Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0001609.1

Orthogroup ID

OG0005943

Physical Location & Seq

Genomic Coordinates Reverse (-)

124458 .. 124952

Gene Structure 495 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ctgtcctctgcttcccgagcccgtcgccagagccctgcatactcgccaccggcgctggtcctcctcaccgtctcagtcagcgacgactctcctcctccaccgcagtccacggctcgtcctagatttcaacctcgaccgcctcctctctcccagcgctccgacctcgacaagcacctcttcgatctccagaaatcctcccaggtcctcgacatcgtcaagttcgacgccgactacgtcctctgcaacgtctcctccacctgcgacctcgccgaccacgtcagcaccaagatccgcaacctctctaatctccagaaatcctcccaggtcctcgacatcgtcaagtccgacgccgactacgtcctctccaacgtctcctccacctgcgacctcgcagatcacgtcagcaccaaggtcggcgagctcgacctcgcccagtcccgcgtcaactccacgctcctccgtttggatgcgattgttgagcacgacctcgcctag

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

164

Amino Acids

17.89

Weight (kDa)

5.73

Isoelectric Point (pI)

61.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
COG4_N	PF20663	100 - 160	2.7e-12	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

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: OG0005943)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000004219 RLG00000005084 RLG00000010195 RLG00000013467 RLG00000014305 RLG00000028980 RLG00000030839 RLG00000032541
rosa_multiflora	Rmu_co8333173.1_g000001 Rmu_sc0001609.1_g000028 Rmu_sc0003426.1_g000014 Rmu_sc0010981.1_g000007 Rmu_sc0019815.1_g000001 Rmu_sc0023018.1_g000001 Rmu_ssc0000323.1_g000018
rosa_roxburghii	Rroxscaffold_1G00008410 Rroxscaffold_4G00294860 Rroxscaffold_5G00373940
rosa_samantha	Rh2BG307500 Rh2CG285600 Rh3CG238400 Rh4CG114700 Rh5DG479400 Rh5DG522500 Rh6CG228800 Rh6DG235200 Rh7AG303100 Rh7CG263200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	2 cut(s)	266, 389
Acc36I	ACCTGC	2 cut(s)	266, 389
AccII	CGCG	1 cut(s)	441
AciI	CCGC	4 cut(s)	101, 137, 292, 439
AclWI	GGATC	1 cut(s)	283
AcyI	GRCGYC	2 cut(s)	225, 348
AfeI	AGCGCT	1 cut(s)	155
AfiI	CCNNNNNNNGG	1 cut(s)	463
AgsI	TTSAA	1 cut(s)	128
AjiI	CACGTC	2 cut(s)	277, 400
AjnI	CCWGG	2 cut(s)	198, 321
AluBI	AGCT	1 cut(s)	421
AluI	AGCT	1 cut(s)	421
Alw21I	GWGCWC	2 cut(s)	423, 483
Alw26I	GTCTC	3 cut(s)	76, 253, 376
AlwI	GGATC	1 cut(s)	283
Ama87I	CYCGRG	1 cut(s)	15
Aor51HI	AGCGCT	1 cut(s)	155
AspLEI	GCGC	2 cut(s)	55, 156
AspS9I	GGNCC	3 cut(s)	58, 202, 325
AsuHPI	GGTGA	1 cut(s)	58
AvaI	CYCGRG	1 cut(s)	15
AvaII	GGWCC	3 cut(s)	58, 202, 325
BanII	GRGCYC	3 cut(s)	22, 35, 423
Bbv12I	GWGCWC	2 cut(s)	423, 483
BceAI	ACGGC	1 cut(s)	126
BcgI	CGANNNNNNTGC	2 cut(s)	394, 428
BciT130I	CCWGG	2 cut(s)	200, 323
BcoDI	GTCTC	3 cut(s)	76, 253, 376
BfaI	CTAG	2 cut(s)	120, 493
BfoI	RGCGCY	2 cut(s)	56, 157
BfuAI	ACCTGC	2 cut(s)	266, 389
Bme1390I	CCNGG	2 cut(s)	200, 323
Bme18I	GGWCC	3 cut(s)	58, 202, 325
BmeT110I	CYCGRG	1 cut(s)	15
BmgBI	CACGTC	2 cut(s)	277, 400
BmgT120I	GGNCC	3 cut(s)	58, 202, 325
BmrFI	CCNGG	2 cut(s)	200, 323
BmrI	ACTGGG	1 cut(s)	427
BmsI	GCATC	1 cut(s)	457
BmuI	ACTGGG	1 cut(s)	427
BpmI	CTGGAG	2 cut(s)	170, 293
BsaHI	GRCGYC	2 cut(s)	225, 348
BsaJI	CCNNGG	4 cut(s)	108, 198, 321, 408
BsaXI	ACNNNNNCTCC	6 cut(s)	236, 266, 347, 359, 377, 389
Bsc4I	CCNNNNNNNGG	1 cut(s)	463
Bse118I	RCCGGY	1 cut(s)	49
Bse1I	ACTGG	1 cut(s)	433
BseBI	CCWGG	2 cut(s)	200, 323
BseDI	CCNNGG	4 cut(s)	108, 198, 321, 408
BseGI	GGATG	1 cut(s)	472
BseLI	CCNNNNNNNGG	1 cut(s)	463
BseMII	CTCAG	1 cut(s)	87
BseNI	ACTGG	1 cut(s)	433
BseRI	GAGGAG	7 cut(s)	53, 81, 84, 132, 241, 364, 446
BseYI	CCCAGC	1 cut(s)	150
Bsh1236I	CGCG	1 cut(s)	441
Bsh1285I	CGRYCG	1 cut(s)	137
BsiEI	CGRYCG	1 cut(s)	137
BsiHKAI	GWGCWC	2 cut(s)	423, 483
BsiHKCI	CYCGRG	1 cut(s)	15
BsiSI	CCGG	1 cut(s)	50
BslFI	GGGAC	1 cut(s)	421
BslI	CCNNNNNNNGG	1 cut(s)	463
BsmAI	GTCTC	3 cut(s)	76, 253, 376
BsmBI	CGTCTC	3 cut(s)	76, 253, 376
BsmFI	GGGAC	1 cut(s)	421
BsoBI	CYCGRG	1 cut(s)	15
Bsp1286I	GDGCHC	4 cut(s)	22, 35, 423, 483
Bsp143I	GATC	3 cut(s)	181, 288, 394
BspACI	CCGC	4 cut(s)	101, 137, 292, 439
BspCNI	CTCAG	1 cut(s)	86
BspFNI	CGCG	1 cut(s)	441
BspMI	ACCTGC	2 cut(s)	266, 389
BspPI	GGATC	1 cut(s)	283
BsrFI	RCCGGY	1 cut(s)	49
BsrI	ACTGG	1 cut(s)	433
BssAI	RCCGGY	1 cut(s)	49
BssECI	CCNNGG	4 cut(s)	108, 198, 321, 408
BssMI	GATC	3 cut(s)	181, 288, 394
BssNI	GRCGYC	2 cut(s)	225, 348
BssT1I	CCWWGG	1 cut(s)	408
Bst2UI	CCWGG	2 cut(s)	200, 323
Bst4CI	ACNGT	1 cut(s)	70
Bst6I	CTCTTC	1 cut(s)	182
BstACI	GRCGYC	2 cut(s)	225, 348
BstC8I	GCNNGC	1 cut(s)	419
BstDEI	CTNAG	1 cut(s)	73
BstDSI	CCRYGG	1 cut(s)	108
BstF5I	GGATG	1 cut(s)	472
BstFNI	CGCG	1 cut(s)	441
BstH2I	RGCGCY	2 cut(s)	56, 157
BstHHI	GCGC	2 cut(s)	55, 156
BstKTI	GATC	3 cut(s)	184, 291, 397
BstMAI	GTCTC	3 cut(s)	76, 253, 376
BstMBI	GATC	3 cut(s)	181, 288, 394
BstMCI	CGRYCG	1 cut(s)	137
BstMWI	GCNNNNNNNGC	2 cut(s)	17, 52
BstNI	CCWGG	2 cut(s)	200, 323
BstSCI	CCNGG	2 cut(s)	198, 321
BstUI	CGCG	1 cut(s)	441
BstX2I	RGATCY	1 cut(s)	288
BstYI	RGATCY	1 cut(s)	288
BtgI	CCRYGG	1 cut(s)	108
BtrI	CACGTC	2 cut(s)	277, 400
BtsCI	GGATG	1 cut(s)	472
BveI	ACCTGC	2 cut(s)	266, 389
Cac8I	GCNNGC	1 cut(s)	419
CfoI	GCGC	2 cut(s)	55, 156
Cfr10I	RCCGGY	1 cut(s)	49
Cfr13I	GGNCC	3 cut(s)	58, 202, 325
CseI	GACGC	3 cut(s)	233, 356, 430
CviJI	RGCY	4 cut(s)	20, 33, 113, 421
CviKI_1	RGCY	4 cut(s)	20, 33, 113, 421
DdeI	CTNAG	1 cut(s)	73
DpnI	GATC	3 cut(s)	183, 290, 396
DpnII	GATC	3 cut(s)	181, 288, 394
Eam1104I	CTCTTC	1 cut(s)	182
EarI	CTCTTC	1 cut(s)	182
Ecl136II	GAGCTC	1 cut(s)	421
Eco130I	CCWWGG	1 cut(s)	408
Eco24I	GRGCYC	3 cut(s)	22, 35, 423
Eco47I	GGWCC	3 cut(s)	58, 202, 325
Eco47III	AGCGCT	1 cut(s)	155
Eco53kI	GAGCTC	1 cut(s)	421
Eco88I	CYCGRG	1 cut(s)	15
EcoICRI	GAGCTC	1 cut(s)	421
EcoO109I	RGGNCCY	2 cut(s)	202, 325
EcoRII	CCWGG	2 cut(s)	198, 321
EcoT14I	CCWWGG	1 cut(s)	408
EcoT38I	GRGCYC	3 cut(s)	22, 35, 423
ErhI	CCWWGG	1 cut(s)	408
Esp3I	CGTCTC	3 cut(s)	76, 253, 376
FaiI	YATR	1 cut(s)	40
FalI	AAGNNNNNCTT	2 cut(s)	161, 193
FaqI	GGGAC	1 cut(s)	421
FauI	CCCGC	1 cut(s)	446
FokI	GGATG	1 cut(s)	479
FriOI	GRGCYC	3 cut(s)	22, 35, 423
FspBI	CTAG	2 cut(s)	120, 493
GlaI	GCGC	2 cut(s)	54, 155
GsaI	CCCAGC	1 cut(s)	154
GsuI	CTGGAG	2 cut(s)	170, 293
HaeII	RGCGCY	2 cut(s)	56, 157
HapII	CCGG	1 cut(s)	50
HgaI	GACGC	3 cut(s)	233, 356, 430
HhaI	GCGC	2 cut(s)	55, 156
Hin1I	GRCGYC	2 cut(s)	225, 348
Hin6I	GCGC	2 cut(s)	53, 154
HinP1I	GCGC	2 cut(s)	53, 154
HincII	GTYRAC	1 cut(s)	445
HindII	GTYRAC	1 cut(s)	445
HinfI	GANTC	1 cut(s)	86
HpaII	CCGG	1 cut(s)	50
HphI	GGTGA	1 cut(s)	58
Hpy166II	GTNNAC	2 cut(s)	108, 445
Hpy188I	TCNGA	2 cut(s)	160, 346
Hpy188III	TCNNGA	3 cut(s)	15, 187, 310
Hpy8I	GTNNAC	2 cut(s)	108, 445
Hpy99I	CGWCG	4 cut(s)	27, 86, 227, 350
HpyCH4III	ACNGT	1 cut(s)	70
HpyCH4IV	ACGT	6 cut(s)	234, 246, 276, 357, 369, 399
HpyCH4V	TGCA	2 cut(s)	38, 243
HpyF10VI	GCNNNNNNNGC	2 cut(s)	17, 52
HpyF3I	CTNAG	1 cut(s)	73
HpySE526I	ACGT	6 cut(s)	234, 246, 276, 357, 369, 399
Hsp92I	GRCGYC	2 cut(s)	225, 348
HspAI	GCGC	2 cut(s)	53, 154
Kzo9I	GATC	3 cut(s)	181, 288, 394
LmnI	GCTCC	2 cut(s)	161, 459
LweI	GCATC	1 cut(s)	457
MaeI	CTAG	2 cut(s)	120, 493
MaeII	ACGT	6 cut(s)	234, 246, 276, 357, 369, 399
MalI	GATC	3 cut(s)	183, 290, 396
MboI	GATC	3 cut(s)	181, 288, 394
MboII	GAAGA	1 cut(s)	169
MflI	RGATCY	1 cut(s)	288
MhlI	GDGCHC	4 cut(s)	22, 35, 423, 483
MlyI	GAGTC	1 cut(s)	80
MmeI	TCCRAC	3 cut(s)	183, 369, 390
MspI	CCGG	1 cut(s)	50
MspR9I	CCNGG	2 cut(s)	200, 323
MvaI	CCWGG	2 cut(s)	200, 323
MvnI	CGCG	1 cut(s)	441
MwoI	GCNNNNNNNGC	2 cut(s)	17, 52
NdeII	GATC	3 cut(s)	181, 288, 394
PaqCI	CACCTGC	2 cut(s)	266, 389
PcsI	WCGNNNNNNNCGW	7 cut(s)	219, 231, 273, 342, 354, 396, 420
PflFI	GACNNNGTC	5 cut(s)	212, 233, 275, 335, 356
PleI	GAGTC	1 cut(s)	80
PpsI	GAGTC	1 cut(s)	80
PpuMI	RGGWCCY	2 cut(s)	202, 325
Psp124BI	GAGCTC	1 cut(s)	423
Psp5II	RGGWCCY	2 cut(s)	202, 325
Psp6I	CCWGG	2 cut(s)	198, 321
PspFI	CCCAGC	1 cut(s)	150
PspGI	CCWGG	2 cut(s)	198, 321
PspPI	GGNCC	3 cut(s)	58, 202, 325
PspPPI	RGGWCCY	2 cut(s)	202, 325
PsuI	RGATCY	1 cut(s)	288
PsyI	GACNNNGTC	5 cut(s)	212, 233, 275, 335, 356
SacI	GAGCTC	1 cut(s)	423
Sau3AI	GATC	3 cut(s)	181, 288, 394
Sau96I	GGNCC	3 cut(s)	58, 202, 325
SchI	GAGTC	1 cut(s)	80
ScrFI	CCNGG	2 cut(s)	200, 323
SduI	GDGCHC	4 cut(s)	22, 35, 423, 483
SfaNI	GCATC	1 cut(s)	457
SgrAI	CRCCGGYG	1 cut(s)	49
SinI	GGWCC	3 cut(s)	58, 202, 325
SsiI	CCGC	4 cut(s)	101, 137, 292, 439
SspMI	CTAG	2 cut(s)	120, 493
SstI	GAGCTC	1 cut(s)	423
StyD4I	CCNGG	2 cut(s)	198, 321
StyI	CCWWGG	1 cut(s)	408
TaaI	ACNGT	1 cut(s)	70
TaiI	ACGT	6 cut(s)	237, 249, 279, 360, 372, 402
TaqI	TCGA	7 cut(s)	133, 165, 180, 207, 222, 330, 423
TspGWI	ACGGA	1 cut(s)	449
Tth111I	GACNNNGTC	5 cut(s)	212, 233, 275, 335, 356
VpaK11BI	GGWCC	3 cut(s)	58, 202, 325
XspI	CTAG	2 cut(s)	120, 493

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