Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0002279

Physical Location & Seq

Genomic Coordinates Reverse (-)

25996229 .. 25996934

Gene Structure 706 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000033344

Sequence Viewer

CDS Protein Promoter (2k)

Length: 309 bp

ATGAGGCTCCAGGAGACGCCTGATGAAATCCCTGAAGGAGGGGCACCACACACTGTGAGTTTGTTGATGCATGACAAACTGGTTGATGTTGGAAAACCAGGTGACAAAGTTGAGATACATGTTTTAAGTGCCTTTCAAGCTCCACTTGATCCAAGCACTGCCTTGGGAGGATTCTCTGGAAACTACTACTATGAGGCTCCTGCATTCATAGTCACCTACCCAATTAATAATGCAGTTGATAATGTCGGAAATGAGAATGGGAATGCATTGGCTTGGGAGAAGGCTTTTATTCAGTTAGCAAAGGTTTAA

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

103

Amino Acids

11.0

Weight (kDa)

4.63

Isoelectric Point (pI)

22.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MCM_OB	PF17207	1 - 40	3e-09	MCM OB domain
NPC1_MLD	PF22314	38 - 99	9.2e-12	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)	43
AclWI	GGATC	1 cut(s)	143
AcuI	CTGAAG	1 cut(s)	54
AcyI	GRCGYC	1 cut(s)	17
AdeI	CACNNNGTG	1 cut(s)	55
AfiI	CCNNNNNNNGG	1 cut(s)	38
AflIII	ACRYGT	1 cut(s)	118
AgsI	TTSAA	1 cut(s)	137
AjnI	CCWGG	2 cut(s)	9, 97
AluBI	AGCT	1 cut(s)	140
AluI	AGCT	1 cut(s)	140
Alw26I	GTCTC	1 cut(s)	8
AlwI	GGATC	1 cut(s)	143
AseI	ATTAAT	1 cut(s)	225
AsuHPI	GGTGA	2 cut(s)	113, 205
BaeGI	GKGCMC	1 cut(s)	46
BanI	GGYRCC	1 cut(s)	43
BciT130I	CCWGG	2 cut(s)	11, 99
BcoDI	GTCTC	1 cut(s)	8
Bme1390I	CCNGG	2 cut(s)	11, 99
BmiI	GGNNCC	3 cut(s)	8, 45, 198
BmrFI	CCNGG	2 cut(s)	11, 99
BmsI	GCATC	1 cut(s)	57
BsaHI	GRCGYC	1 cut(s)	17
BsaJI	CCNNGG	1 cut(s)	162
Bsc4I	CCNNNNNNNGG	1 cut(s)	38
Bse1I	ACTGG	1 cut(s)	84
BseBI	CCWGG	2 cut(s)	11, 99
BseDI	CCNNGG	1 cut(s)	162
BseLI	CCNNNNNNNGG	1 cut(s)	38
BseNI	ACTGG	1 cut(s)	84
BseSI	GKGCMC	1 cut(s)	46
BshNI	GGYRCC	1 cut(s)	43
BslI	CCNNNNNNNGG	1 cut(s)	38
BsmAI	GTCTC	1 cut(s)	8
BsmBI	CGTCTC	1 cut(s)	8
BsmI	GAATGC	2 cut(s)	203, 268
Bsp1286I	GDGCHC	1 cut(s)	46
Bsp143I	GATC	1 cut(s)	148
BspLI	GGNNCC	3 cut(s)	8, 45, 198
BspPI	GGATC	1 cut(s)	143
BspT107I	GGYRCC	1 cut(s)	43
BsrI	ACTGG	1 cut(s)	84
BssECI	CCNNGG	1 cut(s)	162
BssMI	GATC	1 cut(s)	148
BssNI	GRCGYC	1 cut(s)	17
BssT1I	CCWWGG	1 cut(s)	162
Bst2UI	CCWGG	2 cut(s)	11, 99
Bst4CI	ACNGT	1 cut(s)	55
BstACI	GRCGYC	1 cut(s)	17
BstENI	CCTNNNNNAGG	1 cut(s)	36
BstKTI	GATC	1 cut(s)	151
BstMAI	GTCTC	1 cut(s)	8
BstMBI	GATC	1 cut(s)	148
BstMWI	GCNNNNNNNGC	1 cut(s)	137
BstNI	CCWGG	2 cut(s)	11, 99
BstNSI	RCATGY	1 cut(s)	122
BstSCI	CCNGG	2 cut(s)	9, 97
BstSLI	GKGCMC	1 cut(s)	46
BtsI	GCAGTG	1 cut(s)	156
BtsIMutI	CAGTG	2 cut(s)	51, 156
CseI	GACGC	1 cut(s)	25
CsiI	ACCWGGT	1 cut(s)	97
CviAII	CATG	2 cut(s)	71, 119
CviJI	RGCY	5 cut(s)	7, 140, 197, 272, 284
CviKI_1	RGCY	5 cut(s)	7, 140, 197, 272, 284
DpnI	GATC	1 cut(s)	150
DpnII	GATC	1 cut(s)	148
DraIII	CACNNNGTG	1 cut(s)	55
Eco130I	CCWWGG	1 cut(s)	162
Eco57I	CTGAAG	1 cut(s)	54
EcoNI	CCTNNNNNAGG	1 cut(s)	36
EcoRII	CCWGG	2 cut(s)	9, 97
EcoT14I	CCWWGG	1 cut(s)	162
EcoT22I	ATGCAT	2 cut(s)	72, 268
ErhI	CCWWGG	1 cut(s)	162
Esp3I	CGTCTC	1 cut(s)	8
FaeI	CATG	2 cut(s)	74, 122
FaiI	YATR	4 cut(s)	72, 120, 192, 209
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FatI	CATG	2 cut(s)	70, 118
HgaI	GACGC	1 cut(s)	25
Hin1I	GRCGYC	1 cut(s)	17
Hin1II	CATG	2 cut(s)	74, 122
HinfI	GANTC	1 cut(s)	171
HphI	GGTGA	2 cut(s)	113, 205
Hpy188I	TCNGA	1 cut(s)	248
Hpy188III	TCNNGA	1 cut(s)	177
HpyAV	CCTTC	2 cut(s)	29, 274
HpyCH4III	ACNGT	1 cut(s)	55
HpyCH4V	TGCA	4 cut(s)	70, 203, 233, 266
HpyF10VI	GCNNNNNNNGC	1 cut(s)	137
Hsp92I	GRCGYC	1 cut(s)	17
Hsp92II	CATG	2 cut(s)	74, 122
Kzo9I	GATC	1 cut(s)	148
LmnI	GCTCC	3 cut(s)	12, 145, 202
LpnPI	CCDG	8 cut(s)	23, 33, 45, 65, 84, 111, 162, 213
LweI	GCATC	1 cut(s)	57
MabI	ACCWGGT	1 cut(s)	97
MaeIII	GTNAC	2 cut(s)	101, 211
MalI	GATC	1 cut(s)	150
MboI	GATC	1 cut(s)	148
MhlI	GDGCHC	1 cut(s)	46
MluCI	AATT	1 cut(s)	222
MmeI	TCCRAC	2 cut(s)	70, 226
MnlI	CCTC	3 cut(s)	32, 161, 187
Mph1103I	ATGCAT	2 cut(s)	72, 268
MseI	TTAA	3 cut(s)	125, 225, 307
MspR9I	CCNGG	2 cut(s)	11, 99
Mva1269I	GAATGC	2 cut(s)	203, 268
MvaI	CCWGG	2 cut(s)	11, 99
MwoI	GCNNNNNNNGC	1 cut(s)	137
NdeII	GATC	1 cut(s)	148
NlaIII	CATG	2 cut(s)	74, 122
NlaIV	GGNNCC	3 cut(s)	8, 45, 198
NmuCI	GTSAC	2 cut(s)	101, 211
NsiI	ATGCAT	2 cut(s)	72, 268
NspI	RCATGY	1 cut(s)	122
PciI	ACATGT	1 cut(s)	118
PctI	GAATGC	2 cut(s)	203, 268
PfeI	GAWTC	1 cut(s)	171
PfoI	TCCNGGA	1 cut(s)	9
PscI	ACATGT	1 cut(s)	118
PshBI	ATTAAT	1 cut(s)	225
Psp6I	CCWGG	2 cut(s)	9, 97
PspGI	CCWGG	2 cut(s)	9, 97
PspN4I	GGNNCC	3 cut(s)	8, 45, 198
SaqAI	TTAA	3 cut(s)	125, 225, 307
Sau3AI	GATC	1 cut(s)	148
ScrFI	CCNGG	2 cut(s)	11, 99
SduI	GDGCHC	1 cut(s)	46
SetI	ASST	4 cut(s)	103, 142, 218, 306
SexAI	ACCWGGT	1 cut(s)	97
SfaNI	GCATC	1 cut(s)	57
Sse9I	AATT	1 cut(s)	222
StyD4I	CCNGG	2 cut(s)	9, 97
StyI	CCWWGG	1 cut(s)	162
TaaI	ACNGT	1 cut(s)	55
TasI	AATT	1 cut(s)	222
TfiI	GAWTC	1 cut(s)	171
Tru1I	TTAA	3 cut(s)	125, 225, 307
Tru9I	TTAA	3 cut(s)	125, 225, 307
TscAI	CASTG	2 cut(s)	58, 163
TseFI	GTSAC	2 cut(s)	101, 211
Tsp45I	GTSAC	2 cut(s)	101, 211
TspDTI	ATGAA	2 cut(s)	39, 196
TspRI	CASTG	2 cut(s)	58, 163
VspI	ATTAAT	1 cut(s)	225
XagI	CCTNNNNNAGG	1 cut(s)	36
XceI	RCATGY	1 cut(s)	122
Zsp2I	ATGCAT	2 cut(s)	72, 268

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