Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0002279

Physical Location & Seq

Genomic Coordinates Forward (+)

54173982 .. 54175939

Gene Structure 1958 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019605

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGGGTTGCCTTAGATTTGCCTATAGTTCAGAAGAGATTACTCTGTATATGTTTCTTACTCATTTTGGTCATTTTGGTCGTCATCATGGCCAGAAATGGTTTACTGATAAACAGATTGTGAGGCTCCAGGAGACGCCTGATGAAATCCCTGAAGGAGGGGCACCACACACTGTGAGTTTGTTGATGCATGACAAACTGGTTGATGCTGGAAAACCAGGTGACAAAGTTGAGATACATGTTTTAAGTGCCTTTCAAGCTCCACTTGATCCAAGCACTGCCTTGGGAGGATTCTCTGGAAACTACTACTATGAGGCTCCTGCATTCATAGTCACCTACCCAATTAATAATGCAGTTGATAATGTAGGAAATGAGAATGGGAATGCACTGGCTAGGGAGAAGGCTTTTATTCAGTTAGCAAAGGTTTAA

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

142

Amino Acids

15.61

Weight (kDa)

5.74

Isoelectric Point (pI)

32.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MCM_OB	PF17207	29 - 78	5.7e-13	MCM OB domain
NPC1_MLD	PF22314	77 - 138	7.9e-09	NPC1, middle luminal domain

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

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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)	160
AclWI	GGATC	1 cut(s)	260
AcoI	YGGCCR	1 cut(s)	88
AcuI	CTGAAG	1 cut(s)	171
AcyI	GRCGYC	1 cut(s)	134
AdeI	CACNNNGTG	1 cut(s)	172
AfiI	CCNNNNNNNGG	1 cut(s)	155
AflIII	ACRYGT	1 cut(s)	235
AgsI	TTSAA	1 cut(s)	254
AjnI	CCWGG	2 cut(s)	126, 214
AluBI	AGCT	1 cut(s)	257
AluI	AGCT	1 cut(s)	257
Alw26I	GTCTC	1 cut(s)	125
AlwI	GGATC	1 cut(s)	260
AoxI	GGCC	1 cut(s)	88
AseI	ATTAAT	1 cut(s)	342
AsuHPI	GGTGA	2 cut(s)	230, 322
BaeGI	GKGCMC	1 cut(s)	163
BalI	TGGCCA	1 cut(s)	90
BanI	GGYRCC	1 cut(s)	160
BciT130I	CCWGG	2 cut(s)	128, 216
BcoDI	GTCTC	1 cut(s)	125
BfaI	CTAG	1 cut(s)	390
BfmI	CTRYAG	1 cut(s)	22
Bme1390I	CCNGG	2 cut(s)	128, 216
BmiI	GGNNCC	3 cut(s)	125, 162, 315
BmrFI	CCNGG	2 cut(s)	128, 216
BmsI	GCATC	2 cut(s)	174, 193
BpmI	CTGGAG	1 cut(s)	110
BsaHI	GRCGYC	1 cut(s)	134
BsaJI	CCNNGG	1 cut(s)	279
Bsc4I	CCNNNNNNNGG	1 cut(s)	155
Bse1I	ACTGG	2 cut(s)	201, 390
BseBI	CCWGG	2 cut(s)	128, 216
BseDI	CCNNGG	1 cut(s)	279
BseLI	CCNNNNNNNGG	1 cut(s)	155
BseNI	ACTGG	2 cut(s)	201, 390
BseSI	GKGCMC	1 cut(s)	163
BshFI	GGCC	1 cut(s)	90
BshNI	GGYRCC	1 cut(s)	160
BslI	CCNNNNNNNGG	1 cut(s)	155
BsmAI	GTCTC	1 cut(s)	125
BsmBI	CGTCTC	1 cut(s)	125
BsmI	GAATGC	2 cut(s)	320, 385
BsnI	GGCC	1 cut(s)	90
Bsp1286I	GDGCHC	1 cut(s)	163
Bsp143I	GATC	1 cut(s)	265
BspANI	GGCC	1 cut(s)	90
BspLI	GGNNCC	3 cut(s)	125, 162, 315
BspPI	GGATC	1 cut(s)	260
BspT107I	GGYRCC	1 cut(s)	160
BsrI	ACTGG	2 cut(s)	201, 390
BssECI	CCNNGG	1 cut(s)	279
BssMI	GATC	1 cut(s)	265
BssNI	GRCGYC	1 cut(s)	134
BssT1I	CCWWGG	1 cut(s)	279
Bst2UI	CCWGG	2 cut(s)	128, 216
Bst4CI	ACNGT	1 cut(s)	172
Bst6I	CTCTTC	1 cut(s)	27
BstACI	GRCGYC	1 cut(s)	134
BstDEI	CTNAG	1 cut(s)	11
BstENI	CCTNNNNNAGG	1 cut(s)	153
BstKTI	GATC	1 cut(s)	268
BstMAI	GTCTC	1 cut(s)	125
BstMBI	GATC	1 cut(s)	265
BstMWI	GCNNNNNNNGC	1 cut(s)	254
BstNI	CCWGG	2 cut(s)	128, 216
BstNSI	RCATGY	1 cut(s)	239
BstSCI	CCNGG	2 cut(s)	126, 214
BstSFI	CTRYAG	1 cut(s)	22
BstSLI	GKGCMC	1 cut(s)	163
BsuRI	GGCC	1 cut(s)	90
BtsI	GCAGTG	1 cut(s)	273
BtsIMutI	CAGTG	3 cut(s)	168, 273, 383
CseI	GACGC	1 cut(s)	142
CsiI	ACCWGGT	1 cut(s)	214
CviAII	CATG	3 cut(s)	86, 188, 236
CviJI	RGCY	6 cut(s)	90, 124, 257, 314, 389, 401
CviKI_1	RGCY	6 cut(s)	90, 124, 257, 314, 389, 401
DdeI	CTNAG	1 cut(s)	11
DpnI	GATC	1 cut(s)	267
DpnII	GATC	1 cut(s)	265
DraIII	CACNNNGTG	1 cut(s)	172
EaeI	YGGCCR	1 cut(s)	88
Eam1104I	CTCTTC	1 cut(s)	27
EarI	CTCTTC	1 cut(s)	27
Eco130I	CCWWGG	1 cut(s)	279
Eco57I	CTGAAG	1 cut(s)	171
EcoNI	CCTNNNNNAGG	1 cut(s)	153
EcoRII	CCWGG	2 cut(s)	126, 214
EcoT14I	CCWWGG	1 cut(s)	279
EcoT22I	ATGCAT	1 cut(s)	189
ErhI	CCWWGG	1 cut(s)	279
Esp3I	CGTCTC	1 cut(s)	125
FaeI	CATG	3 cut(s)	89, 191, 239
FaiI	YATR	8 cut(s)	24, 48, 50, 87, 189, 237, 309, 326
FalI	AAGNNNNNCTT	2 cut(s)	246, 278
FatI	CATG	3 cut(s)	85, 187, 235
FspBI	CTAG	1 cut(s)	390
GsuI	CTGGAG	1 cut(s)	110
HaeIII	GGCC	1 cut(s)	90
HgaI	GACGC	1 cut(s)	142
Hin1I	GRCGYC	1 cut(s)	134
Hin1II	CATG	3 cut(s)	89, 191, 239
HinfI	GANTC	1 cut(s)	288
HphI	GGTGA	2 cut(s)	230, 322
Hpy166II	GTNNAC	1 cut(s)	102
Hpy188I	TCNGA	1 cut(s)	31
Hpy188III	TCNNGA	1 cut(s)	294
Hpy8I	GTNNAC	1 cut(s)	102
HpyAV	CCTTC	2 cut(s)	146, 391
HpyCH4III	ACNGT	1 cut(s)	172
HpyCH4V	TGCA	4 cut(s)	187, 320, 350, 383
HpyF10VI	GCNNNNNNNGC	1 cut(s)	254
HpyF3I	CTNAG	1 cut(s)	11
Hsp92I	GRCGYC	1 cut(s)	134
Hsp92II	CATG	3 cut(s)	89, 191, 239
Kzo9I	GATC	1 cut(s)	265
LmnI	GCTCC	3 cut(s)	129, 262, 319
LweI	GCATC	2 cut(s)	174, 193
MabI	ACCWGGT	1 cut(s)	214
MaeI	CTAG	1 cut(s)	390
MaeIII	GTNAC	2 cut(s)	218, 328
MalI	GATC	1 cut(s)	267
MboI	GATC	1 cut(s)	265
MboII	GAAGA	1 cut(s)	44
MhlI	GDGCHC	1 cut(s)	163
MlsI	TGGCCA	1 cut(s)	90
MluCI	AATT	1 cut(s)	339
MluNI	TGGCCA	1 cut(s)	90
MnlI	CCTC	4 cut(s)	114, 149, 278, 304
Mox20I	TGGCCA	1 cut(s)	90
Mph1103I	ATGCAT	1 cut(s)	189
MscI	TGGCCA	1 cut(s)	90
MseI	TTAA	3 cut(s)	242, 342, 424
Msp20I	TGGCCA	1 cut(s)	90
MspR9I	CCNGG	2 cut(s)	128, 216
Mva1269I	GAATGC	2 cut(s)	320, 385
MvaI	CCWGG	2 cut(s)	128, 216
MwoI	GCNNNNNNNGC	1 cut(s)	254
NdeII	GATC	1 cut(s)	265
NlaIII	CATG	3 cut(s)	89, 191, 239
NlaIV	GGNNCC	3 cut(s)	125, 162, 315
NmuCI	GTSAC	2 cut(s)	218, 328
NsiI	ATGCAT	1 cut(s)	189
NspI	RCATGY	1 cut(s)	239
PciI	ACATGT	1 cut(s)	235
PctI	GAATGC	2 cut(s)	320, 385
PfeI	GAWTC	1 cut(s)	288
PfoI	TCCNGGA	1 cut(s)	126
PscI	ACATGT	1 cut(s)	235
PshBI	ATTAAT	1 cut(s)	342
Psp6I	CCWGG	2 cut(s)	126, 214
PspGI	CCWGG	2 cut(s)	126, 214
PspN4I	GGNNCC	3 cut(s)	125, 162, 315
SaqAI	TTAA	3 cut(s)	242, 342, 424
Sau3AI	GATC	1 cut(s)	265
ScrFI	CCNGG	2 cut(s)	128, 216
SduI	GDGCHC	1 cut(s)	163
SetI	ASST	4 cut(s)	220, 259, 335, 423
SexAI	ACCWGGT	1 cut(s)	214
SfaNI	GCATC	2 cut(s)	174, 193
SfcI	CTRYAG	1 cut(s)	22
Sse9I	AATT	1 cut(s)	339
SspMI	CTAG	1 cut(s)	390
StyD4I	CCNGG	2 cut(s)	126, 214
StyI	CCWWGG	1 cut(s)	279
TaaI	ACNGT	1 cut(s)	172
TasI	AATT	1 cut(s)	339
TfiI	GAWTC	1 cut(s)	288
Tru1I	TTAA	3 cut(s)	242, 342, 424
Tru9I	TTAA	3 cut(s)	242, 342, 424
TscAI	CASTG	3 cut(s)	175, 280, 390
TseFI	GTSAC	2 cut(s)	218, 328
Tsp45I	GTSAC	2 cut(s)	218, 328
TspDTI	ATGAA	2 cut(s)	156, 313
TspRI	CASTG	3 cut(s)	175, 280, 390
VspI	ATTAAT	1 cut(s)	342
XagI	CCTNNNNNAGG	1 cut(s)	153
XceI	RCATGY	1 cut(s)	239
XspI	CTAG	1 cut(s)	390
Zsp2I	ATGCAT	1 cut(s)	189

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