Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0015752

Physical Location & Seq

Genomic Coordinates Forward (+)

59373152 .. 59374887

Gene Structure 1736 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG406500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 534 bp

ATGGTACATGCTGATGGCTCTCTTTTTAAAACTTGGGATTACTTGAAACAAAATGGGCTGCAAAGTTTATTGACATATGGCCAAGACCTACAGCCATTGCCTGGAAAATCATCGCATGTTATGGCAAATTTTGAGGCTGCACTTCAGCTGCCTTTACCTGGAAAAAAGGTTGAAGGACCAATATCTCCGGCTGGGTATCAGCCTGTCTACAAGGGTGAAAGCATTAGTGATTGTTGTGCTACTCCTAGAGAAAAGACTCTTTACATGGCGTCACTTTTGAGTGGCCAAGGTATGGTATATGCAATTGACATAAATGAAGGGTGGTTGAGAATCCTCAAAGAAATGGCTAAGTTGCACCAAGTAGATGGTGTCATCACCACTATCCATGTTGATATGCGTAGTTATACTGACAATAATACTATGAAGTGTGATAAAGTTCTGTTGGATGCTCCATGTTCTGGACTGGGTGTTCTCTCCAAGAGGGCAGACTTGCGTTGGAACAGGAGATTAGAGGATATGGAGGAGCTCAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0001510 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008168 GO:0008169 GO:0008173 GO:0008649 GO:0008757 GO:0009383 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016434 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:0044424 GO:0044444 GO:0044464 GO:0046483 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

Methyltr_RsmB-F NusB

Protein Analysis

177

Amino Acids

19.72

Weight (kDa)

6.07

Isoelectric Point (pI)

45.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Methyltr_RsmB-F	PF01189	71 - 176	5.7e-22	16S rRNA methyltransferase RsmB/F

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

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Publication-ready

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Orthologous Genes (Group: OG0015752)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr4g0406341 RchiOBHm_Chr4g0425531
rosa_multiflora	Rmu_sc0017981.1_g000001 Rmu_ssc0000322.1_g000013
rosa_rugosa	Rorug02G0128500 Rorug07G0243300
rosa_samantha	Rh1AG053700 Rh2AG312200 Rh2AG473800 Rh2CG459700 Rh5AG394200 Rh5BG282700 Rh6BG030400 Rh6CG030800 Rh6DG029700 Rh6DG406500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	3 cut(s)	101, 292, 458
AccI	GTMKAC	1 cut(s)	207
AcoI	YGGCCR	2 cut(s)	79, 283
AcsI	RAATTY	1 cut(s)	127
AcuI	CTGAAG	1 cut(s)	128
AcyI	GRCGYC	1 cut(s)	269
AfaI	GTAC	1 cut(s)	6
AfiI	CCNNNNNNNGG	4 cut(s)	101, 158, 292, 458
AgsI	TTSAA	2 cut(s)	46, 173
AjnI	CCWGG	2 cut(s)	100, 157
AloI	GAACNNNNNNTCC	2 cut(s)	453, 485
AluBI	AGCT	2 cut(s)	148, 526
AluI	AGCT	2 cut(s)	148, 526
Alw21I	GWGCWC	1 cut(s)	528
AoxI	GGCC	2 cut(s)	79, 283
ApeKI	GCWGC	3 cut(s)	58, 137, 148
ApoI	RAATTY	1 cut(s)	127
AspS9I	GGNCC	1 cut(s)	176
AsuHPI	GGTGA	2 cut(s)	227, 367
AvaII	GGWCC	1 cut(s)	176
BalI	TGGCCA	2 cut(s)	81, 285
BanII	GRGCYC	1 cut(s)	528
Bbv12I	GWGCWC	1 cut(s)	528
BbvI	GCAGC	3 cut(s)	45, 124, 135
BccI	CCATC	2 cut(s)	8, 359
BciT130I	CCWGG	2 cut(s)	102, 159
BfaI	CTAG	1 cut(s)	246
BfmI	CTRYAG	1 cut(s)	89
BisI	GCNGC	3 cut(s)	59, 138, 149
BlsI	GCNGC	3 cut(s)	60, 139, 150
Bme1390I	CCNGG	2 cut(s)	102, 159
Bme18I	GGWCC	1 cut(s)	176
BmgT120I	GGNCC	1 cut(s)	176
BmrFI	CCNGG	2 cut(s)	102, 159
BmrI	ACTGGG	1 cut(s)	473
BmsI	GCATC	1 cut(s)	436
BmuI	ACTGGG	1 cut(s)	473
BsaHI	GRCGYC	1 cut(s)	269
BsaJI	CCNNGG	1 cut(s)	286
Bsc4I	CCNNNNNNNGG	4 cut(s)	101, 158, 292, 458
Bse1I	ACTGG	1 cut(s)	468
Bse3DI	GCAATG	1 cut(s)	95
BseBI	CCWGG	2 cut(s)	102, 159
BseDI	CCNNGG	1 cut(s)	286
BseGI	GGATG	1 cut(s)	451
BseLI	CCNNNNNNNGG	4 cut(s)	101, 158, 292, 458
BseMI	GCAATG	1 cut(s)	95
BseNI	ACTGG	1 cut(s)	468
BseXI	GCAGC	3 cut(s)	45, 124, 135
BseYI	CCCAGC	1 cut(s)	191
BsgI	GTGCAG	1 cut(s)	123
BshFI	GGCC	2 cut(s)	81, 285
BsiHKAI	GWGCWC	1 cut(s)	528
BsiSI	CCGG	1 cut(s)	188
BslI	CCNNNNNNNGG	4 cut(s)	101, 158, 292, 458
BsnI	GGCC	2 cut(s)	81, 285
Bsp1286I	GDGCHC	1 cut(s)	528
BspANI	GGCC	2 cut(s)	81, 285
BsrDI	GCAATG	1 cut(s)	95
BsrI	ACTGG	1 cut(s)	468
BssECI	CCNNGG	1 cut(s)	286
BssNI	GRCGYC	1 cut(s)	269
BssT1I	CCWWGG	1 cut(s)	286
Bst2UI	CCWGG	2 cut(s)	102, 159
BstACI	GRCGYC	1 cut(s)	269
BstDEI	CTNAG	1 cut(s)	348
BstF5I	GGATG	1 cut(s)	451
BstNI	CCWGG	2 cut(s)	102, 159
BstNSI	RCATGY	2 cut(s)	11, 119
BstSCI	CCNGG	2 cut(s)	100, 157
BstSFI	CTRYAG	1 cut(s)	89
BstV1I	GCAGC	3 cut(s)	45, 124, 135
BstXI	CCANNNNNNTGG	1 cut(s)	365
BsuRI	GGCC	2 cut(s)	81, 285
BtgZI	GCGATG	1 cut(s)	96
BtsCI	GGATG	1 cut(s)	451
Cfr13I	GGNCC	1 cut(s)	176
CseI	GACGC	1 cut(s)	258
Csp6I	GTAC	1 cut(s)	5
CviAII	CATG	5 cut(s)	8, 116, 265, 386, 453
CviQI	GTAC	1 cut(s)	5
DdeI	CTNAG	1 cut(s)	348
DraI	TTTAAA	1 cut(s)	28
EaeI	YGGCCR	2 cut(s)	79, 283
Ecl136II	GAGCTC	1 cut(s)	526
Eco130I	CCWWGG	1 cut(s)	286
Eco24I	GRGCYC	1 cut(s)	528
Eco47I	GGWCC	1 cut(s)	176
Eco53kI	GAGCTC	1 cut(s)	526
Eco57I	CTGAAG	1 cut(s)	128
EcoICRI	GAGCTC	1 cut(s)	526
EcoRII	CCWGG	2 cut(s)	100, 157
EcoT14I	CCWWGG	1 cut(s)	286
EcoT38I	GRGCYC	1 cut(s)	528
ErhI	CCWWGG	1 cut(s)	286
FaeI	CATG	5 cut(s)	11, 119, 268, 389, 456
FatI	CATG	5 cut(s)	7, 115, 264, 385, 452
FauNDI	CATATG	1 cut(s)	76
FblI	GTMKAC	1 cut(s)	207
Fnu4HI	GCNGC	3 cut(s)	59, 138, 149
FokI	GGATG	1 cut(s)	458
FriOI	GRGCYC	1 cut(s)	528
Fsp4HI	GCNGC	3 cut(s)	59, 138, 149
FspBI	CTAG	1 cut(s)	246
GluI	GCNGC	3 cut(s)	59, 138, 149
GsaI	CCCAGC	1 cut(s)	195
HaeIII	GGCC	2 cut(s)	81, 285
HapII	CCGG	1 cut(s)	188
HgaI	GACGC	1 cut(s)	258
Hin1I	GRCGYC	1 cut(s)	269
Hin1II	CATG	5 cut(s)	11, 119, 268, 389, 456
HinfI	GANTC	2 cut(s)	256, 330
HpaII	CCGG	1 cut(s)	188
HphI	GGTGA	2 cut(s)	227, 367
Hpy166II	GTNNAC	1 cut(s)	208
Hpy188III	TCNNGA	1 cut(s)	459
Hpy8I	GTNNAC	1 cut(s)	208
HpyAV	CCTTC	2 cut(s)	167, 311
HpyCH4V	TGCA	4 cut(s)	61, 140, 302, 355
HpyF3I	CTNAG	1 cut(s)	348
Hsp92I	GRCGYC	1 cut(s)	269
Hsp92II	CATG	5 cut(s)	11, 119, 268, 389, 456
LmnI	GCTCC	2 cut(s)	454, 523
Lsp1109I	GCAGC	3 cut(s)	45, 124, 135
LweI	GCATC	1 cut(s)	436
MaeI	CTAG	1 cut(s)	246
MaeIII	GTNAC	1 cut(s)	270
MfeI	CAATTG	1 cut(s)	303
MhlI	GDGCHC	1 cut(s)	528
MlsI	TGGCCA	2 cut(s)	81, 285
MluCI	AATT	3 cut(s)	127, 303, 529
MluNI	TGGCCA	2 cut(s)	81, 285
MlyI	GAGTC	1 cut(s)	250
MmeI	TCCRAC	2 cut(s)	423, 476
MnlI	CCTC	5 cut(s)	127, 344, 474, 505, 514
Mox20I	TGGCCA	2 cut(s)	81, 285
MscI	TGGCCA	2 cut(s)	81, 285
MseI	TTAA	2 cut(s)	27, 532
MslI	CAYNNNNRTG	1 cut(s)	12
Msp20I	TGGCCA	2 cut(s)	81, 285
MspA1I	CMGCKG	1 cut(s)	148
MspI	CCGG	1 cut(s)	188
MspR9I	CCNGG	2 cut(s)	102, 159
MunI	CAATTG	1 cut(s)	303
MvaI	CCWGG	2 cut(s)	102, 159
NdeI	CATATG	1 cut(s)	76
NlaIII	CATG	5 cut(s)	11, 119, 268, 389, 456
NmuCI	GTSAC	1 cut(s)	270
NspI	RCATGY	2 cut(s)	11, 119
PfeI	GAWTC	1 cut(s)	330
PflMI	CCANNNNNTGG	3 cut(s)	101, 292, 458
PkrI	GCNGC	3 cut(s)	60, 139, 150
PleI	GAGTC	1 cut(s)	250
PpsI	GAGTC	1 cut(s)	250
Psp124BI	GAGCTC	1 cut(s)	528
Psp6I	CCWGG	2 cut(s)	100, 157
PspFI	CCCAGC	1 cut(s)	191
PspGI	CCWGG	2 cut(s)	100, 157
PspPI	GGNCC	1 cut(s)	176
PvuII	CAGCTG	1 cut(s)	148
RsaI	GTAC	1 cut(s)	6
RsaNI	GTAC	1 cut(s)	5
RseI	CAYNNNNRTG	1 cut(s)	12
SacI	GAGCTC	1 cut(s)	528
SaqAI	TTAA	2 cut(s)	27, 532
SatI	GCNGC	3 cut(s)	59, 138, 149
Sau96I	GGNCC	1 cut(s)	176
SchI	GAGTC	1 cut(s)	250
ScrFI	CCNGG	2 cut(s)	102, 159
SduI	GDGCHC	1 cut(s)	528
SetI	ASST	6 cut(s)	90, 150, 160, 171, 292, 528
SfaNI	GCATC	1 cut(s)	436
SfcI	CTRYAG	1 cut(s)	89
SinI	GGWCC	1 cut(s)	176
SmiMI	CAYNNNNRTG	1 cut(s)	12
Sse9I	AATT	3 cut(s)	127, 303, 529
SspMI	CTAG	1 cut(s)	246
SstI	GAGCTC	1 cut(s)	528
StyD4I	CCNGG	2 cut(s)	100, 157
StyI	CCWWGG	1 cut(s)	286
TasI	AATT	3 cut(s)	127, 303, 529
TfiI	GAWTC	1 cut(s)	330
Tru1I	TTAA	2 cut(s)	27, 532
Tru9I	TTAA	2 cut(s)	27, 532
TseFI	GTSAC	1 cut(s)	270
TseI	GCWGC	3 cut(s)	58, 137, 148
Tsp45I	GTSAC	1 cut(s)	270
TspDTI	ATGAA	2 cut(s)	330, 437
Van91I	CCANNNNNTGG	3 cut(s)	101, 292, 458
VpaK11BI	GGWCC	1 cut(s)	176
XapI	RAATTY	1 cut(s)	127
XceI	RCATGY	2 cut(s)	11, 119
XmiI	GTMKAC	1 cut(s)	207
XspI	CTAG	1 cut(s)	246

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