Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001795

Physical Location & Seq

Genomic Coordinates Reverse (-)

56809374 .. 56810911

Gene Structure 1538 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000014722

Sequence Viewer

CDS Protein Promoter (2k)

Length: 561 bp

ATGAGTAGCAAAAGAGAAGAACGTCTTCTGCTTAGGGGTTATAAAGAAGCTCGTCGCCGGAGCCCTGCATACTCGCCACCGGCACTGGTCCTCCTCACCGTCCCATCCACGGCTCGCCCTGGATCTCAACCTCGACCACCTCCTTTCTCCCAGCGCTCCGACCTCGACAAGCACCTCTCCAATCTCCAAAAATCCTCCCAAGTCCTCGACATCGTCAAGTCCGACGCCGACCACGTCCTCTCCAACATCTCCTCCATCTGCGACCTCGCCGACCACGTCAGCTCCAAGATCCGCGACCTCTCCAATCTCCAGAAATCCTCCCAGGTCCTTGACATCGTCAAGTCCAACGCCGACCACGTCCTCTCCAACGTCTCCTCCACCTGCGACCTCGCTGACCACGTCAGCGCCAAGATCCGCGAGCTCGACCTCGCCCAGTCATACGTCAACTCCACGCTCCTCCGTTTGGATACGATTGTGGAGCTCGACCTCGCCCAGTCTCGTGATATACCTCTTACCGGCCAATTCACATATTATTACTTCACAATACAAGGATCGCTTTAA

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

187

Amino Acids

20.66

Weight (kDa)

7.8

Isoelectric Point (pI)

61.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
COG4_N	PF20663	59 - 104	1.6e-06	Conserved oligomeric Golgi complex subunit 4, N-terminal
COG4_N	PF20663	100 - 162	3.4e-13	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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Align Labels (Cladogram)

Image

Tree File

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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)
AanI	TTATAA	1 cut(s)	42
AarI	CACCTGC	1 cut(s)	389
Acc36I	ACCTGC	1 cut(s)	389
AccII	CGCG	2 cut(s)	294, 417
AciI	CCGC	2 cut(s)	292, 415
AclWI	GGATC	4 cut(s)	130, 283, 406, 559
AcoI	YGGCCR	1 cut(s)	517
AcyI	GRCGYC	1 cut(s)	225
AfeI	AGCGCT	1 cut(s)	155
AfiI	CCNNNNNNNGG	3 cut(s)	109, 463, 515
AjiI	CACGTC	4 cut(s)	235, 277, 358, 400
AjnI	CCWGG	2 cut(s)	118, 321
AluBI	AGCT	4 cut(s)	50, 282, 421, 481
AluI	AGCT	4 cut(s)	50, 282, 421, 481
Alw21I	GWGCWC	2 cut(s)	423, 483
Alw26I	GTCTC	2 cut(s)	376, 501
AlwI	GGATC	4 cut(s)	130, 283, 406, 559
Aor51HI	AGCGCT	1 cut(s)	155
AoxI	GGCC	1 cut(s)	517
Asp700I	GAANNNNTTC	1 cut(s)	24
AspLEI	GCGC	2 cut(s)	156, 407
AspS9I	GGNCC	2 cut(s)	88, 325
AsuHPI	GGTGA	1 cut(s)	88
AvaII	GGWCC	2 cut(s)	88, 325
BaeI	ACNNNNGTAYC	2 cut(s)	459, 492
BanII	GRGCYC	3 cut(s)	65, 423, 483
BauI	CACGAG	1 cut(s)	498
BbsI	GAAGAC	1 cut(s)	17
Bbv12I	GWGCWC	2 cut(s)	423, 483
BccI	CCATC	2 cut(s)	112, 263
BceAI	ACGGC	1 cut(s)	126
BciT130I	CCWGG	2 cut(s)	120, 323
BciVI	GTATCC	1 cut(s)	460
BcoDI	GTCTC	2 cut(s)	376, 501
BfoI	RGCGCY	2 cut(s)	157, 408
BfuAI	ACCTGC	1 cut(s)	389
BfuI	GTATCC	1 cut(s)	460
Bme1390I	CCNGG	2 cut(s)	120, 323
Bme18I	GGWCC	2 cut(s)	88, 325
BmgBI	CACGTC	4 cut(s)	235, 277, 358, 400
BmgT120I	GGNCC	2 cut(s)	88, 325
BmiI	GGNNCC	1 cut(s)	62
BmrFI	CCNGG	2 cut(s)	120, 323
BmrI	ACTGGG	2 cut(s)	427, 487
BmuI	ACTGGG	2 cut(s)	427, 487
BpiI	GAAGAC	1 cut(s)	17
BpmI	CTGGAG	1 cut(s)	293
Bpu10I	CCTNAGC	1 cut(s)	32
BsaHI	GRCGYC	1 cut(s)	225
BsaJI	CCNNGG	3 cut(s)	108, 118, 321
Bsc4I	CCNNNNNNNGG	3 cut(s)	109, 463, 515
Bse118I	RCCGGY	2 cut(s)	79, 515
Bse1I	ACTGG	3 cut(s)	90, 433, 493
BseBI	CCWGG	2 cut(s)	120, 323
BseDI	CCNNGG	3 cut(s)	108, 118, 321
BseGI	GGATG	1 cut(s)	104
BseLI	CCNNNNNNNGG	3 cut(s)	109, 463, 515
BseNI	ACTGG	3 cut(s)	90, 433, 493
BseRI	GAGGAG	4 cut(s)	83, 241, 364, 446
BseYI	CCCAGC	1 cut(s)	150
Bsh1236I	CGCG	2 cut(s)	294, 417
BshFI	GGCC	1 cut(s)	519
BsiHKAI	GWGCWC	2 cut(s)	423, 483
BsiSI	CCGG	3 cut(s)	58, 80, 516
BslFI	GGGAC	1 cut(s)	86
BslI	CCNNNNNNNGG	3 cut(s)	109, 463, 515
BsmAI	GTCTC	2 cut(s)	376, 501
BsmBI	CGTCTC	1 cut(s)	376
BsmFI	GGGAC	1 cut(s)	86
BsnI	GGCC	1 cut(s)	519
Bsp1286I	GDGCHC	3 cut(s)	65, 423, 483
Bsp143I	GATC	4 cut(s)	122, 288, 411, 551
BspACI	CCGC	2 cut(s)	292, 415
BspANI	GGCC	1 cut(s)	519
BspFNI	CGCG	2 cut(s)	294, 417
BspLI	GGNNCC	1 cut(s)	62
BspMI	ACCTGC	1 cut(s)	389
BspPI	GGATC	4 cut(s)	130, 283, 406, 559
BsrFI	RCCGGY	2 cut(s)	79, 515
BsrI	ACTGG	3 cut(s)	90, 433, 493
BssAI	RCCGGY	2 cut(s)	79, 515
BssECI	CCNNGG	3 cut(s)	108, 118, 321
BssMI	GATC	4 cut(s)	122, 288, 411, 551
BssNI	GRCGYC	1 cut(s)	225
BssSI	CACGAG	1 cut(s)	498
Bst2BI	CACGAG	1 cut(s)	498
Bst2UI	CCWGG	2 cut(s)	120, 323
Bst4CI	ACNGT	1 cut(s)	100
BstACI	GRCGYC	1 cut(s)	225
BstC8I	GCNNGC	2 cut(s)	115, 419
BstDEI	CTNAG	1 cut(s)	32
BstDSI	CCRYGG	1 cut(s)	108
BstF5I	GGATG	1 cut(s)	104
BstFNI	CGCG	2 cut(s)	294, 417
BstH2I	RGCGCY	2 cut(s)	157, 408
BstHHI	GCGC	2 cut(s)	156, 407
BstKTI	GATC	4 cut(s)	125, 291, 414, 554
BstMAI	GTCTC	2 cut(s)	376, 501
BstMBI	GATC	4 cut(s)	122, 288, 411, 551
BstNI	CCWGG	2 cut(s)	120, 323
BstSCI	CCNGG	2 cut(s)	118, 321
BstUI	CGCG	2 cut(s)	294, 417
BstV2I	GAAGAC	1 cut(s)	17
BstX2I	RGATCY	3 cut(s)	122, 288, 411
BstYI	RGATCY	3 cut(s)	122, 288, 411
BsuI	GTATCC	1 cut(s)	460
BsuRI	GGCC	1 cut(s)	519
BtgI	CCRYGG	1 cut(s)	108
BtrI	CACGTC	4 cut(s)	235, 277, 358, 400
BtsCI	GGATG	1 cut(s)	104
BtsIMutI	CAGTG	1 cut(s)	83
BveI	ACCTGC	1 cut(s)	389
Cac8I	GCNNGC	2 cut(s)	115, 419
CfoI	GCGC	2 cut(s)	156, 407
Cfr10I	RCCGGY	2 cut(s)	79, 515
Cfr13I	GGNCC	2 cut(s)	88, 325
CseI	GACGC	1 cut(s)	233
CviJI	RGCY	7 cut(s)	50, 63, 113, 282, 421, 481, 519
CviKI_1	RGCY	7 cut(s)	50, 63, 113, 282, 421, 481, 519
DdeI	CTNAG	1 cut(s)	32
DpnI	GATC	4 cut(s)	124, 290, 413, 553
DpnII	GATC	4 cut(s)	122, 288, 411, 551
EaeI	YGGCCR	1 cut(s)	517
Ecl136II	GAGCTC	2 cut(s)	421, 481
Eco24I	GRGCYC	3 cut(s)	65, 423, 483
Eco47I	GGWCC	2 cut(s)	88, 325
Eco47III	AGCGCT	1 cut(s)	155
Eco53kI	GAGCTC	2 cut(s)	421, 481
EcoICRI	GAGCTC	2 cut(s)	421, 481
EcoO109I	RGGNCCY	1 cut(s)	325
EcoRII	CCWGG	2 cut(s)	118, 321
EcoT38I	GRGCYC	3 cut(s)	65, 423, 483
Esp3I	CGTCTC	1 cut(s)	376
FaiI	YATR	5 cut(s)	42, 70, 439, 506, 529
FalI	AAGNNNNNCTT	3 cut(s)	9, 41, 540
FaqI	GGGAC	1 cut(s)	86
FokI	GGATG	1 cut(s)	91
FriOI	GRGCYC	3 cut(s)	65, 423, 483
GlaI	GCGC	2 cut(s)	155, 406
GsaI	CCCAGC	1 cut(s)	154
GsuI	CTGGAG	1 cut(s)	293
HaeII	RGCGCY	2 cut(s)	157, 408
HaeIII	GGCC	1 cut(s)	519
HapII	CCGG	3 cut(s)	58, 80, 516
HgaI	GACGC	1 cut(s)	233
HhaI	GCGC	2 cut(s)	156, 407
Hin1I	GRCGYC	1 cut(s)	225
Hin6I	GCGC	2 cut(s)	154, 405
HinP1I	GCGC	2 cut(s)	154, 405
HincII	GTYRAC	1 cut(s)	445
HindII	GTYRAC	1 cut(s)	445
HpaII	CCGG	3 cut(s)	58, 80, 516
HphI	GGTGA	1 cut(s)	88
Hpy166II	GTNNAC	1 cut(s)	445
Hpy188I	TCNGA	2 cut(s)	160, 223
Hpy188III	TCNNGA	2 cut(s)	310, 500
Hpy8I	GTNNAC	1 cut(s)	445
Hpy99I	CGWCG	2 cut(s)	57, 227
HpyCH4III	ACNGT	1 cut(s)	100
HpyCH4IV	ACGT	7 cut(s)	22, 234, 276, 357, 369, 399, 441
HpyCH4V	TGCA	1 cut(s)	68
HpyF3I	CTNAG	1 cut(s)	32
HpySE526I	ACGT	7 cut(s)	22, 234, 276, 357, 369, 399, 441
Hsp92I	GRCGYC	1 cut(s)	225
HspAI	GCGC	2 cut(s)	154, 405
Kzo9I	GATC	4 cut(s)	122, 288, 411, 551
LmnI	GCTCC	5 cut(s)	60, 161, 287, 459, 478
MaeII	ACGT	7 cut(s)	22, 234, 276, 357, 369, 399, 441
MalI	GATC	4 cut(s)	124, 290, 413, 553
MboI	GATC	4 cut(s)	122, 288, 411, 551
MboII	GAAGA	2 cut(s)	17, 29
MflI	RGATCY	3 cut(s)	122, 288, 411
MhlI	GDGCHC	3 cut(s)	65, 423, 483
MluCI	AATT	1 cut(s)	521
MmeI	TCCRAC	5 cut(s)	183, 246, 267, 369, 390
MroXI	GAANNNNTTC	1 cut(s)	24
MseI	TTAA	1 cut(s)	559
MspI	CCGG	3 cut(s)	58, 80, 516
MspR9I	CCNGG	2 cut(s)	120, 323
MvaI	CCWGG	2 cut(s)	120, 323
MvnI	CGCG	2 cut(s)	294, 417
NdeII	GATC	4 cut(s)	122, 288, 411, 551
NlaIV	GGNNCC	1 cut(s)	62
PaqCI	CACCTGC	1 cut(s)	389
PcsI	WCGNNNNNNNCGW	5 cut(s)	219, 231, 273, 354, 396
PdmI	GAANNNNTTC	1 cut(s)	24
PflFI	GACNNNGTC	6 cut(s)	212, 233, 275, 335, 356, 398
PpuMI	RGGWCCY	1 cut(s)	325
PsiI	TTATAA	1 cut(s)	42
Psp124BI	GAGCTC	2 cut(s)	423, 483
Psp5II	RGGWCCY	1 cut(s)	325
Psp6I	CCWGG	2 cut(s)	118, 321
PspFI	CCCAGC	1 cut(s)	150
PspGI	CCWGG	2 cut(s)	118, 321
PspN4I	GGNNCC	1 cut(s)	62
PspPI	GGNCC	2 cut(s)	88, 325
PspPPI	RGGWCCY	1 cut(s)	325
PsuI	RGATCY	3 cut(s)	122, 288, 411
PsyI	GACNNNGTC	6 cut(s)	212, 233, 275, 335, 356, 398
SacI	GAGCTC	2 cut(s)	423, 483
SaqAI	TTAA	1 cut(s)	559
Sau3AI	GATC	4 cut(s)	122, 288, 411, 551
Sau96I	GGNCC	2 cut(s)	88, 325
ScrFI	CCNGG	2 cut(s)	120, 323
SduI	GDGCHC	3 cut(s)	65, 423, 483
SinI	GGWCC	2 cut(s)	88, 325
Sse9I	AATT	1 cut(s)	521
SsiI	CCGC	2 cut(s)	292, 415
SstI	GAGCTC	2 cut(s)	423, 483
StyD4I	CCNGG	2 cut(s)	118, 321
TaaI	ACNGT	1 cut(s)	100
TaiI	ACGT	7 cut(s)	25, 237, 279, 360, 372, 402, 444
TaqI	TCGA	5 cut(s)	133, 165, 207, 423, 483
TasI	AATT	1 cut(s)	521
Tru1I	TTAA	1 cut(s)	559
Tru9I	TTAA	1 cut(s)	559
TscAI	CASTG	1 cut(s)	90
TspGWI	ACGGA	1 cut(s)	449
TspRI	CASTG	1 cut(s)	90
Tth111I	GACNNNGTC	6 cut(s)	212, 233, 275, 335, 356, 398
VpaK11BI	GGWCC	2 cut(s)	88, 325
XmnI	GAANNNNTTC	1 cut(s)	24

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