Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000007

Orthogroup ID

OG0006478

Physical Location & Seq

Genomic Coordinates Forward (+)

12203726 .. 12204667

Gene Structure 942 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug07G0154100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGGCTGAGAAGAACAACCAGGCTTATCCTATAGCCCCAGCAAATGGTTACGCAAGAAGTGACGGAGAGTCTTTGGTATCCGAAGATGAGCTCAAACGCAGGAAGAGAATTAAGTTGTTTACCTATATTGGTATCTTCATTGTGTTTCAGATCATAGTCATGACTGTATTTGGTCTTACTGTGATGAAAGTCAAGACCCCCAAGGTCAGGTTAGGGGAAATCAACATCCAAAGTCTCAACTCGGTCCCCGCAACACCATCGTTCGACACAAGCTTCACAACCCAAATCAGGATAAAGAACACAAATTGGGGTCCCTACAAGTTTGATGCAGGGACTACCACATTCATGTACCAAGGTGTGCCTGTGGGACAAGTTACTATTCCAAAGAGCAAGGCAGGAATGCGTTCTACCAAGAAGATCAACGTCGAGGTAGTTTTGAATAGCAATGTATTGCCAAACAGTTCTACTCTTGGAAGTGAATTGAACAGTGGGGTGTTAACGCTAACCAGCCAAGTTCAACTGAAAGGAAAAGTTGAATTGATGCTCATAATGAAGAAAAACAAGAATGCTTCCATGGACTGCACCATAGCTTTTGATTTGGCGTCAAAGGCGGTTAAAACTTTACAATGCAAGTGA

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

211

Amino Acids

23.23

Weight (kDa)

9.88

Isoelectric Point (pI)

33.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LEA_2	PF03168	96 - 195	5.6e-07	Late embryogenesis abundant protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0006478)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G42470
fragaria_vesca	FvH4_5g25290 FvH4_5g25290 FvH4_5g25290 FvH4_5g25290 FvH4_5g25290 FvH4_5g25290 FvH4_5g25290
malus_domestica	MD06G1009400.v1.1
prunus_persica	Prupe.5G011100_v2.0.a1 Prupe.5G011100_v2.0.a1 Prupe.5G011100_v2.0.a1 Prupe.5G011100_v2.0.a1
pyrus_communis	pycom06g00780 pycom16g25890
rosa_chinensis	RchiOBHm_Chr7g0215501
rosa_laevigata	RLG00000002657
rosa_multiflora	Rmu_sc0005928.1_g000005
rosa_roxburghii	Rroxscaffold_3G00244190
rosa_rugosa	Rorug07G0154100 Rorug07G0154200
rosa_samantha	Rh7AG290300 Rh7BG282300 Rh7CG310300 Rh7DG294100
rosa_wichuraiana	Rw7G024790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	44
AciI	CCGC	2 cut(s)	249, 611
AcyI	GRCGYC	1 cut(s)	602
AfaI	GTAC	1 cut(s)	350
AfiI	CCNNNNNNNGG	3 cut(s)	44, 207, 288
AgsI	TTSAA	4 cut(s)	439, 484, 518, 536
AhdI	GACNNNNNGTC	1 cut(s)	67
AjnI	CCWGG	1 cut(s)	18
AluBI	AGCT	3 cut(s)	91, 273, 590
AluI	AGCT	3 cut(s)	91, 273, 590
Alw21I	GWGCWC	1 cut(s)	93
Alw26I	GTCTC	1 cut(s)	239
Asp700I	GAANNNNTTC	1 cut(s)	403
AspS9I	GGNCC	2 cut(s)	244, 311
AvaII	GGWCC	2 cut(s)	244, 311
BanII	GRGCYC	1 cut(s)	93
Bbv12I	GWGCWC	1 cut(s)	93
BccI	CCATC	1 cut(s)	265
BcgI	CGANNNNNNTGC	2 cut(s)	240, 274
BciT130I	CCWGG	1 cut(s)	20
BciVI	GTATCC	1 cut(s)	88
BcoDI	GTCTC	1 cut(s)	239
BfmI	CTRYAG	1 cut(s)	30
BfuI	GTATCC	1 cut(s)	88
Bme1390I	CCNGG	1 cut(s)	20
Bme18I	GGWCC	2 cut(s)	244, 311
BmeRI	GACNNNNNGTC	1 cut(s)	67
BmgT120I	GGNCC	2 cut(s)	244, 311
BmiI	GGNNCC	3 cut(s)	246, 312, 313
BmrFI	CCNGG	1 cut(s)	20
BmsI	GCATC	2 cut(s)	316, 531
BsaHI	GRCGYC	1 cut(s)	602
BsaJI	CCNNGG	3 cut(s)	201, 352, 573
Bsc4I	CCNNNNNNNGG	3 cut(s)	44, 207, 288
Bse3DI	GCAATG	1 cut(s)	451
BseBI	CCWGG	1 cut(s)	20
BseDI	CCNNGG	3 cut(s)	201, 352, 573
BseGI	GGATG	1 cut(s)	225
BseLI	CCNNNNNNNGG	3 cut(s)	44, 207, 288
BseMI	GCAATG	1 cut(s)	451
BseYI	CCCAGC	1 cut(s)	37
BsgI	GTGCAG	1 cut(s)	565
BsiHKAI	GWGCWC	1 cut(s)	93
BslFI	GGGAC	4 cut(s)	230, 297, 346, 381
BslI	CCNNNNNNNGG	3 cut(s)	44, 207, 288
BsmAI	GTCTC	1 cut(s)	239
BsmFI	GGGAC	4 cut(s)	230, 297, 346, 381
BsmI	GAATGC	2 cut(s)	405, 571
Bsp1286I	GDGCHC	1 cut(s)	93
Bsp143I	GATC	2 cut(s)	150, 417
Bsp19I	CCATGG	1 cut(s)	573
BspACI	CCGC	2 cut(s)	249, 611
BspHI	TCATGA	1 cut(s)	159
BspLI	GGNNCC	3 cut(s)	246, 312, 313
BsrDI	GCAATG	1 cut(s)	451
BssECI	CCNNGG	3 cut(s)	201, 352, 573
BssMI	GATC	2 cut(s)	150, 417
BssNI	GRCGYC	1 cut(s)	602
BssT1I	CCWWGG	3 cut(s)	201, 352, 573
Bst2UI	CCWGG	1 cut(s)	20
Bst4CI	ACNGT	4 cut(s)	166, 181, 461, 488
Bst6I	CTCTTC	1 cut(s)	98
BstACI	GRCGYC	1 cut(s)	602
BstDEI	CTNAG	1 cut(s)	6
BstDSI	CCRYGG	1 cut(s)	573
BstF5I	GGATG	1 cut(s)	225
BstKTI	GATC	2 cut(s)	153, 420
BstMAI	GTCTC	1 cut(s)	239
BstMBI	GATC	2 cut(s)	150, 417
BstMWI	GCNNNNNNNGC	1 cut(s)	608
BstNI	CCWGG	1 cut(s)	20
BstSCI	CCNGG	1 cut(s)	18
BstSFI	CTRYAG	1 cut(s)	30
BsuI	GTATCC	1 cut(s)	88
BtgI	CCRYGG	1 cut(s)	573
BtsCI	GGATG	1 cut(s)	225
BtsIMutI	CAGTG	1 cut(s)	493
CciI	TCATGA	1 cut(s)	159
Cfr13I	GGNCC	2 cut(s)	244, 311
CseI	GACGC	1 cut(s)	591
Csp6I	GTAC	1 cut(s)	349
CviAII	CATG	3 cut(s)	160, 346, 574
CviJI	RGCY	7 cut(s)	5, 23, 35, 91, 273, 510, 590
CviKI_1	RGCY	7 cut(s)	5, 23, 35, 91, 273, 510, 590
CviQI	GTAC	1 cut(s)	349
DdeI	CTNAG	1 cut(s)	6
DpnI	GATC	2 cut(s)	152, 419
DpnII	GATC	2 cut(s)	150, 417
DriI	GACNNNNNGTC	1 cut(s)	67
Eam1104I	CTCTTC	1 cut(s)	98
Eam1105I	GACNNNNNGTC	1 cut(s)	67
EarI	CTCTTC	1 cut(s)	98
Ecl136II	GAGCTC	1 cut(s)	91
Eco130I	CCWWGG	3 cut(s)	201, 352, 573
Eco24I	GRGCYC	1 cut(s)	93
Eco47I	GGWCC	2 cut(s)	244, 311
Eco53kI	GAGCTC	1 cut(s)	91
EcoICRI	GAGCTC	1 cut(s)	91
EcoO109I	RGGNCCY	1 cut(s)	311
EcoRII	CCWGG	1 cut(s)	18
EcoT14I	CCWWGG	3 cut(s)	201, 352, 573
EcoT38I	GRGCYC	1 cut(s)	93
ErhI	CCWWGG	3 cut(s)	201, 352, 573
FaeI	CATG	3 cut(s)	163, 349, 577
FaiI	YATR	8 cut(s)	32, 126, 155, 161, 347, 548, 575, 587
FaqI	GGGAC	4 cut(s)	230, 297, 346, 381
FatI	CATG	3 cut(s)	159, 345, 573
FauI	CCCGC	1 cut(s)	256
FokI	GGATG	1 cut(s)	212
FriOI	GRGCYC	1 cut(s)	93
GsaI	CCCAGC	1 cut(s)	41
HgaI	GACGC	1 cut(s)	591
Hin1I	GRCGYC	1 cut(s)	602
Hin1II	CATG	3 cut(s)	163, 349, 577
HincII	GTYRAC	1 cut(s)	498
HindII	GTYRAC	1 cut(s)	498
HindIII	AAGCTT	1 cut(s)	271
HinfI	GANTC	1 cut(s)	68
HpaI	GTTAAC	1 cut(s)	498
Hpy166II	GTNNAC	2 cut(s)	120, 498
Hpy188I	TCNGA	2 cut(s)	82, 150
Hpy188III	TCNNGA	3 cut(s)	160, 193, 289
Hpy8I	GTNNAC	2 cut(s)	120, 498
Hpy99I	CGWCG	1 cut(s)	428
HpyCH4III	ACNGT	4 cut(s)	166, 181, 461, 488
HpyCH4IV	ACGT	1 cut(s)	423
HpyCH4V	TGCA	3 cut(s)	329, 582, 630
HpyF10VI	GCNNNNNNNGC	1 cut(s)	608
HpyF3I	CTNAG	1 cut(s)	6
HpySE526I	ACGT	1 cut(s)	423
Hsp92I	GRCGYC	1 cut(s)	602
Hsp92II	CATG	3 cut(s)	163, 349, 577
KflI	GGGWCCC	1 cut(s)	311
KspAI	GTTAAC	1 cut(s)	498
Kzo9I	GATC	2 cut(s)	150, 417
LweI	GCATC	2 cut(s)	316, 531
MaeII	ACGT	1 cut(s)	423
MaeIII	GTNAC	3 cut(s)	47, 59, 373
MalI	GATC	2 cut(s)	152, 419
MboI	GATC	2 cut(s)	150, 417
MboII	GAAGA	6 cut(s)	22, 95, 115, 127, 427, 565
MhlI	GDGCHC	1 cut(s)	93
MluCI	AATT	4 cut(s)	108, 304, 479, 536
MlyI	GAGTC	1 cut(s)	77
MnlI	CCTC	1 cut(s)	421
MroXI	GAANNNNTTC	1 cut(s)	403
MseI	TTAA	3 cut(s)	111, 497, 615
MslI	CAYNNNNRTG	2 cut(s)	158, 344
MspR9I	CCNGG	1 cut(s)	20
Mva1269I	GAATGC	2 cut(s)	405, 571
MvaI	CCWGG	1 cut(s)	20
MwoI	GCNNNNNNNGC	1 cut(s)	608
NcoI	CCATGG	1 cut(s)	573
NdeII	GATC	2 cut(s)	150, 417
NlaIII	CATG	3 cut(s)	163, 349, 577
NlaIV	GGNNCC	3 cut(s)	246, 312, 313
NmuCI	GTSAC	1 cut(s)	59
PagI	TCATGA	1 cut(s)	159
PctI	GAATGC	2 cut(s)	405, 571
PdmI	GAANNNNTTC	1 cut(s)	403
PflMI	CCANNNNNTGG	1 cut(s)	44
PleI	GAGTC	1 cut(s)	76
PpsI	GAGTC	1 cut(s)	76
PpuMI	RGGWCCY	1 cut(s)	311
Psp124BI	GAGCTC	1 cut(s)	93
Psp5II	RGGWCCY	1 cut(s)	311
Psp6I	CCWGG	1 cut(s)	18
PspFI	CCCAGC	1 cut(s)	37
PspGI	CCWGG	1 cut(s)	18
PspN4I	GGNNCC	3 cut(s)	246, 312, 313
PspPI	GGNCC	2 cut(s)	244, 311
PspPPI	RGGWCCY	1 cut(s)	311
RsaI	GTAC	1 cut(s)	350
RsaNI	GTAC	1 cut(s)	349
RseI	CAYNNNNRTG	2 cut(s)	158, 344
SacI	GAGCTC	1 cut(s)	93
SaqAI	TTAA	3 cut(s)	111, 497, 615
Sau3AI	GATC	2 cut(s)	150, 417
Sau96I	GGNCC	2 cut(s)	244, 311
SchI	GAGTC	1 cut(s)	77
ScrFI	CCNGG	1 cut(s)	20
SduI	GDGCHC	1 cut(s)	93
SetI	ASST	9 cut(s)	93, 125, 207, 212, 275, 358, 426, 432, 592
SfaNI	GCATC	2 cut(s)	316, 531
SfcI	CTRYAG	1 cut(s)	30
SinI	GGWCC	2 cut(s)	244, 311
SmiMI	CAYNNNNRTG	2 cut(s)	158, 344
Sse9I	AATT	4 cut(s)	108, 304, 479, 536
SsiI	CCGC	2 cut(s)	249, 611
SstI	GAGCTC	1 cut(s)	93
StyD4I	CCNGG	1 cut(s)	18
StyI	CCWWGG	3 cut(s)	201, 352, 573
TaaI	ACNGT	4 cut(s)	166, 181, 461, 488
TaiI	ACGT	1 cut(s)	426
TaqI	TCGA	2 cut(s)	264, 426
TaqII	GACCGA	1 cut(s)	232
TasI	AATT	4 cut(s)	108, 304, 479, 536
Tru1I	TTAA	3 cut(s)	111, 497, 615
Tru9I	TTAA	3 cut(s)	111, 497, 615
TscAI	CASTG	1 cut(s)	493
TseFI	GTSAC	1 cut(s)	59
Tsp45I	GTSAC	1 cut(s)	59
TspDTI	ATGAA	4 cut(s)	127, 200, 334, 566
TspGWI	ACGGA	1 cut(s)	78
TspRI	CASTG	1 cut(s)	493
Van91I	CCANNNNNTGG	1 cut(s)	44
VpaK11BI	GGWCC	2 cut(s)	244, 311
XmnI	GAANNNNTTC	1 cut(s)	403

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