Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0006802

Physical Location & Seq

Genomic Coordinates Forward (+)

58758980 .. 58775162

Gene Structure 16183 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG417600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGTTTGTTGATAATGGGCTGGCAGCTGGAACCATTTCTTTATGGACATCACAGTCATGGACGACAATTCGGAGAAGAAGAAAAAGGACGAAGAAAAGAAAATTGCCATTTCAAGAGAAACATGTTAAGCAGCAGGCGTTGATTCTTGGAAACATGGAAGATTTTGGGGTAATAAAGAGTTTCATAGCAAAGGAGAGGGCTGACTGTGACGATGGCAATGGGTTCCCTGTGAGCGATGACTGTGATTATAGCAATGGTGTCCCAGCAGTGGTTGATTTTGGAGTGGGGAGAGGATACTTGACACAAATGCTGGCGGATTGTTATGGCATTAAAAGGGTCTTTTTGATTGAAAGGAAGTCATACAAGCTGAAGGCTGATCGATCCTTGCGACAGAAAGAGAGCTCGATATTGCAGCGTTTGAGAATTGACAGTAAGACACTCCACTTGTCACCCTGTTCAAGATTATATTCCAGTTGCGAGGAATAG

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:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0008033 GO:0008150 GO:0008152 GO:0008168 GO:0008173 GO:0008175 GO:0009451 GO:0009628 GO:0009651 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016741 GO:0030488 GO:0032259 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0050896 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TRM13 zf-TRM13_CCCH zf-U11-48K

Protein Analysis

161

Amino Acids

18.4

Weight (kDa)

9.56

Isoelectric Point (pI)

55.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TRM13	PF05206	44 - 154	1.4e-13	Methyltransferase TRM13

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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Publication-ready

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Orthologous Genes (Group: OG0006802)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01880 AT4G01880 AT4G01880
fragaria_vesca	FvH4_1g26500
malus_domestica	MD09G1293200.v1.1 MD17G1281000.v1.1
prunus_persica	Prupe.3G004500_v2.0.a1
pyrus_communis	pycom09g19590 pycom17g27870
rosa_chinensis	RchiOBHm_Chr3g0486571 RchiOBHm_Chr7g0232271
rosa_laevigata	RLG00000001358 RLG00000023076
rosa_multiflora	Rmu_co8193526.1_g000001 Rmu_sc0023880.1_g000001
rosa_roxburghii	Rroxscaffold_6G00395790
rosa_rugosa	Rorug03G0225200 Rorug07G0272400
rosa_samantha	Rh3AG275300 Rh3BG310300 Rh3CG309600 Rh3DG306300 Rh7CG446100 Rh7DG417400 Rh7DG417600
rosa_wichuraiana	Rw3G024530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	52
AciI	CCGC	1 cut(s)	314
AclWI	GGATC	1 cut(s)	375
AcuI	CTGAAG	1 cut(s)	389
AfiI	CCNNNNNNNGG	1 cut(s)	268
AflIII	ACRYGT	1 cut(s)	121
AgsI	TTSAA	3 cut(s)	113, 350, 459
AluBI	AGCT	3 cut(s)	26, 367, 402
AluI	AGCT	3 cut(s)	26, 367, 402
Alw21I	GWGCWC	1 cut(s)	404
AlwI	GGATC	1 cut(s)	375
ApeKI	GCWGC	3 cut(s)	23, 130, 412
Asp700I	GAANNNNTTC	1 cut(s)	34
AsuHPI	GGTGA	1 cut(s)	441
BanII	GRGCYC	1 cut(s)	404
Bbv12I	GWGCWC	1 cut(s)	404
BbvI	GCAGC	3 cut(s)	35, 142, 424
BccI	CCATC	1 cut(s)	206
BciVI	GTATCC	1 cut(s)	287
BfuI	GTATCC	1 cut(s)	287
BisI	GCNGC	3 cut(s)	24, 131, 413
BlsI	GCNGC	3 cut(s)	25, 132, 414
BmiI	GGNNCC	2 cut(s)	31, 224
Bsa29I	ATCGAT	1 cut(s)	379
Bsc4I	CCNNNNNNNGG	1 cut(s)	268
Bse1I	ACTGG	1 cut(s)	471
Bse3DI	GCAATG	2 cut(s)	223, 259
BseCI	ATCGAT	1 cut(s)	379
BseLI	CCNNNNNNNGG	1 cut(s)	268
BseMI	GCAATG	2 cut(s)	223, 259
BseNI	ACTGG	1 cut(s)	471
BseXI	GCAGC	3 cut(s)	35, 142, 424
BseYI	CCCAGC	1 cut(s)	262
BshVI	ATCGAT	1 cut(s)	379
BsiHKAI	GWGCWC	1 cut(s)	404
BslFI	GGGAC	1 cut(s)	245
BslI	CCNNNNNNNGG	1 cut(s)	268
BsmFI	GGGAC	1 cut(s)	245
Bsp1286I	GDGCHC	1 cut(s)	404
Bsp143I	GATC	2 cut(s)	376, 380
BspACI	CCGC	1 cut(s)	314
BspDI	ATCGAT	1 cut(s)	379
BspLI	GGNNCC	2 cut(s)	31, 224
BspPI	GGATC	1 cut(s)	375
BsrDI	GCAATG	2 cut(s)	223, 259
BsrI	ACTGG	1 cut(s)	471
BssMI	GATC	2 cut(s)	376, 380
Bst4CI	ACNGT	4 cut(s)	54, 206, 242, 431
BstC8I	GCNNGC	3 cut(s)	21, 135, 312
BstKTI	GATC	2 cut(s)	379, 383
BstMBI	GATC	2 cut(s)	376, 380
BstNSI	RCATGY	1 cut(s)	125
BstV1I	GCAGC	3 cut(s)	35, 142, 424
Bsu15I	ATCGAT	1 cut(s)	379
BsuI	GTATCC	1 cut(s)	287
BsuTUI	ATCGAT	1 cut(s)	379
BtgZI	GCGATG	1 cut(s)	249
BtsI	GCAGTG	1 cut(s)	273
BtsIMutI	CAGTG	1 cut(s)	273
Cac8I	GCNNGC	3 cut(s)	21, 135, 312
ClaI	ATCGAT	1 cut(s)	379
CviAII	CATG	3 cut(s)	57, 122, 154
CviJI	RGCY	6 cut(s)	19, 26, 200, 367, 374, 402
CviKI_1	RGCY	6 cut(s)	19, 26, 200, 367, 374, 402
DpnI	GATC	2 cut(s)	378, 382
DpnII	GATC	2 cut(s)	376, 380
DrdI	GACNNNNNNGTC	1 cut(s)	52
DseDI	GACNNNNNNGTC	1 cut(s)	52
EciI	GGCGGA	1 cut(s)	329
Ecl136II	GAGCTC	1 cut(s)	402
Eco24I	GRGCYC	1 cut(s)	404
Eco53kI	GAGCTC	1 cut(s)	402
Eco57I	CTGAAG	1 cut(s)	389
EcoICRI	GAGCTC	1 cut(s)	402
EcoT38I	GRGCYC	1 cut(s)	404
FaeI	CATG	3 cut(s)	60, 125, 157
FaiI	YATR	9 cut(s)	43, 58, 123, 155, 185, 249, 324, 361, 466
FaqI	GGGAC	1 cut(s)	245
FatI	CATG	3 cut(s)	56, 121, 153
Fnu4HI	GCNGC	3 cut(s)	24, 131, 413
FriOI	GRGCYC	1 cut(s)	404
Fsp4HI	GCNGC	3 cut(s)	24, 131, 413
GluI	GCNGC	3 cut(s)	24, 131, 413
GsaI	CCCAGC	1 cut(s)	266
Hin1II	CATG	3 cut(s)	60, 125, 157
HinfI	GANTC	1 cut(s)	142
HphI	GGTGA	1 cut(s)	441
Hpy188I	TCNGA	1 cut(s)	72
Hpy188III	TCNNGA	2 cut(s)	113, 459
HpyAV	CCTTC	1 cut(s)	364
HpyCH4III	ACNGT	4 cut(s)	54, 206, 242, 431
HpyCH4V	TGCA	1 cut(s)	412
Hsp92II	CATG	3 cut(s)	60, 125, 157
Kzo9I	GATC	2 cut(s)	376, 380
LpnPI	CCDG	7 cut(s)	5, 12, 119, 240, 276, 296, 466
Lsp1109I	GCAGC	3 cut(s)	35, 142, 424
MaeIII	GTNAC	2 cut(s)	206, 447
MalI	GATC	2 cut(s)	378, 382
MboI	GATC	2 cut(s)	376, 380
MboII	GAAGA	4 cut(s)	87, 90, 103, 170
MhlI	GDGCHC	1 cut(s)	404
MluCI	AATT	3 cut(s)	66, 101, 423
MnlI	CCTC	3 cut(s)	189, 284, 472
MroXI	GAANNNNTTC	1 cut(s)	34
MseI	TTAA	2 cut(s)	126, 330
MslI	CAYNNNNRTG	1 cut(s)	55
MspA1I	CMGCKG	1 cut(s)	26
NdeII	GATC	2 cut(s)	376, 380
NlaIII	CATG	3 cut(s)	60, 125, 157
NlaIV	GGNNCC	2 cut(s)	31, 224
NmuCI	GTSAC	2 cut(s)	206, 447
NspI	RCATGY	1 cut(s)	125
PciI	ACATGT	1 cut(s)	121
PcsI	WCGNNNNNNNCGW	1 cut(s)	385
PdmI	GAANNNNTTC	1 cut(s)	34
PfeI	GAWTC	1 cut(s)	142
PkrI	GCNGC	3 cut(s)	25, 132, 414
PscI	ACATGT	1 cut(s)	121
Psp124BI	GAGCTC	1 cut(s)	404
PspFI	CCCAGC	1 cut(s)	262
PspN4I	GGNNCC	2 cut(s)	31, 224
PvuII	CAGCTG	1 cut(s)	26
RseI	CAYNNNNRTG	1 cut(s)	55
SacI	GAGCTC	1 cut(s)	404
SaqAI	TTAA	2 cut(s)	126, 330
SatI	GCNGC	3 cut(s)	24, 131, 413
Sau3AI	GATC	2 cut(s)	376, 380
SduI	GDGCHC	1 cut(s)	404
SetI	ASST	3 cut(s)	28, 369, 404
SmiMI	CAYNNNNRTG	1 cut(s)	55
Sse9I	AATT	3 cut(s)	66, 101, 423
SsiI	CCGC	1 cut(s)	314
SstI	GAGCTC	1 cut(s)	404
TaaI	ACNGT	4 cut(s)	54, 206, 242, 431
TaqI	TCGA	2 cut(s)	379, 404
TasI	AATT	3 cut(s)	66, 101, 423
TfiI	GAWTC	1 cut(s)	142
Tru1I	TTAA	2 cut(s)	126, 330
Tru9I	TTAA	2 cut(s)	126, 330
TscAI	CASTG	1 cut(s)	273
TseFI	GTSAC	2 cut(s)	206, 447
TseI	GCWGC	3 cut(s)	23, 130, 412
Tsp45I	GTSAC	2 cut(s)	206, 447
TspDTI	ATGAA	1 cut(s)	172
TspRI	CASTG	1 cut(s)	273
XceI	RCATGY	1 cut(s)	125
XmnI	GAANNNNTTC	1 cut(s)	34

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