144, 246, 585, 621
HpySE526I	ACGT	1 cut(s)	823
Hsp92II	CATG	7 cut(s)	101, 385, 563, 680, 926, 1050, 1087
Kzo9I	GATC	3 cut(s)	19, 27, 995
LmnI	GCTCC	2 cut(s)	730, 781
Lsp1109I	GCAGC	1 cut(s)	701
LweI	GCATC	3 cut(s)	643, 712, 752
MaeI	CTAG	2 cut(s)	882, 1077
MaeII	ACGT	1 cut(s)	823
MaeIII	GTNAC	2 cut(s)	280, 487
MalI	GATC	3 cut(s)	21, 29, 997
MbiI	CCGCTC	1 cut(s)	817
MboI	GATC	3 cut(s)	19, 27, 995
MboII	GAAGA	8 cut(s)	208, 330, 452, 580, 637, 687, 696, 977
MflI	RGATCY	2 cut(s)	19, 995
MhlI	GDGCHC	2 cut(s)	53, 796
MlsI	TGGCCA	1 cut(s)	260
MluCI	AATT	3 cut(s)	270, 968, 1064
MluNI	TGGCCA	1 cut(s)	260
MlyI	GAGTC	2 cut(s)	439, 590
MmeI	TCCRAC	2 cut(s)	189, 732
MnlI	CCTC	8 cut(s)	10, 94, 105, 139, 353, 520, 571, 783
Mox20I	TGGCCA	1 cut(s)	260
MscI	TGGCCA	1 cut(s)	260
MseI	TTAA	6 cut(s)	84, 374, 387, 555, 860, 915
MslI	CAYNNNNRTG	1 cut(s)	681
Msp20I	TGGCCA	1 cut(s)	260
MspI	CCGG	1 cut(s)	285
MspR9I	CCNGG	2 cut(s)	286, 426
Mva1269I	GAATGC	1 cut(s)	760
MvaI	CCWGG	1 cut(s)	426
MwoI	GCNNNNNNNGC	4 cut(s)	698, 845, 854, 985
NciI	CCSGG	1 cut(s)	286
NdeII	GATC	3 cut(s)	19, 27, 995
NlaIII	CATG	7 cut(s)	101, 385, 563, 680, 926, 1050, 1087
NlaIV	GGNNCC	4 cut(s)	21, 795, 834, 997
NmuCI	GTSAC	1 cut(s)	280
NspI	RCATGY	2 cut(s)	385, 1050
PagI	TCATGA	1 cut(s)	97
PciI	ACATGT	1 cut(s)	381
PctI	GAATGC	1 cut(s)	760
PfeI	GAWTC	3 cut(s)	242, 1015, 1070
PkrI	GCNGC	2 cut(s)	691, 819
PleI	GAGTC	2 cut(s)	439, 589
PmaCI	CACGTG	1 cut(s)	824
PmlI	CACGTG	1 cut(s)	824
PpsI	GAGTC	2 cut(s)	439, 589
Ppu21I	YACGTR	1 cut(s)	824
PscI	ACATGT	1 cut(s)	381
Psp6I	CCWGG	1 cut(s)	424
PspCI	CACGTG	1 cut(s)	824
PspGI	CCWGG	1 cut(s)	424
PspN4I	GGNNCC	4 cut(s)	21, 795, 834, 997
PspPI	GGNCC	2 cut(s)	832, 905
PsrI	GAACNNNNNNTAC	2 cut(s)	868, 900
PstI	CTGCAG	1 cut(s)	913
PsuI	RGATCY	2 cut(s)	19, 995
RsaI	GTAC	4 cut(s)	157, 180, 419, 877
RsaNI	GTAC	4 cut(s)	156, 179, 418, 876
RseI	CAYNNNNRTG	1 cut(s)	681
SaqAI	TTAA	6 cut(s)	84, 374, 387, 555, 860, 915
SatI	GCNGC	2 cut(s)	690, 818
Sau3AI	GATC	3 cut(s)	19, 27, 995
Sau96I	GGNCC	2 cut(s)	832, 905
ScaI	AGTACT	1 cut(s)	877
SchI	GAGTC	2 cut(s)	439, 590
ScrFI	CCNGG	2 cut(s)	286, 426
SduI	GDGCHC	2 cut(s)	53, 796
SfaNI	GCATC	3 cut(s)	643, 712, 752
SfcI	CTRYAG	2 cut(s)	843, 909
SinI	GGWCC	1 cut(s)	905
SmiMI	CAYNNNNRTG	1 cut(s)	681
SmlI	CTYRAG	2 cut(s)	133, 760
SmoI	CTYRAG	2 cut(s)	133, 760
Sse9I	AATT	3 cut(s)	270, 968, 1064
SsiI	CCGC	2 cut(s)	23, 817
SspMI	CTAG	2 cut(s)	882, 1077
StyD4I	CCNGG	2 cut(s)	284, 424
TaaI	ACNGT	8 cut(s)	128, 169, 178, 215, 238, 575, 875, 961
TaiI	ACGT	1 cut(s)	826
TaqI	TCGA	2 cut(s)	399, 963
TasI	AATT	3 cut(s)	270, 968, 1064
TatI	WGTACW	3 cut(s)	178, 417, 875
TauI	GCSGC	1 cut(s)	820
TfiI	GAWTC	3 cut(s)	242, 1015, 1070
Tru1I	TTAA	6 cut(s)	84, 374, 387, 555, 860, 915
Tru9I	TTAA	6 cut(s)	84, 374, 387, 555, 860, 915
TscAI	CASTG	1 cut(s)	58
TseFI	GTSAC	1 cut(s)	280
TseI	GCWGC	1 cut(s)	689
Tsp45I	GTSAC	1 cut(s)	280
TspDTI	ATGAA	4 cut(s)	243, 564, 699, 911
TspRI	CASTG	1 cut(s)	58
VpaK11BI	GGWCC	1 cut(s)	905
XapI	RAATTY	1 cut(s)	1064
XceI	RCATGY	2 cut(s)	385, 1050
XspI	CTAG	2 cut(s)	882, 1077
ZrmI	AGTACT	1 cut(s)	877

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