Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0006785

Physical Location & Seq

Genomic Coordinates Forward (+)

7162460 .. 7165456

Gene Structure 2997 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG049300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 858 bp

ATGCAGAGCCTAGCACCAATACGACCTCGTTTCGCGAAGTGCCTCACAACCTTTCGAGCATTCTCATCTTCTTCTTCTTCTTCTTCTTCAGATTACTCCAACCAGTCCCGCGGTGGCCTCCCTCGCTTCTTCTCCGAACGCCTCCCTTCTTCCAAGGGAGGCCTAGTTCGCGTTCAAGATGATGAGTTCTGGCACATGACTAAAGTCTTGAGATTACGCGCCAATGATAGGGTAGAGCTGTTTAATGGGAAAGGAGGTTTGGTAGAAGGAGTAATACAAACGGTGGACCGGTCCGGGCTTGATTTCGTGGCCTTGGAAGATCCAAAGTTGGTTCTTCCACAGAGCACGCAGTGGCATGTGTTTGCAGCTTTTGGTACTTTAAAGGGCGGTCGAGCTGATTGGCTTGTTGAGAAATGCACGGAGCTGGGGGCTAGTAGTGTAACTCCTCTGCTGACAGAACGTTCTCCTACTATCTCGGAAAATAGGCTGGATAGGTTGCAGAGAGTCAATATGGCAGCTGCTAAACAATGTCAACGGCTCCATGAAATGGTATTGAATCCCCCAATGAAAATTGATCGTCTTTTGCCCCTTGTTGCACAGTCCAAGCTATCTTTTTTGGCGGTTGCAGAAGCTACTCCTCTTGTTACTGCATTAACTTCGTCAAGAAGGGAGACCAGTGGGCTGATTGTGGTTGGACCAGAAGGCGACTTCACGGAGAAAGAGGTGTATGAATTGATAAAAGCTGGGTCAATCTCTGTTGGTCTTGGCCCACATCGACTCCGGGTAGAAACTGCTACAGTGGCTCTTCTGGCAACTCTGATGCTATGGTCTGATTCTCAAGAAAAGTGTGGTTCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0001510 GO:0003674 GO:0003824 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008168 GO:0008170 GO:0008173 GO:0008649 GO:0008757 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016436 GO:0016740 GO:0016741 GO:0022613 GO:0031167 GO:0032259 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043412 GO:0043414 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0046483 GO:0070042 GO:0070475 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:0140102 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Methyltrans_RNA

Protein Analysis

285

Amino Acids

31.28

Weight (kDa)

9.11

Isoelectric Point (pI)

45.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PUA_4	PF20260	59 - 103	2.4e-12	RNA methyltransferase PUA domain
Methyltrans_RNA	PF04452	118 - 273	4.7e-37	RNA methyltransferase domain

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: OG0006785)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G50000 AT1G50000 AT1G50000 AT1G50000 AT1G50000
fragaria_vesca	FvH4_2g03440 FvH4_2g03440 FvH4_2g03440 FvH4_2g03440
malus_domestica	MD10G1109100.v1.1
prunus_persica	Prupe.8G149200_v2.0.a1 Prupe.8G149200_v2.0.a1 Prupe.8G149200_v2.0.a1
pyrus_communis	pycom10g09440
rosa_chinensis	RchiOBHm_Chr6g0248601
rosa_laevigata	RLG00000015140
rosa_multiflora	Rmu_sc0002553.1_g000038
rosa_roxburghii	Rroxscaffold_7G00213180
rosa_rugosa	Rorug05G0532400 Rorug05G0532400
rosa_samantha	Rh6AG049300 Rh6BG045100 Rh6CG041300 Rh6DG037600
rosa_wichuraiana	Rw6G004260 Rw6G004360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	547
AccII	CGCG	4 cut(s)	35, 111, 171, 219
AciI	CCGC	4 cut(s)	109, 111, 387, 620
AclI	AACGTT	1 cut(s)	460
AclWI	GGATC	1 cut(s)	314
AcuI	CTGAAG	1 cut(s)	72
AdeI	CACNNNGTG	1 cut(s)	351
AfaI	GTAC	1 cut(s)	376
AfiI	CCNNNNNNNGG	2 cut(s)	228, 547
AgeI	ACCGGT	1 cut(s)	288
AgsI	TTSAA	2 cut(s)	176, 556
AjuI	GAANNNNNNNTTGG	2 cut(s)	242, 274
AloI	GAACNNNNNNTCC	2 cut(s)	150, 182
AluBI	AGCT	8 cut(s)	238, 368, 395, 424, 518, 607, 632, 743
AluI	AGCT	8 cut(s)	238, 368, 395, 424, 518, 607, 632, 743
Alw21I	GWGCWC	1 cut(s)	347
Alw26I	GTCTC	1 cut(s)	665
AlwI	GGATC	1 cut(s)	314
AoxI	GGCC	4 cut(s)	115, 160, 309, 766
ApeKI	GCWGC	3 cut(s)	365, 515, 518
AsiGI	ACCGGT	1 cut(s)	288
AspLEI	GCGC	1 cut(s)	221
AspS9I	GGNCC	4 cut(s)	286, 291, 695, 767
AsuC2I	CCSGG	2 cut(s)	295, 782
AvaII	GGWCC	3 cut(s)	286, 291, 695
BarI	GAAGNNNNNNTAC	2 cut(s)	258, 290
Bbv12I	GWGCWC	1 cut(s)	347
BbvI	GCAGC	3 cut(s)	377, 505, 527
BceAI	ACGGC	1 cut(s)	551
BcgI	CGANNNNNNTGC	2 cut(s)	639, 673
BcnI	CCSGG	2 cut(s)	295, 782
BcoDI	GTCTC	1 cut(s)	665
BfaI	CTAG	3 cut(s)	11, 164, 432
BfmI	CTRYAG	1 cut(s)	795
BisI	GCNGC	3 cut(s)	366, 516, 519
BlsI	GCNGC	3 cut(s)	367, 517, 520
Bme1390I	CCNGG	2 cut(s)	295, 782
Bme18I	GGWCC	3 cut(s)	286, 291, 695
BmgT120I	GGNCC	4 cut(s)	286, 291, 695, 767
BmiI	GGNNCC	2 cut(s)	539, 853
BmrFI	CCNGG	2 cut(s)	295, 782
BmsI	GCATC	1 cut(s)	810
BoxI	GACNNNNGTC	1 cut(s)	203
BpuEI	CTTGAG	2 cut(s)	229, 822
BpuMI	CCSGG	2 cut(s)	295, 782
BsaI	GGTCTC	1 cut(s)	665
BsaJI	CCNNGG	3 cut(s)	109, 153, 312
BsaWI	WCCGGW	1 cut(s)	288
BsaXI	ACNNNNNCTCC	6 cut(s)	150, 180, 246, 276, 762, 792
Bsc4I	CCNNNNNNNGG	2 cut(s)	228, 547
Bse118I	RCCGGY	1 cut(s)	288
Bse1I	ACTGG	2 cut(s)	103, 675
BseDI	CCNNGG	3 cut(s)	109, 153, 312
BseLI	CCNNNNNNNGG	2 cut(s)	228, 547
BseNI	ACTGG	2 cut(s)	103, 675
BseRI	GAGGAG	2 cut(s)	435, 627
BseXI	GCAGC	3 cut(s)	377, 505, 527
BseYI	CCCAGC	2 cut(s)	424, 743
Bsh1236I	CGCG	4 cut(s)	35, 111, 171, 219
Bsh1285I	CGRYCG	1 cut(s)	391
BshFI	GGCC	4 cut(s)	117, 162, 311, 768
BshTI	ACCGGT	1 cut(s)	288
BsiEI	CGRYCG	1 cut(s)	391
BsiHKAI	GWGCWC	1 cut(s)	347
BsiSI	CCGG	3 cut(s)	289, 294, 781
BslFI	GGGAC	1 cut(s)	91
BslI	CCNNNNNNNGG	2 cut(s)	228, 547
BsmAI	GTCTC	1 cut(s)	665
BsmFI	GGGAC	1 cut(s)	91
BsmI	GAATGC	1 cut(s)	59
BsnI	GGCC	4 cut(s)	117, 162, 311, 768
Bso31I	GGTCTC	1 cut(s)	665
Bsp1286I	GDGCHC	1 cut(s)	347
Bsp143I	GATC	2 cut(s)	319, 574
Bsp68I	TCGCGA	1 cut(s)	35
BspACI	CCGC	4 cut(s)	109, 111, 387, 620
BspANI	GGCC	4 cut(s)	117, 162, 311, 768
BspFNI	CGCG	4 cut(s)	35, 111, 171, 219
BspLI	GGNNCC	2 cut(s)	539, 853
BspPI	GGATC	1 cut(s)	314
BspQI	GCTCTTC	1 cut(s)	810
BspTNI	GGTCTC	1 cut(s)	665
BsrFI	RCCGGY	1 cut(s)	288
BsrI	ACTGG	2 cut(s)	103, 675
BssAI	RCCGGY	1 cut(s)	288
BssECI	CCNNGG	3 cut(s)	109, 153, 312
BssMI	GATC	2 cut(s)	319, 574
BssT1I	CCWWGG	2 cut(s)	153, 312
Bst4CI	ACNGT	3 cut(s)	283, 600, 799
Bst6I	CTCTTC	1 cut(s)	810
BstC8I	GCNNGC	1 cut(s)	347
BstDSI	CCRYGG	1 cut(s)	109
BstFNI	CGCG	4 cut(s)	35, 111, 171, 219
BstHHI	GCGC	1 cut(s)	221
BstKTI	GATC	2 cut(s)	322, 577
BstMAI	GTCTC	1 cut(s)	665
BstMBI	GATC	2 cut(s)	319, 574
BstMCI	CGRYCG	1 cut(s)	391
BstMWI	GCNNNNNNNGC	4 cut(s)	123, 168, 800, 809
BstNSI	RCATGY	1 cut(s)	359
BstPAI	GACNNNNGTC	1 cut(s)	203
BstSCI	CCNGG	2 cut(s)	293, 780
BstSFI	CTRYAG	1 cut(s)	795
BstUI	CGCG	4 cut(s)	35, 111, 171, 219
BstV1I	GCAGC	3 cut(s)	377, 505, 527
BstX2I	RGATCY	1 cut(s)	319
BstYI	RGATCY	1 cut(s)	319
BsuRI	GGCC	4 cut(s)	117, 162, 311, 768
BtgI	CCRYGG	1 cut(s)	109
BtsI	GCAGTG	1 cut(s)	356
BtsIMutI	CAGTG	3 cut(s)	356, 682, 804
BtuMI	TCGCGA	1 cut(s)	35
Cac8I	GCNNGC	1 cut(s)	347
CfoI	GCGC	1 cut(s)	221
Cfr10I	RCCGGY	1 cut(s)	288
Cfr13I	GGNCC	4 cut(s)	286, 291, 695, 767
Cfr42I	CCGCGG	1 cut(s)	112
CpoI	CGGWCCG	1 cut(s)	291
Csp6I	GTAC	1 cut(s)	375
CspAI	ACCGGT	1 cut(s)	288
CspI	CGGWCCG	1 cut(s)	291
CviAII	CATG	3 cut(s)	196, 356, 542
CviQI	GTAC	1 cut(s)	375
DpnI	GATC	2 cut(s)	321, 576
DpnII	GATC	2 cut(s)	319, 574
DraI	TTTAAA	1 cut(s)	381
DraIII	CACNNNGTG	1 cut(s)	351
Eam1104I	CTCTTC	1 cut(s)	810
EarI	CTCTTC	1 cut(s)	810
Eco130I	CCWWGG	2 cut(s)	153, 312
Eco147I	AGGCCT	1 cut(s)	162
Eco31I	GGTCTC	1 cut(s)	665
Eco47I	GGWCC	3 cut(s)	286, 291, 695
Eco57I	CTGAAG	1 cut(s)	72
EcoT14I	CCWWGG	2 cut(s)	153, 312
ErhI	CCWWGG	2 cut(s)	153, 312
FaeI	CATG	3 cut(s)	199, 359, 545
FaiI	YATR	6 cut(s)	197, 357, 512, 543, 729, 826
FaqI	GGGAC	1 cut(s)	91
FatI	CATG	3 cut(s)	195, 355, 541
FauI	CCCGC	1 cut(s)	116
Fnu4HI	GCNGC	3 cut(s)	366, 516, 519
Fsp4HI	GCNGC	3 cut(s)	366, 516, 519
FspBI	CTAG	3 cut(s)	11, 164, 432
GlaI	GCGC	1 cut(s)	220
GluI	GCNGC	3 cut(s)	366, 516, 519
GsaI	CCCAGC	2 cut(s)	428, 747
HaeIII	GGCC	4 cut(s)	117, 162, 311, 768
HapII	CCGG	3 cut(s)	289, 294, 781
HhaI	GCGC	1 cut(s)	221
Hin1II	CATG	3 cut(s)	199, 359, 545
Hin6I	GCGC	1 cut(s)	219
HinP1I	GCGC	1 cut(s)	219
HincII	GTYRAC	1 cut(s)	533
HindII	GTYRAC	1 cut(s)	533
HinfI	GANTC	4 cut(s)	504, 556, 777, 833
HpaII	CCGG	3 cut(s)	289, 294, 781
Hpy166II	GTNNAC	2 cut(s)	286, 533
Hpy188I	TCNGA	5 cut(s)	91, 136, 478, 819, 832
Hpy188III	TCNNGA	5 cut(s)	34, 176, 208, 663, 839
Hpy8I	GTNNAC	2 cut(s)	286, 533
HpyAV	CCTTC	4 cut(s)	156, 260, 660, 695
HpyCH4III	ACNGT	3 cut(s)	283, 600, 799
HpyCH4IV	ACGT	1 cut(s)	460
HpyCH4V	TGCA	7 cut(s)	4, 365, 417, 499, 596, 626, 650
HpyF10VI	GCNNNNNNNGC	4 cut(s)	123, 168, 800, 809
HpySE526I	ACGT	1 cut(s)	460
Hsp92II	CATG	3 cut(s)	199, 359, 545
HspAI	GCGC	1 cut(s)	219
KspI	CCGCGG	1 cut(s)	112
Kzo9I	GATC	2 cut(s)	319, 574
LguI	GCTCTTC	1 cut(s)	810
LmnI	GCTCC	2 cut(s)	421, 543
Lsp1109I	GCAGC	3 cut(s)	377, 505, 527
LweI	GCATC	1 cut(s)	810
MaeI	CTAG	3 cut(s)	11, 164, 432
MaeII	ACGT	1 cut(s)	460
MaeIII	GTNAC	2 cut(s)	439, 643
MalI	GATC	2 cut(s)	321, 576
MboI	GATC	2 cut(s)	319, 574
MflI	RGATCY	1 cut(s)	319
MhlI	GDGCHC	1 cut(s)	347
MluCI	AATT	2 cut(s)	570, 731
MlyI	GAGTC	2 cut(s)	513, 771
MmeI	TCCRAC	2 cut(s)	123, 673
MseI	TTAA	3 cut(s)	243, 380, 653
MspA1I	CMGCKG	2 cut(s)	111, 518
MspI	CCGG	3 cut(s)	289, 294, 781
MspR9I	CCNGG	2 cut(s)	295, 782
Mva1269I	GAATGC	1 cut(s)	59
MvnI	CGCG	4 cut(s)	35, 111, 171, 219
MwoI	GCNNNNNNNGC	4 cut(s)	123, 168, 800, 809
NciI	CCSGG	2 cut(s)	295, 782
NdeII	GATC	2 cut(s)	319, 574
NlaIII	CATG	3 cut(s)	199, 359, 545
NlaIV	GGNNCC	2 cut(s)	539, 853
NruI	TCGCGA	1 cut(s)	35
NspI	RCATGY	1 cut(s)	359
PceI	AGGCCT	1 cut(s)	162
PciSI	GCTCTTC	1 cut(s)	810
PctI	GAATGC	1 cut(s)	59
PfeI	GAWTC	2 cut(s)	556, 833
PflMI	CCANNNNNTGG	1 cut(s)	547
PinAI	ACCGGT	1 cut(s)	288
PkrI	GCNGC	3 cut(s)	367, 517, 520
PleI	GAGTC	2 cut(s)	512, 771
PpsI	GAGTC	2 cut(s)	512, 771
PshAI	GACNNNNGTC	1 cut(s)	203
Psp1406I	AACGTT	1 cut(s)	460
PspFI	CCCAGC	2 cut(s)	424, 743
PspN4I	GGNNCC	2 cut(s)	539, 853
PspPI	GGNCC	4 cut(s)	286, 291, 695, 767
PsuI	RGATCY	1 cut(s)	319
PvuII	CAGCTG	1 cut(s)	518
RruI	TCGCGA	1 cut(s)	35
RsaI	GTAC	1 cut(s)	376
RsaNI	GTAC	1 cut(s)	375
Rsr2I	CGGWCCG	1 cut(s)	291
RsrII	CGGWCCG	1 cut(s)	291
SacII	CCGCGG	1 cut(s)	112
SapI	GCTCTTC	1 cut(s)	810
SaqAI	TTAA	3 cut(s)	243, 380, 653
SatI	GCNGC	3 cut(s)	366, 516, 519
Sau3AI	GATC	2 cut(s)	319, 574
Sau96I	GGNCC	4 cut(s)	286, 291, 695, 767
SchI	GAGTC	2 cut(s)	513, 771
ScrFI	CCNGG	2 cut(s)	295, 782
SduI	GDGCHC	1 cut(s)	347
SfaNI	GCATC	1 cut(s)	810
SfcI	CTRYAG	1 cut(s)	795
Sfr303I	CCGCGG	1 cut(s)	112
SgrBI	CCGCGG	1 cut(s)	112
SinI	GGWCC	3 cut(s)	286, 291, 695
SmlI	CTYRAG	2 cut(s)	208, 837
SmoI	CTYRAG	2 cut(s)	208, 837
Sse9I	AATT	2 cut(s)	570, 731
SseBI	AGGCCT	1 cut(s)	162
SsiI	CCGC	4 cut(s)	109, 111, 387, 620
SspMI	CTAG	3 cut(s)	11, 164, 432
StuI	AGGCCT	1 cut(s)	162
StyD4I	CCNGG	2 cut(s)	293, 780
StyI	CCWWGG	2 cut(s)	153, 312
TaaI	ACNGT	3 cut(s)	283, 600, 799
TaiI	ACGT	1 cut(s)	463
TaqI	TCGA	3 cut(s)	55, 391, 775
TasI	AATT	2 cut(s)	570, 731
TfiI	GAWTC	2 cut(s)	556, 833
Tru1I	TTAA	3 cut(s)	243, 380, 653
Tru9I	TTAA	3 cut(s)	243, 380, 653
TscAI	CASTG	3 cut(s)	356, 682, 804
TseI	GCWGC	3 cut(s)	365, 515, 518
TspDTI	ATGAA	3 cut(s)	558, 581, 744
TspGWI	ACGGA	2 cut(s)	434, 728
TspRI	CASTG	3 cut(s)	356, 682, 804
Van91I	CCANNNNNTGG	1 cut(s)	547
VpaK11BI	GGWCC	3 cut(s)	286, 291, 695
XceI	RCATGY	1 cut(s)	359
XcmI	CCANNNNNNNNNTGG	1 cut(s)	110
XspI	CTAG	3 cut(s)	11, 164, 432

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