Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0007730

Physical Location & Seq

Genomic Coordinates Forward (+)

4214842 .. 4217710

Gene Structure 2869 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG050000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGGGTTTGTTTGGGCTGTGGTGGAATGGAAGTGCGGTAGGGTTTCTTCTATTGGTGCCAGGAATTCTGGGTTGGGGCAAAGAAGGCCATTATGCAGTTTGCAAGATAGCAGAGGGATTTCTGAGTGAAGATGCTTTAGCTGCAGTGAAAGAATTGCTACCGGAATCTGCTGGAGGTGATCTTGCTGCAGCTTGCTCGTGGCCTGATGAGATTCGCTTTCATTATCATTGGAGTAGTGCTTTACACTATGTTGACACACCCGATTTTCTGTGTAACTACAATTACAGCAGAGACTGCCATGACTCTGCTGGACATAAAGGGAGATGTGTAACTGCAGCAATATACAACTATACGATGCAACTTTCGACTTATCAGGATTCCATCTCAAAATCAAAATACAACTTAACAGAGGCACTTCTTTTCTTGTCTCACTTTATTGGGGATGTCCATCAGTACCGCTTTGTGTGTAACATGATGCCTAATAGCATGAGGTATGCTTCTGAAAGCATTCGTTTAGCATGCAAATTTGCTTACAGGAATGCCACTCCAGGAAGCACTCTGAATGATGATTACTTTCTTTCTCGGCTGCCTGTCGTGGAGAAGCGGCTAGCTCAAAGTGGGGTCCGCTTGGCTGCTACCCTCAACCATATCTTCTCTTCTGAACCAAAAATTGCTGAAGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000014 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005575 GO:0005576 GO:0006139 GO:0006259 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043765 GO:0044237 GO:0044238 GO:0044260 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0140097 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

S1-P1_nuclease

Protein Analysis

227

Amino Acids

25.33

Weight (kDa)

6.29

Isoelectric Point (pI)

43.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
S1-P1_nuclease	PF02265	25 - 151	4.5e-35	S1/P1 Nuclease
S1-P1_nuclease	PF02265	161 - 218	1.9e-15	S1/P1 Nuclease

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

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

Orthologous Genes (Group: OG0007730)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G21585 AT4G21585 AT4G21585 AT4G21585 AT4G21585 AT4G21585 AT4G21590 AT4G21590 AT4G21600
fragaria_vesca	FvH4_3g04350 FvH4_3g04350
malus_domestica	MD05G1323700.v1.1
prunus_persica	Prupe.4G038800_v2.0.a1
pyrus_communis	pycom05g29810
rosa_chinensis	RchiOBHm_Chr5g0006741
rosa_laevigata	RLG00000031424
rosa_multiflora	Rmu_sc0017347.1_g000006 Rmu_sc0018387.1_g000005
rosa_rugosa	Rorug04G0424100
rosa_samantha	Rh5AG052000 Rh5BG050900 Rh5CG059500 Rh5DG050000
rosa_wichuraiana	Rw5G005250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	55
AciI	CCGC	4 cut(s)	35, 457, 604, 625
AcsI	RAATTY	2 cut(s)	63, 524
AfaI	GTAC	1 cut(s)	455
AjnI	CCWGG	2 cut(s)	58, 547
AjuI	GAANNNNNNNTTGG	2 cut(s)	55, 87
AluBI	AGCT	3 cut(s)	140, 191, 611
AluI	AGCT	3 cut(s)	140, 191, 611
Alw26I	GTCTC	2 cut(s)	285, 432
AlwNI	CAGNNNCTG	1 cut(s)	294
AoxI	GGCC	2 cut(s)	85, 200
ApeKI	GCWGC	6 cut(s)	140, 185, 188, 335, 586, 632
ApoI	RAATTY	2 cut(s)	63, 524
Asp700I	GAANNNNTTC	1 cut(s)	507
AspS9I	GGNCC	1 cut(s)	622
AsuHPI	GGTGA	1 cut(s)	188
AsuNHI	GCTAGC	1 cut(s)	607
AvaII	GGWCC	1 cut(s)	622
BanI	GGYRCC	1 cut(s)	55
BarI	GAAGNNNNNNTAC	2 cut(s)	30, 62
BauI	CACGAG	1 cut(s)	196
BbvI	GCAGC	6 cut(s)	127, 172, 200, 347, 573, 619
BccI	CCATC	2 cut(s)	389, 456
BcgI	CGANNNNNNTGC	2 cut(s)	177, 211
BciT130I	CCWGG	2 cut(s)	60, 549
BcoDI	GTCTC	2 cut(s)	285, 432
BfaI	CTAG	1 cut(s)	608
BfmI	CTRYAG	3 cut(s)	141, 186, 333
BisI	GCNGC	7 cut(s)	141, 186, 189, 336, 587, 605, 633
BlsI	GCNGC	7 cut(s)	142, 187, 190, 337, 588, 606, 634
Bme1390I	CCNGG	2 cut(s)	60, 549
Bme18I	GGWCC	1 cut(s)	622
BmgT120I	GGNCC	1 cut(s)	622
BmiI	GGNNCC	2 cut(s)	57, 623
BmrFI	CCNGG	2 cut(s)	60, 549
BmsI	GCATC	3 cut(s)	121, 345, 465
BmtI	GCTAGC	1 cut(s)	611
BpmI	CTGGAG	2 cut(s)	192, 531
BsaBI	GATNNNNATC	1 cut(s)	447
BsaWI	WCCGGW	1 cut(s)	160
Bse8I	GATNNNNATC	1 cut(s)	447
BseBI	CCWGG	2 cut(s)	60, 549
BseGI	GGATG	1 cut(s)	448
BseJI	GATNNNNATC	1 cut(s)	447
BseMII	CTCAG	1 cut(s)	113
BseXI	GCAGC	6 cut(s)	127, 172, 200, 347, 573, 619
BshFI	GGCC	2 cut(s)	87, 202
BshNI	GGYRCC	1 cut(s)	55
BsiSI	CCGG	1 cut(s)	161
BsmAI	GTCTC	2 cut(s)	285, 432
BsmI	GAATGC	2 cut(s)	507, 544
BsnI	GGCC	2 cut(s)	87, 202
Bsp143I	GATC	1 cut(s)	178
BspACI	CCGC	4 cut(s)	35, 457, 604, 625
BspANI	GGCC	2 cut(s)	87, 202
BspCNI	CTCAG	1 cut(s)	114
BspLI	GGNNCC	2 cut(s)	57, 623
BspMAI	CTGCAG	3 cut(s)	145, 190, 337
BspOI	GCTAGC	1 cut(s)	611
BspT107I	GGYRCC	1 cut(s)	55
BssMI	GATC	1 cut(s)	178
BssSI	CACGAG	1 cut(s)	196
Bst2BI	CACGAG	1 cut(s)	196
Bst2UI	CCWGG	2 cut(s)	60, 549
Bst6I	CTCTTC	1 cut(s)	661
BstAPI	GCANNNNNTGC	1 cut(s)	294
BstC8I	GCNNGC	3 cut(s)	193, 520, 609
BstDEI	CTNAG	1 cut(s)	122
BstF5I	GGATG	1 cut(s)	448
BstKTI	GATC	1 cut(s)	181
BstMAI	GTCTC	2 cut(s)	285, 432
BstMBI	GATC	1 cut(s)	178
BstMWI	GCNNNNNNNGC	3 cut(s)	84, 140, 294
BstNI	CCWGG	2 cut(s)	60, 549
BstNSI	RCATGY	1 cut(s)	522
BstSCI	CCNGG	2 cut(s)	58, 547
BstSFI	CTRYAG	3 cut(s)	141, 186, 333
BstV1I	GCAGC	6 cut(s)	127, 172, 200, 347, 573, 619
BsuRI	GGCC	2 cut(s)	87, 202
BtsCI	GGATG	1 cut(s)	448
BtsI	GCAGTG	1 cut(s)	150
BtsIMutI	CAGTG	1 cut(s)	150
Cac8I	GCNNGC	3 cut(s)	193, 520, 609
CaiI	CAGNNNCTG	1 cut(s)	294
Cfr13I	GGNCC	1 cut(s)	622
Csp6I	GTAC	1 cut(s)	454
CviAII	CATG	5 cut(s)	299, 472, 487, 519, 681
CviJI	RGCY	9 cut(s)	16, 87, 140, 191, 202, 586, 607, 611, 632
CviKI_1	RGCY	9 cut(s)	16, 87, 140, 191, 202, 586, 607, 611, 632
CviQI	GTAC	1 cut(s)	454
DdeI	CTNAG	1 cut(s)	122
DpnI	GATC	1 cut(s)	180
DpnII	GATC	1 cut(s)	178
Eam1104I	CTCTTC	1 cut(s)	661
EarI	CTCTTC	1 cut(s)	661
Eco47I	GGWCC	1 cut(s)	622
EcoRI	GAATTC	1 cut(s)	63
EcoRII	CCWGG	2 cut(s)	58, 547
FaeI	CATG	5 cut(s)	302, 475, 490, 522, 684
FatI	CATG	5 cut(s)	298, 471, 486, 518, 680
Fnu4HI	GCNGC	7 cut(s)	141, 186, 189, 336, 587, 605, 633
FokI	GGATG	1 cut(s)	455
Fsp4HI	GCNGC	7 cut(s)	141, 186, 189, 336, 587, 605, 633
FspBI	CTAG	1 cut(s)	608
GluI	GCNGC	7 cut(s)	141, 186, 189, 336, 587, 605, 633
GsuI	CTGGAG	2 cut(s)	192, 531
HaeIII	GGCC	2 cut(s)	87, 202
HapII	CCGG	1 cut(s)	161
Hin1II	CATG	5 cut(s)	302, 475, 490, 522, 684
HincII	GTYRAC	1 cut(s)	253
HindII	GTYRAC	1 cut(s)	253
HinfI	GANTC	4 cut(s)	164, 211, 302, 377
HpaII	CCGG	1 cut(s)	161
HphI	GGTGA	1 cut(s)	188
Hpy166II	GTNNAC	1 cut(s)	253
Hpy188I	TCNGA	4 cut(s)	123, 502, 561, 661
Hpy188III	TCNNGA	1 cut(s)	374
Hpy8I	GTNNAC	1 cut(s)	253
HpyAV	CCTTC	1 cut(s)	77
HpyCH4V	TGCA	7 cut(s)	95, 102, 143, 188, 335, 358, 522
HpyF10VI	GCNNNNNNNGC	3 cut(s)	84, 140, 294
HpyF3I	CTNAG	1 cut(s)	122
Hsp92II	CATG	5 cut(s)	302, 475, 490, 522, 684
Kzo9I	GATC	1 cut(s)	178
Lsp1109I	GCAGC	6 cut(s)	127, 172, 200, 347, 573, 619
LweI	GCATC	3 cut(s)	121, 345, 465
MaeI	CTAG	1 cut(s)	608
MaeIII	GTNAC	3 cut(s)	272, 328, 467
MalI	GATC	1 cut(s)	180
MboI	GATC	1 cut(s)	178
MboII	GAAGA	4 cut(s)	38, 140, 643, 648
MluCI	AATT	5 cut(s)	63, 152, 280, 524, 669
MlyI	GAGTC	1 cut(s)	296
MnlI	CCTC	5 cut(s)	106, 167, 403, 483, 650
MroXI	GAANNNNTTC	1 cut(s)	507
MseI	TTAA	1 cut(s)	404
MspI	CCGG	1 cut(s)	161
MspR9I	CCNGG	2 cut(s)	60, 549
Mva1269I	GAATGC	2 cut(s)	507, 544
MvaI	CCWGG	2 cut(s)	60, 549
MwoI	GCNNNNNNNGC	3 cut(s)	84, 140, 294
NdeII	GATC	1 cut(s)	178
NheI	GCTAGC	1 cut(s)	607
NlaIII	CATG	5 cut(s)	302, 475, 490, 522, 684
NlaIV	GGNNCC	2 cut(s)	57, 623
NmeAIII	GCCGAG	1 cut(s)	562
NspI	RCATGY	1 cut(s)	522
PaeI	GCATGC	1 cut(s)	522
PctI	GAATGC	2 cut(s)	507, 544
PdmI	GAANNNNTTC	1 cut(s)	507
PfeI	GAWTC	3 cut(s)	164, 211, 377
PfoI	TCCNGGA	1 cut(s)	547
PkrI	GCNGC	7 cut(s)	142, 187, 190, 337, 588, 606, 634
PleI	GAGTC	1 cut(s)	296
PpsI	GAGTC	1 cut(s)	296
Psp6I	CCWGG	2 cut(s)	58, 547
PspGI	CCWGG	2 cut(s)	58, 547
PspN4I	GGNNCC	2 cut(s)	57, 623
PspPI	GGNCC	1 cut(s)	622
PstI	CTGCAG	3 cut(s)	145, 190, 337
PstNI	CAGNNNCTG	1 cut(s)	294
RsaI	GTAC	1 cut(s)	455
RsaNI	GTAC	1 cut(s)	454
SaqAI	TTAA	1 cut(s)	404
SatI	GCNGC	7 cut(s)	141, 186, 189, 336, 587, 605, 633
Sau3AI	GATC	1 cut(s)	178
Sau96I	GGNCC	1 cut(s)	622
SchI	GAGTC	1 cut(s)	296
ScrFI	CCNGG	2 cut(s)	60, 549
SetI	ASST	5 cut(s)	142, 178, 193, 494, 613
SfaNI	GCATC	3 cut(s)	121, 345, 465
SfcI	CTRYAG	3 cut(s)	141, 186, 333
SinI	GGWCC	1 cut(s)	622
SphI	GCATGC	1 cut(s)	522
Sse9I	AATT	5 cut(s)	63, 152, 280, 524, 669
SsiI	CCGC	4 cut(s)	35, 457, 604, 625
SspMI	CTAG	1 cut(s)	608
StyD4I	CCNGG	2 cut(s)	58, 547
TaqI	TCGA	1 cut(s)	365
TasI	AATT	5 cut(s)	63, 152, 280, 524, 669
TauI	GCSGC	1 cut(s)	607
TfiI	GAWTC	3 cut(s)	164, 211, 377
Tru1I	TTAA	1 cut(s)	404
Tru9I	TTAA	1 cut(s)	404
TscAI	CASTG	1 cut(s)	150
TseI	GCWGC	6 cut(s)	140, 185, 188, 335, 586, 632
TspDTI	ATGAA	1 cut(s)	209
TspRI	CASTG	1 cut(s)	150
VpaK11BI	GGWCC	1 cut(s)	622
XapI	RAATTY	2 cut(s)	63, 524
XceI	RCATGY	1 cut(s)	522
XcmI	CCANNNNNNNNNTGG	1 cut(s)	305
XmnI	GAANNNNTTC	1 cut(s)	507
XspI	CTAG	1 cut(s)	608

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