Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0006275

Physical Location & Seq

Genomic Coordinates Reverse (-)

22565443 .. 22568216

Gene Structure 2774 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001889

Sequence Viewer

CDS Protein Promoter (2k)

Length: 759 bp

ATGAAATTGAGTAATGCATCATTGCTACTGACAGTCAGTAGCAAGGACATGTTTCCTACTGGGGGTCAGCACAACTTGGACCCCTCTCTCTCCAGTCTCAGCCTCCCCCTCTTTCTCTCCTCGGAATATCAGTATACAGGCAAGCAGAGGCTCACCAATCTTTGTAGCCAAACCCTCCTAAACTCCAGGACCAAGATGAGGCCTTTGGATGAAGCTGAAACCACTGCAGTGTTCGAAAAGCTGTTCAAGTTCACAGGCAACAACCTCAAAAACATTGTTGAGAACCCTTCTCATGAAGGTCCAGACCCAAATCCAGGTCGCTACTGCTTTCGTCTCAACAAGAACAAGGTCTACTACGTCAGTGACTCACTAGTAAAGCGTGCGACAAACATAGCTCGAGTCAATTTAGTCTCTCTTGGAACTTGCATTGGTAAGTTCACTCACGGTGGCAGCTTCCACCTCACTGTTCAATGTTTGAGTTTAGTGGCCTCAAATGCTAAACACAAGGTCTGGCTCAAACCTACATCTGAGATGTCATATCTATATGGAAACCATGTTTTGAAAGGTGGGTTGGGTAGGATTACAGAGAATATTATGCCCGGTGATGGGGTGGTTGTGTTTTCAATGTCAGATATTCCATTGGGTTTTGGGATTGCGGCCAAGTCTACCCAGGATTGTAGGAAATTGGATCCCAATGGAATTGTGGTACTTCACCAGGCTGATATTGGAGAGTACTTGAGGATGGAGGATGAGCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0008150 GO:0022613 GO:0030684 GO:0030687 GO:0031974 GO:0031981 GO:0032991 GO:0042254 GO:0042273 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0070013 GO:0071840 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

UPF0113

Protein Analysis

253

Amino Acids

27.8

Weight (kDa)

8.89

Isoelectric Point (pI)

29.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
pre-PUA_NIP7	PF17833	66 - 156	7.7e-21	NIP7/UPF0113, pre-PUA domain
UPF0113	PF03657	169 - 247	5.2e-20	UPF0113 PUA 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

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

Orthologous Genes (Group: OG0006275)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G15770
fragaria_vesca	FvH4_4g00380 FvH4_4g00380 FvH4_4g00380 FvH4_6g25030
malus_domestica	MD03G1177300.v1.1 MD17G1218500.v1.1
prunus_persica	Prupe.3G093900_v2.0.a1 Prupe.3G093900_v2.0.a1
pyrus_communis	pycom17g22310
rosa_chinensis	RchiOBHm_Chr1g0332291 RchiOBHm_Chr7g0221961
rosa_laevigata	RLG00000001889 RLG00000002107 RLG00000029680
rosa_multiflora	Rmu_sc0004325.1_g000027
rosa_roxburghii	Rroxscaffold_3G00237560
rosa_rugosa	Rorug01G0099800 Rorug01G0099900 Rorug07G0204500
rosa_samantha	Rh1AG123700 Rh1CG117900 Rh7AG345300 Rh7BG335800 Rh7CG362700
rosa_wichuraiana	Rw1G010070 Rw7G029250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	3 cut(s)	134, 351, 665
AciI	CCGC	1 cut(s)	656
AclWI	GGATC	2 cut(s)	683, 696
AcoI	YGGCCR	1 cut(s)	657
AfaI	GTAC	2 cut(s)	708, 734
AfiI	CCNNNNNNNGG	5 cut(s)	62, 198, 314, 605, 606
AflIII	ACRYGT	1 cut(s)	48
AgsI	TTSAA	4 cut(s)	247, 470, 562, 624
AhlI	ACTAGT	1 cut(s)	370
AjnI	CCWGG	4 cut(s)	185, 313, 669, 714
AjuI	GAANNNNNNNTTGG	2 cut(s)	554, 586
AleI	CACNNNNGTG	1 cut(s)	227
AluBI	AGCT	5 cut(s)	215, 241, 395, 453, 754
AluI	AGCT	5 cut(s)	215, 241, 395, 453, 754
Alw26I	GTCTC	3 cut(s)	101, 338, 415
AlwI	GGATC	2 cut(s)	683, 696
Ama87I	CYCGRG	1 cut(s)	396
AoxI	GGCC	3 cut(s)	200, 486, 657
ApeKI	GCWGC	1 cut(s)	450
AspS9I	GGNCC	3 cut(s)	79, 189, 299
AsuC2I	CCSGG	1 cut(s)	600
AsuHPI	GGTGA	3 cut(s)	145, 614, 704
AsuII	TTCGAA	1 cut(s)	234
AvaI	CYCGRG	1 cut(s)	396
AvaII	GGWCC	3 cut(s)	79, 189, 299
BamHI	GGATCC	1 cut(s)	688
BbvI	GCAGC	1 cut(s)	462
BccI	CCATC	2 cut(s)	599, 736
BciT130I	CCWGG	4 cut(s)	187, 315, 671, 716
BcnI	CCSGG	1 cut(s)	600
BcoDI	GTCTC	3 cut(s)	101, 338, 415
BcuI	ACTAGT	1 cut(s)	370
BfaI	CTAG	1 cut(s)	371
BfmI	CTRYAG	1 cut(s)	225
BisI	GCNGC	2 cut(s)	451, 657
BlsI	GCNGC	2 cut(s)	452, 658
BmcAI	AGTACT	1 cut(s)	734
Bme1390I	CCNGG	5 cut(s)	187, 315, 600, 671, 716
Bme18I	GGWCC	3 cut(s)	79, 189, 299
BmeT110I	CYCGRG	1 cut(s)	396
BmgT120I	GGNCC	3 cut(s)	79, 189, 299
BmiI	GGNNCC	2 cut(s)	81, 690
BmrFI	CCNGG	5 cut(s)	187, 315, 600, 671, 716
BmrI	ACTGGG	1 cut(s)	69
BmsI	GCATC	1 cut(s)	26
BmuI	ACTGGG	1 cut(s)	69
BpmI	CTGGAG	2 cut(s)	76, 169
Bpu14I	TTCGAA	1 cut(s)	234
BpuEI	CTTGAG	1 cut(s)	757
BpuMI	CCSGG	1 cut(s)	600
BsaJI	CCNNGG	2 cut(s)	120, 669
Bsc4I	CCNNNNNNNGG	5 cut(s)	62, 198, 314, 605, 606
Bse1I	ACTGG	2 cut(s)	64, 93
Bse3DI	GCAATG	1 cut(s)	20
BseBI	CCWGG	4 cut(s)	187, 315, 671, 716
BseDI	CCNNGG	2 cut(s)	120, 669
BseGI	GGATG	3 cut(s)	214, 747, 754
BseLI	CCNNNNNNNGG	5 cut(s)	62, 198, 314, 605, 606
BseMI	GCAATG	1 cut(s)	20
BseMII	CTCAG	2 cut(s)	112, 519
BseNI	ACTGG	2 cut(s)	64, 93
BseRI	GAGGAG	1 cut(s)	109
BseXI	GCAGC	1 cut(s)	462
BshFI	GGCC	3 cut(s)	202, 488, 659
BsiHKCI	CYCGRG	1 cut(s)	396
BsiSI	CCGG	1 cut(s)	600
BslI	CCNNNNNNNGG	5 cut(s)	62, 198, 314, 605, 606
BsmAI	GTCTC	3 cut(s)	101, 338, 415
BsmBI	CGTCTC	1 cut(s)	338
BsnI	GGCC	3 cut(s)	202, 488, 659
BsoBI	CYCGRG	1 cut(s)	396
Bsp119I	TTCGAA	1 cut(s)	234
Bsp143I	GATC	1 cut(s)	688
BspACI	CCGC	1 cut(s)	656
BspANI	GGCC	3 cut(s)	202, 488, 659
BspCNI	CTCAG	2 cut(s)	111, 520
BspHI	TCATGA	1 cut(s)	292
BspLI	GGNNCC	2 cut(s)	81, 690
BspMAI	CTGCAG	1 cut(s)	229
BspPI	GGATC	2 cut(s)	683, 696
BspT104I	TTCGAA	1 cut(s)	234
BsrDI	GCAATG	1 cut(s)	20
BsrI	ACTGG	2 cut(s)	64, 93
BssECI	CCNNGG	2 cut(s)	120, 669
BssMI	GATC	1 cut(s)	688
BssNAI	GTATAC	1 cut(s)	135
Bst1107I	GTATAC	1 cut(s)	135
Bst2UI	CCWGG	4 cut(s)	187, 315, 671, 716
Bst4CI	ACNGT	3 cut(s)	34, 446, 466
BstBI	TTCGAA	1 cut(s)	234
BstC8I	GCNNGC	2 cut(s)	143, 381
BstDEI	CTNAG	2 cut(s)	98, 528
BstF5I	GGATG	3 cut(s)	214, 747, 754
BstKTI	GATC	1 cut(s)	691
BstMAI	GTCTC	3 cut(s)	101, 338, 415
BstMBI	GATC	1 cut(s)	688
BstMWI	GCNNNNNNNGC	1 cut(s)	494
BstNI	CCWGG	4 cut(s)	187, 315, 671, 716
BstNSI	RCATGY	1 cut(s)	52
BstSCI	CCNGG	5 cut(s)	185, 313, 598, 669, 714
BstSFI	CTRYAG	1 cut(s)	225
BstV1I	GCAGC	1 cut(s)	462
BstX2I	RGATCY	1 cut(s)	688
BstYI	RGATCY	1 cut(s)	688
BstZ17I	GTATAC	1 cut(s)	135
BsuRI	GGCC	3 cut(s)	202, 488, 659
BtsCI	GGATG	3 cut(s)	214, 747, 754
BtsI	GCAGTG	2 cut(s)	222, 234
BtsIMutI	CAGTG	4 cut(s)	222, 234, 367, 462
Cac8I	GCNNGC	2 cut(s)	143, 381
CciI	TCATGA	1 cut(s)	292
Cfr13I	GGNCC	3 cut(s)	79, 189, 299
Csp6I	GTAC	2 cut(s)	707, 733
CviAII	CATG	3 cut(s)	49, 293, 554
CviQI	GTAC	2 cut(s)	707, 733
DdeI	CTNAG	2 cut(s)	98, 528
DpnI	GATC	1 cut(s)	690
DpnII	GATC	1 cut(s)	688
EaeI	YGGCCR	1 cut(s)	657
Eco147I	AGGCCT	1 cut(s)	202
Eco47I	GGWCC	3 cut(s)	79, 189, 299
Eco88I	CYCGRG	1 cut(s)	396
EcoRII	CCWGG	4 cut(s)	185, 313, 669, 714
EcoT22I	ATGCAT	1 cut(s)	19
Esp3I	CGTCTC	1 cut(s)	338
FaeI	CATG	3 cut(s)	52, 296, 557
FaiI	YATR	9 cut(s)	50, 135, 294, 392, 538, 544, 546, 555, 596
FatI	CATG	3 cut(s)	48, 292, 553
FblI	GTMKAC	3 cut(s)	134, 351, 665
Fnu4HI	GCNGC	2 cut(s)	451, 657
FokI	GGATG	2 cut(s)	221, 754
Fsp4HI	GCNGC	2 cut(s)	451, 657
FspBI	CTAG	1 cut(s)	371
GluI	GCNGC	2 cut(s)	451, 657
GsuI	CTGGAG	2 cut(s)	76, 169
HaeIII	GGCC	3 cut(s)	202, 488, 659
HapII	CCGG	1 cut(s)	600
Hin1II	CATG	3 cut(s)	52, 296, 557
HinfI	GANTC	2 cut(s)	365, 399
HpaII	CCGG	1 cut(s)	600
HphI	GGTGA	3 cut(s)	145, 614, 704
Hpy166II	GTNNAC	5 cut(s)	135, 252, 352, 438, 666
Hpy188I	TCNGA	3 cut(s)	124, 529, 631
Hpy188III	TCNNGA	2 cut(s)	293, 302
Hpy8I	GTNNAC	5 cut(s)	135, 252, 352, 438, 666
HpyAV	CCTTC	2 cut(s)	290, 297
HpyCH4III	ACNGT	3 cut(s)	34, 446, 466
HpyCH4IV	ACGT	1 cut(s)	357
HpyCH4V	TGCA	3 cut(s)	17, 227, 426
HpyF10VI	GCNNNNNNNGC	1 cut(s)	494
HpyF3I	CTNAG	2 cut(s)	98, 528
HpySE526I	ACGT	1 cut(s)	357
Hsp92II	CATG	3 cut(s)	52, 296, 557
Kzo9I	GATC	1 cut(s)	688
Lsp1109I	GCAGC	1 cut(s)	462
LweI	GCATC	1 cut(s)	26
MaeI	CTAG	1 cut(s)	371
MaeII	ACGT	1 cut(s)	357
MaeIII	GTNAC	1 cut(s)	362
MalI	GATC	1 cut(s)	690
MboI	GATC	1 cut(s)	688
MflI	RGATCY	1 cut(s)	688
MluCI	AATT	4 cut(s)	5, 403, 683, 699
MlyI	GAGTC	2 cut(s)	359, 408
Mph1103I	ATGCAT	1 cut(s)	19
MslI	CAYNNNNRTG	1 cut(s)	227
MspI	CCGG	1 cut(s)	600
MspR9I	CCNGG	5 cut(s)	187, 315, 600, 671, 716
MvaI	CCWGG	4 cut(s)	187, 315, 671, 716
MwoI	GCNNNNNNNGC	1 cut(s)	494
NciI	CCSGG	1 cut(s)	600
NdeII	GATC	1 cut(s)	688
NlaIII	CATG	3 cut(s)	52, 296, 557
NlaIV	GGNNCC	2 cut(s)	81, 690
NmuCI	GTSAC	1 cut(s)	362
NsiI	ATGCAT	1 cut(s)	19
NspI	RCATGY	1 cut(s)	52
NspV	TTCGAA	1 cut(s)	234
OliI	CACNNNNGTG	1 cut(s)	227
PaeR7I	CTCGAG	1 cut(s)	396
PagI	TCATGA	1 cut(s)	292
PceI	AGGCCT	1 cut(s)	202
PciI	ACATGT	1 cut(s)	48
PfoI	TCCNGGA	1 cut(s)	185
PkrI	GCNGC	2 cut(s)	452, 658
PleI	GAGTC	2 cut(s)	359, 407
PpsI	GAGTC	2 cut(s)	359, 407
PscI	ACATGT	1 cut(s)	48
Psp6I	CCWGG	4 cut(s)	185, 313, 669, 714
PspGI	CCWGG	4 cut(s)	185, 313, 669, 714
PspN4I	GGNNCC	2 cut(s)	81, 690
PspPI	GGNCC	3 cut(s)	79, 189, 299
PspXI	VCTCGAGB	1 cut(s)	396
PsrI	GAACNNNNNNTAC	2 cut(s)	335, 367
PstI	CTGCAG	1 cut(s)	229
PsuI	RGATCY	1 cut(s)	688
RsaI	GTAC	2 cut(s)	708, 734
RsaNI	GTAC	2 cut(s)	707, 733
RseI	CAYNNNNRTG	1 cut(s)	227
SatI	GCNGC	2 cut(s)	451, 657
Sau3AI	GATC	1 cut(s)	688
Sau96I	GGNCC	3 cut(s)	79, 189, 299
ScaI	AGTACT	1 cut(s)	734
SchI	GAGTC	2 cut(s)	359, 408
ScrFI	CCNGG	5 cut(s)	187, 315, 600, 671, 716
SfaNI	GCATC	1 cut(s)	26
SfcI	CTRYAG	1 cut(s)	225
Sfr274I	CTCGAG	1 cut(s)	396
SfuI	TTCGAA	1 cut(s)	234
SinI	GGWCC	3 cut(s)	79, 189, 299
SlaI	CTCGAG	1 cut(s)	396
SmiMI	CAYNNNNRTG	1 cut(s)	227
SmlI	CTYRAG	2 cut(s)	396, 736
SmoI	CTYRAG	2 cut(s)	396, 736
SpeI	ACTAGT	1 cut(s)	370
Sse9I	AATT	4 cut(s)	5, 403, 683, 699
SseBI	AGGCCT	1 cut(s)	202
SsiI	CCGC	1 cut(s)	656
SspI	AATATT	1 cut(s)	592
SspMI	CTAG	1 cut(s)	371
StuI	AGGCCT	1 cut(s)	202
StyD4I	CCNGG	5 cut(s)	185, 313, 598, 669, 714
TaaI	ACNGT	3 cut(s)	34, 446, 466
TaiI	ACGT	1 cut(s)	360
TaqI	TCGA	2 cut(s)	234, 397
TasI	AATT	4 cut(s)	5, 403, 683, 699
TatI	WGTACW	1 cut(s)	732
TauI	GCSGC	1 cut(s)	659
TscAI	CASTG	4 cut(s)	229, 234, 367, 469
TseFI	GTSAC	1 cut(s)	362
TseI	GCWGC	1 cut(s)	450
Tsp45I	GTSAC	1 cut(s)	362
TspDTI	ATGAA	3 cut(s)	17, 225, 309
TspRI	CASTG	4 cut(s)	229, 234, 367, 469
VpaK11BI	GGWCC	3 cut(s)	79, 189, 299
XceI	RCATGY	1 cut(s)	52
XcmI	CCANNNNNNNNNTGG	2 cut(s)	700, 722
XhoI	CTCGAG	1 cut(s)	396
XmiI	GTMKAC	3 cut(s)	134, 351, 665
XspI	CTAG	1 cut(s)	371
ZrmI	AGTACT	1 cut(s)	734
Zsp2I	ATGCAT	1 cut(s)	19

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