Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0002921

Physical Location & Seq

Genomic Coordinates Forward (+)

40653089 .. 40659877

Gene Structure 6789 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG241400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGGAAGCATTTGTCTTGATATCCTCAAAGAGCAATGGAGTTCAGTCCTTACTATCTCTAAGAGGAGGAGGTTGGGAGGTGAATGATGAGGGAGAGAAATCAAGAGGTTGCGGCAGAGGAAGGGGCCGTCGTGGTGGAAGCGGTGGCTTTGGCAAAGATAGAGTTGATGCACTCGGTATATTATTGACACATATATTATGCCATATGGCTTCTGAGTTGAATTTGGATATGCGAAGTGATGGATTTGTGAAGGTTCATGATCTTTTAGAGCTAAACTTTAAGACATTTGCTAATATTCCATTGAGCTCATATACTGTTGATGTGATTAAGGAGGCTGTCAGAAGGGATAATAAGAGCGTTTCAGCCTCTTGGAAGAAAATGGGGAACTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000215 GO:0000394 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016773 GO:0019538 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0051604 GO:0071704 GO:0090304 GO:0097428 GO:0106035 GO:0140098 GO:0140101 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

PTS_2-RNA

Protein Analysis

130

Amino Acids

14.2

Weight (kDa)

9.3

Isoelectric Point (pI)

39.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PTS_2-RNA	PF01885	59 - 119	1.2e-07	RNA 2'-phosphotransferase, Tpt1 / KptA family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0002921)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G45330 AT2G45330 AT5G23600
fragaria_vesca	FvH4_7g11590 FvH4_7g11590 FvH4_7g11590
malus_domestica	MD07G1120400.v1.1
prunus_persica	Prupe.2G143900_v2.0.a1 Prupe.2G143900_v2.0.a1 Prupe.2G143900_v2.0.a1
pyrus_communis	pycom02g16790 pycom02g16820
rosa_chinensis	RchiOBHm_Chr1g0350011 RchiOBHm_Chr7g0199321
rosa_laevigata	RLG00000003800 RLG00000013131 RLG00000028505
rosa_multiflora	Rmu_sc0000855.1_g000007 Rmu_sc0000855.1_g000008 Rmu_sc0003674.1_g000015 Rmu_sc0005220.1_g000003
rosa_roxburghii	Rroxscaffold_3G00256780 Rroxscaffold_3G00256830 Rroxscaffold_4G00305120 Rroxscaffold_4G00305200
rosa_rugosa	Rorug01G0208000
rosa_samantha	Rh1AG224300 Rh1BG191600 Rh1CG209000 Rh1DG220100 Rh6CG241400 Rh7BG181500 Rh7BG181800 Rh7CG187100 Rh7DG181100
rosa_wichuraiana	Rw1G019160 Rw1G019280 Rw7G015660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	111, 141
AcsI	RAATTY	1 cut(s)	220
AgsI	TTSAA	1 cut(s)	220
AluBI	AGCT	2 cut(s)	271, 306
AluI	AGCT	2 cut(s)	271, 306
Alw21I	GWGCWC	1 cut(s)	308
AoxI	GGCC	1 cut(s)	124
ApoI	RAATTY	1 cut(s)	220
AspS9I	GGNCC	1 cut(s)	124
AsuHPI	GGTGA	1 cut(s)	91
BanII	GRGCYC	1 cut(s)	308
Bbv12I	GWGCWC	1 cut(s)	308
BccI	CCATC	1 cut(s)	233
BceAI	ACGGC	1 cut(s)	111
BisI	GCNGC	1 cut(s)	112
BlsI	GCNGC	1 cut(s)	113
BmgT120I	GGNCC	1 cut(s)	124
BmiI	GGNNCC	1 cut(s)	125
BmsI	GCATC	1 cut(s)	157
Bse3DI	GCAATG	1 cut(s)	40
BseMI	GCAATG	1 cut(s)	40
BseMII	CTCAG	1 cut(s)	204
BseRI	GAGGAG	2 cut(s)	78, 81
BshFI	GGCC	1 cut(s)	126
BsiHKAI	GWGCWC	1 cut(s)	308
BsnI	GGCC	1 cut(s)	126
Bsp1286I	GDGCHC	1 cut(s)	308
Bsp143I	GATC	1 cut(s)	259
BspACI	CCGC	2 cut(s)	111, 141
BspANI	GGCC	1 cut(s)	126
BspCNI	CTCAG	1 cut(s)	205
BspHI	TCATGA	1 cut(s)	256
BspLI	GGNNCC	1 cut(s)	125
BsrDI	GCAATG	1 cut(s)	40
BssMI	GATC	1 cut(s)	259
Bst4CI	ACNGT	1 cut(s)	316
BstDEI	CTNAG	2 cut(s)	59, 213
BstKTI	GATC	1 cut(s)	262
BstMBI	GATC	1 cut(s)	259
BsuRI	GGCC	1 cut(s)	126
CciI	TCATGA	1 cut(s)	256
Cfr13I	GGNCC	1 cut(s)	124
CviAII	CATG	1 cut(s)	257
CviJI	RGCY	7 cut(s)	126, 147, 209, 271, 306, 335, 365
CviKI_1	RGCY	7 cut(s)	126, 147, 209, 271, 306, 335, 365
DdeI	CTNAG	2 cut(s)	59, 213
DpnI	GATC	1 cut(s)	261
DpnII	GATC	1 cut(s)	259
Ecl136II	GAGCTC	1 cut(s)	306
Eco24I	GRGCYC	1 cut(s)	308
Eco32I	GATATC	1 cut(s)	21
Eco53kI	GAGCTC	1 cut(s)	306
EcoICRI	GAGCTC	1 cut(s)	306
EcoRV	GATATC	1 cut(s)	21
EcoT38I	GRGCYC	1 cut(s)	308
FaeI	CATG	1 cut(s)	260
FatI	CATG	1 cut(s)	256
FauNDI	CATATG	1 cut(s)	204
Fnu4HI	GCNGC	1 cut(s)	112
FriOI	GRGCYC	1 cut(s)	308
Fsp4HI	GCNGC	1 cut(s)	112
GluI	GCNGC	1 cut(s)	112
HaeIII	GGCC	1 cut(s)	126
Hin1II	CATG	1 cut(s)	260
HphI	GGTGA	1 cut(s)	91
Hpy188I	TCNGA	2 cut(s)	214, 341
Hpy188III	TCNNGA	3 cut(s)	16, 102, 257
Hpy99I	CGWCG	1 cut(s)	132
HpyAV	CCTTC	3 cut(s)	114, 244, 336
HpyCH4III	ACNGT	1 cut(s)	316
HpyCH4V	TGCA	1 cut(s)	170
HpyF3I	CTNAG	2 cut(s)	59, 213
Hsp92II	CATG	1 cut(s)	260
Kzo9I	GATC	1 cut(s)	259
LweI	GCATC	1 cut(s)	157
MalI	GATC	1 cut(s)	261
MboI	GATC	1 cut(s)	259
MboII	GAAGA	1 cut(s)	385
MhlI	GDGCHC	1 cut(s)	308
MluCI	AATT	1 cut(s)	220
MseI	TTAA	2 cut(s)	279, 327
NdeI	CATATG	1 cut(s)	204
NdeII	GATC	1 cut(s)	259
NlaIII	CATG	1 cut(s)	260
NlaIV	GGNNCC	1 cut(s)	125
PagI	TCATGA	1 cut(s)	256
PkrI	GCNGC	1 cut(s)	113
Psp124BI	GAGCTC	1 cut(s)	308
PspN4I	GGNNCC	1 cut(s)	125
PspPI	GGNCC	1 cut(s)	124
SacI	GAGCTC	1 cut(s)	308
SaqAI	TTAA	2 cut(s)	279, 327
SatI	GCNGC	1 cut(s)	112
Sau3AI	GATC	1 cut(s)	259
Sau96I	GGNCC	1 cut(s)	124
SduI	GDGCHC	1 cut(s)	308
SetI	ASST	6 cut(s)	73, 81, 109, 255, 273, 308
SfaNI	GCATC	1 cut(s)	157
SgeI	CNNG	6 cut(s)	28, 114, 143, 185, 269, 381
Sse9I	AATT	1 cut(s)	220
SsiI	CCGC	2 cut(s)	111, 141
SspI	AATATT	1 cut(s)	295
SstI	GAGCTC	1 cut(s)	308
TaaI	ACNGT	1 cut(s)	316
TasI	AATT	1 cut(s)	220
TauI	GCSGC	1 cut(s)	114
Tru1I	TTAA	2 cut(s)	279, 327
Tru9I	TTAA	2 cut(s)	279, 327
TspDTI	ATGAA	1 cut(s)	245
XapI	RAATTY	1 cut(s)	220

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