Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0016504

Physical Location & Seq

Genomic Coordinates Reverse (-)

6869107 .. 6872507

Gene Structure 3401 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016466

Sequence Viewer

CDS Protein Promoter (2k)

Length: 753 bp

ATGGAAGGACCAGGAGCAGCCACGGCGCCGCAGCTCAGCCCGCGCACCGTTGAAGAGGTTTTCAGGGACTTCAAGTGCCGGAGAGCCGGCATAGTCAAAGCTCTCACTACCGATGTTGGTGAATTTTACGAGCAATGCGATCCTGAGAAGGAGAATCTTTGTTTGTATGGACTGCCTAATGAAGACTGGGAAGTTAATCTACCTGCTGAAGAAGTTCCTCCAGAGCTTCCTGAACCTGCGTTGGGCATCAACTTTGCCAGAGATGGGATGAAAGAAAAGGACTGGTTGTCTCTGGTTGCAGTTCACAGTGATGCATGGTTACTTGGAGTGGCTTTCTATTTTGGTGCCAGATTCGGTTTTGACAGGGCTGACAGTGATTACCTTAAAAATTTAATTGTTTCTAGGTTAGTCCCTAATGCTTTGTGCTTGGTTTGTGTTATGTGGCTTAGTAATGATGATCATCATTCTATTCATACATTCCCTTATATACATCGAGGCTCTGAACCAGGCAAATATTCAAAAATGCTGCCAAAGGACGAGGATGAGGGACTGGATGAGGAAGATGATGAGGAGCATGGGGAAACTATGTGCGGTGCCTGTGGGGAGAGCTATGCTGCAGATGAATTCTGGATTTGTTGCGACATTTGTGAGAAGTGGTTCCATGGAAAATGTGTGAAGATAACTCCTGCCAGAGCTGAGCACATCAAGCATTACAAGTGCCCTGCATGCAGCAACAAGAGAATGCGGCCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003714 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009889 GO:0009890 GO:0009892 GO:0010035 GO:0010556 GO:0010558 GO:0010605 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Alfin PHD

Protein Analysis

251

Amino Acids

28.31

Weight (kDa)

4.87

Isoelectric Point (pI)

49.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alfin	PF12165	16 - 132	1.5e-58	Alfin
PHD	PF00628	197 - 243	8.3e-09	PHD-finger

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: OG0016504)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26210
fragaria_vesca	FvH4_1g08141
malus_domestica	MD02G1086000.v1.1
prunus_persica	Prupe.7G203700_v2.0.a1 Prupe.7G203700_v2.0.a1
pyrus_communis	pycom02g06920 pycom15g18960
rosa_chinensis	RchiOBHm_Chr2g0094211
rosa_laevigata	RLG00000016466
rosa_multiflora	Rmu_sc0002193.1_g000007 Rmu_ssc0000070.1_g000008
rosa_roxburghii	Rroxscaffold_2G00147370
rosa_rugosa	Rorug02G0041800
rosa_samantha	Rh2BG089700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	211, 244
AccB1I	GGYRCC	3 cut(s)	25, 344, 593
AccII	CGCG	1 cut(s)	43
AciI	CCGC	4 cut(s)	29, 41, 591, 745
AclWI	GGATC	1 cut(s)	134
AcsI	RAATTY	3 cut(s)	122, 388, 623
AcuI	CTGAAG	1 cut(s)	228
AcyI	GRCGYC	1 cut(s)	26
AfiI	CCNNNNNNNGG	2 cut(s)	242, 264
AgsI	TTSAA	3 cut(s)	53, 73, 519
AhdI	GACNNNNNGTC	1 cut(s)	286
AjnI	CCWGG	2 cut(s)	10, 505
AluBI	AGCT	5 cut(s)	34, 101, 226, 609, 695
AluI	AGCT	5 cut(s)	34, 101, 226, 609, 695
Alw21I	GWGCWC	1 cut(s)	702
Alw26I	GTCTC	1 cut(s)	294
AlwI	GGATC	1 cut(s)	134
AoxI	GGCC	1 cut(s)	746
ApeKI	GCWGC	5 cut(s)	17, 31, 526, 614, 729
ApoI	RAATTY	3 cut(s)	122, 388, 623
Asp700I	GAANNNNTTC	2 cut(s)	213, 656
AspLEI	GCGC	2 cut(s)	28, 45
AspS9I	GGNCC	1 cut(s)	8
AsuHPI	GGTGA	1 cut(s)	131
AvaII	GGWCC	1 cut(s)	8
BaeGI	GKGCMC	1 cut(s)	722
BanI	GGYRCC	3 cut(s)	25, 344, 593
BarI	GAAGNNNNNNTAC	2 cut(s)	183, 215
BbsI	GAAGAC	1 cut(s)	189
Bbv12I	GWGCWC	1 cut(s)	702
BbvI	GCAGC	5 cut(s)	29, 43, 513, 601, 741
BccI	CCATC	1 cut(s)	257
BceAI	ACGGC	1 cut(s)	39
BciT130I	CCWGG	2 cut(s)	12, 507
BclI	TGATCA	1 cut(s)	457
BcoDI	GTCTC	1 cut(s)	294
BfaI	CTAG	1 cut(s)	402
BfmI	CTRYAG	1 cut(s)	615
BfoI	RGCGCY	1 cut(s)	29
BfuAI	ACCTGC	2 cut(s)	211, 244
BisI	GCNGC	7 cut(s)	18, 29, 32, 527, 615, 730, 746
BlpI	GCTNAGC	2 cut(s)	35, 696
BlsI	GCNGC	7 cut(s)	19, 30, 33, 528, 616, 731, 747
Bme1390I	CCNGG	2 cut(s)	12, 507
Bme18I	GGWCC	1 cut(s)	8
BmeRI	GACNNNNNGTC	1 cut(s)	286
BmgT120I	GGNCC	1 cut(s)	8
BmiI	GGNNCC	4 cut(s)	27, 346, 595, 659
BmrFI	CCNGG	2 cut(s)	12, 507
BmrI	ACTGGG	1 cut(s)	196
BmsI	GCATC	2 cut(s)	255, 301
BmuI	ACTGGG	1 cut(s)	196
BpiI	GAAGAC	1 cut(s)	189
BpmI	CTGGAG	1 cut(s)	204
Bpu1102I	GCTNAGC	2 cut(s)	35, 696
BsaBI	GATNNNNATC	1 cut(s)	459
BsaHI	GRCGYC	1 cut(s)	26
BsaJI	CCNNGG	2 cut(s)	21, 661
Bsc4I	CCNNNNNNNGG	2 cut(s)	242, 264
Bse118I	RCCGGY	1 cut(s)	86
Bse1I	ACTGG	3 cut(s)	191, 287, 555
Bse3DI	GCAATG	1 cut(s)	140
Bse8I	GATNNNNATC	1 cut(s)	459
BseBI	CCWGG	2 cut(s)	12, 507
BseDI	CCNNGG	2 cut(s)	21, 661
BseGI	GGATG	3 cut(s)	273, 547, 559
BseJI	GATNNNNATC	1 cut(s)	459
BseLI	CCNNNNNNNGG	2 cut(s)	242, 264
BseMI	GCAATG	1 cut(s)	140
BseMII	CTCAG	3 cut(s)	49, 135, 687
BseNI	ACTGG	3 cut(s)	191, 287, 555
BseRI	GAGGAG	1 cut(s)	584
BseSI	GKGCMC	1 cut(s)	722
BseXI	GCAGC	5 cut(s)	29, 43, 513, 601, 741
Bsh1236I	CGCG	1 cut(s)	43
BshFI	GGCC	1 cut(s)	748
BshNI	GGYRCC	3 cut(s)	25, 344, 593
BsiHKAI	GWGCWC	1 cut(s)	702
BsiSI	CCGG	2 cut(s)	79, 87
BslFI	GGGAC	3 cut(s)	80, 395, 561
BslI	CCNNNNNNNGG	2 cut(s)	242, 264
BsmAI	GTCTC	1 cut(s)	294
BsmFI	GGGAC	3 cut(s)	80, 395, 561
BsmI	GAATGC	1 cut(s)	747
BsnI	GGCC	1 cut(s)	748
Bsp1286I	GDGCHC	2 cut(s)	702, 722
Bsp143I	GATC	2 cut(s)	139, 457
Bsp1720I	GCTNAGC	2 cut(s)	35, 696
Bsp19I	CCATGG	1 cut(s)	661
BspACI	CCGC	4 cut(s)	29, 41, 591, 745
BspANI	GGCC	1 cut(s)	748
BspCNI	CTCAG	3 cut(s)	48, 136, 688
BspFNI	CGCG	1 cut(s)	43
BspLI	GGNNCC	4 cut(s)	27, 346, 595, 659
BspMAI	CTGCAG	1 cut(s)	619
BspMI	ACCTGC	2 cut(s)	211, 244
BspPI	GGATC	1 cut(s)	134
BspT107I	GGYRCC	3 cut(s)	25, 344, 593
BsrDI	GCAATG	1 cut(s)	140
BsrFI	RCCGGY	1 cut(s)	86
BsrI	ACTGG	3 cut(s)	191, 287, 555
BssAI	RCCGGY	1 cut(s)	86
BssECI	CCNNGG	2 cut(s)	21, 661
BssMI	GATC	2 cut(s)	139, 457
BssNI	GRCGYC	1 cut(s)	26
BssT1I	CCWWGG	1 cut(s)	661
Bst2UI	CCWGG	2 cut(s)	12, 507
Bst4CI	ACNGT	3 cut(s)	49, 308, 374
Bst6I	CTCTTC	1 cut(s)	48
BstACI	GRCGYC	1 cut(s)	26
BstC8I	GCNNGC	3 cut(s)	41, 88, 727
BstDEI	CTNAG	4 cut(s)	35, 144, 446, 696
BstDSI	CCRYGG	2 cut(s)	21, 661
BstF5I	GGATG	3 cut(s)	273, 547, 559
BstFNI	CGCG	1 cut(s)	43
BstH2I	RGCGCY	1 cut(s)	29
BstHHI	GCGC	2 cut(s)	28, 45
BstKTI	GATC	2 cut(s)	142, 460
BstMAI	GTCTC	1 cut(s)	294
BstMBI	GATC	2 cut(s)	139, 457
BstMWI	GCNNNNNNNGC	4 cut(s)	23, 40, 706, 726
BstNI	CCWGG	2 cut(s)	12, 507
BstNSI	RCATGY	1 cut(s)	729
BstSCI	CCNGG	2 cut(s)	10, 505
BstSFI	CTRYAG	1 cut(s)	615
BstSLI	GKGCMC	1 cut(s)	722
BstUI	CGCG	1 cut(s)	43
BstV1I	GCAGC	5 cut(s)	29, 43, 513, 601, 741
BstV2I	GAAGAC	1 cut(s)	189
BsuRI	GGCC	1 cut(s)	748
BtgI	CCRYGG	2 cut(s)	21, 661
BtsCI	GGATG	3 cut(s)	273, 547, 559
BtsIMutI	CAGTG	2 cut(s)	313, 379
BveI	ACCTGC	2 cut(s)	211, 244
Cac8I	GCNNGC	3 cut(s)	41, 88, 727
CfoI	GCGC	2 cut(s)	28, 45
Cfr10I	RCCGGY	1 cut(s)	86
Cfr13I	GGNCC	1 cut(s)	8
CviAII	CATG	4 cut(s)	315, 575, 662, 726
DdeI	CTNAG	4 cut(s)	35, 144, 446, 696
DinI	GGCGCC	1 cut(s)	27
DpnI	GATC	2 cut(s)	141, 459
DpnII	GATC	2 cut(s)	139, 457
DriI	GACNNNNNGTC	1 cut(s)	286
Eam1104I	CTCTTC	1 cut(s)	48
Eam1105I	GACNNNNNGTC	1 cut(s)	286
EarI	CTCTTC	1 cut(s)	48
Eco130I	CCWWGG	1 cut(s)	661
Eco47I	GGWCC	1 cut(s)	8
Eco57I	CTGAAG	1 cut(s)	228
EcoRI	GAATTC	1 cut(s)	623
EcoRII	CCWGG	2 cut(s)	10, 505
EcoT14I	CCWWGG	1 cut(s)	661
EcoT22I	ATGCAT	1 cut(s)	316
EgeI	GGCGCC	1 cut(s)	27
EheI	GGCGCC	1 cut(s)	27
ErhI	CCWWGG	1 cut(s)	661
FaeI	CATG	4 cut(s)	318, 578, 665, 729
FaqI	GGGAC	3 cut(s)	80, 395, 561
FatI	CATG	4 cut(s)	314, 574, 661, 725
FauI	CCCGC	1 cut(s)	48
FbaI	TGATCA	1 cut(s)	457
Fnu4HI	GCNGC	7 cut(s)	18, 29, 32, 527, 615, 730, 746
FokI	GGATG	3 cut(s)	280, 554, 566
Fsp4HI	GCNGC	7 cut(s)	18, 29, 32, 527, 615, 730, 746
FspBI	CTAG	1 cut(s)	402
GlaI	GCGC	2 cut(s)	27, 44
GluI	GCNGC	7 cut(s)	18, 29, 32, 527, 615, 730, 746
GsuI	CTGGAG	1 cut(s)	204
HaeII	RGCGCY	1 cut(s)	29
HaeIII	GGCC	1 cut(s)	748
HapII	CCGG	2 cut(s)	79, 87
HhaI	GCGC	2 cut(s)	28, 45
Hin1I	GRCGYC	1 cut(s)	26
Hin1II	CATG	4 cut(s)	318, 578, 665, 729
Hin6I	GCGC	2 cut(s)	26, 43
HinP1I	GCGC	2 cut(s)	26, 43
HinfI	GANTC	2 cut(s)	154, 351
HpaII	CCGG	2 cut(s)	79, 87
HphI	GGTGA	1 cut(s)	131
Hpy166II	GTNNAC	1 cut(s)	304
Hpy188I	TCNGA	1 cut(s)	502
Hpy188III	TCNNGA	4 cut(s)	143, 221, 230, 628
Hpy8I	GTNNAC	1 cut(s)	304
HpyAV	CCTTC	1 cut(s)	142
HpyCH4III	ACNGT	3 cut(s)	49, 308, 374
HpyCH4V	TGCA	5 cut(s)	299, 314, 617, 725, 729
HpyF10VI	GCNNNNNNNGC	4 cut(s)	23, 40, 706, 726
HpyF3I	CTNAG	4 cut(s)	35, 144, 446, 696
Hsp92I	GRCGYC	1 cut(s)	26
Hsp92II	CATG	4 cut(s)	318, 578, 665, 729
HspAI	GCGC	2 cut(s)	26, 43
KasI	GGCGCC	1 cut(s)	25
KroI	GCCGGC	1 cut(s)	86
KroNI	GCCGGC	1 cut(s)	88
Ksp22I	TGATCA	1 cut(s)	457
Kzo9I	GATC	2 cut(s)	139, 457
LmnI	GCTCC	2 cut(s)	14, 571
Lsp1109I	GCAGC	5 cut(s)	29, 43, 513, 601, 741
LweI	GCATC	2 cut(s)	255, 301
MaeI	CTAG	1 cut(s)	402
MaeIII	GTNAC	1 cut(s)	318
MalI	GATC	2 cut(s)	141, 459
MboI	GATC	2 cut(s)	139, 457
MboII	GAAGA	5 cut(s)	65, 194, 221, 572, 688
MhlI	GDGCHC	2 cut(s)	702, 722
MluCI	AATT	4 cut(s)	122, 388, 393, 623
Mly113I	GGCGCC	1 cut(s)	26
MnlI	CCTC	7 cut(s)	49, 228, 488, 532, 538, 550, 562
Mph1103I	ATGCAT	1 cut(s)	316
MroNI	GCCGGC	1 cut(s)	86
MroXI	GAANNNNTTC	2 cut(s)	213, 656
MseI	TTAA	3 cut(s)	195, 384, 392
MslI	CAYNNNNRTG	1 cut(s)	309
MspI	CCGG	2 cut(s)	79, 87
MspR9I	CCNGG	2 cut(s)	12, 507
Mva1269I	GAATGC	1 cut(s)	747
MvaI	CCWGG	2 cut(s)	12, 507
MvnI	CGCG	1 cut(s)	43
MwoI	GCNNNNNNNGC	4 cut(s)	23, 40, 706, 726
NaeI	GCCGGC	1 cut(s)	88
NarI	GGCGCC	1 cut(s)	26
NcoI	CCATGG	1 cut(s)	661
NdeII	GATC	2 cut(s)	139, 457
NgoMIV	GCCGGC	1 cut(s)	86
NlaIII	CATG	4 cut(s)	318, 578, 665, 729
NlaIV	GGNNCC	4 cut(s)	27, 346, 595, 659
NsiI	ATGCAT	1 cut(s)	316
NspI	RCATGY	1 cut(s)	729
PaeI	GCATGC	1 cut(s)	729
PcsI	WCGNNNNNNNCGW	1 cut(s)	135
PctI	GAATGC	1 cut(s)	747
PdiI	GCCGGC	1 cut(s)	88
PdmI	GAANNNNTTC	2 cut(s)	213, 656
PfeI	GAWTC	2 cut(s)	154, 351
PkrI	GCNGC	7 cut(s)	19, 30, 33, 528, 616, 731, 747
PluTI	GGCGCC	1 cut(s)	29
Psp6I	CCWGG	2 cut(s)	10, 505
PspGI	CCWGG	2 cut(s)	10, 505
PspN4I	GGNNCC	4 cut(s)	27, 346, 595, 659
PspPI	GGNCC	1 cut(s)	8
PstI	CTGCAG	1 cut(s)	619
RseI	CAYNNNNRTG	1 cut(s)	309
SaqAI	TTAA	3 cut(s)	195, 384, 392
SatI	GCNGC	7 cut(s)	18, 29, 32, 527, 615, 730, 746
Sau3AI	GATC	2 cut(s)	139, 457
Sau96I	GGNCC	1 cut(s)	8
ScrFI	CCNGG	2 cut(s)	12, 507
SduI	GDGCHC	2 cut(s)	702, 722
SfaNI	GCATC	2 cut(s)	255, 301
SfcI	CTRYAG	1 cut(s)	615
SfoI	GGCGCC	1 cut(s)	27
SinI	GGWCC	1 cut(s)	8
SmiMI	CAYNNNNRTG	1 cut(s)	309
SphI	GCATGC	1 cut(s)	729
Sse9I	AATT	4 cut(s)	122, 388, 393, 623
SsiI	CCGC	4 cut(s)	29, 41, 591, 745
SspDI	GGCGCC	1 cut(s)	25
SspI	AATATT	1 cut(s)	515
SspMI	CTAG	1 cut(s)	402
StyD4I	CCNGG	2 cut(s)	10, 505
StyI	CCWWGG	1 cut(s)	661
TaaI	ACNGT	3 cut(s)	49, 308, 374
TaqI	TCGA	1 cut(s)	493
TasI	AATT	4 cut(s)	122, 388, 393, 623
TauI	GCSGC	2 cut(s)	31, 748
TfiI	GAWTC	2 cut(s)	154, 351
Tru1I	TTAA	3 cut(s)	195, 384, 392
Tru9I	TTAA	3 cut(s)	195, 384, 392
TscAI	CASTG	2 cut(s)	313, 379
TseI	GCWGC	5 cut(s)	17, 31, 526, 614, 729
TspDTI	ATGAA	4 cut(s)	195, 284, 461, 636
TspRI	CASTG	2 cut(s)	313, 379
VpaK11BI	GGWCC	1 cut(s)	8
XapI	RAATTY	3 cut(s)	122, 388, 623
XceI	RCATGY	1 cut(s)	729
XmnI	GAANNNNTTC	2 cut(s)	213, 656
XspI	CTAG	1 cut(s)	402
Zsp2I	ATGCAT	1 cut(s)	316

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