Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0000940

Physical Location & Seq

Genomic Coordinates Reverse (-)

25336863 .. 25339254

Gene Structure 2392 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG259500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGGTGAAACGCGTATTGGGTTGTGCTACTAGTACTAGTAGCGGAGGAGATGAAACGCACGAAACTGATCACGCGACGCCGGCGGTGGCTGACCCTAGAGTACTCCGATCACGCTACCACACTGTCAAGACCATCCTCTACGATGAAAGAGAGGATCTCACAAGAGCAGATTCGGAGAAGTTCAATTCGATCATTAAGGAAGTGGAGAGCTTGCACCAGCTGGTAACAAAGCCAAGAGAGCAAGTCGCGGATGCGGAGGCGCTTTTGGACATTGCAAGCACCCTGATGACCTCTGTACGGGCACATAACAAGGAAGGAATTACAGCTTCGGGTTTCGTCAACTGTATTCTTAGTGACTTCAGGAAACCGAGTGGTGATGGCAGCAGCTCTATATCTTGGAGGGACATTGGGAATGCGGTATCGCATGTTTTCCAGAGAAGCCCTCGATGCTGCACTATGATTGGGCCAATGAATGCTGATGTGAAGCAACGAAAGGTTTATCAACGTCAAAAACGTGGGAATCCTACACACAATGATACCCCTAAAGAGCTTGGTGATGCTGTTGTTGAAGAGGAAACCGAGACTGTTAAAAATGTGGCAACCATGTTTAATATTTTGAAGAAAAAGAGAAGGGTCAGGCTTGAATATCTAGTTTTGAATGGAAATTCTTTTTCACAGACAGTGGAAAATGTGTTTGCCCTATCGTTTCTTGTTAAAGATGGGCGAGTCGAAATAAAAGTGAACGAGGAAGGCCATCATCTAGTGTGTAAGTTCCTACTTTGCAAATGCTCTTACTTGCTTCTATGTTTCATTTGGTCATTCATGTAG

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

275

Amino Acids

30.94

Weight (kDa)

8.37

Isoelectric Point (pI)

35.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nse4_C	PF08743	212 - 252	1.6e-13	Nse4 C-terminal

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: 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)
AccII	CGCG	3 cut(s)	12, 74, 248
AciI	CCGC	5 cut(s)	42, 83, 248, 254, 416
AclWI	GGATC	1 cut(s)	162
AcsI	RAATTY	1 cut(s)	664
AcuI	CTGAAG	1 cut(s)	343
AcyI	GRCGYC	1 cut(s)	77
AfaI	GTAC	3 cut(s)	34, 102, 297
AfiI	CCNNNNNNNGG	1 cut(s)	297
AflIII	ACRYGT	1 cut(s)	10
AgsI	TTSAA	5 cut(s)	184, 569, 619, 644, 658
AhlI	ACTAGT	2 cut(s)	29, 35
AjuI	GAANNNNNNNTTGG	1 cut(s)	31
AluBI	AGCT	5 cut(s)	210, 220, 326, 387, 550
AluI	AGCT	5 cut(s)	210, 220, 326, 387, 550
Alw26I	GTCTC	1 cut(s)	575
AlwI	GGATC	1 cut(s)	162
AoxI	GGCC	2 cut(s)	464, 751
ApeKI	GCWGC	3 cut(s)	381, 384, 450
ApoI	RAATTY	1 cut(s)	664
AspLEI	GCGC	1 cut(s)	262
AspS9I	GGNCC	1 cut(s)	464
AsuHPI	GGTGA	3 cut(s)	16, 386, 566
BaeGI	GKGCMC	1 cut(s)	304
BbvI	GCAGC	3 cut(s)	393, 396, 437
BccI	CCATC	4 cut(s)	140, 371, 713, 762
BclI	TGATCA	1 cut(s)	67
BcoDI	GTCTC	1 cut(s)	575
BcuI	ACTAGT	2 cut(s)	29, 35
BfaI	CTAG	5 cut(s)	30, 36, 96, 650, 761
BfoI	RGCGCY	1 cut(s)	263
BisI	GCNGC	3 cut(s)	382, 385, 451
BlsI	GCNGC	3 cut(s)	383, 386, 452
BmcAI	AGTACT	2 cut(s)	34, 102
BmgT120I	GGNCC	1 cut(s)	464
BmsI	GCATC	3 cut(s)	241, 437, 547
BplI	GAGNNNNNCTC	4 cut(s)	141, 173, 427, 459
BsaHI	GRCGYC	1 cut(s)	77
Bsc4I	CCNNNNNNNGG	1 cut(s)	297
Bse118I	RCCGGY	1 cut(s)	79
Bse3DI	GCAATG	1 cut(s)	270
BseGI	GGATG	2 cut(s)	132, 256
BseLI	CCNNNNNNNGG	1 cut(s)	297
BseMI	GCAATG	1 cut(s)	270
BseRI	GAGGAG	1 cut(s)	60
BseSI	GKGCMC	1 cut(s)	304
BseXI	GCAGC	3 cut(s)	393, 396, 437
BsgI	GTGCAG	1 cut(s)	436
Bsh1236I	CGCG	3 cut(s)	12, 74, 248
BshFI	GGCC	2 cut(s)	466, 753
BsiSI	CCGG	1 cut(s)	80
BslFI	GGGAC	1 cut(s)	416
BslI	CCNNNNNNNGG	1 cut(s)	297
BsmAI	GTCTC	1 cut(s)	575
BsmFI	GGGAC	1 cut(s)	416
BsmI	GAATGC	2 cut(s)	418, 478
BsnI	GGCC	2 cut(s)	466, 753
Bsp1286I	GDGCHC	1 cut(s)	304
Bsp143I	GATC	4 cut(s)	67, 107, 154, 189
BspACI	CCGC	5 cut(s)	42, 83, 248, 254, 416
BspANI	GGCC	2 cut(s)	466, 753
BspFNI	CGCG	3 cut(s)	12, 74, 248
BspPI	GGATC	1 cut(s)	162
BsrDI	GCAATG	1 cut(s)	270
BsrFI	RCCGGY	1 cut(s)	79
BssAI	RCCGGY	1 cut(s)	79
BssMI	GATC	4 cut(s)	67, 107, 154, 189
BssNI	GRCGYC	1 cut(s)	77
Bst4CI	ACNGT	4 cut(s)	124, 344, 586, 682
Bst6I	CTCTTC	1 cut(s)	564
BstACI	GRCGYC	1 cut(s)	77
BstC8I	GCNNGC	3 cut(s)	81, 212, 277
BstDEI	CTNAG	1 cut(s)	350
BstF5I	GGATG	2 cut(s)	132, 256
BstFNI	CGCG	3 cut(s)	12, 74, 248
BstH2I	RGCGCY	1 cut(s)	263
BstHHI	GCGC	1 cut(s)	262
BstKTI	GATC	4 cut(s)	70, 110, 157, 192
BstMAI	GTCTC	1 cut(s)	575
BstMBI	GATC	4 cut(s)	67, 107, 154, 189
BstMWI	GCNNNNNNNGC	3 cut(s)	80, 238, 447
BstNSI	RCATGY	1 cut(s)	428
BstSLI	GKGCMC	1 cut(s)	304
BstUI	CGCG	3 cut(s)	12, 74, 248
BstV1I	GCAGC	3 cut(s)	393, 396, 437
BstX2I	RGATCY	1 cut(s)	154
BstYI	RGATCY	1 cut(s)	154
BsuRI	GGCC	2 cut(s)	466, 753
BtsCI	GGATG	2 cut(s)	132, 256
BtsIMutI	CAGTG	2 cut(s)	120, 687
Cac8I	GCNNGC	3 cut(s)	81, 212, 277
CfoI	GCGC	1 cut(s)	262
Cfr10I	RCCGGY	1 cut(s)	79
Cfr13I	GGNCC	1 cut(s)	464
CseI	GACGC	1 cut(s)	85
Csp6I	GTAC	3 cut(s)	33, 101, 296
CviAII	CATG	3 cut(s)	425, 604, 823
CviQI	GTAC	3 cut(s)	33, 101, 296
DdeI	CTNAG	1 cut(s)	350
DpnI	GATC	4 cut(s)	69, 109, 156, 191
DpnII	GATC	4 cut(s)	67, 107, 154, 189
Eam1104I	CTCTTC	1 cut(s)	564
EarI	CTCTTC	1 cut(s)	564
Eco57I	CTGAAG	1 cut(s)	343
FaeI	CATG	3 cut(s)	428, 607, 826
FaiI	YATR	7 cut(s)	306, 392, 426, 458, 605, 805, 824
FaqI	GGGAC	1 cut(s)	416
FatI	CATG	3 cut(s)	424, 603, 822
FbaI	TGATCA	1 cut(s)	67
Fnu4HI	GCNGC	3 cut(s)	382, 385, 451
FokI	GGATG	2 cut(s)	119, 263
Fsp4HI	GCNGC	3 cut(s)	382, 385, 451
FspBI	CTAG	5 cut(s)	30, 36, 96, 650, 761
GlaI	GCGC	1 cut(s)	261
GluI	GCNGC	3 cut(s)	382, 385, 451
HaeII	RGCGCY	1 cut(s)	263
HaeIII	GGCC	2 cut(s)	466, 753
HapII	CCGG	1 cut(s)	80
HgaI	GACGC	1 cut(s)	85
HhaI	GCGC	1 cut(s)	262
Hin1I	GRCGYC	1 cut(s)	77
Hin1II	CATG	3 cut(s)	428, 607, 826
Hin6I	GCGC	1 cut(s)	260
HinP1I	GCGC	1 cut(s)	260
HincII	GTYRAC	1 cut(s)	340
HindII	GTYRAC	1 cut(s)	340
HinfI	GANTC	3 cut(s)	170, 520, 726
HpaII	CCGG	1 cut(s)	80
HphI	GGTGA	3 cut(s)	16, 386, 566
Hpy166II	GTNNAC	2 cut(s)	340, 742
Hpy188I	TCNGA	2 cut(s)	107, 175
Hpy188III	TCNNGA	3 cut(s)	127, 361, 433
Hpy8I	GTNNAC	2 cut(s)	340, 742
Hpy99I	CGWCG	1 cut(s)	79
HpyAV	CCTTC	3 cut(s)	308, 624, 743
HpyCH4III	ACNGT	4 cut(s)	124, 344, 586, 682
HpyCH4IV	ACGT	2 cut(s)	505, 514
HpyCH4V	TGCA	4 cut(s)	214, 275, 453, 783
HpyF10VI	GCNNNNNNNGC	3 cut(s)	80, 238, 447
HpyF3I	CTNAG	1 cut(s)	350
HpySE526I	ACGT	2 cut(s)	505, 514
Hsp92I	GRCGYC	1 cut(s)	77
Hsp92II	CATG	3 cut(s)	428, 607, 826
HspAI	GCGC	1 cut(s)	260
KroI	GCCGGC	1 cut(s)	79
KroNI	GCCGGC	1 cut(s)	81
Ksp22I	TGATCA	1 cut(s)	67
Kzo9I	GATC	4 cut(s)	67, 107, 154, 189
LpnPI	CCDG	7 cut(s)	93, 206, 230, 296, 346, 446, 622
Lsp1109I	GCAGC	3 cut(s)	393, 396, 437
LweI	GCATC	3 cut(s)	241, 437, 547
MaeI	CTAG	5 cut(s)	30, 36, 96, 650, 761
MaeII	ACGT	2 cut(s)	505, 514
MaeIII	GTNAC	2 cut(s)	223, 353
MalI	GATC	4 cut(s)	69, 109, 156, 191
MboI	GATC	4 cut(s)	67, 107, 154, 189
MboII	GAAGA	2 cut(s)	581, 631
MflI	RGATCY	1 cut(s)	154
MhlI	GDGCHC	1 cut(s)	304
MluCI	AATT	3 cut(s)	184, 318, 664
MluI	ACGCGT	1 cut(s)	10
MlyI	GAGTC	1 cut(s)	735
MnlI	CCTC	9 cut(s)	38, 145, 146, 250, 301, 393, 453, 565, 739
MreI	CGCCGGCG	1 cut(s)	79
MroNI	GCCGGC	1 cut(s)	79
MseI	TTAA	4 cut(s)	195, 588, 609, 714
MslI	CAYNNNNRTG	1 cut(s)	284
MspA1I	CMGCKG	1 cut(s)	220
MspI	CCGG	1 cut(s)	80
Mva1269I	GAATGC	2 cut(s)	418, 478
MvnI	CGCG	3 cut(s)	12, 74, 248
MwoI	GCNNNNNNNGC	3 cut(s)	80, 238, 447
NaeI	GCCGGC	1 cut(s)	81
NdeII	GATC	4 cut(s)	67, 107, 154, 189
NgoMIV	GCCGGC	1 cut(s)	79
NlaIII	CATG	3 cut(s)	428, 607, 826
NmuCI	GTSAC	1 cut(s)	353
NspI	RCATGY	1 cut(s)	428
PcsI	WCGNNNNNNNCGW	1 cut(s)	511
PctI	GAATGC	2 cut(s)	418, 478
PdiI	GCCGGC	1 cut(s)	81
PfeI	GAWTC	2 cut(s)	170, 520
PkrI	GCNGC	3 cut(s)	383, 386, 452
PleI	GAGTC	1 cut(s)	734
PpsI	GAGTC	1 cut(s)	734
PspPI	GGNCC	1 cut(s)	464
PsuI	RGATCY	1 cut(s)	154
PvuII	CAGCTG	1 cut(s)	220
RsaI	GTAC	3 cut(s)	34, 102, 297
RsaNI	GTAC	3 cut(s)	33, 101, 296
RseI	CAYNNNNRTG	1 cut(s)	284
SaqAI	TTAA	4 cut(s)	195, 588, 609, 714
SatI	GCNGC	3 cut(s)	382, 385, 451
Sau3AI	GATC	4 cut(s)	67, 107, 154, 189
Sau96I	GGNCC	1 cut(s)	464
ScaI	AGTACT	2 cut(s)	34, 102
SchI	GAGTC	1 cut(s)	735
SduI	GDGCHC	1 cut(s)	304
SetI	ASST	9 cut(s)	212, 222, 293, 328, 389, 498, 508, 517, 552
SfaNI	GCATC	3 cut(s)	241, 437, 547
SgrAI	CRCCGGYG	1 cut(s)	79
SmiMI	CAYNNNNRTG	1 cut(s)	284
SpeI	ACTAGT	2 cut(s)	29, 35
Sse9I	AATT	3 cut(s)	184, 318, 664
SsiI	CCGC	5 cut(s)	42, 83, 248, 254, 416
SspI	AATATT	1 cut(s)	613
SspMI	CTAG	5 cut(s)	30, 36, 96, 650, 761
TaaI	ACNGT	4 cut(s)	124, 344, 586, 682
TaiI	ACGT	2 cut(s)	508, 517
TaqI	TCGA	3 cut(s)	188, 445, 729
TasI	AATT	3 cut(s)	184, 318, 664
TatI	WGTACW	2 cut(s)	32, 100
TfiI	GAWTC	2 cut(s)	170, 520
Tru1I	TTAA	4 cut(s)	195, 588, 609, 714
Tru9I	TTAA	4 cut(s)	195, 588, 609, 714
TscAI	CASTG	2 cut(s)	127, 687
TseFI	GTSAC	1 cut(s)	353
TseI	GCWGC	3 cut(s)	381, 384, 450
Tsp45I	GTSAC	1 cut(s)	353
TspDTI	ATGAA	5 cut(s)	66, 159, 485, 799, 811
TspRI	CASTG	2 cut(s)	127, 687
XapI	RAATTY	1 cut(s)	664
XceI	RCATGY	1 cut(s)	428
XspI	CTAG	5 cut(s)	30, 36, 96, 650, 761
ZrmI	AGTACT	2 cut(s)	34, 102

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