Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0007871

Physical Location & Seq

Genomic Coordinates Reverse (-)

88944038 .. 88945458

Gene Structure 1421 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG663700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 939 bp

ATGTTGCCTGTTGAATCTGCAAAGAAGAAGCTATCTTTCACAAGATGTATTCAAGATGGGGATTTGGTTATTGTGTATGAGAGATATGATAACATGAAGGCTGTTAAAGTGTGTGAGGGTTCTGTGCTTGAGAATCGGTTTGGTGTGTTTAAGCATTCGGATTGGATAGGGAAGCAATTTGGGTCCAAGGTTTTCAGCAGCAAAGGTGGATTTGTTTACTTGTTGGCTCCGACTCCAGAGCTATGGACTTTGGTTCTGAGTCACAGGACGCAGATTCTCTACATTGCTGATATTAGCTTTGTGATCATGTTCTTGGAGATAGTTCCTGGCTGTGTGGTTCTGGAGTCGGGGACTGGAAGTGGGTCCTTAACTACGTCACTTGCAAGGGCTGTGGCTCCTAAGGGACATGTGTATACATTTGATTTCCATGAGCAAAGGGCTGCCTCGGCTAGGGAGGACTTTGAAAAGACGGGGATAAGCAACACGGTCACAGTAGGAGTTAGAGATATTCAGGGTGAAGGTTTTCCAGATGAGTTTTCTGGGAGGGCAGATTCTGTCTTCCTGGACCTTCCCCAACCCTGGCTAGCCATCCCTTCAGTTGAGAAAATGTTAAAACAAGATGGGATTGTATGCTCCTTTTCCCCGTGCATTGAGCAGGTGCAGCGAGCATCGGAGACTTTGAGATCAAAGTTTACAGATATAAGGACATTTGAGATACTCCTTCGCACATATGAAGTTCGAGAAGGGAAAATGGATAGCTTCCAGGTCGAGGAAAGTGGTTCTGTTGGATCTCTACCATGTAAGAGGCGGCAACGATTGAGTGAAGGAAGTAATGAGCAGGAAACTACAAGCGCTTCCGTAGTCATGGCTAGGCCATGTAGTGAGGCCAAAGGCCACACTGGCTATTTGACATTTGCAAGACTCAAATGCCTGTCATAA

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

312

Amino Acids

34.66

Weight (kDa)

6.55

Isoelectric Point (pI)

35.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GCD14	PF08704	70 - 307	1.7e-100	tRNA methyltransferase complex GCD14 subunit
PCMT	PF01135	99 - 167	5.8e-06	Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)
Methyltransf_31	PF13847	109 - 231	1.3e-10	Methyltransferase domain
Methyltransf_25	PF13649	113 - 188	2.7e-06	Methyltransferase 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: 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)
AarI	CACCTGC	1 cut(s)	646
Acc36I	ACCTGC	1 cut(s)	646
AccI	GTMKAC	1 cut(s)	413
AciI	CCGC	1 cut(s)	808
AclWI	GGATC	1 cut(s)	796
AcuI	CTGAAG	1 cut(s)	579
AfeI	AGCGCT	1 cut(s)	853
AfiI	CCNNNNNNNGG	3 cut(s)	450, 579, 769
AflIII	ACRYGT	1 cut(s)	406
AgsI	TTSAA	3 cut(s)	14, 53, 464
AjnI	CCWGG	4 cut(s)	325, 561, 578, 762
AluBI	AGCT	4 cut(s)	31, 241, 297, 759
AluI	AGCT	4 cut(s)	31, 241, 297, 759
Alw26I	GTCTC	1 cut(s)	668
AlwI	GGATC	1 cut(s)	796
AlwNI	CAGNNNCTG	1 cut(s)	554
Aor51HI	AGCGCT	1 cut(s)	853
AoxI	GGCC	3 cut(s)	872, 885, 892
ApeKI	GCWGC	3 cut(s)	198, 440, 661
Asp700I	GAANNNNTTC	1 cut(s)	522
AspLEI	GCGC	1 cut(s)	854
AspS9I	GGNCC	3 cut(s)	183, 363, 565
AsuHPI	GGTGA	1 cut(s)	527
AsuNHI	GCTAGC	1 cut(s)	583
AvaII	GGWCC	3 cut(s)	183, 363, 565
AxyI	CCTNAGG	1 cut(s)	399
BbsI	GAAGAC	1 cut(s)	550
BbvI	GCAGC	3 cut(s)	210, 427, 673
BccI	CCATC	3 cut(s)	50, 596, 614
BciT130I	CCWGG	4 cut(s)	327, 563, 580, 764
BclI	TGATCA	1 cut(s)	303
BcoDI	GTCTC	1 cut(s)	668
BfaI	CTAG	3 cut(s)	450, 584, 870
BfoI	RGCGCY	1 cut(s)	855
BfuAI	ACCTGC	1 cut(s)	646
BglI	GCCNNNNNGGC	1 cut(s)	900
BisI	GCNGC	4 cut(s)	199, 441, 662, 809
BlsI	GCNGC	4 cut(s)	200, 442, 663, 810
Bme1390I	CCNGG	4 cut(s)	327, 563, 580, 764
Bme18I	GGWCC	3 cut(s)	183, 363, 565
BmgT120I	GGNCC	3 cut(s)	183, 363, 565
BmiI	GGNNCC	4 cut(s)	184, 228, 364, 396
BmrFI	CCNGG	4 cut(s)	327, 563, 580, 764
BmsI	GCATC	1 cut(s)	677
BmtI	GCTAGC	1 cut(s)	587
BpiI	GAAGAC	1 cut(s)	550
BpmI	CTGGAG	2 cut(s)	219, 362
BpuEI	CTTGAG	1 cut(s)	149
BsaJI	CCNNGG	3 cut(s)	186, 444, 578
Bsc4I	CCNNNNNNNGG	3 cut(s)	450, 579, 769
Bse1I	ACTGG	2 cut(s)	358, 904
Bse21I	CCTNAGG	1 cut(s)	399
Bse3DI	GCAATG	1 cut(s)	282
BseBI	CCWGG	4 cut(s)	327, 563, 580, 764
BseDI	CCNNGG	3 cut(s)	186, 444, 578
BseGI	GGATG	1 cut(s)	588
BseLI	CCNNNNNNNGG	3 cut(s)	450, 579, 769
BseMI	GCAATG	1 cut(s)	282
BseMII	CTCAG	1 cut(s)	248
BseNI	ACTGG	2 cut(s)	358, 904
BseXI	GCAGC	3 cut(s)	210, 427, 673
BsgI	GTGCAG	1 cut(s)	680
BshFI	GGCC	3 cut(s)	874, 887, 894
BslFI	GGGAC	2 cut(s)	364, 417
BslI	CCNNNNNNNGG	3 cut(s)	450, 579, 769
BsmAI	GTCTC	1 cut(s)	668
BsmFI	GGGAC	2 cut(s)	364, 417
BsmI	GAATGC	1 cut(s)	154
BsnI	GGCC	3 cut(s)	874, 887, 894
Bsp143I	GATC	3 cut(s)	303, 683, 788
BspACI	CCGC	1 cut(s)	808
BspANI	GGCC	3 cut(s)	874, 887, 894
BspCNI	CTCAG	1 cut(s)	249
BspLI	GGNNCC	4 cut(s)	184, 228, 364, 396
BspMI	ACCTGC	1 cut(s)	646
BspOI	GCTAGC	1 cut(s)	587
BspPI	GGATC	1 cut(s)	796
BsrDI	GCAATG	1 cut(s)	282
BsrI	ACTGG	2 cut(s)	358, 904
BssECI	CCNNGG	3 cut(s)	186, 444, 578
BssMI	GATC	3 cut(s)	303, 683, 788
BssNAI	GTATAC	1 cut(s)	414
BssT1I	CCWWGG	1 cut(s)	186
Bst1107I	GTATAC	1 cut(s)	414
Bst2UI	CCWGG	4 cut(s)	327, 563, 580, 764
Bst4CI	ACNGT	2 cut(s)	487, 493
BstC8I	GCNNGC	2 cut(s)	585, 666
BstDEI	CTNAG	2 cut(s)	257, 399
BstENI	CCTNNNNNAGG	1 cut(s)	448
BstF5I	GGATG	1 cut(s)	588
BstH2I	RGCGCY	1 cut(s)	855
BstHHI	GCGC	1 cut(s)	854
BstKTI	GATC	3 cut(s)	306, 686, 791
BstMAI	GTCTC	1 cut(s)	668
BstMBI	GATC	3 cut(s)	303, 683, 788
BstMWI	GCNNNNNNNGC	3 cut(s)	446, 661, 900
BstNI	CCWGG	4 cut(s)	327, 563, 580, 764
BstNSI	RCATGY	1 cut(s)	410
BstSCI	CCNGG	4 cut(s)	325, 561, 578, 762
BstV1I	GCAGC	3 cut(s)	210, 427, 673
BstV2I	GAAGAC	1 cut(s)	550
BstX2I	RGATCY	1 cut(s)	788
BstXI	CCANNNNNNTGG	1 cut(s)	243
BstYI	RGATCY	1 cut(s)	788
BstZ17I	GTATAC	1 cut(s)	414
Bsu36I	CCTNAGG	1 cut(s)	399
BsuRI	GGCC	3 cut(s)	874, 887, 894
BtsCI	GGATG	1 cut(s)	588
BtsIMutI	CAGTG	1 cut(s)	897
BveI	ACCTGC	1 cut(s)	646
Cac8I	GCNNGC	2 cut(s)	585, 666
CaiI	CAGNNNCTG	1 cut(s)	554
CfoI	GCGC	1 cut(s)	854
Cfr13I	GGNCC	3 cut(s)	183, 363, 565
CseI	GACGC	1 cut(s)	277
CspCI	CAANNNNNGTGG	2 cut(s)	372, 407
CviAII	CATG	7 cut(s)	94, 307, 407, 428, 798, 865, 876
DdeI	CTNAG	2 cut(s)	257, 399
DpnI	GATC	3 cut(s)	305, 685, 790
DpnII	GATC	3 cut(s)	303, 683, 788
Eco130I	CCWWGG	1 cut(s)	186
Eco47I	GGWCC	3 cut(s)	183, 363, 565
Eco47III	AGCGCT	1 cut(s)	853
Eco57I	CTGAAG	1 cut(s)	579
Eco81I	CCTNAGG	1 cut(s)	399
EcoNI	CCTNNNNNAGG	1 cut(s)	448
EcoO109I	RGGNCCY	1 cut(s)	363
EcoRII	CCWGG	4 cut(s)	325, 561, 578, 762
EcoT14I	CCWWGG	1 cut(s)	186
ErhI	CCWWGG	1 cut(s)	186
FaeI	CATG	7 cut(s)	97, 310, 410, 431, 801, 868, 879
FaqI	GGGAC	2 cut(s)	364, 417
FatI	CATG	7 cut(s)	93, 306, 406, 427, 797, 864, 875
FauNDI	CATATG	1 cut(s)	730
FbaI	TGATCA	1 cut(s)	303
FblI	GTMKAC	1 cut(s)	413
Fnu4HI	GCNGC	4 cut(s)	199, 441, 662, 809
FokI	GGATG	1 cut(s)	575
Fsp4HI	GCNGC	4 cut(s)	199, 441, 662, 809
FspBI	CTAG	3 cut(s)	450, 584, 870
GlaI	GCGC	1 cut(s)	853
GluI	GCNGC	4 cut(s)	199, 441, 662, 809
GsuI	CTGGAG	2 cut(s)	219, 362
HaeII	RGCGCY	1 cut(s)	855
HaeIII	GGCC	3 cut(s)	874, 887, 894
HgaI	GACGC	1 cut(s)	277
HhaI	GCGC	1 cut(s)	854
Hin1II	CATG	7 cut(s)	97, 310, 410, 431, 801, 868, 879
Hin6I	GCGC	1 cut(s)	852
HinP1I	GCGC	1 cut(s)	852
HinfI	GANTC	8 cut(s)	14, 133, 232, 259, 274, 344, 551, 921
HphI	GGTGA	1 cut(s)	527
Hpy166II	GTNNAC	3 cut(s)	217, 414, 693
Hpy188I	TCNGA	4 cut(s)	160, 231, 258, 673
Hpy188III	TCNNGA	5 cut(s)	53, 236, 341, 527, 740
Hpy8I	GTNNAC	3 cut(s)	217, 414, 693
HpyAV	CCTTC	7 cut(s)	91, 512, 578, 603, 731, 737, 818
HpyCH4III	ACNGT	2 cut(s)	487, 493
HpyCH4IV	ACGT	1 cut(s)	374
HpyCH4V	TGCA	5 cut(s)	20, 383, 648, 661, 917
HpyF10VI	GCNNNNNNNGC	3 cut(s)	446, 661, 900
HpyF3I	CTNAG	2 cut(s)	257, 399
HpySE526I	ACGT	1 cut(s)	374
Hsp92II	CATG	7 cut(s)	97, 310, 410, 431, 801, 868, 879
HspAI	GCGC	1 cut(s)	852
Ksp22I	TGATCA	1 cut(s)	303
Kzo9I	GATC	3 cut(s)	303, 683, 788
LmnI	GCTCC	3 cut(s)	232, 400, 638
Lsp1109I	GCAGC	3 cut(s)	210, 427, 673
LweI	GCATC	1 cut(s)	677
MaeI	CTAG	3 cut(s)	450, 584, 870
MaeII	ACGT	1 cut(s)	374
MaeIII	GTNAC	3 cut(s)	260, 375, 487
MalI	GATC	3 cut(s)	305, 685, 790
MboI	GATC	3 cut(s)	303, 683, 788
MboII	GAAGA	2 cut(s)	37, 550
MflI	RGATCY	1 cut(s)	788
MluCI	AATT	1 cut(s)	176
MlyI	GAGTC	4 cut(s)	226, 268, 353, 915
MmeI	TCCRAC	2 cut(s)	254, 766
MnlI	CCTC	7 cut(s)	109, 448, 454, 537, 763, 798, 877
MroXI	GAANNNNTTC	1 cut(s)	522
MseI	TTAA	4 cut(s)	105, 150, 368, 611
MspR9I	CCNGG	4 cut(s)	327, 563, 580, 764
Mva1269I	GAATGC	1 cut(s)	154
MvaI	CCWGG	4 cut(s)	327, 563, 580, 764
MwoI	GCNNNNNNNGC	3 cut(s)	446, 661, 900
NdeI	CATATG	1 cut(s)	730
NdeII	GATC	3 cut(s)	303, 683, 788
NheI	GCTAGC	1 cut(s)	583
NlaIII	CATG	7 cut(s)	97, 310, 410, 431, 801, 868, 879
NlaIV	GGNNCC	4 cut(s)	184, 228, 364, 396
NmeAIII	GCCGAG	1 cut(s)	425
NmuCI	GTSAC	3 cut(s)	260, 375, 487
NspI	RCATGY	1 cut(s)	410
PaqCI	CACCTGC	1 cut(s)	646
PciI	ACATGT	1 cut(s)	406
PctI	GAATGC	1 cut(s)	154
PdmI	GAANNNNTTC	1 cut(s)	522
PfeI	GAWTC	4 cut(s)	14, 133, 274, 551
PfoI	TCCNGGA	1 cut(s)	561
PkrI	GCNGC	4 cut(s)	200, 442, 663, 810
PleI	GAGTC	4 cut(s)	226, 267, 352, 915
PpsI	GAGTC	4 cut(s)	226, 267, 352, 915
PpuMI	RGGWCCY	1 cut(s)	363
PscI	ACATGT	1 cut(s)	406
Psp5II	RGGWCCY	1 cut(s)	363
Psp6I	CCWGG	4 cut(s)	325, 561, 578, 762
PspGI	CCWGG	4 cut(s)	325, 561, 578, 762
PspN4I	GGNNCC	4 cut(s)	184, 228, 364, 396
PspPI	GGNCC	3 cut(s)	183, 363, 565
PspPPI	RGGWCCY	1 cut(s)	363
PstNI	CAGNNNCTG	1 cut(s)	554
PsuI	RGATCY	1 cut(s)	788
SaqAI	TTAA	4 cut(s)	105, 150, 368, 611
SatI	GCNGC	4 cut(s)	199, 441, 662, 809
Sau3AI	GATC	3 cut(s)	303, 683, 788
Sau96I	GGNCC	3 cut(s)	183, 363, 565
SchI	GAGTC	4 cut(s)	226, 268, 353, 915
ScrFI	CCNGG	4 cut(s)	327, 563, 580, 764
SfaNI	GCATC	1 cut(s)	677
SinI	GGWCC	3 cut(s)	183, 363, 565
SmlI	CTYRAG	1 cut(s)	128
SmoI	CTYRAG	1 cut(s)	128
Sse9I	AATT	1 cut(s)	176
SsiI	CCGC	1 cut(s)	808
SspMI	CTAG	3 cut(s)	450, 584, 870
StyD4I	CCNGG	4 cut(s)	325, 561, 578, 762
StyI	CCWWGG	1 cut(s)	186
TaaI	ACNGT	2 cut(s)	487, 493
TaiI	ACGT	1 cut(s)	377
TaqI	TCGA	2 cut(s)	739, 768
TasI	AATT	1 cut(s)	176
TauI	GCSGC	1 cut(s)	811
TfiI	GAWTC	4 cut(s)	14, 133, 274, 551
Tru1I	TTAA	4 cut(s)	105, 150, 368, 611
Tru9I	TTAA	4 cut(s)	105, 150, 368, 611
TscAI	CASTG	1 cut(s)	904
TseFI	GTSAC	3 cut(s)	260, 375, 487
TseI	GCWGC	3 cut(s)	198, 440, 661
Tsp45I	GTSAC	3 cut(s)	260, 375, 487
TspDTI	ATGAA	2 cut(s)	110, 747
TspGWI	ACGGA	1 cut(s)	847
TspRI	CASTG	1 cut(s)	904
VpaK11BI	GGWCC	3 cut(s)	183, 363, 565
XagI	CCTNNNNNAGG	1 cut(s)	448
XceI	RCATGY	1 cut(s)	410
XmiI	GTMKAC	1 cut(s)	413
XmnI	GAANNNNTTC	1 cut(s)	522
XspI	CTAG	3 cut(s)	450, 584, 870

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