Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0009334

Physical Location & Seq

Genomic Coordinates Reverse (-)

50159515 .. 50162993

Gene Structure 3479 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG251800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 747 bp

ATGGGCACGATCAGCCCCACGCAGCTTGATTACTACGAAGACATGTGGAAGCTTGAATCCGATGCCACACTGGTAGCGTTGGTCAAAGGTGAAGATGGACGGACGGCTTTGGTGTTGGACCGGACGGTGTTCCATCCGCAAGGCGGCGGTCAACCGGCGGACACAGGCTTCGTCGCCGTCGCTGGTTCTGAGGTCAAGTTCGTCGTGCAAGATGTGCGGTCCAAGGACGGTGTAGTTTACCACTACGGTTTGGTTGAGAATTGCGGTGAGGGATGGGAAGCCGAGTTTGAGAAAGGGAGAGAGGTGGTGTTGCATGTTGATGAGTCTAGGCGCAAGCTTAATTCTAGGCTTCACTCAGCTGGGCATTTGCTAGATGTGTGTATGAAGAAAGTGGGATTGGGTGATTTAAAGCCAGGCAAAGGCTACCATTTCCCTCAAGGGCCATATGTGGAATATATAGGCATAGTTCCACAGAAAGATGTGCAAAGTAAGCAGAAAGAGTTGGAGTTAGAAGCTAATGCATTGATATCGAGAGGAGGGAAGGTCTTTGTTGCATCAGTACCATATGAAGAAGCATGTAAGCTGTGTGGTGAATGTCTTCCCGATTACATTCCAAAGGACAGCACTCCTCGTATTGTGAAGATGGGGACCAATCCGGGCTGCCCGTGTGGTGGTACTCATGTTTCTGATGTTTCAGAGATCATCAGTGTTACAGTAAGAATCTATTTGCACCAAACACTGTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000049 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004812 GO:0004813 GO:0005488 GO:0006082 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006412 GO:0006418 GO:0006419 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016597 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0031406 GO:0034470 GO:0034641 GO:0034645 GO:0034660 GO:0036094 GO:0043038 GO:0043039 GO:0043043 GO:0043167 GO:0043168 GO:0043170 GO:0043177 GO:0043412 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0046483 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:0140101 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

tRNA-synt_2c tRNA_SAD

Protein Analysis

248

Amino Acids

27.15

Weight (kDa)

5.64

Isoelectric Point (pI)

34.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2c	PF01411	24 - 109	1.4e-10	tRNA synthetases class II (A)

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: OG0009334)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G16565 AT3G16565 AT3G16565 AT3G16565 AT3G16565 AT3G16565
fragaria_vesca	FvH4_4g17960
malus_domestica	MD13G1169000.v1.1 MD16G1169600.v1.1
prunus_persica	Prupe.1G137400_v2.0.a1
pyrus_communis	pycom13g14460
rosa_chinensis	RchiOBHm_Chr4g0422131
rosa_laevigata	RLG00000007632
rosa_multiflora	Rmu_sc0004902.1_g000006 Rmu_sc0036261.1_g000001
rosa_roxburghii	Rroxscaffold_5G00364210
rosa_rugosa	Rorug04G0177600
rosa_samantha	Rh4AG237100 Rh4BG239900 Rh4CG251800 Rh4DG236000
rosa_wichuraiana	Rw4G020510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	6 cut(s)	137, 144, 147, 158, 217, 264
AfaI	GTAC	2 cut(s)	561, 676
AfiI	CCNNNNNNNGG	3 cut(s)	143, 419, 671
AflIII	ACRYGT	1 cut(s)	42
AgsI	TTSAA	1 cut(s)	56
AjnI	CCWGG	1 cut(s)	412
AjuI	GAANNNNNNNTTGG	2 cut(s)	380, 412
AluBI	AGCT	6 cut(s)	25, 52, 337, 359, 515, 583
AluI	AGCT	6 cut(s)	25, 52, 337, 359, 515, 583
AoxI	GGCC	1 cut(s)	440
ApeKI	GCWGC	2 cut(s)	22, 660
ArsI	GACNNNNNNTTYG	2 cut(s)	152, 184
Asp700I	GAANNNNTTC	1 cut(s)	597
AspLEI	GCGC	1 cut(s)	333
AspS9I	GGNCC	4 cut(s)	118, 219, 440, 648
AsuC2I	CCSGG	1 cut(s)	657
AsuHPI	GGTGA	4 cut(s)	101, 278, 413, 602
AvaII	GGWCC	3 cut(s)	118, 219, 648
BaeGI	GKGCMC	1 cut(s)	8
BaeI	ACNNNNGTAYC	2 cut(s)	666, 699
BbsI	GAAGAC	2 cut(s)	45, 590
BbvI	GCAGC	2 cut(s)	34, 647
BccI	CCATC	4 cut(s)	89, 141, 267, 637
BceAI	ACGGC	2 cut(s)	120, 161
BcgI	CGANNNNNNTGC	2 cut(s)	510, 544
BciT130I	CCWGG	1 cut(s)	414
BcnI	CCSGG	1 cut(s)	657
BfaI	CTAG	3 cut(s)	327, 345, 371
BisI	GCNGC	3 cut(s)	23, 145, 661
BlsI	GCNGC	3 cut(s)	24, 146, 662
Bme1390I	CCNGG	2 cut(s)	414, 657
Bme18I	GGWCC	3 cut(s)	118, 219, 648
BmgT120I	GGNCC	4 cut(s)	118, 219, 440, 648
BmiI	GGNNCC	1 cut(s)	649
BmrFI	CCNGG	2 cut(s)	414, 657
BmsI	GCATC	2 cut(s)	52, 563
BpiI	GAAGAC	2 cut(s)	45, 590
BpuEI	CTTGAG	1 cut(s)	420
BpuMI	CCSGG	1 cut(s)	657
BsaJI	CCNNGG	1 cut(s)	222
BsaWI	WCCGGW	1 cut(s)	120
BsaXI	ACNNNNNCTCC	2 cut(s)	528, 558
Bsc4I	CCNNNNNNNGG	3 cut(s)	143, 419, 671
Bse118I	RCCGGY	1 cut(s)	154
Bse1I	ACTGG	1 cut(s)	75
BseBI	CCWGG	1 cut(s)	414
BseDI	CCNNGG	1 cut(s)	222
BseGI	GGATG	2 cut(s)	133, 278
BseLI	CCNNNNNNNGG	3 cut(s)	143, 419, 671
BseMII	CTCAG	2 cut(s)	180, 369
BseNI	ACTGG	1 cut(s)	75
BseRI	GAGGAG	2 cut(s)	549, 618
BseSI	GKGCMC	1 cut(s)	8
BseXI	GCAGC	2 cut(s)	34, 647
BseYI	CCCAGC	1 cut(s)	359
BshFI	GGCC	1 cut(s)	442
BsiSI	CCGG	3 cut(s)	121, 155, 656
BslFI	GGGAC	1 cut(s)	661
BslI	CCNNNNNNNGG	3 cut(s)	143, 419, 671
BsmFI	GGGAC	1 cut(s)	661
BsnI	GGCC	1 cut(s)	442
Bsp1286I	GDGCHC	1 cut(s)	8
Bsp143I	GATC	2 cut(s)	9, 699
BspACI	CCGC	6 cut(s)	137, 144, 147, 158, 217, 264
BspANI	GGCC	1 cut(s)	442
BspCNI	CTCAG	2 cut(s)	181, 368
BspLI	GGNNCC	1 cut(s)	649
BsrFI	RCCGGY	1 cut(s)	154
BsrI	ACTGG	1 cut(s)	75
BssAI	RCCGGY	1 cut(s)	154
BssECI	CCNNGG	1 cut(s)	222
BssMI	GATC	2 cut(s)	9, 699
BssT1I	CCWWGG	1 cut(s)	222
Bst2UI	CCWGG	1 cut(s)	414
Bst4CI	ACNGT	5 cut(s)	127, 230, 248, 715, 741
BstAPI	GCANNNNNTGC	1 cut(s)	214
BstC8I	GCNNGC	1 cut(s)	335
BstDEI	CTNAG	2 cut(s)	189, 355
BstF5I	GGATG	2 cut(s)	133, 278
BstHHI	GCGC	1 cut(s)	333
BstKTI	GATC	2 cut(s)	12, 702
BstMBI	GATC	2 cut(s)	9, 699
BstMWI	GCNNNNNNNGC	3 cut(s)	12, 214, 490
BstNI	CCWGG	1 cut(s)	414
BstNSI	RCATGY	3 cut(s)	46, 317, 579
BstSCI	CCNGG	2 cut(s)	412, 655
BstSLI	GKGCMC	1 cut(s)	8
BstV1I	GCAGC	2 cut(s)	34, 647
BstV2I	GAAGAC	2 cut(s)	45, 590
BsuRI	GGCC	1 cut(s)	442
BtsCI	GGATG	2 cut(s)	133, 278
BtsIMutI	CAGTG	3 cut(s)	68, 712, 737
Cac8I	GCNNGC	1 cut(s)	335
CfoI	GCGC	1 cut(s)	333
Cfr10I	RCCGGY	1 cut(s)	154
Cfr13I	GGNCC	4 cut(s)	118, 219, 440, 648
Csp6I	GTAC	2 cut(s)	560, 675
CspCI	CAANNNNNGTGG	2 cut(s)	7, 42
CviAII	CATG	4 cut(s)	43, 314, 576, 680
CviQI	GTAC	2 cut(s)	560, 675
DdeI	CTNAG	2 cut(s)	189, 355
DpnI	GATC	2 cut(s)	11, 701
DpnII	GATC	2 cut(s)	9, 699
DraI	TTTAAA	1 cut(s)	408
EciI	GGCGGA	1 cut(s)	173
Eco130I	CCWWGG	1 cut(s)	222
Eco32I	GATATC	1 cut(s)	528
Eco47I	GGWCC	3 cut(s)	118, 219, 648
EcoRII	CCWGG	1 cut(s)	412
EcoRV	GATATC	1 cut(s)	528
EcoT14I	CCWWGG	1 cut(s)	222
EcoT22I	ATGCAT	1 cut(s)	523
ErhI	CCWWGG	1 cut(s)	222
FaeI	CATG	4 cut(s)	46, 317, 579, 683
FaqI	GGGAC	1 cut(s)	661
FatI	CATG	4 cut(s)	42, 313, 575, 679
FauNDI	CATATG	2 cut(s)	445, 565
Fnu4HI	GCNGC	3 cut(s)	23, 145, 661
FokI	GGATG	2 cut(s)	120, 285
Fsp4HI	GCNGC	3 cut(s)	23, 145, 661
FspBI	CTAG	3 cut(s)	327, 345, 371
GlaI	GCGC	1 cut(s)	332
GluI	GCNGC	3 cut(s)	23, 145, 661
GsaI	CCCAGC	1 cut(s)	363
HaeIII	GGCC	1 cut(s)	442
HapII	CCGG	3 cut(s)	121, 155, 656
HhaI	GCGC	1 cut(s)	333
Hin1II	CATG	4 cut(s)	46, 317, 579, 683
Hin6I	GCGC	1 cut(s)	331
HinP1I	GCGC	1 cut(s)	331
HincII	GTYRAC	1 cut(s)	152
HindII	GTYRAC	1 cut(s)	152
HindIII	AAGCTT	2 cut(s)	50, 335
HinfI	GANTC	3 cut(s)	56, 323, 720
HpaII	CCGG	3 cut(s)	121, 155, 656
HphI	GGTGA	4 cut(s)	101, 278, 413, 602
Hpy166II	GTNNAC	2 cut(s)	152, 238
Hpy188I	TCNGA	4 cut(s)	61, 190, 688, 697
Hpy188III	TCNNGA	2 cut(s)	531, 602
Hpy8I	GTNNAC	2 cut(s)	152, 238
Hpy99I	CGWCG	3 cut(s)	176, 182, 206
HpyAV	CCTTC	1 cut(s)	535
HpyCH4III	ACNGT	5 cut(s)	127, 230, 248, 715, 741
HpyCH4V	TGCA	6 cut(s)	208, 313, 484, 521, 554, 730
HpyF10VI	GCNNNNNNNGC	3 cut(s)	12, 214, 490
HpyF3I	CTNAG	2 cut(s)	189, 355
Hsp92II	CATG	4 cut(s)	46, 317, 579, 683
HspAI	GCGC	1 cut(s)	331
Kzo9I	GATC	2 cut(s)	9, 699
LpnPI	CCDG	9 cut(s)	56, 134, 150, 168, 168, 345, 399, 426, 669
Lsp1109I	GCAGC	2 cut(s)	34, 647
LweI	GCATC	2 cut(s)	52, 563
MaeI	CTAG	3 cut(s)	327, 345, 371
MaeIII	GTNAC	1 cut(s)	709
MalI	GATC	2 cut(s)	11, 701
MboI	GATC	2 cut(s)	9, 699
MboII	GAAGA	6 cut(s)	50, 104, 397, 581, 590, 652
MhlI	GDGCHC	1 cut(s)	8
MluCI	AATT	2 cut(s)	259, 340
MlyI	GAGTC	1 cut(s)	332
MmeI	TCCRAC	2 cut(s)	96, 483
MnlI	CCTC	7 cut(s)	184, 262, 295, 444, 527, 530, 639
Mph1103I	ATGCAT	1 cut(s)	523
MroXI	GAANNNNTTC	1 cut(s)	597
MseI	TTAA	2 cut(s)	339, 407
MslI	CAYNNNNRTG	2 cut(s)	318, 742
MspA1I	CMGCKG	1 cut(s)	359
MspI	CCGG	3 cut(s)	121, 155, 656
MspR9I	CCNGG	2 cut(s)	414, 657
MvaI	CCWGG	1 cut(s)	414
MwoI	GCNNNNNNNGC	3 cut(s)	12, 214, 490
NciI	CCSGG	1 cut(s)	657
NdeI	CATATG	2 cut(s)	445, 565
NdeII	GATC	2 cut(s)	9, 699
NlaIII	CATG	4 cut(s)	46, 317, 579, 683
NlaIV	GGNNCC	1 cut(s)	649
NmeAIII	GCCGAG	1 cut(s)	307
NsiI	ATGCAT	1 cut(s)	523
NspI	RCATGY	3 cut(s)	46, 317, 579
PciI	ACATGT	1 cut(s)	42
PdmI	GAANNNNTTC	1 cut(s)	597
PfeI	GAWTC	2 cut(s)	56, 720
PkrI	GCNGC	3 cut(s)	24, 146, 662
PleI	GAGTC	1 cut(s)	331
PpsI	GAGTC	1 cut(s)	331
PscI	ACATGT	1 cut(s)	42
Psp6I	CCWGG	1 cut(s)	412
PspFI	CCCAGC	1 cut(s)	359
PspGI	CCWGG	1 cut(s)	412
PspN4I	GGNNCC	1 cut(s)	649
PspPI	GGNCC	4 cut(s)	118, 219, 440, 648
PvuII	CAGCTG	1 cut(s)	359
RsaI	GTAC	2 cut(s)	561, 676
RsaNI	GTAC	2 cut(s)	560, 675
RseI	CAYNNNNRTG	2 cut(s)	318, 742
SaqAI	TTAA	2 cut(s)	339, 407
SatI	GCNGC	3 cut(s)	23, 145, 661
Sau3AI	GATC	2 cut(s)	9, 699
Sau96I	GGNCC	4 cut(s)	118, 219, 440, 648
SchI	GAGTC	1 cut(s)	332
ScrFI	CCNGG	2 cut(s)	414, 657
SduI	GDGCHC	1 cut(s)	8
SfaNI	GCATC	2 cut(s)	52, 563
SinI	GGWCC	3 cut(s)	118, 219, 648
SmiMI	CAYNNNNRTG	2 cut(s)	318, 742
SmlI	CTYRAG	1 cut(s)	435
SmoI	CTYRAG	1 cut(s)	435
Sse9I	AATT	2 cut(s)	259, 340
SsiI	CCGC	6 cut(s)	137, 144, 147, 158, 217, 264
SspMI	CTAG	3 cut(s)	327, 345, 371
StyD4I	CCNGG	2 cut(s)	412, 655
StyI	CCWWGG	1 cut(s)	222
TaaI	ACNGT	5 cut(s)	127, 230, 248, 715, 741
TaqI	TCGA	1 cut(s)	530
TasI	AATT	2 cut(s)	259, 340
TauI	GCSGC	1 cut(s)	147
TfiI	GAWTC	2 cut(s)	56, 720
Tru1I	TTAA	2 cut(s)	339, 407
Tru9I	TTAA	2 cut(s)	339, 407
TscAI	CASTG	3 cut(s)	75, 712, 744
TseI	GCWGC	2 cut(s)	22, 660
TspDTI	ATGAA	2 cut(s)	398, 582
TspGWI	ACGGA	1 cut(s)	115
TspRI	CASTG	3 cut(s)	75, 712, 744
VpaK11BI	GGWCC	3 cut(s)	118, 219, 648
XceI	RCATGY	3 cut(s)	46, 317, 579
XmnI	GAANNNNTTC	1 cut(s)	597
XspI	CTAG	3 cut(s)	327, 345, 371
Zsp2I	ATGCAT	1 cut(s)	523

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