Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000940

Physical Location & Seq

Genomic Coordinates Forward (+)

85692029 .. 85693953

Gene Structure 1925 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG555000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGGCTGAGAAAGAAGGTACTGTCAATATTGAGCGACTCGACTTCGGCCAAGACCCGGAGCCCCGCCGAGAGCTCCGCTCCGGCTACCTCGCCGTCCGGAAGCTGACCAGTGAGAAAAGAGACGATATAGCGAGTCCGGACTCAAAGAAATTTGATGTTGTTATTGACGAAATTAACAGACTTCATGAGCAAGTACAGCTTCCCCGAGAACAAGTGTCAGATGCGCAAGCACTTCTAGACGTAACTAAAACCGTGGTGGCTCCTATTATGTCACATTCAAATGGGGAAACTACCACAAGCGATTTCATTACCAGTTTGATTACAAATTTCGGGCAAGTCAATAGGTCATCAGTGAAAGAAGATGATGCCCATGTCTCACTTAACTGGAAAGATATTGGACTTTCTGTTCCACCCACACTCGAGAGGGCTTTTGGATGTTGCACAATGCTTGGACCCATGAATACTGAGTATAAGGAAAGGAAGGCTGCTGTCCGGCGTACAAAGCCTACCACAGCTCATCTGCCCACAGAGATTAATGAAGGAGGGGAAACAAATGAGACAGACTTAAACATGTTAACAATGTATGAGATTTTAAAGAAGGAGAAGAATGTCGAACTCAGTTGTTTGATACTAAATAGAAGGTCTTTTGCACAGACCGTGGAGAATTTATTCGCTCTTTCATTCCTCGCAAAAGACGGCAGAGTTAGAATTGCCGTCGAAGCAAATGGTTCTCATGTCGTTTCACCTACGAATGGTCCTGTTGCCAATGCAGTGGCTTATCACCATTTTGTGTTCCGATTTGATTTCAAGGACTGGAAGATAATGACTGAAATGGTGGCTGTTGGTGAGGAGCTGATGCCTTATAGAGACCACACAAAGTGCACACCTGCCCCTTAG

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

Nse4_C

Protein Analysis

298

Amino Acids

33.5

Weight (kDa)

5.7

Isoelectric Point (pI)

42.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nse4_C	PF08743	204 - 286	4.5e-20	Nse4 C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000940)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G51130 AT3G20760
fragaria_vesca	FvH4_3g44140 FvH4_3g44140 FvH4_3g44150 FvH4_3g44150 FvH4_6g22450 FvH4_6g22450
malus_domestica	MD03G1016900.v1.1 MD11G1017500.v1.1 MD12G1059300.v1.1
prunus_persica	Prupe.6G015300_v2.0.a1 Prupe.7G076100_v2.0.a1
pyrus_communis	pycom03g01450 pycom11g01240 pycom12g05160
rosa_chinensis	RchiOBHm_Chr3g0479811 RchiOBHm_Chr5g0080471 RchiOBHm_Chr5g0080481 RchiOBHm_Chr5g0080501
rosa_laevigata	RLG00000023530 RLG00000036859 RLG00000036860 RLG00000036861
rosa_multiflora	Rmu_co8034794.1_g000001 Rmu_co8187596.1_g000001 Rmu_sc0004329.1_g000005 Rmu_sc0007249.1_g000003 Rmu_sc0020711.1_g000002 Rmu_sc0020711.1_g000004 Rmu_sc0025164.1_g000002 Rmu_sc0025164.1_g000005
rosa_roxburghii	Rroxscaffold_1G00002910 Rroxscaffold_1G00002920 Rroxscaffold_1G00002930 Rroxscaffold_6G00401950
rosa_rugosa	Rorug03G0179000 Rorug05G0469200 Rorug05G0469300 Rorug05G0469300
rosa_samantha	Rh3AG229400 Rh3BG262600 Rh3BG313200 Rh3CG259500 Rh3CG311800 Rh3DG255700 Rh5AG522800 Rh5AG522900 Rh5AG523000 Rh5BG544400 Rh5BG544500 Rh5BG544700 Rh5CG568000 Rh5CG568100 Rh5DG554700 Rh5DG554800 Rh5DG554900 Rh5DG555000
rosa_wichuraiana	Rw0G002240 Rw0G015270 Rw0G019230 Rw0G023200 Rw0G023210 Rw0G023220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	225
AccBSI	CCGCTC	1 cut(s)	78
AccIII	TCCGGA	2 cut(s)	96, 136
AciI	CCGC	2 cut(s)	64, 76
AcoI	YGGCCR	1 cut(s)	46
AcsI	RAATTY	3 cut(s)	149, 325, 664
AdeI	CACNNNGTG	1 cut(s)	879
AfaI	GTAC	3 cut(s)	19, 195, 499
AfiI	CCNNNNNNNGG	2 cut(s)	55, 752
AflIII	ACRYGT	1 cut(s)	570
AgsI	TTSAA	2 cut(s)	279, 808
AloI	GAACNNNNNNTCC	2 cut(s)	390, 422
AluBI	AGCT	5 cut(s)	73, 103, 199, 515, 853
AluI	AGCT	5 cut(s)	73, 103, 199, 515, 853
Alw21I	GWGCWC	2 cut(s)	75, 884
Alw26I	GTCTC	4 cut(s)	114, 379, 551, 861
Alw44I	GTGCAC	1 cut(s)	880
Ama87I	CYCGRG	2 cut(s)	204, 419
Aor13HI	TCCGGA	2 cut(s)	96, 136
AoxI	GGCC	1 cut(s)	46
ApaLI	GTGCAC	1 cut(s)	880
ApeKI	GCWGC	1 cut(s)	485
ApoI	RAATTY	3 cut(s)	149, 325, 664
AseI	ATTAAT	1 cut(s)	534
Asp700I	GAANNNNTTC	1 cut(s)	668
AspLEI	GCGC	1 cut(s)	226
AspS9I	GGNCC	2 cut(s)	452, 755
AsuC2I	CCSGG	1 cut(s)	56
AsuHPI	GGTGA	3 cut(s)	735, 773, 857
AvaI	CYCGRG	2 cut(s)	204, 419
AvaII	GGWCC	2 cut(s)	452, 755
BaeGI	GKGCMC	1 cut(s)	884
BanII	GRGCYC	2 cut(s)	63, 75
Bbv12I	GWGCWC	2 cut(s)	75, 884
BbvI	GCAGC	1 cut(s)	472
BceAI	ACGGC	3 cut(s)	77, 698, 712
BcnI	CCSGG	1 cut(s)	56
BcoDI	GTCTC	4 cut(s)	114, 379, 551, 861
BfaI	CTAG	1 cut(s)	236
BisI	GCNGC	1 cut(s)	486
BlsI	GCNGC	1 cut(s)	487
Bme1390I	CCNGG	1 cut(s)	56
Bme18I	GGWCC	2 cut(s)	452, 755
BmeT110I	CYCGRG	2 cut(s)	204, 419
BmgT120I	GGNCC	2 cut(s)	452, 755
BmiI	GGNNCC	3 cut(s)	60, 261, 454
BmrFI	CCNGG	1 cut(s)	56
BmsI	GCATC	3 cut(s)	211, 355, 846
BplI	GAGNNNNNCTC	2 cut(s)	62, 94
BpuMI	CCSGG	1 cut(s)	56
BsaI	GGTCTC	1 cut(s)	861
BsaJI	CCNNGG	2 cut(s)	252, 657
BsaWI	WCCGGW	2 cut(s)	96, 136
Bsc4I	CCNNNNNNNGG	2 cut(s)	55, 752
Bse1I	ACTGG	4 cut(s)	108, 312, 389, 818
BseAI	TCCGGA	2 cut(s)	96, 136
BseDI	CCNNGG	2 cut(s)	252, 657
BseGI	GGATG	1 cut(s)	440
BseLI	CCNNNNNNNGG	2 cut(s)	55, 752
BseMII	CTCAG	2 cut(s)	456, 631
BseNI	ACTGG	4 cut(s)	108, 312, 389, 818
BseRI	GAGGAG	1 cut(s)	863
BseSI	GKGCMC	1 cut(s)	884
BseXI	GCAGC	1 cut(s)	472
BshFI	GGCC	1 cut(s)	48
BsiHKAI	GWGCWC	2 cut(s)	75, 884
BsiHKCI	CYCGRG	2 cut(s)	204, 419
BsiSI	CCGG	5 cut(s)	56, 81, 97, 137, 493
BslI	CCNNNNNNNGG	2 cut(s)	55, 752
BsmAI	GTCTC	4 cut(s)	114, 379, 551, 861
BsmBI	CGTCTC	1 cut(s)	114
BsnI	GGCC	1 cut(s)	48
Bso31I	GGTCTC	1 cut(s)	861
BsoBI	CYCGRG	2 cut(s)	204, 419
Bsp1286I	GDGCHC	3 cut(s)	63, 75, 884
Bsp13I	TCCGGA	2 cut(s)	96, 136
BspACI	CCGC	2 cut(s)	64, 76
BspANI	GGCC	1 cut(s)	48
BspCNI	CTCAG	2 cut(s)	457, 630
BspEI	TCCGGA	2 cut(s)	96, 136
BspHI	TCATGA	1 cut(s)	184
BspLI	GGNNCC	3 cut(s)	60, 261, 454
BspTNI	GGTCTC	1 cut(s)	861
BsrBI	CCGCTC	1 cut(s)	78
BsrI	ACTGG	4 cut(s)	108, 312, 389, 818
BssECI	CCNNGG	2 cut(s)	252, 657
Bst4CI	ACNGT	3 cut(s)	22, 253, 658
BstC8I	GCNNGC	1 cut(s)	228
BstDEI	CTNAG	4 cut(s)	6, 465, 617, 894
BstDSI	CCRYGG	2 cut(s)	252, 657
BstF5I	GGATG	1 cut(s)	440
BstHHI	GCGC	1 cut(s)	226
BstMAI	GTCTC	4 cut(s)	114, 379, 551, 861
BstMWI	GCNNNNNNNGC	3 cut(s)	196, 502, 719
BstNSI	RCATGY	1 cut(s)	574
BstSCI	CCNGG	1 cut(s)	54
BstSLI	GKGCMC	1 cut(s)	884
BstV1I	GCAGC	1 cut(s)	472
BstXI	CCANNNNNNTGG	1 cut(s)	772
BsuRI	GGCC	1 cut(s)	48
BtgI	CCRYGG	2 cut(s)	252, 657
BtsCI	GGATG	1 cut(s)	440
BtsI	GCAGTG	1 cut(s)	777
BtsIMutI	CAGTG	3 cut(s)	115, 357, 777
Cac8I	GCNNGC	1 cut(s)	228
CciI	TCATGA	1 cut(s)	184
CfoI	GCGC	1 cut(s)	226
Cfr13I	GGNCC	2 cut(s)	452, 755
Csp6I	GTAC	3 cut(s)	18, 194, 498
CviAII	CATG	5 cut(s)	185, 371, 457, 571, 734
CviQI	GTAC	3 cut(s)	18, 194, 498
DdeI	CTNAG	4 cut(s)	6, 465, 617, 894
DraI	TTTAAA	1 cut(s)	594
DraIII	CACNNNGTG	1 cut(s)	879
EaeI	YGGCCR	1 cut(s)	46
Ecl136II	GAGCTC	1 cut(s)	73
Eco24I	GRGCYC	2 cut(s)	63, 75
Eco31I	GGTCTC	1 cut(s)	861
Eco47I	GGWCC	2 cut(s)	452, 755
Eco53kI	GAGCTC	1 cut(s)	73
Eco88I	CYCGRG	2 cut(s)	204, 419
EcoICRI	GAGCTC	1 cut(s)	73
EcoT38I	GRGCYC	2 cut(s)	63, 75
Esp3I	CGTCTC	1 cut(s)	114
FaeI	CATG	5 cut(s)	188, 374, 460, 574, 737
FalI	AAGNNNNNCTT	2 cut(s)	183, 215
FatI	CATG	5 cut(s)	184, 370, 456, 570, 733
FauI	CCCGC	1 cut(s)	71
Fnu4HI	GCNGC	1 cut(s)	486
FokI	GGATG	1 cut(s)	447
FriOI	GRGCYC	2 cut(s)	63, 75
Fsp4HI	GCNGC	1 cut(s)	486
FspBI	CTAG	1 cut(s)	236
FspI	TGCGCA	1 cut(s)	225
GlaI	GCGC	1 cut(s)	225
GluI	GCNGC	1 cut(s)	486
HaeIII	GGCC	1 cut(s)	48
HapII	CCGG	5 cut(s)	56, 81, 97, 137, 493
HhaI	GCGC	1 cut(s)	226
Hin1II	CATG	5 cut(s)	188, 374, 460, 574, 737
Hin6I	GCGC	1 cut(s)	224
HinP1I	GCGC	1 cut(s)	224
HincII	GTYRAC	1 cut(s)	576
HindII	GTYRAC	1 cut(s)	576
HinfI	GANTC	3 cut(s)	36, 133, 140
HpaI	GTTAAC	1 cut(s)	576
HpaII	CCGG	5 cut(s)	56, 81, 97, 137, 493
HphI	GGTGA	3 cut(s)	735, 773, 857
Hpy166II	GTNNAC	2 cut(s)	576, 882
Hpy188I	TCNGA	2 cut(s)	220, 797
Hpy188III	TCNNGA	5 cut(s)	97, 137, 185, 236, 421
Hpy8I	GTNNAC	2 cut(s)	576, 882
Hpy99I	CGWCG	1 cut(s)	719
HpyAV	CCTTC	5 cut(s)	8, 475, 533, 592, 633
HpyCH4III	ACNGT	3 cut(s)	22, 253, 658
HpyCH4IV	ACGT	1 cut(s)	240
HpyCH4V	TGCA	4 cut(s)	441, 650, 770, 882
HpyF10VI	GCNNNNNNNGC	3 cut(s)	196, 502, 719
HpyF3I	CTNAG	4 cut(s)	6, 465, 617, 894
HpySE526I	ACGT	1 cut(s)	240
Hsp92II	CATG	5 cut(s)	188, 374, 460, 574, 737
HspAI	GCGC	1 cut(s)	224
Kpn2I	TCCGGA	2 cut(s)	96, 136
KspAI	GTTAAC	1 cut(s)	576
LmnI	GCTCC	5 cut(s)	58, 78, 83, 265, 850
Lsp1109I	GCAGC	1 cut(s)	472
LweI	GCATC	3 cut(s)	211, 355, 846
MaeI	CTAG	1 cut(s)	236
MaeII	ACGT	1 cut(s)	240
MaeIII	GTNAC	2 cut(s)	241, 270
MbiI	CCGCTC	1 cut(s)	78
MboII	GAAGA	3 cut(s)	371, 616, 829
MhlI	GDGCHC	3 cut(s)	63, 75, 884
MluCI	AATT	5 cut(s)	149, 171, 325, 664, 708
MlyI	GAGTC	3 cut(s)	30, 134, 142
MnlI	CCTC	5 cut(s)	98, 417, 536, 695, 841
MroI	TCCGGA	2 cut(s)	96, 136
MroXI	GAANNNNTTC	1 cut(s)	668
MseI	TTAA	6 cut(s)	174, 381, 534, 566, 575, 593
MslI	CAYNNNNRTG	1 cut(s)	279
MspI	CCGG	5 cut(s)	56, 81, 97, 137, 493
MspR9I	CCNGG	1 cut(s)	56
MwoI	GCNNNNNNNGC	3 cut(s)	196, 502, 719
NciI	CCSGG	1 cut(s)	56
NlaIII	CATG	5 cut(s)	188, 374, 460, 574, 737
NlaIV	GGNNCC	3 cut(s)	60, 261, 454
NmeAIII	GCCGAG	1 cut(s)	92
NmuCI	GTSAC	1 cut(s)	270
NsbI	TGCGCA	1 cut(s)	225
NspI	RCATGY	1 cut(s)	574
PaeR7I	CTCGAG	1 cut(s)	419
PagI	TCATGA	1 cut(s)	184
PciI	ACATGT	1 cut(s)	570
PdmI	GAANNNNTTC	1 cut(s)	668
PkrI	GCNGC	1 cut(s)	487
PleI	GAGTC	3 cut(s)	30, 134, 141
PpsI	GAGTC	3 cut(s)	30, 134, 141
PscI	ACATGT	1 cut(s)	570
PshBI	ATTAAT	1 cut(s)	534
Psp124BI	GAGCTC	1 cut(s)	75
PspN4I	GGNNCC	3 cut(s)	60, 261, 454
PspPI	GGNCC	2 cut(s)	452, 755
RsaI	GTAC	3 cut(s)	19, 195, 499
RsaNI	GTAC	3 cut(s)	18, 194, 498
RseI	CAYNNNNRTG	1 cut(s)	279
SacI	GAGCTC	1 cut(s)	75
SaqAI	TTAA	6 cut(s)	174, 381, 534, 566, 575, 593
SatI	GCNGC	1 cut(s)	486
Sau96I	GGNCC	2 cut(s)	452, 755
SchI	GAGTC	3 cut(s)	30, 134, 142
ScrFI	CCNGG	1 cut(s)	56
SduI	GDGCHC	3 cut(s)	63, 75, 884
SfaNI	GCATC	3 cut(s)	211, 355, 846
Sfr274I	CTCGAG	1 cut(s)	419
SinI	GGWCC	2 cut(s)	452, 755
SlaI	CTCGAG	1 cut(s)	419
SmiMI	CAYNNNNRTG	1 cut(s)	279
SmlI	CTYRAG	1 cut(s)	419
SmoI	CTYRAG	1 cut(s)	419
Sse9I	AATT	5 cut(s)	149, 171, 325, 664, 708
SsiI	CCGC	2 cut(s)	64, 76
SspI	AATATT	1 cut(s)	28
SspMI	CTAG	1 cut(s)	236
SstI	GAGCTC	1 cut(s)	75
StyD4I	CCNGG	1 cut(s)	54
TaaI	ACNGT	3 cut(s)	22, 253, 658
TaiI	ACGT	1 cut(s)	243
TaqI	TCGA	4 cut(s)	39, 420, 612, 717
TasI	AATT	5 cut(s)	149, 171, 325, 664, 708
TatI	WGTACW	1 cut(s)	193
Tru1I	TTAA	6 cut(s)	174, 381, 534, 566, 575, 593
Tru9I	TTAA	6 cut(s)	174, 381, 534, 566, 575, 593
TscAI	CASTG	3 cut(s)	115, 357, 777
TseFI	GTSAC	1 cut(s)	270
TseI	GCWGC	1 cut(s)	485
Tsp45I	GTSAC	1 cut(s)	270
TspDTI	ATGAA	5 cut(s)	173, 295, 473, 552, 669
TspRI	CASTG	3 cut(s)	115, 357, 777
VneI	GTGCAC	1 cut(s)	880
VpaK11BI	GGWCC	2 cut(s)	452, 755
VspI	ATTAAT	1 cut(s)	534
XapI	RAATTY	3 cut(s)	149, 325, 664
XbaI	TCTAGA	1 cut(s)	235
XceI	RCATGY	1 cut(s)	574
XhoI	CTCGAG	1 cut(s)	419
XmnI	GAANNNNTTC	1 cut(s)	668
XspI	CTAG	1 cut(s)	236

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