Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0011950

Physical Location & Seq

Genomic Coordinates Reverse (-)

55160207 .. 55161804

Gene Structure 1598 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000004003

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGGCGGCCGCATCCCTCTCCGCCTCTTCAGTCGCCGCCACAACAACCAAATCACTCCCTCACTCTCTTTTCCTCTCCAATCTCCACACCTCTTCTTCTCCATCTCTCCGATTACAGGAAACCCGGCCCAGAACCAAACCCATAGTTTGGGCCTCCGCCGGCACGGCCCTCGAGGTCGACCAAGCCCAAGCCCAAACCTCCGCCACCCCCTCCAAGACCTTGCCTTTCCGGGTCGGGCACGGCTTCGACCTCCACCGATTGGAGCCGGGCTACCCTCTGATCATCGGCGGCATCGACATCCCTCACGATAGAGGCTGCGAGGCTCACTCCGATGGGGATGTGTTGCTTCACTGTGTGGTGGATGCTATACTGGGAGCATTGGGCCTCCCGGATATCGGGCAGATATTCCCGGATTCGGATCCCAAGTGGCGCGGTGCGGCTTCCTCTGTCTTCATCAAAGAAGCTGTGAAATTGATGCATGAAGCAGGTTATGAAATTGGAAATTTGGACGCTACCTTGATTCTTCAAAGACCGAAATTGAGCCCACATAAGGAGGTTATGAGGGCCAACTTGGCTAAGCTGCTTGGTGCAGACCCATCTGTTGTGAATCTGAAAGCCAAGACTCATGAGAAGGTCGACAGCCTAGGAGAAAATCGTAGCATTGCAGCTCACACAGTGGTTCTTCTTATGAGGAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006629 GO:0006720 GO:0006721 GO:0006725 GO:0006778 GO:0006779 GO:0006807 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0015994 GO:0015995 GO:0016108 GO:0016109 GO:0016114 GO:0016116 GO:0016117 GO:0018130 GO:0019438 GO:0033013 GO:0033014 GO:0034641 GO:0042440 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046148 GO:0046483 GO:0051186 GO:0051188 GO:0071704 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00900 ko01100 ko01110 ko01130 map00900 map01100 map01110 map01130

Pfam Domains

Protein Families

YgbB

Protein Analysis

233

Amino Acids

24.78

Weight (kDa)

7.88

Isoelectric Point (pI)

27.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
YgbB	PF02542	76 - 229	8.3e-62	YgbB family

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: OG0011950)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G63970 AT1G63970
fragaria_vesca	FvH4_5g03170
malus_domestica	MD06G1090700.v1.1 MD06G1092700.v1.1 MD14G1111600.v1.1 MD14G1120300.v1.1
prunus_persica	Prupe.5G106300_v2.0.a1
pyrus_communis	pycom06g08640
rosa_chinensis	RchiOBHm_Chr7g0196611
rosa_laevigata	RLG00000004003
rosa_multiflora	Rmu_sc0006080.1_g000006
rosa_roxburghii	Rroxscaffold_3G00259160
rosa_rugosa	Rorug07G0035400
rosa_samantha	Rh7AG159100 Rh7BG161100 Rh7CG167500 Rh7DG160400
rosa_wichuraiana	Rw7G013920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AbsI	CCTCGAGG	1 cut(s)	170
Acc36I	ACCTGC	1 cut(s)	476
AccB7I	CCANNNNNTGG	2 cut(s)	147, 259
AccI	GTMKAC	2 cut(s)	177, 636
AccII	CGCG	1 cut(s)	432
AciI	CCGC	9 cut(s)	5, 9, 21, 36, 156, 201, 288, 432, 437
AclWI	GGATC	2 cut(s)	413, 426
AcoI	YGGCCR	1 cut(s)	6
AcsI	RAATTY	1 cut(s)	502
AcuI	CTGAAG	1 cut(s)	12
AdeI	CACNNNGTG	2 cut(s)	355, 676
AfiI	CCNNNNNNNGG	6 cut(s)	115, 147, 259, 395, 415, 550
AgsI	TTSAA	1 cut(s)	527
AluBI	AGCT	3 cut(s)	464, 580, 668
AluI	AGCT	3 cut(s)	464, 580, 668
AlwI	GGATC	2 cut(s)	413, 426
Ama87I	CYCGRG	1 cut(s)	170
AoxI	GGCC	6 cut(s)	6, 125, 150, 165, 382, 564
ApeKI	GCWGC	3 cut(s)	315, 580, 665
ApoI	RAATTY	1 cut(s)	502
AspA2I	CCTAGG	1 cut(s)	643
AspLEI	GCGC	1 cut(s)	432
AspS9I	GGNCC	5 cut(s)	126, 150, 166, 382, 564
AsuC2I	CCSGG	5 cut(s)	124, 230, 267, 389, 410
AvaI	CYCGRG	1 cut(s)	170
AvrII	CCTAGG	1 cut(s)	643
BaeGI	GKGCMC	1 cut(s)	240
BamHI	GGATCC	1 cut(s)	418
BanII	GRGCYC	1 cut(s)	545
BbsI	GAAGAC	1 cut(s)	442
BbvI	GCAGC	3 cut(s)	302, 567, 677
BccI	CCATC	3 cut(s)	109, 326, 604
BceAI	ACGGC	2 cut(s)	180, 256
BcgI	CGANNNNNNTGC	2 cut(s)	151, 185
BclI	TGATCA	1 cut(s)	279
BcnI	CCSGG	5 cut(s)	124, 230, 267, 389, 410
BfaI	CTAG	1 cut(s)	644
BfuAI	ACCTGC	1 cut(s)	476
BglI	GCCNNNNNGGC	2 cut(s)	164, 572
BisI	GCNGC	8 cut(s)	6, 9, 36, 289, 316, 438, 581, 666
BlnI	CCTAGG	1 cut(s)	643
BlpI	GCTNAGC	1 cut(s)	576
BlsI	GCNGC	8 cut(s)	7, 10, 37, 290, 317, 439, 582, 667
Bme1390I	CCNGG	5 cut(s)	124, 230, 267, 389, 410
BmeT110I	CYCGRG	1 cut(s)	170
BmgT120I	GGNCC	5 cut(s)	126, 150, 166, 382, 564
BmiI	GGNNCC	2 cut(s)	264, 420
BmrFI	CCNGG	5 cut(s)	124, 230, 267, 389, 410
BmrI	ACTGGG	1 cut(s)	380
BmsI	GCATC	4 cut(s)	20, 300, 352, 465
BmuI	ACTGGG	1 cut(s)	380
BpiI	GAAGAC	1 cut(s)	442
BplI	GAGNNNNNCTC	2 cut(s)	311, 343
Bpu1102I	GCTNAGC	1 cut(s)	576
BpuMI	CCSGG	5 cut(s)	124, 230, 267, 389, 410
BsaBI	GATNNNNATC	1 cut(s)	417
BsaJI	CCNNGG	1 cut(s)	643
Bsc4I	CCNNNNNNNGG	6 cut(s)	115, 147, 259, 395, 415, 550
Bse118I	RCCGGY	1 cut(s)	158
Bse1I	ACTGG	1 cut(s)	375
Bse3DI	GCAATG	1 cut(s)	660
Bse8I	GATNNNNATC	1 cut(s)	417
BseDI	CCNNGG	1 cut(s)	643
BseGI	GGATG	4 cut(s)	11, 297, 343, 367
BseJI	GATNNNNATC	1 cut(s)	417
BseLI	CCNNNNNNNGG	6 cut(s)	115, 147, 259, 395, 415, 550
BseMI	GCAATG	1 cut(s)	660
BseNI	ACTGG	1 cut(s)	375
BseSI	GKGCMC	1 cut(s)	240
BseX3I	CGGCCG	1 cut(s)	6
BseXI	GCAGC	3 cut(s)	302, 567, 677
BsgI	GTGCAG	1 cut(s)	609
Bsh1236I	CGCG	1 cut(s)	432
Bsh1285I	CGRYCG	1 cut(s)	9
BshFI	GGCC	6 cut(s)	8, 127, 152, 167, 384, 566
BsiEI	CGRYCG	1 cut(s)	9
BsiHKCI	CYCGRG	1 cut(s)	170
BsiSI	CCGG	6 cut(s)	124, 159, 229, 266, 389, 410
BslI	CCNNNNNNNGG	6 cut(s)	115, 147, 259, 395, 415, 550
BsnI	GGCC	6 cut(s)	8, 127, 152, 167, 384, 566
BsoBI	CYCGRG	1 cut(s)	170
Bsp1286I	GDGCHC	2 cut(s)	240, 545
Bsp143I	GATC	2 cut(s)	279, 418
Bsp1720I	GCTNAGC	1 cut(s)	576
BspACI	CCGC	9 cut(s)	5, 9, 21, 36, 156, 201, 288, 432, 437
BspANI	GGCC	6 cut(s)	8, 127, 152, 167, 384, 566
BspFNI	CGCG	1 cut(s)	432
BspHI	TCATGA	1 cut(s)	625
BspLI	GGNNCC	2 cut(s)	264, 420
BspMI	ACCTGC	1 cut(s)	476
BspPI	GGATC	2 cut(s)	413, 426
BsrDI	GCAATG	1 cut(s)	660
BsrFI	RCCGGY	1 cut(s)	158
BsrI	ACTGG	1 cut(s)	375
BssAI	RCCGGY	1 cut(s)	158
BssECI	CCNNGG	1 cut(s)	643
BssMI	GATC	2 cut(s)	279, 418
BssT1I	CCWWGG	1 cut(s)	643
Bst4CI	ACNGT	2 cut(s)	353, 676
Bst6I	CTCTTC	2 cut(s)	31, 97
BstC8I	GCNNGC	1 cut(s)	160
BstDEI	CTNAG	1 cut(s)	576
BstF5I	GGATG	4 cut(s)	11, 297, 343, 367
BstFNI	CGCG	1 cut(s)	432
BstHHI	GCGC	1 cut(s)	432
BstKTI	GATC	2 cut(s)	282, 421
BstMBI	GATC	2 cut(s)	279, 418
BstMCI	CGRYCG	1 cut(s)	9
BstMWI	GCNNNNNNNGC	2 cut(s)	164, 572
BstSCI	CCNGG	5 cut(s)	122, 228, 265, 387, 408
BstSLI	GKGCMC	1 cut(s)	240
BstUI	CGCG	1 cut(s)	432
BstV1I	GCAGC	3 cut(s)	302, 567, 677
BstV2I	GAAGAC	1 cut(s)	442
BstX2I	RGATCY	1 cut(s)	418
BstYI	RGATCY	1 cut(s)	418
BstZI	CGGCCG	1 cut(s)	6
BsuRI	GGCC	6 cut(s)	8, 127, 152, 167, 384, 566
BtsCI	GGATG	4 cut(s)	11, 297, 343, 367
BtsIMutI	CAGTG	2 cut(s)	349, 681
BveI	ACCTGC	1 cut(s)	476
Cac8I	GCNNGC	1 cut(s)	160
CciI	TCATGA	1 cut(s)	625
CciNI	GCGGCCGC	1 cut(s)	6
CfoI	GCGC	1 cut(s)	432
Cfr10I	RCCGGY	1 cut(s)	158
Cfr13I	GGNCC	5 cut(s)	126, 150, 166, 382, 564
CseI	GACGC	1 cut(s)	518
CviAII	CATG	2 cut(s)	479, 626
DdeI	CTNAG	1 cut(s)	576
DpnI	GATC	2 cut(s)	281, 420
DpnII	GATC	2 cut(s)	279, 418
DraIII	CACNNNGTG	2 cut(s)	355, 676
EaeI	YGGCCR	1 cut(s)	6
EagI	CGGCCG	1 cut(s)	6
Eam1104I	CTCTTC	2 cut(s)	31, 97
EarI	CTCTTC	2 cut(s)	31, 97
EciI	GGCGGA	3 cut(s)	10, 145, 190
EclXI	CGGCCG	1 cut(s)	6
Eco130I	CCWWGG	1 cut(s)	643
Eco24I	GRGCYC	1 cut(s)	545
Eco32I	GATATC	1 cut(s)	394
Eco52I	CGGCCG	1 cut(s)	6
Eco57I	CTGAAG	1 cut(s)	12
Eco88I	CYCGRG	1 cut(s)	170
EcoRV	GATATC	1 cut(s)	394
EcoT14I	CCWWGG	1 cut(s)	643
EcoT22I	ATGCAT	1 cut(s)	480
EcoT38I	GRGCYC	1 cut(s)	545
ErhI	CCWWGG	1 cut(s)	643
FaeI	CATG	2 cut(s)	482, 629
FaiI	YATR	8 cut(s)	143, 368, 480, 492, 549, 560, 627, 689
FatI	CATG	2 cut(s)	478, 625
FbaI	TGATCA	1 cut(s)	279
FblI	GTMKAC	2 cut(s)	177, 636
Fnu4HI	GCNGC	8 cut(s)	6, 9, 36, 289, 316, 438, 581, 666
FokI	GGATG	3 cut(s)	284, 350, 374
FriOI	GRGCYC	1 cut(s)	545
Fsp4HI	GCNGC	8 cut(s)	6, 9, 36, 289, 316, 438, 581, 666
FspBI	CTAG	1 cut(s)	644
GlaI	GCGC	1 cut(s)	431
GluI	GCNGC	8 cut(s)	6, 9, 36, 289, 316, 438, 581, 666
HaeIII	GGCC	6 cut(s)	8, 127, 152, 167, 384, 566
HapII	CCGG	6 cut(s)	124, 159, 229, 266, 389, 410
HgaI	GACGC	1 cut(s)	518
HhaI	GCGC	1 cut(s)	432
Hin1II	CATG	2 cut(s)	482, 629
Hin6I	GCGC	1 cut(s)	430
HinP1I	GCGC	1 cut(s)	430
HincII	GTYRAC	2 cut(s)	178, 637
HindII	GTYRAC	2 cut(s)	178, 637
HinfI	GANTC	4 cut(s)	413, 520, 607, 622
HpaII	CCGG	6 cut(s)	124, 159, 229, 266, 389, 410
Hpy166II	GTNNAC	2 cut(s)	178, 637
Hpy188I	TCNGA	5 cut(s)	110, 279, 331, 418, 612
Hpy188III	TCNNGA	2 cut(s)	305, 626
Hpy8I	GTNNAC	2 cut(s)	178, 637
HpyAV	CCTTC	1 cut(s)	625
HpyCH4III	ACNGT	2 cut(s)	353, 676
HpyCH4V	TGCA	3 cut(s)	478, 590, 665
HpyF10VI	GCNNNNNNNGC	2 cut(s)	164, 572
HpyF3I	CTNAG	1 cut(s)	576
Hsp92II	CATG	2 cut(s)	482, 629
HspAI	GCGC	1 cut(s)	430
KroI	GCCGGC	1 cut(s)	158
KroNI	GCCGGC	1 cut(s)	160
Ksp22I	TGATCA	1 cut(s)	279
Kzo9I	GATC	2 cut(s)	279, 418
LmnI	GCTCC	2 cut(s)	262, 374
Lsp1109I	GCAGC	3 cut(s)	302, 567, 677
LweI	GCATC	4 cut(s)	20, 300, 352, 465
MaeI	CTAG	1 cut(s)	644
MalI	GATC	2 cut(s)	281, 420
MboI	GATC	2 cut(s)	279, 418
MboII	GAAGA	6 cut(s)	18, 84, 87, 442, 515, 674
MflI	RGATCY	1 cut(s)	418
MhlI	GDGCHC	2 cut(s)	240, 545
MluCI	AATT	4 cut(s)	470, 495, 502, 536
MlyI	GAGTC	1 cut(s)	616
Mph1103I	ATGCAT	1 cut(s)	480
MroNI	GCCGGC	1 cut(s)	158
MslI	CAYNNNNRTG	1 cut(s)	330
MspI	CCGG	6 cut(s)	124, 159, 229, 266, 389, 410
MspR9I	CCNGG	5 cut(s)	124, 230, 267, 389, 410
MvnI	CGCG	1 cut(s)	432
MwoI	GCNNNNNNNGC	2 cut(s)	164, 572
NaeI	GCCGGC	1 cut(s)	160
NciI	CCSGG	5 cut(s)	124, 230, 267, 389, 410
NdeII	GATC	2 cut(s)	279, 418
NgoMIV	GCCGGC	1 cut(s)	158
NlaIII	CATG	2 cut(s)	482, 629
NlaIV	GGNNCC	2 cut(s)	264, 420
NotI	GCGGCCGC	1 cut(s)	6
NsiI	ATGCAT	1 cut(s)	480
PaeR7I	CTCGAG	1 cut(s)	170
PagI	TCATGA	1 cut(s)	625
PcsI	WCGNNNNNNNCGW	1 cut(s)	291
PdiI	GCCGGC	1 cut(s)	160
PfeI	GAWTC	3 cut(s)	413, 520, 607
PflMI	CCANNNNNTGG	2 cut(s)	147, 259
PfoI	TCCNGGA	2 cut(s)	387, 408
PkrI	GCNGC	8 cut(s)	7, 10, 37, 290, 317, 439, 582, 667
PleI	GAGTC	1 cut(s)	616
PpsI	GAGTC	1 cut(s)	616
PspN4I	GGNNCC	2 cut(s)	264, 420
PspPI	GGNCC	5 cut(s)	126, 150, 166, 382, 564
PspXI	VCTCGAGB	1 cut(s)	170
PsuI	RGATCY	1 cut(s)	418
RseI	CAYNNNNRTG	1 cut(s)	330
SalI	GTCGAC	2 cut(s)	176, 635
SatI	GCNGC	8 cut(s)	6, 9, 36, 289, 316, 438, 581, 666
Sau3AI	GATC	2 cut(s)	279, 418
Sau96I	GGNCC	5 cut(s)	126, 150, 166, 382, 564
SchI	GAGTC	1 cut(s)	616
ScrFI	CCNGG	5 cut(s)	124, 230, 267, 389, 410
SduI	GDGCHC	2 cut(s)	240, 545
SfaNI	GCATC	4 cut(s)	20, 300, 352, 465
Sfr274I	CTCGAG	1 cut(s)	170
SlaI	CTCGAG	1 cut(s)	170
SmiMI	CAYNNNNRTG	1 cut(s)	330
SmlI	CTYRAG	1 cut(s)	170
SmoI	CTYRAG	1 cut(s)	170
Sse9I	AATT	4 cut(s)	470, 495, 502, 536
SsiI	CCGC	9 cut(s)	5, 9, 21, 36, 156, 201, 288, 432, 437
SspMI	CTAG	1 cut(s)	644
StyD4I	CCNGG	5 cut(s)	122, 228, 265, 387, 408
StyI	CCWWGG	1 cut(s)	643
TaaI	ACNGT	2 cut(s)	353, 676
TaqI	TCGA	5 cut(s)	171, 177, 246, 294, 636
TaqII	GACCGA	1 cut(s)	547
TasI	AATT	4 cut(s)	470, 495, 502, 536
TauI	GCSGC	5 cut(s)	8, 11, 38, 291, 440
TfiI	GAWTC	3 cut(s)	413, 520, 607
TscAI	CASTG	2 cut(s)	356, 681
TseI	GCWGC	3 cut(s)	315, 580, 665
TspDTI	ATGAA	3 cut(s)	442, 495, 507
TspRI	CASTG	2 cut(s)	356, 681
Van91I	CCANNNNNTGG	2 cut(s)	147, 259
XapI	RAATTY	1 cut(s)	502
XhoI	CTCGAG	1 cut(s)	170
XmaJI	CCTAGG	1 cut(s)	643
XmiI	GTMKAC	2 cut(s)	177, 636
XspI	CTAG	1 cut(s)	644
Zsp2I	ATGCAT	1 cut(s)	480

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