Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0009946

Physical Location & Seq

Genomic Coordinates Reverse (-)

62045716 .. 62049101

Gene Structure 3386 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG447200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGTTCTCAGGCAGCCAATTCGACGCCACCTCCGCCTTCGGCGGCGGCGGGTTCATGTCTTCTCAGGCCACTCAACACGGCGATTCCAATCCCTCCGCTGCTAGGAGTCGTGAAAGTCACGGACTGGTTCCTGTGACGGTGAAGCAGATAAGCGAGGCTTATCAGTCTGGTGATGAGAAATCAAACTTTGTGATCGGCGGTGCTGATGTGGCCAATGTATCTGTGGTTGGCATGGTCTTTGAGAAAACCGAGAAGACCACTGATGTTTCCTTTACTGTCGATGATGGAACGGGGCGAATCAAATGCCGGAGATGGGTCAATGAGAATTTTGACTCACAAGAAATGGAGGAAATACAAGATGGAATGTATGTTCGTGTCAATGGACATCTGAAAGCCTTTCAAGGTGTTCGACAGATAGTTGCATTCTCTGTGAGGCCTGTGAAGAACTTTGATGAAGTTGCCTTCCACTACATTGAGTGCATATATAACCACTTACAGTTACAGAAGCTCCAAGGAAATGCTGTTAATCAACCTCAGCCTATGGGATCATCTGTGTACACTCCTGTGAAGAGTGAGCCAAGTGGATATCAGACAGCCTCATCAAACCAATTATCGGGGCAGTTTACTATTGATGGACGAATGAGCGCTCATGAATTGATCCTTGAATATTTGTCGCAGCCTTCAAGCATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000278 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005662 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006269 GO:0006281 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007049 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009892 GO:0009987 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016458 GO:0018130 GO:0019222 GO:0019438 GO:0022402 GO:0030894 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 GO:0033260 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0035861 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044786 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0071704 GO:0090304 GO:0090734 GO:1901360 GO:1901362 GO:1901576 GO:1902295 GO:1902318 GO:1902969 GO:1902981 GO:1903047

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460

Pfam Domains

Protein Families

RPA_C tRNA_anti-codon

Protein Analysis

230

Amino Acids

25.18

Weight (kDa)

5.34

Isoelectric Point (pI)

54.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_anti-codon	PF01336	73 - 146	1.2e-10	OB-fold nucleic acid binding domain

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

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Orthologous Genes (Group: OG0009946)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G24490 AT2G24490
fragaria_vesca	FvH4_2g36940 FvH4_2g36940 FvH4_2g36940
malus_domestica	MD08G1131500.v1.1 MD08G1131600.v1.1 MD15G1109200.v1.1
prunus_persica	Prupe.1G461400_v2.0.a1
pyrus_communis	pycom08g11020
rosa_chinensis	RchiOBHm_Chr6g0304821
rosa_laevigata	RLG00000010946
rosa_multiflora	Rmu_ssc0000426.1_g000002
rosa_roxburghii	Rroxscaffold_7G00163440
rosa_rugosa	Rorug06G0335100 Rorug06G0335200
rosa_samantha	Rh6AG446800 Rh6BG454800 Rh6CG460300 Rh6DG447200
rosa_wichuraiana	Rw6G038880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	6 cut(s)	33, 42, 45, 48, 96, 198
AclWI	GGATC	2 cut(s)	553, 652
AcoI	YGGCCR	1 cut(s)	210
AcsI	RAATTY	1 cut(s)	325
AcyI	GRCGYC	1 cut(s)	24
AfaI	GTAC	1 cut(s)	557
AfeI	AGCGCT	1 cut(s)	646
AfiI	CCNNNNNNNGG	3 cut(s)	102, 313, 613
AgsI	TTSAA	3 cut(s)	401, 665, 684
AleI	CACNNNNGTG	1 cut(s)	563
AloI	GAACNNNNNNTCC	2 cut(s)	354, 386
AluBI	AGCT	1 cut(s)	508
AluI	AGCT	1 cut(s)	508
AlwI	GGATC	2 cut(s)	553, 652
Aor51HI	AGCGCT	1 cut(s)	646
AoxI	GGCC	3 cut(s)	66, 210, 434
ApeKI	GCWGC	3 cut(s)	12, 98, 676
ApoI	RAATTY	1 cut(s)	325
AspLEI	GCGC	1 cut(s)	647
AsuHPI	GGTGA	2 cut(s)	151, 182
BalI	TGGCCA	1 cut(s)	212
BbsI	GAAGAC	2 cut(s)	51, 260
BbvCI	CCTCAGC	1 cut(s)	534
BbvI	GCAGC	3 cut(s)	24, 85, 688
BccI	CCATC	4 cut(s)	278, 306, 353, 626
BceAI	ACGGC	1 cut(s)	94
BcgI	CGANNNNNNTGC	3 cut(s)	35, 285, 319
BfaI	CTAG	1 cut(s)	102
BfoI	RGCGCY	1 cut(s)	648
BisI	GCNGC	5 cut(s)	13, 43, 46, 99, 677
BlsI	GCNGC	5 cut(s)	14, 44, 47, 100, 678
BmiI	GGNNCC	1 cut(s)	129
BpiI	GAAGAC	2 cut(s)	51, 260
Bpu10I	CCTNAGC	1 cut(s)	534
BsaBI	GATNNNNATC	1 cut(s)	87
BsaHI	GRCGYC	1 cut(s)	24
BsaJI	CCNNGG	1 cut(s)	511
BsaXI	ACNNNNNCTCC	4 cut(s)	14, 44, 492, 522
Bsc4I	CCNNNNNNNGG	3 cut(s)	102, 313, 613
Bse1I	ACTGG	1 cut(s)	129
Bse8I	GATNNNNATC	1 cut(s)	87
BseDI	CCNNGG	1 cut(s)	511
BseJI	GATNNNNATC	1 cut(s)	87
BseLI	CCNNNNNNNGG	3 cut(s)	102, 313, 613
BseMII	CTCAG	3 cut(s)	21, 77, 548
BseNI	ACTGG	1 cut(s)	129
BseXI	GCAGC	3 cut(s)	24, 85, 688
BshFI	GGCC	3 cut(s)	68, 212, 436
BsiSI	CCGG	1 cut(s)	307
BslI	CCNNNNNNNGG	3 cut(s)	102, 313, 613
BsmI	GAATGC	1 cut(s)	422
BsnI	GGCC	3 cut(s)	68, 212, 436
Bsp1407I	TGTACA	1 cut(s)	555
Bsp143I	GATC	3 cut(s)	192, 545, 657
BspACI	CCGC	6 cut(s)	33, 42, 45, 48, 96, 198
BspANI	GGCC	3 cut(s)	68, 212, 436
BspCNI	CTCAG	3 cut(s)	20, 76, 547
BspHI	TCATGA	1 cut(s)	649
BspLI	GGNNCC	1 cut(s)	129
BspPI	GGATC	2 cut(s)	553, 652
BsrGI	TGTACA	1 cut(s)	555
BsrI	ACTGG	1 cut(s)	129
BssECI	CCNNGG	1 cut(s)	511
BssMI	GATC	3 cut(s)	192, 545, 657
BssNI	GRCGYC	1 cut(s)	24
BssT1I	CCWWGG	1 cut(s)	511
Bst4CI	ACNGT	3 cut(s)	139, 277, 498
Bst6I	CTCTTC	1 cut(s)	563
BstACI	GRCGYC	1 cut(s)	24
BstAUI	TGTACA	1 cut(s)	555
BstDEI	CTNAG	3 cut(s)	7, 63, 534
BstH2I	RGCGCY	1 cut(s)	648
BstHHI	GCGC	1 cut(s)	647
BstKTI	GATC	3 cut(s)	195, 548, 660
BstMBI	GATC	3 cut(s)	192, 545, 657
BstMWI	GCNNNNNNNGC	2 cut(s)	32, 209
BstNSI	RCATGY	1 cut(s)	691
BstV1I	GCAGC	3 cut(s)	24, 85, 688
BstV2I	GAAGAC	2 cut(s)	51, 260
BsuRI	GGCC	3 cut(s)	68, 212, 436
BtsIMutI	CAGTG	1 cut(s)	258
CciI	TCATGA	1 cut(s)	649
CfoI	GCGC	1 cut(s)	647
CseI	GACGC	1 cut(s)	32
Csp6I	GTAC	1 cut(s)	556
CviAII	CATG	4 cut(s)	55, 232, 650, 688
CviQI	GTAC	1 cut(s)	556
DdeI	CTNAG	3 cut(s)	7, 63, 534
DpnI	GATC	3 cut(s)	194, 547, 659
DpnII	GATC	3 cut(s)	192, 545, 657
EaeI	YGGCCR	1 cut(s)	210
Eam1104I	CTCTTC	1 cut(s)	563
EarI	CTCTTC	1 cut(s)	563
EciI	GGCGGA	1 cut(s)	22
Eco130I	CCWWGG	1 cut(s)	511
Eco147I	AGGCCT	1 cut(s)	436
Eco32I	GATATC	1 cut(s)	587
Eco47III	AGCGCT	1 cut(s)	646
EcoRV	GATATC	1 cut(s)	587
EcoT14I	CCWWGG	1 cut(s)	511
ErhI	CCWWGG	1 cut(s)	511
FaeI	CATG	4 cut(s)	58, 235, 653, 691
FaiI	YATR	9 cut(s)	56, 233, 369, 482, 484, 486, 542, 651, 689
FalI	AAGNNNNNCTT	2 cut(s)	142, 174
FatI	CATG	4 cut(s)	54, 231, 649, 687
FauI	CCCGC	1 cut(s)	41
Fnu4HI	GCNGC	5 cut(s)	13, 43, 46, 99, 677
Fsp4HI	GCNGC	5 cut(s)	13, 43, 46, 99, 677
FspBI	CTAG	1 cut(s)	102
GlaI	GCGC	1 cut(s)	646
GluI	GCNGC	5 cut(s)	13, 43, 46, 99, 677
HaeII	RGCGCY	1 cut(s)	648
HaeIII	GGCC	3 cut(s)	68, 212, 436
HapII	CCGG	1 cut(s)	307
HgaI	GACGC	1 cut(s)	32
HhaI	GCGC	1 cut(s)	647
Hin1I	GRCGYC	1 cut(s)	24
Hin1II	CATG	4 cut(s)	58, 235, 653, 691
Hin6I	GCGC	1 cut(s)	645
HinP1I	GCGC	1 cut(s)	645
HinfI	GANTC	4 cut(s)	83, 106, 297, 332
HpaII	CCGG	1 cut(s)	307
HphI	GGTGA	2 cut(s)	151, 182
Hpy166II	GTNNAC	3 cut(s)	556, 558, 624
Hpy188I	TCNGA	2 cut(s)	390, 591
Hpy188III	TCNNGA	2 cut(s)	110, 650
Hpy8I	GTNNAC	3 cut(s)	556, 558, 624
Hpy99I	CGWCG	1 cut(s)	26
HpyAV	CCTTC	3 cut(s)	46, 472, 690
HpyCH4III	ACNGT	3 cut(s)	139, 277, 498
HpyCH4V	TGCA	2 cut(s)	422, 480
HpyF10VI	GCNNNNNNNGC	2 cut(s)	32, 209
HpyF3I	CTNAG	3 cut(s)	7, 63, 534
Hsp92I	GRCGYC	1 cut(s)	24
Hsp92II	CATG	4 cut(s)	58, 235, 653, 691
HspAI	GCGC	1 cut(s)	645
Kzo9I	GATC	3 cut(s)	192, 545, 657
LmnI	GCTCC	1 cut(s)	513
LpnPI	CCDG	7 cut(s)	50, 110, 144, 153, 320, 450, 576
Lsp1109I	GCAGC	3 cut(s)	24, 85, 688
MaeI	CTAG	1 cut(s)	102
MaeIII	GTNAC	3 cut(s)	116, 133, 498
MalI	GATC	3 cut(s)	194, 547, 659
MboI	GATC	3 cut(s)	192, 545, 657
MboII	GAAGA	4 cut(s)	51, 265, 454, 580
MlsI	TGGCCA	1 cut(s)	212
MluCI	AATT	4 cut(s)	17, 325, 608, 653
MluNI	TGGCCA	1 cut(s)	212
MlyI	GAGTC	2 cut(s)	115, 326
MnlI	CCTC	7 cut(s)	40, 103, 148, 340, 426, 543, 607
Mox20I	TGGCCA	1 cut(s)	212
MscI	TGGCCA	1 cut(s)	212
MseI	TTAA	1 cut(s)	525
MslI	CAYNNNNRTG	1 cut(s)	563
Msp20I	TGGCCA	1 cut(s)	212
MspA1I	CMGCKG	1 cut(s)	98
MspI	CCGG	1 cut(s)	307
Mva1269I	GAATGC	1 cut(s)	422
MwoI	GCNNNNNNNGC	2 cut(s)	32, 209
NdeII	GATC	3 cut(s)	192, 545, 657
NlaIII	CATG	4 cut(s)	58, 235, 653, 691
NlaIV	GGNNCC	1 cut(s)	129
NmuCI	GTSAC	2 cut(s)	116, 133
NspI	RCATGY	1 cut(s)	691
OliI	CACNNNNGTG	1 cut(s)	563
PagI	TCATGA	1 cut(s)	649
PceI	AGGCCT	1 cut(s)	436
PctI	GAATGC	1 cut(s)	422
PfeI	GAWTC	2 cut(s)	83, 297
PkrI	GCNGC	5 cut(s)	14, 44, 47, 100, 678
PleI	GAGTC	2 cut(s)	114, 326
PpsI	GAGTC	2 cut(s)	114, 326
PspN4I	GGNNCC	1 cut(s)	129
RsaI	GTAC	1 cut(s)	557
RsaNI	GTAC	1 cut(s)	556
RseI	CAYNNNNRTG	1 cut(s)	563
SaqAI	TTAA	1 cut(s)	525
SatI	GCNGC	5 cut(s)	13, 43, 46, 99, 677
Sau3AI	GATC	3 cut(s)	192, 545, 657
SchI	GAGTC	2 cut(s)	115, 326
SetI	ASST	4 cut(s)	32, 406, 510, 535
SmiMI	CAYNNNNRTG	1 cut(s)	563
Sse9I	AATT	4 cut(s)	17, 325, 608, 653
SseBI	AGGCCT	1 cut(s)	436
SsiI	CCGC	6 cut(s)	33, 42, 45, 48, 96, 198
SspI	AATATT	1 cut(s)	668
SspMI	CTAG	1 cut(s)	102
StuI	AGGCCT	1 cut(s)	436
StyI	CCWWGG	1 cut(s)	511
TaaI	ACNGT	3 cut(s)	139, 277, 498
TaqI	TCGA	3 cut(s)	21, 279, 409
TasI	AATT	4 cut(s)	17, 325, 608, 653
TatI	WGTACW	1 cut(s)	555
TauI	GCSGC	2 cut(s)	45, 48
TfiI	GAWTC	2 cut(s)	83, 297
Tru1I	TTAA	1 cut(s)	525
Tru9I	TTAA	1 cut(s)	525
TscAI	CASTG	1 cut(s)	265
TseFI	GTSAC	2 cut(s)	116, 133
TseI	GCWGC	3 cut(s)	12, 98, 676
Tsp45I	GTSAC	2 cut(s)	116, 133
TspDTI	ATGAA	3 cut(s)	43, 468, 666
TspGWI	ACGGA	1 cut(s)	135
TspRI	CASTG	1 cut(s)	265
XapI	RAATTY	1 cut(s)	325
XceI	RCATGY	1 cut(s)	691
XcmI	CCANNNNNNNNNTGG	1 cut(s)	220
XspI	CTAG	1 cut(s)	102

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