Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0018353

Physical Location & Seq

Genomic Coordinates Reverse (-)

19490926 .. 19491324

Gene Structure 399 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000017652

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGGAGGGAGAGTGCCACCAGCCGCAAAAATGGACGGCGGAGGAGGAAGAAGCCCTATTAGCTGGAGTAGCAAAGCACGGAGTGGGCAAGTGGAAGATCATTCTTGAAGATTCCGAGTTTGGCCCTATACTCACTCATCGCTCCAACCACAAACTCAGGTATAAGTGGAGGCGCTGGAGTGTTAGACCTTCTGGAAACTCACTGTTTATGGCTGATGAAGCAGCCAAGGAGGCCCAGAGAGTTTCAGACACCGAGGAGGAACAGATAGTTTCGGAGATGAAGGAGATACGGGGAATTTCGGAGACAAAGGAGATGCAGAGAATTTCGAAGTCTACAGAAGACACCGAGTCAATGCTACAGCTAGCCAATGAGATTTATGAACGATGTTCAAGAGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000723 GO:0000781 GO:0000784 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003691 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0006996 GO:0008150 GO:0008152 GO:0009628 GO:0009651 GO:0009719 GO:0009723 GO:0009725 GO:0009733 GO:0009751 GO:0009753 GO:0009889 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010468 GO:0010556 GO:0014070 GO:0016043 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0031627 GO:0031974 GO:0031981 GO:0032200 GO:0034641 GO:0042162 GO:0042221 GO:0042493 GO:0042592 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0046677 GO:0046686 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051276 GO:0060249 GO:0060255 GO:0065007 GO:0065008 GO:0070013 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0098687 GO:0140110 GO:1901360 GO:1901363 GO:1901700 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Linker_histone Myb_DNA-bind_6 Myb_DNA-binding

Protein Analysis

133

Amino Acids

15.27

Weight (kDa)

5.47

Isoelectric Point (pI)

63.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	9 - 59	1.2e-08	Myb-like DNA-binding domain
HTH_CHD1_Hrp3	PF23588	10 - 41	5.8e-06	ATP-dependent helicase CHD1-2/hrp3 HTH domain
Myb_DNA-bind_6	PF13921	11 - 63	1.1e-06	Myb-like DNA-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0018353)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g17811
rosa_laevigata	RLG00000017652
rosa_multiflora	Rmu_sc0007406.1_g000005 Rmu_sc0013358.1_g000004
rosa_roxburghii	Rroxscaffold_2G00135430
rosa_rugosa	Rorug02G0151800
rosa_samantha	Rh2AG200200 Rh2BG212900 Rh2CG204900 Rh2DG207800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	332
AciI	CCGC	2 cut(s)	23, 38
AcsI	RAATTY	2 cut(s)	294, 321
AdeI	CACNNNGTG	1 cut(s)	82
AgsI	TTSAA	2 cut(s)	107, 390
AhdI	GACNNNNNGTC	1 cut(s)	346
AluBI	AGCT	2 cut(s)	62, 361
AluI	AGCT	2 cut(s)	62, 361
Alw26I	GTCTC	1 cut(s)	296
AoxI	GGCC	2 cut(s)	121, 231
ApeKI	GCWGC	1 cut(s)	221
ApoI	RAATTY	2 cut(s)	294, 321
AspLEI	GCGC	1 cut(s)	174
AspS9I	GGNCC	2 cut(s)	122, 232
AsuII	TTCGAA	1 cut(s)	326
AsuNHI	GCTAGC	1 cut(s)	361
BbsI	GAAGAC	1 cut(s)	345
BbvI	GCAGC	1 cut(s)	233
BceAI	ACGGC	1 cut(s)	51
BcoDI	GTCTC	1 cut(s)	296
BfaI	CTAG	1 cut(s)	362
BfmI	CTRYAG	2 cut(s)	333, 356
BfoI	RGCGCY	1 cut(s)	175
BglI	GCCNNNNNGGC	1 cut(s)	230
BisI	GCNGC	2 cut(s)	23, 222
BlsI	GCNGC	2 cut(s)	24, 223
BmeRI	GACNNNNNGTC	1 cut(s)	346
BmgT120I	GGNCC	2 cut(s)	122, 232
BmsI	GCATC	1 cut(s)	303
BmtI	GCTAGC	1 cut(s)	365
BpiI	GAAGAC	1 cut(s)	345
BpmI	CTGGAG	2 cut(s)	84, 196
Bpu14I	TTCGAA	1 cut(s)	326
BsaJI	CCNNGG	2 cut(s)	225, 252
BsaXI	ACNNNNNCTCC	1 cut(s)	26
BseDI	CCNNGG	2 cut(s)	225, 252
BseMII	CTCAG	1 cut(s)	169
BseRI	GAGGAG	2 cut(s)	56, 269
BseXI	GCAGC	1 cut(s)	233
BshFI	GGCC	2 cut(s)	123, 233
BsmAI	GTCTC	1 cut(s)	296
BsnI	GGCC	2 cut(s)	123, 233
Bsp119I	TTCGAA	1 cut(s)	326
Bsp143I	GATC	1 cut(s)	96
BspACI	CCGC	2 cut(s)	23, 38
BspANI	GGCC	2 cut(s)	123, 233
BspCNI	CTCAG	1 cut(s)	168
BspOI	GCTAGC	1 cut(s)	365
BspT104I	TTCGAA	1 cut(s)	326
BssECI	CCNNGG	2 cut(s)	225, 252
BssMI	GATC	1 cut(s)	96
BssT1I	CCWWGG	1 cut(s)	225
Bst4CI	ACNGT	1 cut(s)	204
BstBI	TTCGAA	1 cut(s)	326
BstC8I	GCNNGC	1 cut(s)	363
BstDEI	CTNAG	1 cut(s)	155
BstH2I	RGCGCY	1 cut(s)	175
BstHHI	GCGC	1 cut(s)	174
BstKTI	GATC	1 cut(s)	99
BstMAI	GTCTC	1 cut(s)	296
BstMBI	GATC	1 cut(s)	96
BstMWI	GCNNNNNNNGC	4 cut(s)	59, 68, 218, 230
BstSFI	CTRYAG	2 cut(s)	333, 356
BstV1I	GCAGC	1 cut(s)	233
BstV2I	GAAGAC	1 cut(s)	345
BsuRI	GGCC	2 cut(s)	123, 233
BtgZI	GCGATG	1 cut(s)	122
BtsIMutI	CAGTG	1 cut(s)	200
Cac8I	GCNNGC	1 cut(s)	363
CfoI	GCGC	1 cut(s)	174
Cfr13I	GGNCC	2 cut(s)	122, 232
CviJI	RGCY	9 cut(s)	22, 53, 62, 123, 212, 224, 233, 361, 365
CviKI_1	RGCY	9 cut(s)	22, 53, 62, 123, 212, 224, 233, 361, 365
DdeI	CTNAG	1 cut(s)	155
DpnI	GATC	1 cut(s)	98
DpnII	GATC	1 cut(s)	96
DraIII	CACNNNGTG	1 cut(s)	82
DriI	GACNNNNNGTC	1 cut(s)	346
Eam1105I	GACNNNNNGTC	1 cut(s)	346
EciI	GGCGGA	1 cut(s)	53
Eco130I	CCWWGG	1 cut(s)	225
EcoT14I	CCWWGG	1 cut(s)	225
ErhI	CCWWGG	1 cut(s)	225
FaiI	YATR	4 cut(s)	128, 162, 209, 378
FblI	GTMKAC	1 cut(s)	332
Fnu4HI	GCNGC	2 cut(s)	23, 222
Fsp4HI	GCNGC	2 cut(s)	23, 222
FspBI	CTAG	1 cut(s)	362
GlaI	GCGC	1 cut(s)	173
GluI	GCNGC	2 cut(s)	23, 222
GsuI	CTGGAG	2 cut(s)	84, 196
HaeII	RGCGCY	1 cut(s)	175
HaeIII	GGCC	2 cut(s)	123, 233
HhaI	GCGC	1 cut(s)	174
Hin6I	GCGC	1 cut(s)	172
HinP1I	GCGC	1 cut(s)	172
HinfI	GANTC	2 cut(s)	110, 347
Hpy166II	GTNNAC	1 cut(s)	333
Hpy188I	TCNGA	4 cut(s)	115, 247, 274, 301
Hpy188III	TCNNGA	3 cut(s)	104, 192, 390
Hpy8I	GTNNAC	1 cut(s)	333
HpyAV	CCTTC	2 cut(s)	198, 274
HpyCH4III	ACNGT	1 cut(s)	204
HpyCH4V	TGCA	1 cut(s)	316
HpyF10VI	GCNNNNNNNGC	4 cut(s)	59, 68, 218, 230
HpyF3I	CTNAG	1 cut(s)	155
HspAI	GCGC	1 cut(s)	172
Kzo9I	GATC	1 cut(s)	96
LmnI	GCTCC	1 cut(s)	146
LpnPI	CCDG	6 cut(s)	32, 48, 142, 160, 177, 248
Lsp1109I	GCAGC	1 cut(s)	233
LweI	GCATC	1 cut(s)	303
MaeI	CTAG	1 cut(s)	362
MalI	GATC	1 cut(s)	98
MboI	GATC	1 cut(s)	96
MboII	GAAGA	4 cut(s)	59, 106, 119, 350
MluCI	AATT	2 cut(s)	294, 321
MlyI	GAGTC	1 cut(s)	356
MmeI	TCCRAC	1 cut(s)	168
MnlI	CCTC	7 cut(s)	34, 37, 162, 223, 247, 250, 386
MwoI	GCNNNNNNNGC	4 cut(s)	59, 68, 218, 230
NdeII	GATC	1 cut(s)	96
NheI	GCTAGC	1 cut(s)	361
NspV	TTCGAA	1 cut(s)	326
PfeI	GAWTC	1 cut(s)	110
PkrI	GCNGC	2 cut(s)	24, 223
PleI	GAGTC	1 cut(s)	355
PpsI	GAGTC	1 cut(s)	355
PspPI	GGNCC	2 cut(s)	122, 232
SatI	GCNGC	2 cut(s)	23, 222
Sau3AI	GATC	1 cut(s)	96
Sau96I	GGNCC	2 cut(s)	122, 232
SchI	GAGTC	1 cut(s)	356
SetI	ASST	4 cut(s)	64, 161, 190, 363
SfaNI	GCATC	1 cut(s)	303
SfcI	CTRYAG	2 cut(s)	333, 356
SfuI	TTCGAA	1 cut(s)	326
Sse9I	AATT	2 cut(s)	294, 321
SsiI	CCGC	2 cut(s)	23, 38
SspMI	CTAG	1 cut(s)	362
StyI	CCWWGG	1 cut(s)	225
TaaI	ACNGT	1 cut(s)	204
TaqI	TCGA	1 cut(s)	326
TasI	AATT	2 cut(s)	294, 321
TauI	GCSGC	1 cut(s)	25
TfiI	GAWTC	1 cut(s)	110
TscAI	CASTG	1 cut(s)	207
TseI	GCWGC	1 cut(s)	221
TspDTI	ATGAA	3 cut(s)	231, 293, 393
TspGWI	ACGGA	1 cut(s)	93
TspRI	CASTG	1 cut(s)	207
XapI	RAATTY	2 cut(s)	294, 321
XmiI	GTMKAC	1 cut(s)	332
XspI	CTAG	1 cut(s)	362

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