Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0013491

Physical Location & Seq

Genomic Coordinates Forward (+)

3615602 .. 3623326

Gene Structure 7725 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG043500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 915 bp

ATGCCTCAGAGACACTCGAAGAACAACAACGACCTCGCGTTCTTCACATACGACGAGAAGCGAAAGCTTGGGTATGGAACCCAGAGGGAGAGACTCGGCAGAGACTCCATCAAACCCTTCGATGCTTGTTGCCTCTGCTTGAAGCCCTTCATCGACCCCATGAGTTGCCAGAAAGGCCATGTCTTTTGCAAAGAGTGCATTCTCGAATGTTTGCTTTCCCAGAAGAAAGACATCCACAGAAAGCAAGTTGCACATAATAGTCAGCAGAAGCAAGACAAGGAAGATGAAGAAGAGAAGTTAAGGCAACAGAAAGCCAGAGAGCTTGAGGCTTTTGATCAGCAAAACCATGGTGCAGTACCGCACTACAATGATAGAAACCAGGACCGGGATAAGAATGGTTTTCATGGGGCAAATAGTGTGAAGGTCACTTCTTACGAAGAAGAGGCGCTTCGGACAATGAAGGCATTTTGGCTGCCTTCTGCTACACCAGAAGCTCCTGTTAAAGTGGCTGCTCCCCCTGAATGCACAACCTGTCCAGAAGGAAGCGAGAAACTAAAGCTGAAGTCTCTTTTCCCTGTCCATTTCACTGAAGACACCAACGACGAGAAGAAATCCACGCCTCTTGACAAGACATTTATCTGCCCGAGCTGCAAGGTTACTTTAACAAACACGCTATCACTCGTGGCTCTTAGCTCATGTGGCCACGTCTTCTGTAAGAAGTGTGCTGATAAGTTCATACCTGTAGATAAGGTTTGTCTCGTTTGCAACAAGGGATGTAAAGAAAGGAACTTGGTGAACCTGAAAAAAGGAGGGACCGGCTTTGCTGGCCACGACGATGATCTTGAAGCCAAAGATTTCAAGCACTTGGGGAGTGGCTCGGGTCTTGGGTTAGTGAGACCCGCAGCGAAGACTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006464 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009628 GO:0009639 GO:0009640 GO:0009791 GO:0009987 GO:0016567 GO:0016604 GO:0016607 GO:0016740 GO:0019538 GO:0019787 GO:0031647 GO:0031648 GO:0031974 GO:0031981 GO:0032446 GO:0032501 GO:0032502 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048856 GO:0050896 GO:0061630 GO:0061659 GO:0065007 GO:0065008 GO:0070013 GO:0070647 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rtf2 zf-NOSIP zf-RING_UBOX

Protein Analysis

304

Amino Acids

34.11

Weight (kDa)

8.57

Isoelectric Point (pI)

47.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-NOSIP	PF15906	5 - 75	6.4e-16	Zinc-finger of nitric oxide synthase-interacting protein
Rtf2	PF04641	186 - 268	8.9e-09	Rtf2 RING-finger
zf-RING_5	PF14634	214 - 257	5.6e-06	zinc-RING finger domain

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: OG0013491)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G61620
fragaria_vesca	FvH4_3g03660
malus_domestica	MD05G1329000.v1.1 MD10G1305900.v1.1
prunus_persica	Prupe.4G033800_v2.0.a1
pyrus_communis	pycom05g30230 pycom10g25820
rosa_chinensis	RchiOBHm_Chr5g0005701
rosa_laevigata	RLG00000031319
rosa_multiflora	Rmu_sc0010248.1_g000004
rosa_roxburghii	Rroxscaffold_1G00070140
rosa_rugosa	Rorug04G0417400
rosa_samantha	Rh5AG045000 Rh5BG043700 Rh5CG052500 Rh5DG043500
rosa_wichuraiana	Rw0G008370 Rw5G004520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	38
AciI	CCGC	2 cut(s)	359, 900
AcoI	YGGCCR	2 cut(s)	700, 826
AcuI	CTGAAG	2 cut(s)	581, 609
AfaI	GTAC	1 cut(s)	357
AfiI	CCNNNNNNNGG	1 cut(s)	385
AgsI	TTSAA	3 cut(s)	142, 845, 859
AjiI	CACGTC	1 cut(s)	706
AjnI	CCWGG	1 cut(s)	378
AluBI	AGCT	6 cut(s)	67, 322, 494, 559, 648, 693
AluI	AGCT	6 cut(s)	67, 322, 494, 559, 648, 693
Alw26I	GTCTC	6 cut(s)	4, 85, 96, 570, 761, 889
Ama87I	CYCGRG	2 cut(s)	643, 877
AoxI	GGCC	3 cut(s)	175, 700, 826
ApeKI	GCWGC	4 cut(s)	472, 509, 648, 902
Asp700I	GAANNNNTTC	1 cut(s)	146
AspLEI	GCGC	1 cut(s)	448
AspS9I	GGNCC	2 cut(s)	382, 813
AsuC2I	CCSGG	1 cut(s)	386
AsuHPI	GGTGA	1 cut(s)	805
AvaI	CYCGRG	2 cut(s)	643, 877
AvaII	GGWCC	2 cut(s)	382, 813
BalI	TGGCCA	2 cut(s)	702, 828
BauI	CACGAG	1 cut(s)	680
BbsI	GAAGAC	2 cut(s)	597, 700
BbvI	GCAGC	3 cut(s)	459, 496, 635
BccI	CCATC	1 cut(s)	116
BciT130I	CCWGG	1 cut(s)	380
BclI	TGATCA	1 cut(s)	334
BcnI	CCSGG	1 cut(s)	386
BcoDI	GTCTC	6 cut(s)	4, 85, 96, 570, 761, 889
BfmI	CTRYAG	1 cut(s)	741
BfoI	RGCGCY	1 cut(s)	449
BglI	GCCNNNNNGGC	1 cut(s)	174
BisI	GCNGC	4 cut(s)	473, 510, 649, 903
BlsI	GCNGC	4 cut(s)	474, 511, 650, 904
Bme1390I	CCNGG	2 cut(s)	380, 386
Bme18I	GGWCC	2 cut(s)	382, 813
BmeT110I	CYCGRG	2 cut(s)	643, 877
BmgBI	CACGTC	1 cut(s)	706
BmgT120I	GGNCC	2 cut(s)	382, 813
BmiI	GGNNCC	2 cut(s)	79, 814
BmrFI	CCNGG	2 cut(s)	380, 386
BmsI	GCATC	1 cut(s)	112
BpiI	GAAGAC	2 cut(s)	597, 700
BpuEI	CTTGAG	1 cut(s)	344
BpuMI	CCSGG	1 cut(s)	386
BsaI	GGTCTC	1 cut(s)	889
BsaJI	CCNNGG	1 cut(s)	346
Bsc4I	CCNNNNNNNGG	1 cut(s)	385
Bse118I	RCCGGY	1 cut(s)	815
BseBI	CCWGG	1 cut(s)	380
BseDI	CCNNGG	1 cut(s)	346
BseGI	GGATG	2 cut(s)	231, 779
BseLI	CCNNNNNNNGG	1 cut(s)	385
BseMII	CTCAG	1 cut(s)	20
BseXI	GCAGC	3 cut(s)	459, 496, 635
BsgI	GTGCAG	1 cut(s)	372
Bsh1236I	CGCG	1 cut(s)	38
BshFI	GGCC	3 cut(s)	177, 702, 828
BsiHKCI	CYCGRG	2 cut(s)	643, 877
BsiSI	CCGG	2 cut(s)	385, 816
BslFI	GGGAC	1 cut(s)	826
BslI	CCNNNNNNNGG	1 cut(s)	385
BsmAI	GTCTC	6 cut(s)	4, 85, 96, 570, 761, 889
BsmFI	GGGAC	1 cut(s)	826
BsmI	GAATGC	2 cut(s)	198, 527
BsnI	GGCC	3 cut(s)	177, 702, 828
Bso31I	GGTCTC	1 cut(s)	889
BsoBI	CYCGRG	2 cut(s)	643, 877
Bsp143I	GATC	2 cut(s)	334, 838
Bsp19I	CCATGG	1 cut(s)	346
BspACI	CCGC	2 cut(s)	359, 900
BspANI	GGCC	3 cut(s)	177, 702, 828
BspCNI	CTCAG	1 cut(s)	19
BspFNI	CGCG	1 cut(s)	38
BspLI	GGNNCC	2 cut(s)	79, 814
BspTNI	GGTCTC	1 cut(s)	889
BsrFI	RCCGGY	1 cut(s)	815
BssAI	RCCGGY	1 cut(s)	815
BssECI	CCNNGG	1 cut(s)	346
BssMI	GATC	2 cut(s)	334, 838
BssSI	CACGAG	1 cut(s)	680
BssT1I	CCWWGG	1 cut(s)	346
Bst2BI	CACGAG	1 cut(s)	680
Bst2UI	CCWGG	1 cut(s)	380
Bst6I	CTCTTC	2 cut(s)	285, 435
BstAPI	GCANNNNNTGC	1 cut(s)	195
BstC8I	GCNNGC	1 cut(s)	826
BstDEI	CTNAG	2 cut(s)	6, 689
BstDSI	CCRYGG	1 cut(s)	346
BstF5I	GGATG	2 cut(s)	231, 779
BstFNI	CGCG	1 cut(s)	38
BstH2I	RGCGCY	1 cut(s)	449
BstHHI	GCGC	1 cut(s)	448
BstKTI	GATC	2 cut(s)	337, 841
BstMAI	GTCTC	6 cut(s)	4, 85, 96, 570, 761, 889
BstMBI	GATC	2 cut(s)	334, 838
BstMWI	GCNNNNNNNGC	5 cut(s)	174, 195, 648, 699, 825
BstNI	CCWGG	1 cut(s)	380
BstSCI	CCNGG	2 cut(s)	378, 384
BstSFI	CTRYAG	1 cut(s)	741
BstUI	CGCG	1 cut(s)	38
BstV1I	GCAGC	3 cut(s)	459, 496, 635
BstV2I	GAAGAC	2 cut(s)	597, 700
BsuRI	GGCC	3 cut(s)	177, 702, 828
BtgI	CCRYGG	1 cut(s)	346
BtrI	CACGTC	1 cut(s)	706
BtsCI	GGATG	2 cut(s)	231, 779
BtsIMutI	CAGTG	1 cut(s)	585
Cac8I	GCNNGC	1 cut(s)	826
CfoI	GCGC	1 cut(s)	448
Cfr10I	RCCGGY	1 cut(s)	815
Cfr13I	GGNCC	2 cut(s)	382, 813
Csp6I	GTAC	1 cut(s)	356
CspCI	CAANNNNNGTGG	2 cut(s)	604, 639
CviAII	CATG	5 cut(s)	160, 179, 347, 404, 696
CviQI	GTAC	1 cut(s)	356
DdeI	CTNAG	2 cut(s)	6, 689
DpnI	GATC	2 cut(s)	336, 840
DpnII	GATC	2 cut(s)	334, 838
EaeI	YGGCCR	2 cut(s)	700, 826
Eam1104I	CTCTTC	2 cut(s)	285, 435
EarI	CTCTTC	2 cut(s)	285, 435
Eco130I	CCWWGG	1 cut(s)	346
Eco31I	GGTCTC	1 cut(s)	889
Eco47I	GGWCC	2 cut(s)	382, 813
Eco57I	CTGAAG	2 cut(s)	581, 609
Eco88I	CYCGRG	2 cut(s)	643, 877
EcoRII	CCWGG	1 cut(s)	378
EcoT14I	CCWWGG	1 cut(s)	346
ErhI	CCWWGG	1 cut(s)	346
FaeI	CATG	5 cut(s)	163, 182, 350, 407, 699
FaiI	YATR	9 cut(s)	49, 75, 161, 180, 255, 348, 405, 697, 737
FalI	AAGNNNNNCTT	2 cut(s)	432, 464
FaqI	GGGAC	1 cut(s)	826
FatI	CATG	5 cut(s)	159, 178, 346, 403, 695
FauI	CCCGC	1 cut(s)	907
FbaI	TGATCA	1 cut(s)	334
Fnu4HI	GCNGC	4 cut(s)	473, 510, 649, 903
FokI	GGATG	2 cut(s)	218, 786
Fsp4HI	GCNGC	4 cut(s)	473, 510, 649, 903
GlaI	GCGC	1 cut(s)	447
GluI	GCNGC	4 cut(s)	473, 510, 649, 903
HaeII	RGCGCY	1 cut(s)	449
HaeIII	GGCC	3 cut(s)	177, 702, 828
HapII	CCGG	2 cut(s)	385, 816
HhaI	GCGC	1 cut(s)	448
Hin1II	CATG	5 cut(s)	163, 182, 350, 407, 699
Hin6I	GCGC	1 cut(s)	446
HinP1I	GCGC	1 cut(s)	446
HindIII	AAGCTT	1 cut(s)	65
HinfI	GANTC	2 cut(s)	93, 104
HpaII	CCGG	2 cut(s)	385, 816
HphI	GGTGA	1 cut(s)	805
Hpy166II	GTNNAC	1 cut(s)	796
Hpy188I	TCNGA	2 cut(s)	9, 453
Hpy188III	TCNNGA	4 cut(s)	203, 536, 623, 842
Hpy8I	GTNNAC	1 cut(s)	796
Hpy99I	CGWCG	3 cut(s)	56, 605, 836
HpyAV	CCTTC	6 cut(s)	127, 157, 415, 454, 486, 533
HpyCH4IV	ACGT	1 cut(s)	705
HpyCH4V	TGCA	7 cut(s)	189, 198, 251, 353, 525, 651, 765
HpyF10VI	GCNNNNNNNGC	5 cut(s)	174, 195, 648, 699, 825
HpyF3I	CTNAG	2 cut(s)	6, 689
HpySE526I	ACGT	1 cut(s)	705
Hsp92II	CATG	5 cut(s)	163, 182, 350, 407, 699
HspAI	GCGC	1 cut(s)	446
Ksp22I	TGATCA	1 cut(s)	334
Kzo9I	GATC	2 cut(s)	334, 838
LmnI	GCTCC	2 cut(s)	499, 517
Lsp1109I	GCAGC	3 cut(s)	459, 496, 635
LweI	GCATC	1 cut(s)	112
MaeII	ACGT	1 cut(s)	705
MaeIII	GTNAC	2 cut(s)	424, 655
MalI	GATC	2 cut(s)	336, 840
MboI	GATC	2 cut(s)	334, 838
MlsI	TGGCCA	2 cut(s)	702, 828
MluNI	TGGCCA	2 cut(s)	702, 828
MlyI	GAGTC	2 cut(s)	87, 98
MnlI	CCTC	8 cut(s)	15, 44, 78, 143, 319, 436, 630, 803
Mox20I	TGGCCA	2 cut(s)	702, 828
MroXI	GAANNNNTTC	1 cut(s)	146
MscI	TGGCCA	2 cut(s)	702, 828
MseI	TTAA	4 cut(s)	299, 501, 662, 913
MslI	CAYNNNNRTG	2 cut(s)	366, 834
Msp20I	TGGCCA	2 cut(s)	702, 828
MspI	CCGG	2 cut(s)	385, 816
MspR9I	CCNGG	2 cut(s)	380, 386
Mva1269I	GAATGC	2 cut(s)	198, 527
MvaI	CCWGG	1 cut(s)	380
MvnI	CGCG	1 cut(s)	38
MwoI	GCNNNNNNNGC	5 cut(s)	174, 195, 648, 699, 825
NciI	CCSGG	1 cut(s)	386
NcoI	CCATGG	1 cut(s)	346
NdeII	GATC	2 cut(s)	334, 838
NlaIII	CATG	5 cut(s)	163, 182, 350, 407, 699
NlaIV	GGNNCC	2 cut(s)	79, 814
NmeAIII	GCCGAG	1 cut(s)	75
NmuCI	GTSAC	1 cut(s)	424
PctI	GAATGC	2 cut(s)	198, 527
PdmI	GAANNNNTTC	1 cut(s)	146
PkrI	GCNGC	4 cut(s)	474, 511, 650, 904
PleI	GAGTC	2 cut(s)	87, 98
PpsI	GAGTC	2 cut(s)	87, 98
Psp6I	CCWGG	1 cut(s)	378
PspGI	CCWGG	1 cut(s)	378
PspN4I	GGNNCC	2 cut(s)	79, 814
PspPI	GGNCC	2 cut(s)	382, 813
RsaI	GTAC	1 cut(s)	357
RsaNI	GTAC	1 cut(s)	356
RseI	CAYNNNNRTG	2 cut(s)	366, 834
SaqAI	TTAA	4 cut(s)	299, 501, 662, 913
SatI	GCNGC	4 cut(s)	473, 510, 649, 903
Sau3AI	GATC	2 cut(s)	334, 838
Sau96I	GGNCC	2 cut(s)	382, 813
SchI	GAGTC	2 cut(s)	87, 98
ScrFI	CCNGG	2 cut(s)	380, 386
SfaNI	GCATC	1 cut(s)	112
SfcI	CTRYAG	1 cut(s)	741
SinI	GGWCC	2 cut(s)	382, 813
SmiMI	CAYNNNNRTG	2 cut(s)	366, 834
SmlI	CTYRAG	1 cut(s)	323
SmoI	CTYRAG	1 cut(s)	323
SsiI	CCGC	2 cut(s)	359, 900
StyD4I	CCNGG	2 cut(s)	378, 384
StyI	CCWWGG	1 cut(s)	346
TaiI	ACGT	1 cut(s)	708
TaqI	TCGA	4 cut(s)	17, 120, 153, 204
Tru1I	TTAA	4 cut(s)	299, 501, 662, 913
Tru9I	TTAA	4 cut(s)	299, 501, 662, 913
TscAI	CASTG	1 cut(s)	592
TseFI	GTSAC	1 cut(s)	424
TseI	GCWGC	4 cut(s)	472, 509, 648, 902
Tsp45I	GTSAC	1 cut(s)	424
TspDTI	ATGAA	5 cut(s)	139, 300, 392, 473, 724
TspRI	CASTG	1 cut(s)	592
VpaK11BI	GGWCC	2 cut(s)	382, 813
XmnI	GAANNNNTTC	1 cut(s)	146

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