Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0007871

Physical Location & Seq

Genomic Coordinates Reverse (-)

3169069 .. 3173028

Gene Structure 3960 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016014

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

ATGGGGATTTGGTTAGTGTATGAGAGATATGATAACATGAAGGCTGTTAAAGTGTGTGGGGGTTCTGTGCTTGAGAATCGGTTCGGTGTGTTTAAGCATTCGGATTGGATAGGGAAGCAATTTGGGTCCAAGGTTTTCAGCAGCAAGGGTGGATTTGTTTACTTGTTGGCTCCGAATCCTGAGCTTTGGACTTTGGTTCTGAGTCACAGGACTCAGATTCTCTGCGTTGCTTATATTAGCTTTGTGATCATGTTCTTGGAGATGGTTCCTGGCTGTGTGGTTCTTGAGTCGGGGACTGGAAGTGGGTCTTTGACTACATCACTTGCAAGGGCTGTAGCTCATAAGGGACATGTGTATACATTTGATTTCCATGAGCAAAGGGCGGCCTCGGCTAGGTTGAAAAAGAGTGAGAGCGTTTCAGTTCGTGGGCGGGGACTTGGACTGGAGACAAAGAAAAGAGTTTTGCTTCTGAAGAATAGTAAGCAGCATATAGAGAACTTGGACAATAACGTACTTCGACGTCAGCTGTTACTTGTTGATACACTTAGTACCATTGGTAATGGATTATGTATGCCTCTACTAATCCTAGGCTTCGAAGGTCTAATTCATCCTTTTGGAAAAATTGGGAATAGCAAGAGGGTGGCTAACGCAGTTTGTAAGGTGTCCCTGAAATTTGTTTACTTCGCTCTTGGGGCAGCTGCTACAACATTTCTATTCGTTTACTTTAGAATGCTATGGGAGGACTTTGAAAAGACGGGGATAAGTGCAAGTGTGCAACGAGCATCGGAGACTTTGAGATCAAAGTTTACAGTTAGCTACTTAGCTTTAATATATAAGGACATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001510 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008168 GO:0008173 GO:0008174 GO:0008757 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016740 GO:0016741 GO:0031515 GO:0032259 GO:0032991 GO:0034641 GO:0034708 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0043527 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0061953 GO:0071704 GO:0080009 GO:0090304 GO:0140098 GO:1901360 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GCD14

Protein Analysis

282

Amino Acids

31.3

Weight (kDa)

9.7

Isoelectric Point (pI)

27.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GCD14	PF08704	51 - 132	1.2e-36	tRNA methyltransferase complex GCD14 subunit

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

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Orthologous Genes (Group: OG0007871)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G14600
fragaria_vesca	FvH4_6g51011 FvH4_6g51011 FvH4_6g51011
malus_domestica	MD09G1029500.v1.1 MD17G1031500.v1.1
prunus_persica	Prupe.3G287900_v2.0.a1
pyrus_communis	pycom111g02350 pycom17g02900
rosa_chinensis	RchiOBHm_Chr2g0172551
rosa_laevigata	RLG00000002839 RLG00000016014 RLG00000021671 RLG00000022115
rosa_multiflora	Rmu_sc0000912.1_g000006
rosa_roxburghii	Rroxscaffold_2G00079770
rosa_rugosa	Rorug02G0559800
rosa_samantha	Rh2AG635900 Rh2BG649300 Rh2CG616100 Rh2DG663700 Rh3AG202500 Rh3DG228000
rosa_wichuraiana	Rw2G052610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	523
AccI	GTMKAC	1 cut(s)	356
AciI	CCGC	2 cut(s)	383, 430
AcsI	RAATTY	1 cut(s)	671
AcuI	CTGAAG	1 cut(s)	491
AcyI	GRCGYC	1 cut(s)	520
AfaI	GTAC	2 cut(s)	513, 550
AfiI	CCNNNNNNNGG	1 cut(s)	393
AflIII	ACRYGT	1 cut(s)	349
AgsI	TTSAA	2 cut(s)	400, 749
AjnI	CCWGG	1 cut(s)	268
AluBI	AGCT	7 cut(s)	184, 240, 338, 526, 698, 816, 824
AluI	AGCT	7 cut(s)	184, 240, 338, 526, 698, 816, 824
Alw26I	GTCTC	2 cut(s)	440, 782
AoxI	GGCC	1 cut(s)	384
ApeKI	GCWGC	4 cut(s)	141, 484, 695, 698
ApoI	RAATTY	1 cut(s)	671
Asp700I	GAANNNNTTC	1 cut(s)	80
AspA2I	CCTAGG	1 cut(s)	586
AspS9I	GGNCC	1 cut(s)	126
AsuII	TTCGAA	1 cut(s)	594
AvaII	GGWCC	1 cut(s)	126
AvrII	CCTAGG	1 cut(s)	586
BbvI	GCAGC	4 cut(s)	153, 496, 685, 707
BccI	CCATC	1 cut(s)	256
BciT130I	CCWGG	1 cut(s)	270
BclI	TGATCA	1 cut(s)	246
BcoDI	GTCTC	2 cut(s)	440, 782
BfaI	CTAG	2 cut(s)	393, 587
BfmI	CTRYAG	1 cut(s)	333
BisI	GCNGC	5 cut(s)	142, 384, 485, 696, 699
BlnI	CCTAGG	1 cut(s)	586
BlsI	GCNGC	5 cut(s)	143, 385, 486, 697, 700
Bme1390I	CCNGG	1 cut(s)	270
Bme18I	GGWCC	1 cut(s)	126
BmgT120I	GGNCC	1 cut(s)	126
BmiI	GGNNCC	3 cut(s)	127, 171, 267
BmrFI	CCNGG	1 cut(s)	270
BmsI	GCATC	1 cut(s)	791
BpmI	CTGGAG	1 cut(s)	464
Bpu10I	CCTNAGC	1 cut(s)	180
Bpu14I	TTCGAA	1 cut(s)	594
BpuEI	CTTGAG	2 cut(s)	92, 305
BsaHI	GRCGYC	1 cut(s)	520
BsaJI	CCNNGG	3 cut(s)	129, 387, 586
Bsc4I	CCNNNNNNNGG	1 cut(s)	393
Bse1I	ACTGG	2 cut(s)	301, 447
BseBI	CCWGG	1 cut(s)	270
BseDI	CCNNGG	3 cut(s)	129, 387, 586
BseGI	GGATG	1 cut(s)	607
BseLI	CCNNNNNNNGG	1 cut(s)	393
BseMII	CTCAG	3 cut(s)	171, 191, 227
BseNI	ACTGG	2 cut(s)	301, 447
BseXI	GCAGC	4 cut(s)	153, 496, 685, 707
BshFI	GGCC	1 cut(s)	386
BslFI	GGGAC	4 cut(s)	307, 360, 447, 649
BslI	CCNNNNNNNGG	1 cut(s)	393
BsmAI	GTCTC	2 cut(s)	440, 782
BsmFI	GGGAC	4 cut(s)	307, 360, 447, 649
BsmI	GAATGC	2 cut(s)	97, 735
BsnI	GGCC	1 cut(s)	386
Bsp119I	TTCGAA	1 cut(s)	594
Bsp143I	GATC	2 cut(s)	246, 797
BspACI	CCGC	2 cut(s)	383, 430
BspANI	GGCC	1 cut(s)	386
BspCNI	CTCAG	3 cut(s)	172, 192, 226
BspLI	GGNNCC	3 cut(s)	127, 171, 267
BspT104I	TTCGAA	1 cut(s)	594
BsrI	ACTGG	2 cut(s)	301, 447
BssECI	CCNNGG	3 cut(s)	129, 387, 586
BssMI	GATC	2 cut(s)	246, 797
BssNAI	GTATAC	1 cut(s)	357
BssNI	GRCGYC	1 cut(s)	520
BssT1I	CCWWGG	2 cut(s)	129, 586
Bst1107I	GTATAC	1 cut(s)	357
Bst2UI	CCWGG	1 cut(s)	270
Bst4CI	ACNGT	1 cut(s)	811
BstACI	GRCGYC	1 cut(s)	520
BstBI	TTCGAA	1 cut(s)	594
BstDEI	CTNAG	5 cut(s)	180, 200, 213, 545, 820
BstENI	CCTNNNNNAGG	1 cut(s)	391
BstF5I	GGATG	1 cut(s)	607
BstKTI	GATC	2 cut(s)	249, 800
BstMAI	GTCTC	2 cut(s)	440, 782
BstMBI	GATC	2 cut(s)	246, 797
BstMWI	GCNNNNNNNGC	2 cut(s)	389, 692
BstNI	CCWGG	1 cut(s)	270
BstNSI	RCATGY	1 cut(s)	353
BstSCI	CCNGG	1 cut(s)	268
BstSFI	CTRYAG	1 cut(s)	333
BstV1I	GCAGC	4 cut(s)	153, 496, 685, 707
BstZ17I	GTATAC	1 cut(s)	357
BsuRI	GGCC	1 cut(s)	386
BtsCI	GGATG	1 cut(s)	607
Cfr13I	GGNCC	1 cut(s)	126
Csp6I	GTAC	2 cut(s)	512, 549
CviAII	CATG	4 cut(s)	37, 250, 350, 371
CviQI	GTAC	2 cut(s)	512, 549
DdeI	CTNAG	5 cut(s)	180, 200, 213, 545, 820
DpnI	GATC	2 cut(s)	248, 799
DpnII	GATC	2 cut(s)	246, 797
Eco130I	CCWWGG	2 cut(s)	129, 586
Eco47I	GGWCC	1 cut(s)	126
Eco57I	CTGAAG	1 cut(s)	491
EcoNI	CCTNNNNNAGG	1 cut(s)	391
EcoRII	CCWGG	1 cut(s)	268
EcoT14I	CCWWGG	2 cut(s)	129, 586
ErhI	CCWWGG	2 cut(s)	129, 586
FaeI	CATG	4 cut(s)	40, 253, 353, 374
FalI	AAGNNNNNCTT	2 cut(s)	292, 324
FaqI	GGGAC	4 cut(s)	307, 360, 447, 649
FatI	CATG	4 cut(s)	36, 249, 349, 370
FauI	CCCGC	1 cut(s)	423
FbaI	TGATCA	1 cut(s)	246
FblI	GTMKAC	1 cut(s)	356
Fnu4HI	GCNGC	5 cut(s)	142, 384, 485, 696, 699
FokI	GGATG	1 cut(s)	594
Fsp4HI	GCNGC	5 cut(s)	142, 384, 485, 696, 699
FspBI	CTAG	2 cut(s)	393, 587
GluI	GCNGC	5 cut(s)	142, 384, 485, 696, 699
GsuI	CTGGAG	1 cut(s)	464
HaeIII	GGCC	1 cut(s)	386
Hin1I	GRCGYC	1 cut(s)	520
Hin1II	CATG	4 cut(s)	40, 253, 353, 374
HinfI	GANTC	6 cut(s)	76, 175, 202, 211, 217, 287
Hpy166II	GTNNAC	5 cut(s)	160, 357, 679, 721, 807
Hpy188I	TCNGA	6 cut(s)	103, 174, 201, 216, 471, 787
Hpy188III	TCNNGA	2 cut(s)	179, 284
Hpy8I	GTNNAC	5 cut(s)	160, 357, 679, 721, 807
Hpy99I	CGWCG	1 cut(s)	522
HpyAV	CCTTC	2 cut(s)	34, 590
HpyCH4III	ACNGT	1 cut(s)	811
HpyCH4IV	ACGT	2 cut(s)	510, 520
HpyCH4V	TGCA	3 cut(s)	326, 767, 775
HpyF10VI	GCNNNNNNNGC	2 cut(s)	389, 692
HpyF3I	CTNAG	5 cut(s)	180, 200, 213, 545, 820
HpySE526I	ACGT	2 cut(s)	510, 520
Hsp92I	GRCGYC	1 cut(s)	520
Hsp92II	CATG	4 cut(s)	40, 253, 353, 374
Ksp22I	TGATCA	1 cut(s)	246
Kzo9I	GATC	2 cut(s)	246, 797
LmnI	GCTCC	1 cut(s)	175
LpnPI	CCDG	7 cut(s)	192, 193, 255, 282, 282, 428, 680
Lsp1109I	GCAGC	4 cut(s)	153, 496, 685, 707
LweI	GCATC	1 cut(s)	791
MaeI	CTAG	2 cut(s)	393, 587
MaeII	ACGT	2 cut(s)	510, 520
MaeIII	GTNAC	2 cut(s)	203, 528
MalI	GATC	2 cut(s)	248, 799
MboI	GATC	2 cut(s)	246, 797
MboII	GAAGA	1 cut(s)	484
MluCI	AATT	4 cut(s)	119, 603, 621, 671
MlyI	GAGTC	3 cut(s)	205, 211, 296
MnlI	CCTC	4 cut(s)	397, 585, 630, 733
MroXI	GAANNNNTTC	1 cut(s)	80
MseI	TTAA	3 cut(s)	48, 93, 827
MspA1I	CMGCKG	2 cut(s)	526, 698
MspR9I	CCNGG	1 cut(s)	270
Mva1269I	GAATGC	2 cut(s)	97, 735
MvaI	CCWGG	1 cut(s)	270
MwoI	GCNNNNNNNGC	2 cut(s)	389, 692
NdeII	GATC	2 cut(s)	246, 797
NlaIII	CATG	4 cut(s)	40, 253, 353, 374
NlaIV	GGNNCC	3 cut(s)	127, 171, 267
NmeAIII	GCCGAG	1 cut(s)	368
NmuCI	GTSAC	1 cut(s)	203
NspI	RCATGY	1 cut(s)	353
NspV	TTCGAA	1 cut(s)	594
PciI	ACATGT	1 cut(s)	349
PctI	GAATGC	2 cut(s)	97, 735
PdmI	GAANNNNTTC	1 cut(s)	80
PfeI	GAWTC	3 cut(s)	76, 175, 217
PkrI	GCNGC	5 cut(s)	143, 385, 486, 697, 700
PleI	GAGTC	3 cut(s)	205, 210, 295
PpsI	GAGTC	3 cut(s)	205, 210, 295
PscI	ACATGT	1 cut(s)	349
Psp6I	CCWGG	1 cut(s)	268
PspGI	CCWGG	1 cut(s)	268
PspN4I	GGNNCC	3 cut(s)	127, 171, 267
PspPI	GGNCC	1 cut(s)	126
PvuII	CAGCTG	2 cut(s)	526, 698
RsaI	GTAC	2 cut(s)	513, 550
RsaNI	GTAC	2 cut(s)	512, 549
SaqAI	TTAA	3 cut(s)	48, 93, 827
SatI	GCNGC	5 cut(s)	142, 384, 485, 696, 699
Sau3AI	GATC	2 cut(s)	246, 797
Sau96I	GGNCC	1 cut(s)	126
SchI	GAGTC	3 cut(s)	205, 211, 296
ScrFI	CCNGG	1 cut(s)	270
SfaNI	GCATC	1 cut(s)	791
SfcI	CTRYAG	1 cut(s)	333
SfuI	TTCGAA	1 cut(s)	594
SinI	GGWCC	1 cut(s)	126
SmlI	CTYRAG	2 cut(s)	71, 284
SmoI	CTYRAG	2 cut(s)	71, 284
Sse9I	AATT	4 cut(s)	119, 603, 621, 671
SsiI	CCGC	2 cut(s)	383, 430
SspMI	CTAG	2 cut(s)	393, 587
StyD4I	CCNGG	1 cut(s)	268
StyI	CCWWGG	2 cut(s)	129, 586
TaaI	ACNGT	1 cut(s)	811
TaiI	ACGT	2 cut(s)	513, 523
TaqI	TCGA	2 cut(s)	517, 594
TasI	AATT	4 cut(s)	119, 603, 621, 671
TauI	GCSGC	1 cut(s)	386
TfiI	GAWTC	3 cut(s)	76, 175, 217
Tru1I	TTAA	3 cut(s)	48, 93, 827
Tru9I	TTAA	3 cut(s)	48, 93, 827
TseFI	GTSAC	1 cut(s)	203
TseI	GCWGC	4 cut(s)	141, 484, 695, 698
Tsp45I	GTSAC	1 cut(s)	203
TspDTI	ATGAA	2 cut(s)	53, 596
VpaK11BI	GGWCC	1 cut(s)	126
XagI	CCTNNNNNAGG	1 cut(s)	391
XapI	RAATTY	1 cut(s)	671
XceI	RCATGY	1 cut(s)	353
XmaJI	CCTAGG	1 cut(s)	586
XmiI	GTMKAC	1 cut(s)	356
XmnI	GAANNNNTTC	1 cut(s)	80
XspI	CTAG	2 cut(s)	393, 587
ZraI	GACGTC	1 cut(s)	521

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