Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0001795

Physical Location & Seq

Genomic Coordinates Reverse (-)

62612564 .. 62613651

Gene Structure 1088 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG398800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 306 bp

ATGGCAGCTCCGGCGGCCCATTTATCCATGACGCGCCTCCTCCACGAGTGCATAGCCTACCAACGCGCCCTGGATCTCAACCTAGACCACCTCCTCTCCCAGCGATCCGACCTCGACAAGCACATCTCCAATCTCCAGAAATCCTCCCAGGTCCTCGACATCGTCAAGTCCGACGCCGACCACTTCCTCTCCAACGTCTCCTCCACCTGCGACCTCGCCGACCACGTCATCAGCGCCAAGGTCCGCGAGCTCGACCTCGCCCAGTCGCGCGAGTACAAAATGAAAATCTTAAATGAACTACAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000301 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0006139 GO:0006725 GO:0006807 GO:0006810 GO:0006890 GO:0006891 GO:0006996 GO:0007030 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010256 GO:0012505 GO:0016043 GO:0016070 GO:0016192 GO:0016787 GO:0016788 GO:0017119 GO:0022607 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048193 GO:0048213 GO:0051179 GO:0051234 GO:0065003 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0099023 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

COG4 PPR PPR_2 RINT1_TIP1

Protein Analysis

101

Amino Acids

11.4

Weight (kDa)

6.01

Isoelectric Point (pI)

47.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
COG4_N	PF20663	42 - 90	8.9e-09	Conserved oligomeric Golgi complex subunit 4, N-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001795)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01395
fragaria_vesca	FvH4_4g00571 FvH4_5g29942 FvH4_5g30911 FvH4_7g17670
malus_domestica	MD07G1159700.v1.1 MD07G1159800.v1.1 MD07G1159900.v1.1
prunus_persica	Prupe.2G092100_v2.0.a1 Prupe.2G197800_v2.0.a1 Prupe.2G197800_v2.0.a1
pyrus_communis	pycom01g11300 pycom07g15620
rosa_chinensis	RchiOBHm_Chr1g0334501 RchiOBHm_Chr1g0334511
rosa_laevigata	RLG00000014722 RLG00000018723 RLG00000027257 RLG00000029448
rosa_multiflora	Rmu_co8086664.1_g000001 Rmu_sc0000066.1_g000041 Rmu_sc0003541.1_g000019 Rmu_sc0005302.1_g000007 Rmu_sc0005482.1_g000008 Rmu_sc0007236.1_g000001 Rmu_sc0012136.1_g000029 Rmu_sc0012270.1_g000004 Rmu_sc0033476.1_g000001 Rmu_sc0034305.1_g000001 Rmu_ssc0000404.1_g000010
rosa_roxburghii	Rroxscaffold_2G00120980 Rroxscaffold_4G00294850 Rroxscaffold_4G00316790 Rroxscaffold_5G00373360
rosa_rugosa	Rorug01G0114400 Rorug01G0114500 Rorug02G0242900 Rorug02G0243000
rosa_samantha	Rh1AG139600 Rh1AG176800 Rh1BG105900 Rh1CG131500 Rh1DG143500 Rh6BG398800 Rh7BG198900
rosa_wichuraiana	Rw1G011510 Rw2G023980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	215
Acc36I	ACCTGC	1 cut(s)	215
AccII	CGCG	5 cut(s)	34, 66, 246, 268, 270
AciI	CCGC	2 cut(s)	14, 244
AclWI	GGATC	2 cut(s)	81, 99
AcyI	GRCGYC	1 cut(s)	174
AfaI	GTAC	1 cut(s)	275
AjiI	CACGTC	1 cut(s)	226
AjnI	CCWGG	2 cut(s)	69, 147
AluBI	AGCT	2 cut(s)	8, 250
AluI	AGCT	2 cut(s)	8, 250
Alw21I	GWGCWC	1 cut(s)	252
Alw26I	GTCTC	1 cut(s)	202
AlwI	GGATC	2 cut(s)	81, 99
AoxI	GGCC	1 cut(s)	15
ApeKI	GCWGC	1 cut(s)	5
AspLEI	GCGC	4 cut(s)	36, 68, 236, 270
AspS9I	GGNCC	3 cut(s)	16, 151, 241
AvaII	GGWCC	2 cut(s)	151, 241
BanII	GRGCYC	1 cut(s)	252
BauI	CACGAG	1 cut(s)	44
Bbv12I	GWGCWC	1 cut(s)	252
BbvI	GCAGC	1 cut(s)	17
BciT130I	CCWGG	2 cut(s)	71, 149
BcoDI	GTCTC	1 cut(s)	202
BfaI	CTAG	1 cut(s)	83
BfoI	RGCGCY	1 cut(s)	237
BfuAI	ACCTGC	1 cut(s)	215
BisI	GCNGC	2 cut(s)	6, 15
BlsI	GCNGC	2 cut(s)	7, 16
Bme1390I	CCNGG	2 cut(s)	71, 149
Bme18I	GGWCC	2 cut(s)	151, 241
BmgBI	CACGTC	1 cut(s)	226
BmgT120I	GGNCC	3 cut(s)	16, 151, 241
BmrFI	CCNGG	2 cut(s)	71, 149
BmrI	ACTGGG	1 cut(s)	256
BmuI	ACTGGG	1 cut(s)	256
BpmI	CTGGAG	1 cut(s)	119
BsaHI	GRCGYC	1 cut(s)	174
BsaJI	CCNNGG	3 cut(s)	69, 147, 237
BsaXI	ACNNNNNCTCC	6 cut(s)	80, 110, 173, 185, 203, 215
Bse1I	ACTGG	1 cut(s)	262
BseBI	CCWGG	2 cut(s)	71, 149
BseDI	CCNNGG	3 cut(s)	69, 147, 237
BseNI	ACTGG	1 cut(s)	262
BseRI	GAGGAG	3 cut(s)	29, 83, 190
BseXI	GCAGC	1 cut(s)	17
BseYI	CCCAGC	1 cut(s)	99
Bsh1236I	CGCG	5 cut(s)	34, 66, 246, 268, 270
BshFI	GGCC	1 cut(s)	17
BsiHKAI	GWGCWC	1 cut(s)	252
BsiSI	CCGG	1 cut(s)	11
BsmAI	GTCTC	1 cut(s)	202
BsmBI	CGTCTC	1 cut(s)	202
BsnI	GGCC	1 cut(s)	17
Bsp1286I	GDGCHC	1 cut(s)	252
Bsp143I	GATC	2 cut(s)	73, 104
BspACI	CCGC	2 cut(s)	14, 244
BspANI	GGCC	1 cut(s)	17
BspFNI	CGCG	5 cut(s)	34, 66, 246, 268, 270
BspMI	ACCTGC	1 cut(s)	215
BspPI	GGATC	2 cut(s)	81, 99
BsrI	ACTGG	1 cut(s)	262
BssECI	CCNNGG	3 cut(s)	69, 147, 237
BssMI	GATC	2 cut(s)	73, 104
BssNI	GRCGYC	1 cut(s)	174
BssSI	CACGAG	1 cut(s)	44
BssT1I	CCWWGG	1 cut(s)	237
Bst2BI	CACGAG	1 cut(s)	44
Bst2UI	CCWGG	2 cut(s)	71, 149
BstACI	GRCGYC	1 cut(s)	174
BstC8I	GCNNGC	1 cut(s)	248
BstFNI	CGCG	5 cut(s)	34, 66, 246, 268, 270
BstH2I	RGCGCY	1 cut(s)	237
BstHHI	GCGC	4 cut(s)	36, 68, 236, 270
BstKTI	GATC	2 cut(s)	76, 107
BstMAI	GTCTC	1 cut(s)	202
BstMBI	GATC	2 cut(s)	73, 104
BstMWI	GCNNNNNNNGC	2 cut(s)	11, 14
BstNI	CCWGG	2 cut(s)	71, 149
BstSCI	CCNGG	2 cut(s)	69, 147
BstUI	CGCG	5 cut(s)	34, 66, 246, 268, 270
BstV1I	GCAGC	1 cut(s)	17
BstX2I	RGATCY	1 cut(s)	73
BstYI	RGATCY	1 cut(s)	73
BsuRI	GGCC	1 cut(s)	17
BtrI	CACGTC	1 cut(s)	226
BveI	ACCTGC	1 cut(s)	215
Cac8I	GCNNGC	1 cut(s)	248
CfoI	GCGC	4 cut(s)	36, 68, 236, 270
Cfr13I	GGNCC	3 cut(s)	16, 151, 241
CseI	GACGC	2 cut(s)	40, 182
Csp6I	GTAC	1 cut(s)	274
CviAII	CATG	1 cut(s)	28
CviJI	RGCY	4 cut(s)	8, 17, 56, 250
CviKI_1	RGCY	4 cut(s)	8, 17, 56, 250
CviQI	GTAC	1 cut(s)	274
DpnI	GATC	2 cut(s)	75, 106
DpnII	GATC	2 cut(s)	73, 104
Ecl136II	GAGCTC	1 cut(s)	250
Eco130I	CCWWGG	1 cut(s)	237
Eco24I	GRGCYC	1 cut(s)	252
Eco47I	GGWCC	2 cut(s)	151, 241
Eco53kI	GAGCTC	1 cut(s)	250
EcoICRI	GAGCTC	1 cut(s)	250
EcoO109I	RGGNCCY	1 cut(s)	151
EcoRII	CCWGG	2 cut(s)	69, 147
EcoT14I	CCWWGG	1 cut(s)	237
EcoT38I	GRGCYC	1 cut(s)	252
ErhI	CCWWGG	1 cut(s)	237
Esp3I	CGTCTC	1 cut(s)	202
FaeI	CATG	1 cut(s)	31
FaiI	YATR	2 cut(s)	29, 53
FatI	CATG	1 cut(s)	27
Fnu4HI	GCNGC	2 cut(s)	6, 15
FriOI	GRGCYC	1 cut(s)	252
Fsp4HI	GCNGC	2 cut(s)	6, 15
FspBI	CTAG	1 cut(s)	83
GlaI	GCGC	4 cut(s)	35, 67, 235, 269
GluI	GCNGC	2 cut(s)	6, 15
GsaI	CCCAGC	1 cut(s)	103
GsuI	CTGGAG	1 cut(s)	119
HaeII	RGCGCY	1 cut(s)	237
HaeIII	GGCC	1 cut(s)	17
HapII	CCGG	1 cut(s)	11
HgaI	GACGC	2 cut(s)	40, 182
HhaI	GCGC	4 cut(s)	36, 68, 236, 270
Hin1I	GRCGYC	1 cut(s)	174
Hin1II	CATG	1 cut(s)	31
Hin6I	GCGC	4 cut(s)	34, 66, 234, 268
HinP1I	GCGC	4 cut(s)	34, 66, 234, 268
HpaII	CCGG	1 cut(s)	11
Hpy188I	TCNGA	2 cut(s)	109, 172
Hpy188III	TCNNGA	1 cut(s)	136
Hpy99I	CGWCG	1 cut(s)	176
HpyCH4IV	ACGT	2 cut(s)	195, 225
HpyCH4V	TGCA	1 cut(s)	51
HpyF10VI	GCNNNNNNNGC	2 cut(s)	11, 14
HpySE526I	ACGT	2 cut(s)	195, 225
Hsp92I	GRCGYC	1 cut(s)	174
Hsp92II	CATG	1 cut(s)	31
HspAI	GCGC	4 cut(s)	34, 66, 234, 268
Kzo9I	GATC	2 cut(s)	73, 104
LmnI	GCTCC	1 cut(s)	13
LpnPI	CCDG	9 cut(s)	24, 56, 83, 113, 134, 149, 161, 220, 275
Lsp1109I	GCAGC	1 cut(s)	17
MaeI	CTAG	1 cut(s)	83
MaeII	ACGT	2 cut(s)	195, 225
MalI	GATC	2 cut(s)	75, 106
MboI	GATC	2 cut(s)	73, 104
MflI	RGATCY	1 cut(s)	73
MhlI	GDGCHC	1 cut(s)	252
MmeI	TCCRAC	3 cut(s)	132, 195, 216
MseI	TTAA	1 cut(s)	290
MspI	CCGG	1 cut(s)	11
MspR9I	CCNGG	2 cut(s)	71, 149
MvaI	CCWGG	2 cut(s)	71, 149
MvnI	CGCG	5 cut(s)	34, 66, 246, 268, 270
MwoI	GCNNNNNNNGC	2 cut(s)	11, 14
NdeII	GATC	2 cut(s)	73, 104
NlaIII	CATG	1 cut(s)	31
PaqCI	CACCTGC	1 cut(s)	215
PcsI	WCGNNNNNNNCGW	2 cut(s)	168, 222
PflFI	GACNNNGTC	2 cut(s)	161, 224
PkrI	GCNGC	2 cut(s)	7, 16
PpuMI	RGGWCCY	1 cut(s)	151
Psp124BI	GAGCTC	1 cut(s)	252
Psp5II	RGGWCCY	1 cut(s)	151
Psp6I	CCWGG	2 cut(s)	69, 147
PspFI	CCCAGC	1 cut(s)	99
PspGI	CCWGG	2 cut(s)	69, 147
PspPI	GGNCC	3 cut(s)	16, 151, 241
PspPPI	RGGWCCY	1 cut(s)	151
PsuI	RGATCY	1 cut(s)	73
PsyI	GACNNNGTC	2 cut(s)	161, 224
RsaI	GTAC	1 cut(s)	275
RsaNI	GTAC	1 cut(s)	274
SacI	GAGCTC	1 cut(s)	252
SaqAI	TTAA	1 cut(s)	290
SatI	GCNGC	2 cut(s)	6, 15
Sau3AI	GATC	2 cut(s)	73, 104
Sau96I	GGNCC	3 cut(s)	16, 151, 241
ScrFI	CCNGG	2 cut(s)	71, 149
SduI	GDGCHC	1 cut(s)	252
SinI	GGWCC	2 cut(s)	151, 241
SsiI	CCGC	2 cut(s)	14, 244
SspMI	CTAG	1 cut(s)	83
SstI	GAGCTC	1 cut(s)	252
StyD4I	CCNGG	2 cut(s)	69, 147
StyI	CCWWGG	1 cut(s)	237
TaiI	ACGT	2 cut(s)	198, 228
TaqI	TCGA	3 cut(s)	114, 156, 252
TatI	WGTACW	1 cut(s)	273
TauI	GCSGC	1 cut(s)	17
Tru1I	TTAA	1 cut(s)	290
Tru9I	TTAA	1 cut(s)	290
TseI	GCWGC	1 cut(s)	5
TspDTI	ATGAA	1 cut(s)	296
Tth111I	GACNNNGTC	2 cut(s)	161, 224
VpaK11BI	GGWCC	2 cut(s)	151, 241
XspI	CTAG	1 cut(s)	83

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