Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0002279

Physical Location & Seq

Genomic Coordinates Reverse (-)

43556719 .. 43559193

Gene Structure 2475 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000034484

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGGCAAAGATTGTGAGGCTCCAGGAGACGCCTGATGAAATCCCTGAAGGAGGGGCACCACACACTGTGAGTTTGTTGATGCATGACAAACTGGTTGATGCTGGAAAACCAGGTGACAAAGTTGAGATACATGTTTTAAGTGCCTTTCAAGCTCCACTTGATCCAAGCACTGCCTTGGGAGGATTCTCTGGAAATTACTACTATGAGGCTCCTGCATTCATAGTCACCTACCCAATTAATAATGCAGTTGATAATGTAGGAAATGAGAATGGGAATGCACTGGCTTGGGAGAAGGCTTTTATTCAGTTAGCAAAGATTTTATGCAAATATGCAGCAAATATATTGATTTTCGTAAACTTTTATGCTAATGATACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000323 GO:0003674 GO:0005488 GO:0005496 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005737 GO:0005764 GO:0005773 GO:0005783 GO:0005886 GO:0005887 GO:0006082 GO:0006464 GO:0006486 GO:0006629 GO:0006807 GO:0006810 GO:0006869 GO:0007034 GO:0007041 GO:0008150 GO:0008152 GO:0008202 GO:0008206 GO:0008289 GO:0009058 GO:0009059 GO:0009100 GO:0009101 GO:0009987 GO:0010876 GO:0012505 GO:0015485 GO:0015850 GO:0015918 GO:0016020 GO:0016021 GO:0019538 GO:0019752 GO:0030301 GO:0031224 GO:0031226 GO:0031967 GO:0031975 GO:0032787 GO:0032934 GO:0033036 GO:0034645 GO:0036094 GO:0036211 GO:0042592 GO:0042632 GO:0043170 GO:0043178 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043413 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044281 GO:0044422 GO:0044424 GO:0044425 GO:0044428 GO:0044444 GO:0044446 GO:0044459 GO:0044464 GO:0048471 GO:0048878 GO:0051179 GO:0051234 GO:0055088 GO:0055092 GO:0065007 GO:0065008 GO:0070085 GO:0071702 GO:0071704 GO:0071944 GO:0097159 GO:1901135 GO:1901137 GO:1901360 GO:1901564 GO:1901566 GO:1901576 GO:1901615

KEGG Pathways

Metabolic & Signaling

ko04142 ko04979 map04142 map04979

Pfam Domains

Protein Families

NPC1_N Patched

Protein Analysis

126

Amino Acids

13.57

Weight (kDa)

4.81

Isoelectric Point (pI)

31.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MCM_OB	PF17207	4 - 43	6.8e-10	MCM OB domain
NPC1_MLD	PF22314	42 - 106	5.1e-12	NPC1, middle luminal domain

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: OG0002279)

Species	Orthologous Gene IDs
malus_domestica	MD00G1080500.v1.1 MD16G1285200.v1.1
rosa_chinensis	RchiOBHm_Chr2g0175261 RchiOBHm_Chr6g0280801
rosa_laevigata	RLG00000013082 RLG00000019605 RLG00000033344 RLG00000034484 RLG00000036984
rosa_multiflora	Rmu_sc0000893.1_g000002 Rmu_sc0002494.1_g000006 Rmu_sc0007139.1_g000001
rosa_roxburghii	Rroxscaffold_4G00312410 Rroxscaffold_7G00187620
rosa_rugosa	Rorug01G0060900 Rorug02G0158200 Rorug02G0250000 Rorug06G0134700
rosa_samantha	Rh1AG184800 Rh1AG199900 Rh1AG262300 Rh1BG097700 Rh1BG103100 Rh2CG636900 Rh2DG687600 Rh3CG050700 Rh3DG112000 Rh4CG020800 Rh4CG194300 Rh4DG079900 Rh5AG202600 Rh5BG321300 Rh5CG365700 Rh6AG170000 Rh6CG250600 Rh6DG242200 Rh6DG280400 Rh7AG279500 Rh7CG298700 Rh7CG343600 Rh7DG079500
rosa_wichuraiana	Rw4G014860 Rw6G026540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	55
AclWI	GGATC	1 cut(s)	155
AcuI	CTGAAG	1 cut(s)	66
AcyI	GRCGYC	1 cut(s)	29
AdeI	CACNNNGTG	1 cut(s)	67
AfiI	CCNNNNNNNGG	1 cut(s)	50
AflIII	ACRYGT	1 cut(s)	130
AgsI	TTSAA	1 cut(s)	149
AjnI	CCWGG	2 cut(s)	21, 109
AluBI	AGCT	1 cut(s)	152
AluI	AGCT	1 cut(s)	152
Alw26I	GTCTC	1 cut(s)	20
AlwI	GGATC	1 cut(s)	155
ApeKI	GCWGC	1 cut(s)	332
AseI	ATTAAT	1 cut(s)	237
AsuHPI	GGTGA	2 cut(s)	125, 217
BaeGI	GKGCMC	1 cut(s)	58
BanI	GGYRCC	1 cut(s)	55
BbvI	GCAGC	1 cut(s)	344
BciT130I	CCWGG	2 cut(s)	23, 111
BcoDI	GTCTC	1 cut(s)	20
BisI	GCNGC	1 cut(s)	333
BlsI	GCNGC	1 cut(s)	334
Bme1390I	CCNGG	2 cut(s)	23, 111
BmiI	GGNNCC	3 cut(s)	20, 57, 210
BmrFI	CCNGG	2 cut(s)	23, 111
BmsI	GCATC	2 cut(s)	69, 88
BpmI	CTGGAG	1 cut(s)	5
BsaHI	GRCGYC	1 cut(s)	29
BsaJI	CCNNGG	1 cut(s)	174
Bsc4I	CCNNNNNNNGG	1 cut(s)	50
Bse1I	ACTGG	2 cut(s)	96, 285
BseBI	CCWGG	2 cut(s)	23, 111
BseDI	CCNNGG	1 cut(s)	174
BseLI	CCNNNNNNNGG	1 cut(s)	50
BseNI	ACTGG	2 cut(s)	96, 285
BseSI	GKGCMC	1 cut(s)	58
BseXI	GCAGC	1 cut(s)	344
BshNI	GGYRCC	1 cut(s)	55
BslI	CCNNNNNNNGG	1 cut(s)	50
BsmAI	GTCTC	1 cut(s)	20
BsmBI	CGTCTC	1 cut(s)	20
BsmI	GAATGC	2 cut(s)	215, 280
Bsp1286I	GDGCHC	1 cut(s)	58
Bsp143I	GATC	1 cut(s)	160
BspLI	GGNNCC	3 cut(s)	20, 57, 210
BspPI	GGATC	1 cut(s)	155
BspT107I	GGYRCC	1 cut(s)	55
BsrI	ACTGG	2 cut(s)	96, 285
BssECI	CCNNGG	1 cut(s)	174
BssMI	GATC	1 cut(s)	160
BssNI	GRCGYC	1 cut(s)	29
BssT1I	CCWWGG	1 cut(s)	174
Bst2UI	CCWGG	2 cut(s)	23, 111
Bst4CI	ACNGT	1 cut(s)	67
BstACI	GRCGYC	1 cut(s)	29
BstENI	CCTNNNNNAGG	1 cut(s)	48
BstKTI	GATC	1 cut(s)	163
BstMAI	GTCTC	1 cut(s)	20
BstMBI	GATC	1 cut(s)	160
BstMWI	GCNNNNNNNGC	1 cut(s)	149
BstNI	CCWGG	2 cut(s)	23, 111
BstNSI	RCATGY	1 cut(s)	134
BstSCI	CCNGG	2 cut(s)	21, 109
BstSLI	GKGCMC	1 cut(s)	58
BstV1I	GCAGC	1 cut(s)	344
BtsI	GCAGTG	1 cut(s)	168
BtsIMutI	CAGTG	3 cut(s)	63, 168, 278
CseI	GACGC	1 cut(s)	37
CsiI	ACCWGGT	1 cut(s)	109
CviAII	CATG	2 cut(s)	83, 131
CviJI	RGCY	5 cut(s)	19, 152, 209, 284, 296
CviKI_1	RGCY	5 cut(s)	19, 152, 209, 284, 296
DpnI	GATC	1 cut(s)	162
DpnII	GATC	1 cut(s)	160
DraIII	CACNNNGTG	1 cut(s)	67
Eco130I	CCWWGG	1 cut(s)	174
Eco57I	CTGAAG	1 cut(s)	66
EcoNI	CCTNNNNNAGG	1 cut(s)	48
EcoRII	CCWGG	2 cut(s)	21, 109
EcoT14I	CCWWGG	1 cut(s)	174
EcoT22I	ATGCAT	1 cut(s)	84
ErhI	CCWWGG	1 cut(s)	174
Esp3I	CGTCTC	1 cut(s)	20
FaeI	CATG	2 cut(s)	86, 134
FaiI	YATR	8 cut(s)	84, 132, 204, 221, 322, 330, 341, 363
FalI	AAGNNNNNCTT	2 cut(s)	141, 173
FatI	CATG	2 cut(s)	82, 130
Fnu4HI	GCNGC	1 cut(s)	333
Fsp4HI	GCNGC	1 cut(s)	333
GluI	GCNGC	1 cut(s)	333
GsuI	CTGGAG	1 cut(s)	5
HgaI	GACGC	1 cut(s)	37
Hin1I	GRCGYC	1 cut(s)	29
Hin1II	CATG	2 cut(s)	86, 134
HinfI	GANTC	1 cut(s)	183
HphI	GGTGA	2 cut(s)	125, 217
Hpy166II	GTNNAC	1 cut(s)	355
Hpy188III	TCNNGA	1 cut(s)	189
Hpy8I	GTNNAC	1 cut(s)	355
HpyAV	CCTTC	2 cut(s)	41, 286
HpyCH4III	ACNGT	1 cut(s)	67
HpyCH4V	TGCA	6 cut(s)	82, 215, 245, 278, 324, 332
HpyF10VI	GCNNNNNNNGC	1 cut(s)	149
Hsp92I	GRCGYC	1 cut(s)	29
Hsp92II	CATG	2 cut(s)	86, 134
Kzo9I	GATC	1 cut(s)	160
LmnI	GCTCC	3 cut(s)	24, 157, 214
Lsp1109I	GCAGC	1 cut(s)	344
LweI	GCATC	2 cut(s)	69, 88
MabI	ACCWGGT	1 cut(s)	109
MaeIII	GTNAC	2 cut(s)	113, 223
MalI	GATC	1 cut(s)	162
MboI	GATC	1 cut(s)	160
MhlI	GDGCHC	1 cut(s)	58
MluCI	AATT	2 cut(s)	193, 234
MnlI	CCTC	4 cut(s)	9, 44, 173, 199
Mph1103I	ATGCAT	1 cut(s)	84
MseI	TTAA	2 cut(s)	137, 237
MspR9I	CCNGG	2 cut(s)	23, 111
Mva1269I	GAATGC	2 cut(s)	215, 280
MvaI	CCWGG	2 cut(s)	23, 111
MwoI	GCNNNNNNNGC	1 cut(s)	149
NdeII	GATC	1 cut(s)	160
NlaIII	CATG	2 cut(s)	86, 134
NlaIV	GGNNCC	3 cut(s)	20, 57, 210
NmuCI	GTSAC	2 cut(s)	113, 223
NsiI	ATGCAT	1 cut(s)	84
NspI	RCATGY	1 cut(s)	134
PciI	ACATGT	1 cut(s)	130
PctI	GAATGC	2 cut(s)	215, 280
PfeI	GAWTC	1 cut(s)	183
PfoI	TCCNGGA	1 cut(s)	21
PkrI	GCNGC	1 cut(s)	334
PscI	ACATGT	1 cut(s)	130
PshBI	ATTAAT	1 cut(s)	237
Psp6I	CCWGG	2 cut(s)	21, 109
PspGI	CCWGG	2 cut(s)	21, 109
PspN4I	GGNNCC	3 cut(s)	20, 57, 210
SaqAI	TTAA	2 cut(s)	137, 237
SatI	GCNGC	1 cut(s)	333
Sau3AI	GATC	1 cut(s)	160
ScrFI	CCNGG	2 cut(s)	23, 111
SduI	GDGCHC	1 cut(s)	58
SetI	ASST	3 cut(s)	115, 154, 230
SexAI	ACCWGGT	1 cut(s)	109
SfaNI	GCATC	2 cut(s)	69, 88
Sse9I	AATT	2 cut(s)	193, 234
StyD4I	CCNGG	2 cut(s)	21, 109
StyI	CCWWGG	1 cut(s)	174
TaaI	ACNGT	1 cut(s)	67
TasI	AATT	2 cut(s)	193, 234
TfiI	GAWTC	1 cut(s)	183
Tru1I	TTAA	2 cut(s)	137, 237
Tru9I	TTAA	2 cut(s)	137, 237
TscAI	CASTG	3 cut(s)	70, 175, 285
TseFI	GTSAC	2 cut(s)	113, 223
TseI	GCWGC	1 cut(s)	332
Tsp45I	GTSAC	2 cut(s)	113, 223
TspDTI	ATGAA	2 cut(s)	51, 208
TspRI	CASTG	3 cut(s)	70, 175, 285
VspI	ATTAAT	1 cut(s)	237
XagI	CCTNNNNNAGG	1 cut(s)	48
XceI	RCATGY	1 cut(s)	134
Zsp2I	ATGCAT	1 cut(s)	84

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