Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0006275

Physical Location & Seq

Genomic Coordinates Reverse (-)

23093229 .. 23093792

Gene Structure 564 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG123700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 564 bp

ATGAGGCCTTTGGATGAAGCTGAAACCACTGCAGTGTTCGAAAAGCTGTTCAAGTTCACAGGCAACAACCTCAAAAACATTGTCGAGAACCCTTCTCATGAAGGTCCAGACCCAAATCCAGGTCGCTACTGCTTTCGCCTCAACAAGAACAGGGTCTACTACGTCAGTGACTCACTAGTAAAGCGTGCAACAAACATAGCTCGGGTCAATTTAGTCTCTCTTGGAACTTGCATTGGTAAGTTCACTCACGGTGGCAGCTTCCACCTAACTGTTCAATGTTTGAGTTTAGTGGCCTCAAATGCTAAACACAAGGTCTGGCTCAAACCTACCTCCGAGATGTCGTATCTCTACGGAAACCATGTTTTGAAAGGTGGGTTGGGTAGGATTACAGAGAATATTATGCCCGGTGATGGGGTGGTTGTGTTTTCAATGTCAGATATTCCATTGGGTTTTGGGATTGCAGCCAAGTCTACCCAGGATTGTAGGAAGTTGGACCCCAATGGAATTGTGGTACTTCACCTGGCTGATATTGGAGAGTACTTGAGGATGGAGGATGAGCTTTAA

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

187

Amino Acids

20.67

Weight (kDa)

8.33

Isoelectric Point (pI)

25.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
pre-PUA_NIP7	PF17833	1 - 91	2.4e-21	NIP7/UPF0113, pre-PUA domain
UPF0113	PF03657	104 - 182	3.3e-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

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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	2 cut(s)	156, 470
AfaI	GTAC	2 cut(s)	513, 539
AfiI	CCNNNNNNNGG	3 cut(s)	119, 410, 411
AgsI	TTSAA	4 cut(s)	52, 275, 367, 429
AhlI	ACTAGT	1 cut(s)	175
AjnI	CCWGG	3 cut(s)	118, 474, 519
AjuI	GAANNNNNNNTTGG	2 cut(s)	359, 391
AleI	CACNNNNGTG	1 cut(s)	32
AluBI	AGCT	5 cut(s)	20, 46, 200, 258, 559
AluI	AGCT	5 cut(s)	20, 46, 200, 258, 559
Alw26I	GTCTC	1 cut(s)	220
Ama87I	CYCGRG	1 cut(s)	201
AoxI	GGCC	2 cut(s)	5, 291
ApeKI	GCWGC	2 cut(s)	255, 461
ArsI	GACNNNNNNTTYG	2 cut(s)	66, 98
AspS9I	GGNCC	2 cut(s)	104, 493
AsuC2I	CCSGG	1 cut(s)	405
AsuHPI	GGTGA	2 cut(s)	419, 509
AsuII	TTCGAA	1 cut(s)	39
AvaI	CYCGRG	1 cut(s)	201
AvaII	GGWCC	2 cut(s)	104, 493
BbvI	GCAGC	2 cut(s)	267, 473
BccI	CCATC	2 cut(s)	404, 541
BciT130I	CCWGG	3 cut(s)	120, 476, 521
BcnI	CCSGG	1 cut(s)	405
BcoDI	GTCTC	1 cut(s)	220
BcuI	ACTAGT	1 cut(s)	175
BfaI	CTAG	1 cut(s)	176
BfmI	CTRYAG	1 cut(s)	30
BisI	GCNGC	2 cut(s)	256, 462
BlsI	GCNGC	2 cut(s)	257, 463
BmcAI	AGTACT	1 cut(s)	539
Bme1390I	CCNGG	4 cut(s)	120, 405, 476, 521
Bme18I	GGWCC	2 cut(s)	104, 493
BmeT110I	CYCGRG	1 cut(s)	201
BmgT120I	GGNCC	2 cut(s)	104, 493
BmiI	GGNNCC	1 cut(s)	495
BmrFI	CCNGG	4 cut(s)	120, 405, 476, 521
Bpu14I	TTCGAA	1 cut(s)	39
BpuEI	CTTGAG	1 cut(s)	562
BpuMI	CCSGG	1 cut(s)	405
BsaJI	CCNNGG	1 cut(s)	474
Bsc4I	CCNNNNNNNGG	3 cut(s)	119, 410, 411
BseBI	CCWGG	3 cut(s)	120, 476, 521
BseDI	CCNNGG	1 cut(s)	474
BseGI	GGATG	3 cut(s)	19, 552, 559
BseLI	CCNNNNNNNGG	3 cut(s)	119, 410, 411
BseXI	GCAGC	2 cut(s)	267, 473
BshFI	GGCC	2 cut(s)	7, 293
BsiHKCI	CYCGRG	1 cut(s)	201
BsiSI	CCGG	1 cut(s)	405
BslI	CCNNNNNNNGG	3 cut(s)	119, 410, 411
BsmAI	GTCTC	1 cut(s)	220
BsnI	GGCC	2 cut(s)	7, 293
BsoBI	CYCGRG	1 cut(s)	201
Bsp119I	TTCGAA	1 cut(s)	39
BspANI	GGCC	2 cut(s)	7, 293
BspHI	TCATGA	1 cut(s)	97
BspLI	GGNNCC	1 cut(s)	495
BspMAI	CTGCAG	1 cut(s)	34
BspT104I	TTCGAA	1 cut(s)	39
BssECI	CCNNGG	1 cut(s)	474
Bst2UI	CCWGG	3 cut(s)	120, 476, 521
Bst4CI	ACNGT	2 cut(s)	251, 271
BstBI	TTCGAA	1 cut(s)	39
BstC8I	GCNNGC	1 cut(s)	186
BstF5I	GGATG	3 cut(s)	19, 552, 559
BstMAI	GTCTC	1 cut(s)	220
BstMWI	GCNNNNNNNGC	1 cut(s)	299
BstNI	CCWGG	3 cut(s)	120, 476, 521
BstSCI	CCNGG	4 cut(s)	118, 403, 474, 519
BstSFI	CTRYAG	1 cut(s)	30
BstV1I	GCAGC	2 cut(s)	267, 473
BsuRI	GGCC	2 cut(s)	7, 293
BtsCI	GGATG	3 cut(s)	19, 552, 559
BtsI	GCAGTG	2 cut(s)	27, 39
BtsIMutI	CAGTG	3 cut(s)	27, 39, 172
Cac8I	GCNNGC	1 cut(s)	186
CciI	TCATGA	1 cut(s)	97
Cfr13I	GGNCC	2 cut(s)	104, 493
Csp6I	GTAC	2 cut(s)	512, 538
CviAII	CATG	2 cut(s)	98, 359
CviQI	GTAC	2 cut(s)	512, 538
Eco147I	AGGCCT	1 cut(s)	7
Eco47I	GGWCC	2 cut(s)	104, 493
Eco88I	CYCGRG	1 cut(s)	201
EcoRII	CCWGG	3 cut(s)	118, 474, 519
FaeI	CATG	2 cut(s)	101, 362
FaiI	YATR	4 cut(s)	99, 197, 360, 401
FatI	CATG	2 cut(s)	97, 358
FblI	GTMKAC	2 cut(s)	156, 470
Fnu4HI	GCNGC	2 cut(s)	256, 462
FokI	GGATG	2 cut(s)	26, 559
Fsp4HI	GCNGC	2 cut(s)	256, 462
FspBI	CTAG	1 cut(s)	176
GluI	GCNGC	2 cut(s)	256, 462
HaeIII	GGCC	2 cut(s)	7, 293
HapII	CCGG	1 cut(s)	405
Hin1II	CATG	2 cut(s)	101, 362
HinfI	GANTC	1 cut(s)	170
HpaII	CCGG	1 cut(s)	405
HphI	GGTGA	2 cut(s)	419, 509
Hpy166II	GTNNAC	4 cut(s)	57, 157, 243, 471
Hpy188I	TCNGA	2 cut(s)	334, 436
Hpy188III	TCNNGA	3 cut(s)	85, 98, 107
Hpy8I	GTNNAC	4 cut(s)	57, 157, 243, 471
HpyAV	CCTTC	2 cut(s)	95, 102
HpyCH4III	ACNGT	2 cut(s)	251, 271
HpyCH4IV	ACGT	1 cut(s)	162
HpyCH4V	TGCA	4 cut(s)	32, 188, 231, 461
HpyF10VI	GCNNNNNNNGC	1 cut(s)	299
HpySE526I	ACGT	1 cut(s)	162
Hsp92II	CATG	2 cut(s)	101, 362
Lsp1109I	GCAGC	2 cut(s)	267, 473
MaeI	CTAG	1 cut(s)	176
MaeII	ACGT	1 cut(s)	162
MaeIII	GTNAC	1 cut(s)	167
MluCI	AATT	2 cut(s)	208, 504
MlyI	GAGTC	1 cut(s)	164
MmeI	TCCRAC	1 cut(s)	471
MnlI	CCTC	6 cut(s)	80, 149, 304, 340, 537, 544
MseI	TTAA	1 cut(s)	562
MslI	CAYNNNNRTG	1 cut(s)	32
MspI	CCGG	1 cut(s)	405
MspR9I	CCNGG	4 cut(s)	120, 405, 476, 521
MvaI	CCWGG	3 cut(s)	120, 476, 521
MwoI	GCNNNNNNNGC	1 cut(s)	299
NciI	CCSGG	1 cut(s)	405
NlaIII	CATG	2 cut(s)	101, 362
NlaIV	GGNNCC	1 cut(s)	495
NmuCI	GTSAC	1 cut(s)	167
NspV	TTCGAA	1 cut(s)	39
OliI	CACNNNNGTG	1 cut(s)	32
PagI	TCATGA	1 cut(s)	97
PceI	AGGCCT	1 cut(s)	7
PkrI	GCNGC	2 cut(s)	257, 463
PleI	GAGTC	1 cut(s)	164
PpsI	GAGTC	1 cut(s)	164
Psp6I	CCWGG	3 cut(s)	118, 474, 519
PspGI	CCWGG	3 cut(s)	118, 474, 519
PspN4I	GGNNCC	1 cut(s)	495
PspPI	GGNCC	2 cut(s)	104, 493
PsrI	GAACNNNNNNTAC	2 cut(s)	140, 172
PstI	CTGCAG	1 cut(s)	34
RsaI	GTAC	2 cut(s)	513, 539
RsaNI	GTAC	2 cut(s)	512, 538
RseI	CAYNNNNRTG	1 cut(s)	32
SaqAI	TTAA	1 cut(s)	562
SatI	GCNGC	2 cut(s)	256, 462
Sau96I	GGNCC	2 cut(s)	104, 493
ScaI	AGTACT	1 cut(s)	539
SchI	GAGTC	1 cut(s)	164
ScrFI	CCNGG	4 cut(s)	120, 405, 476, 521
SfcI	CTRYAG	1 cut(s)	30
SfuI	TTCGAA	1 cut(s)	39
SinI	GGWCC	2 cut(s)	104, 493
SmiMI	CAYNNNNRTG	1 cut(s)	32
SmlI	CTYRAG	1 cut(s)	541
SmoI	CTYRAG	1 cut(s)	541
SpeI	ACTAGT	1 cut(s)	175
Sse9I	AATT	2 cut(s)	208, 504
SseBI	AGGCCT	1 cut(s)	7
SspI	AATATT	1 cut(s)	397
SspMI	CTAG	1 cut(s)	176
StuI	AGGCCT	1 cut(s)	7
StyD4I	CCNGG	4 cut(s)	118, 403, 474, 519
TaaI	ACNGT	2 cut(s)	251, 271
TaiI	ACGT	1 cut(s)	165
TaqI	TCGA	2 cut(s)	39, 84
TasI	AATT	2 cut(s)	208, 504
TatI	WGTACW	1 cut(s)	537
Tru1I	TTAA	1 cut(s)	562
Tru9I	TTAA	1 cut(s)	562
TscAI	CASTG	3 cut(s)	34, 39, 172
TseFI	GTSAC	1 cut(s)	167
TseI	GCWGC	2 cut(s)	255, 461
Tsp45I	GTSAC	1 cut(s)	167
TspDTI	ATGAA	2 cut(s)	30, 114
TspGWI	ACGGA	1 cut(s)	366
TspRI	CASTG	3 cut(s)	34, 39, 172
VpaK11BI	GGWCC	2 cut(s)	104, 493
XcmI	CCANNNNNNNNNTGG	1 cut(s)	505
XmiI	GTMKAC	2 cut(s)	156, 470
XspI	CTAG	1 cut(s)	176
ZrmI	AGTACT	1 cut(s)	539

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