Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0016565

Physical Location & Seq

Genomic Coordinates Forward (+)

56297606 .. 56298673

Gene Structure 1068 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG330000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGTGCCATTGTCAAAATTCGAATGCCAGATTCATAGTTTCACCCTCACTTTCTTCGCGAGCAAATCAAACCCAGATCAAATTTACAGTCTTGTTACTAATGGATCATCACCCCCTTCACAACACCCACGTAAAGCTCTTAGCTTTCGACTTGCTCACCCTCGCCCAAACCTCCTCCGACCCAACCTCCTTCTCCCGCAACGGCCTCCTCCTCTCACGCGCCGAGGCCGTCGGCACCGTGACCTCACGCGACCTCAAACCCAACAAGTTCCTCCGCTTCACCATCGACGACGGCACCGGCTGCGTCAGCTGCATTCTCTGGCTCAACCACCTCACCTCCCCTTACTTCTCCCGACGAAGCCCACCAGATGTTCGACTCATTGCCTCAATGGCCGCCCGTTTCGCCGCCGACGTCAGCCTCGGAGCGGTGGCCAGAGTGCGAGGGAAAATCTCGAGCTTCAGGGGTGAAATGCAGATCACTGTGACCGATGTTGTGATCGAGAGGGACCCGAATGCGGAGATGTTGCATTGGATTGAGTGCATGAGGTTGGCGCGGAAGGTTTACAATGTGGTTGCTACTACTCCTTCCAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000723 GO:0000781 GO:0000784 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016233 GO:0031974 GO:0031981 GO:0032200 GO:0034641 GO:0042592 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0051276 GO:0060249 GO:0065007 GO:0065008 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0098687 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA_anti-codon

Protein Analysis

197

Amino Acids

21.93

Weight (kDa)

9.66

Isoelectric Point (pI)

39.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_anti-codon	PF01336	77 - 165	1.6e-08	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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016565)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07130
fragaria_vesca	FvH4_2g23151
malus_domestica	MD03G1260600.v1.1 MD15G1065600.v1.1
pyrus_communis	pycom03g20820
rosa_chinensis	RchiOBHm_Chr6g0290411
rosa_laevigata	RLG00000012221
rosa_multiflora	Rmu_sc0024006.1_g000001
rosa_roxburghii	Rroxscaffold_7G00177090
rosa_rugosa	Rorug06G0212600
rosa_samantha	Rh6BG330000 Rh6CG336000 Rh6DG322900
rosa_wichuraiana	Rw6G027870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	414
AccB1I	GGYRCC	2 cut(s)	233, 293
AccBSI	CCGCTC	1 cut(s)	425
AccII	CGCG	4 cut(s)	58, 219, 249, 553
AciI	CCGC	7 cut(s)	196, 274, 393, 405, 425, 515, 553
AclWI	GGATC	1 cut(s)	111
AcoI	YGGCCR	2 cut(s)	390, 429
AcsI	RAATTY	2 cut(s)	16, 80
AcuI	CTGAAG	1 cut(s)	442
AcyI	GRCGYC	1 cut(s)	411
AfiI	CCNNNNNNNGG	2 cut(s)	424, 514
AluBI	AGCT	4 cut(s)	136, 143, 309, 456
AluI	AGCT	4 cut(s)	136, 143, 309, 456
AlwI	GGATC	1 cut(s)	111
Ama87I	CYCGRG	1 cut(s)	451
AoxI	GGCC	4 cut(s)	202, 225, 390, 429
ApeKI	GCWGC	2 cut(s)	300, 309
ApoI	RAATTY	2 cut(s)	16, 80
ArsI	GACNNNNNNTTYG	2 cut(s)	72, 104
AspLEI	GCGC	2 cut(s)	221, 553
AspS9I	GGNCC	1 cut(s)	505
AsuHPI	GGTGA	6 cut(s)	33, 101, 148, 271, 325, 476
AsuII	TTCGAA	1 cut(s)	20
AvaI	CYCGRG	1 cut(s)	451
AvaII	GGWCC	1 cut(s)	505
BalI	TGGCCA	1 cut(s)	431
BanI	GGYRCC	2 cut(s)	233, 293
BbvI	GCAGC	2 cut(s)	287, 296
BccI	CCATC	1 cut(s)	290
BceAI	ACGGC	3 cut(s)	212, 217, 307
BglI	GCCNNNNNGGC	1 cut(s)	389
BisI	GCNGC	4 cut(s)	301, 310, 393, 405
BlsI	GCNGC	4 cut(s)	302, 311, 394, 406
Bme18I	GGWCC	1 cut(s)	505
BmeT110I	CYCGRG	1 cut(s)	451
BmgT120I	GGNCC	1 cut(s)	505
BmiI	GGNNCC	4 cut(s)	235, 295, 506, 507
Bpu14I	TTCGAA	1 cut(s)	20
BsaAI	YACGTR	1 cut(s)	130
BsaHI	GRCGYC	1 cut(s)	411
BsaJI	CCNNGG	2 cut(s)	222, 418
BsaXI	ACNNNNNCTCC	4 cut(s)	170, 200, 320, 350
Bsc4I	CCNNNNNNNGG	2 cut(s)	424, 514
Bse118I	RCCGGY	1 cut(s)	296
Bse3DI	GCAATG	1 cut(s)	378
BseDI	CCNNGG	2 cut(s)	222, 418
BseLI	CCNNNNNNNGG	2 cut(s)	424, 514
BseMI	GCAATG	1 cut(s)	378
BseRI	GAGGAG	3 cut(s)	163, 197, 200
BseXI	GCAGC	2 cut(s)	287, 296
Bsh1236I	CGCG	4 cut(s)	58, 219, 249, 553
BshFI	GGCC	4 cut(s)	204, 227, 392, 431
BshNI	GGYRCC	2 cut(s)	233, 293
BsiHKCI	CYCGRG	1 cut(s)	451
BsiSI	CCGG	1 cut(s)	297
BslFI	GGGAC	1 cut(s)	518
BslI	CCNNNNNNNGG	2 cut(s)	424, 514
BsmFI	GGGAC	1 cut(s)	518
BsmI	GAATGC	3 cut(s)	28, 312, 517
BsnI	GGCC	4 cut(s)	204, 227, 392, 431
BsoBI	CYCGRG	1 cut(s)	451
Bsp119I	TTCGAA	1 cut(s)	20
Bsp143I	GATC	4 cut(s)	75, 103, 474, 495
Bsp68I	TCGCGA	1 cut(s)	58
BspACI	CCGC	7 cut(s)	196, 274, 393, 405, 425, 515, 553
BspANI	GGCC	4 cut(s)	204, 227, 392, 431
BspFNI	CGCG	4 cut(s)	58, 219, 249, 553
BspLI	GGNNCC	4 cut(s)	235, 295, 506, 507
BspPI	GGATC	1 cut(s)	111
BspT104I	TTCGAA	1 cut(s)	20
BspT107I	GGYRCC	2 cut(s)	233, 293
BsrBI	CCGCTC	1 cut(s)	425
BsrDI	GCAATG	1 cut(s)	378
BsrFI	RCCGGY	1 cut(s)	296
BssAI	RCCGGY	1 cut(s)	296
BssECI	CCNNGG	2 cut(s)	222, 418
BssMI	GATC	4 cut(s)	75, 103, 474, 495
BssNI	GRCGYC	1 cut(s)	411
Bst4CI	ACNGT	3 cut(s)	88, 238, 481
BstACI	GRCGYC	1 cut(s)	411
BstAPI	GCANNNNNTGC	1 cut(s)	300
BstBAI	YACGTR	1 cut(s)	130
BstBI	TTCGAA	1 cut(s)	20
BstC8I	GCNNGC	1 cut(s)	60
BstDEI	CTNAG	1 cut(s)	139
BstFNI	CGCG	4 cut(s)	58, 219, 249, 553
BstHHI	GCGC	2 cut(s)	221, 553
BstKTI	GATC	4 cut(s)	78, 106, 477, 498
BstMBI	GATC	4 cut(s)	75, 103, 474, 495
BstMWI	GCNNNNNNNGC	5 cut(s)	300, 306, 309, 389, 401
BstUI	CGCG	4 cut(s)	58, 219, 249, 553
BstV1I	GCAGC	2 cut(s)	287, 296
BsuRI	GGCC	4 cut(s)	204, 227, 392, 431
BtsIMutI	CAGTG	1 cut(s)	477
BtuMI	TCGCGA	1 cut(s)	58
Cac8I	GCNNGC	1 cut(s)	60
CfoI	GCGC	2 cut(s)	221, 553
Cfr10I	RCCGGY	1 cut(s)	296
Cfr13I	GGNCC	1 cut(s)	505
CseI	GACGC	1 cut(s)	292
CviAII	CATG	1 cut(s)	541
DdeI	CTNAG	1 cut(s)	139
DpnI	GATC	4 cut(s)	77, 105, 476, 497
DpnII	GATC	4 cut(s)	75, 103, 474, 495
EaeI	YGGCCR	2 cut(s)	390, 429
Eco47I	GGWCC	1 cut(s)	505
Eco57I	CTGAAG	1 cut(s)	442
Eco88I	CYCGRG	1 cut(s)	451
EcoO109I	RGGNCCY	1 cut(s)	505
FaeI	CATG	1 cut(s)	544
FaiI	YATR	2 cut(s)	35, 542
FaqI	GGGAC	1 cut(s)	518
FatI	CATG	1 cut(s)	540
FauI	CCCGC	1 cut(s)	203
Fnu4HI	GCNGC	4 cut(s)	301, 310, 393, 405
Fsp4HI	GCNGC	4 cut(s)	301, 310, 393, 405
GlaI	GCGC	2 cut(s)	220, 552
GluI	GCNGC	4 cut(s)	301, 310, 393, 405
HaeIII	GGCC	4 cut(s)	204, 227, 392, 431
HapII	CCGG	1 cut(s)	297
HgaI	GACGC	1 cut(s)	292
HhaI	GCGC	2 cut(s)	221, 553
Hin1I	GRCGYC	1 cut(s)	411
Hin1II	CATG	1 cut(s)	544
Hin6I	GCGC	2 cut(s)	219, 551
HinP1I	GCGC	2 cut(s)	219, 551
HinfI	GANTC	2 cut(s)	30, 375
HpaII	CCGG	1 cut(s)	297
HphI	GGTGA	6 cut(s)	33, 101, 148, 271, 325, 476
Hpy166II	GTNNAC	1 cut(s)	562
Hpy188I	TCNGA	2 cut(s)	178, 422
Hpy188III	TCNNGA	4 cut(s)	57, 351, 451, 499
Hpy8I	GTNNAC	1 cut(s)	562
Hpy99I	CGWCG	5 cut(s)	233, 290, 293, 357, 413
HpyAV	CCTTC	4 cut(s)	125, 199, 550, 594
HpyCH4III	ACNGT	3 cut(s)	88, 238, 481
HpyCH4IV	ACGT	2 cut(s)	129, 411
HpyCH4V	TGCA	4 cut(s)	312, 472, 526, 540
HpyF10VI	GCNNNNNNNGC	5 cut(s)	300, 306, 309, 389, 401
HpyF3I	CTNAG	1 cut(s)	139
HpySE526I	ACGT	2 cut(s)	129, 411
Hsp92I	GRCGYC	1 cut(s)	411
Hsp92II	CATG	1 cut(s)	544
HspAI	GCGC	2 cut(s)	219, 551
KflI	GGGWCCC	1 cut(s)	505
Kzo9I	GATC	4 cut(s)	75, 103, 474, 495
LmnI	GCTCC	1 cut(s)	422
LpnPI	CCDG	7 cut(s)	40, 86, 304, 310, 378, 445, 445
Lsp1109I	GCAGC	2 cut(s)	287, 296
MaeII	ACGT	2 cut(s)	129, 411
MaeIII	GTNAC	3 cut(s)	93, 238, 481
MalI	GATC	4 cut(s)	77, 105, 476, 497
MbiI	CCGCTC	1 cut(s)	425
MboI	GATC	4 cut(s)	75, 103, 474, 495
MboII	GAAGA	1 cut(s)	45
MlsI	TGGCCA	1 cut(s)	431
MluCI	AATT	2 cut(s)	16, 80
MluNI	TGGCCA	1 cut(s)	431
MlyI	GAGTC	1 cut(s)	369
MmeI	TCCRAC	1 cut(s)	201
Mox20I	TGGCCA	1 cut(s)	431
MscI	TGGCCA	1 cut(s)	431
Msp20I	TGGCCA	1 cut(s)	431
MspA1I	CMGCKG	1 cut(s)	309
MspI	CCGG	1 cut(s)	297
Mva1269I	GAATGC	3 cut(s)	28, 312, 517
MvnI	CGCG	4 cut(s)	58, 219, 249, 553
MwoI	GCNNNNNNNGC	5 cut(s)	300, 306, 309, 389, 401
NdeII	GATC	4 cut(s)	75, 103, 474, 495
NlaIII	CATG	1 cut(s)	544
NlaIV	GGNNCC	4 cut(s)	235, 295, 506, 507
NmeAIII	GCCGAG	1 cut(s)	247
NmuCI	GTSAC	2 cut(s)	238, 481
NruI	TCGCGA	1 cut(s)	58
NspV	TTCGAA	1 cut(s)	20
PaeR7I	CTCGAG	1 cut(s)	451
PcsI	WCGNNNNNNNCGW	1 cut(s)	408
PctI	GAATGC	3 cut(s)	28, 312, 517
PfeI	GAWTC	1 cut(s)	30
PkrI	GCNGC	4 cut(s)	302, 311, 394, 406
PleI	GAGTC	1 cut(s)	369
PpsI	GAGTC	1 cut(s)	369
Ppu21I	YACGTR	1 cut(s)	130
PpuMI	RGGWCCY	1 cut(s)	505
Psp5II	RGGWCCY	1 cut(s)	505
PspN4I	GGNNCC	4 cut(s)	235, 295, 506, 507
PspPI	GGNCC	1 cut(s)	505
PspPPI	RGGWCCY	1 cut(s)	505
PvuII	CAGCTG	1 cut(s)	309
RruI	TCGCGA	1 cut(s)	58
SatI	GCNGC	4 cut(s)	301, 310, 393, 405
Sau3AI	GATC	4 cut(s)	75, 103, 474, 495
Sau96I	GGNCC	1 cut(s)	505
SchI	GAGTC	1 cut(s)	369
Sfr274I	CTCGAG	1 cut(s)	451
SfuI	TTCGAA	1 cut(s)	20
SinI	GGWCC	1 cut(s)	505
SlaI	CTCGAG	1 cut(s)	451
SmlI	CTYRAG	1 cut(s)	451
SmoI	CTYRAG	1 cut(s)	451
Sse9I	AATT	2 cut(s)	16, 80
SsiI	CCGC	7 cut(s)	196, 274, 393, 405, 425, 515, 553
TaaI	ACNGT	3 cut(s)	88, 238, 481
TaiI	ACGT	2 cut(s)	132, 414
TaqI	TCGA	6 cut(s)	20, 147, 285, 373, 452, 498
TaqII	GACCGA	1 cut(s)	500
TasI	AATT	2 cut(s)	16, 80
TauI	GCSGC	2 cut(s)	395, 407
TfiI	GAWTC	1 cut(s)	30
TscAI	CASTG	1 cut(s)	484
TseFI	GTSAC	2 cut(s)	238, 481
TseI	GCWGC	2 cut(s)	300, 309
Tsp45I	GTSAC	2 cut(s)	238, 481
TspDTI	ATGAA	1 cut(s)	22
TspRI	CASTG	1 cut(s)	484
VpaK11BI	GGWCC	1 cut(s)	505
XapI	RAATTY	2 cut(s)	16, 80
XhoI	CTCGAG	1 cut(s)	451
ZraI	GACGTC	1 cut(s)	412

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