Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004598

Physical Location & Seq

Genomic Coordinates Forward (+)

52859002 .. 52861317

Gene Structure 2316 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG323800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGGCATTCAAAGGAATTGAGATGGGTCTAGCCCTGATCCTAGTGACCATGCTACTGGGTCGAGCCACAGCTCAATCAAGTTGCAGTAGTACACTCACAAGCCTGTCTCCATGCCTAAATTACATTACAGGAAACTCATCAAATCCATCGTCTTCTTGCTGCTCACAGCTCTCAAATGTTGTTCAGTCATCGCCGCAATGCCTGTGCTCAGTGCTTAATAGTGCCGGTTCCACATTGGGCATCACAATAAACCAAACACTTGCTCTGTCTCTTCCTGGTGCTTGCAATGTGAAAACTTCACCCATTAACCAGTGTCAATCTGCCAATGGACCTACAACTTCTTCATCAAGTACCCCACCAGCAATTTCCCCAGCTGGTTCCTCAAATGAAACCCCTGCAGATGCAGATACACCTGAAGCTGCAATTACGCCTTCAGCTTCGGATGTTCCTTCAACAGGAGGATCTAAAACAGTGCCATCAACAGACGGTAACACATCAGATGGAAGCAGCATCAAAGCCCCCCTTCATTTTGTGCCCTTCTTCATTTTCGTGATATCTTGCGCTTCAAGTTTCACCAAGTTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0031224 GO:0031225 GO:0031226 GO:0044425 GO:0044459 GO:0044464 GO:0046658 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2

Protein Analysis

194

Amino Acids

19.45

Weight (kDa)

5.04

Isoelectric Point (pI)

57.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	19 - 105	8.8e-19	Probable lipid transfer
Tryp_alpha_amyl	PF00234	28 - 105	5.7e-12	Protease inhibitor/seed storage/LTP family

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004598)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G48130 AT2G48130 AT2G48130 AT2G48130 AT2G48130 AT2G48130
fragaria_vesca	FvH4_2g23211 FvH4_2g23211 FvH4_2g23220
malus_domestica	MD11G1282000.v1.1 MD11G1282300.v1.1
prunus_persica	Prupe.8G237900_v2.0.a1
pyrus_communis	pycom11g25000
rosa_chinensis	RchiOBHm_Chr6g0290491 RchiOBHm_Chr6g0290511
rosa_laevigata	RLG00000012208 RLG00000012210
rosa_multiflora	Rmu_co8420797.1_g000001 Rmu_sc0002890.1_g000017 Rmu_sc0002890.1_g000019
rosa_roxburghii	Rroxscaffold_7G00176990 Rroxscaffold_7G00177010
rosa_rugosa	Rorug06G0212900
rosa_samantha	Rh6AG323400 Rh6BG330600 Rh6BG330800 Rh6CG336900 Rh6DG323800 Rh6DG324000
rosa_wichuraiana	Rw6G028040 Rw6G028050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	194
AclWI	GGATC	2 cut(s)	31, 469
AcuI	CTGAAG	2 cut(s)	417, 435
AfaI	GTAC	2 cut(s)	91, 352
AfiI	CCNNNNNNNGG	1 cut(s)	455
AgsI	TTSAA	3 cut(s)	10, 453, 567
AjnI	CCWGG	1 cut(s)	274
AluBI	AGCT	5 cut(s)	71, 169, 374, 419, 437
AluI	AGCT	5 cut(s)	71, 169, 374, 419, 437
Alw21I	GWGCWC	1 cut(s)	209
Alw26I	GTCTC	2 cut(s)	111, 273
AlwI	GGATC	2 cut(s)	31, 469
ApeKI	GCWGC	3 cut(s)	159, 419, 507
ArsI	GACNNNNNNTTYG	2 cut(s)	134, 166
AspLEI	GCGC	1 cut(s)	563
AspS9I	GGNCC	1 cut(s)	329
AsuHPI	GGTGA	2 cut(s)	291, 565
AvaII	GGWCC	1 cut(s)	329
BaeGI	GKGCMC	1 cut(s)	537
BbsI	GAAGAC	1 cut(s)	144
Bbv12I	GWGCWC	1 cut(s)	209
BbvI	GCAGC	3 cut(s)	146, 406, 519
BccI	CCATC	4 cut(s)	16, 154, 484, 494
BciT130I	CCWGG	1 cut(s)	276
BcoDI	GTCTC	2 cut(s)	111, 273
BfaI	CTAG	2 cut(s)	29, 41
BfmI	CTRYAG	1 cut(s)	396
BisI	GCNGC	4 cut(s)	160, 194, 420, 508
BlsI	GCNGC	4 cut(s)	161, 195, 421, 509
Bme1390I	CCNGG	1 cut(s)	276
Bme18I	GGWCC	1 cut(s)	329
BmgT120I	GGNCC	1 cut(s)	329
BmiI	GGNNCC	2 cut(s)	229, 379
BmrFI	CCNGG	1 cut(s)	276
BmrI	ACTGGG	1 cut(s)	65
BmsI	GCATC	3 cut(s)	249, 391, 519
BmuI	ACTGGG	1 cut(s)	65
BpiI	GAAGAC	1 cut(s)	144
Bsc4I	CCNNNNNNNGG	1 cut(s)	455
Bse118I	RCCGGY	1 cut(s)	224
Bse1I	ACTGG	2 cut(s)	60, 310
Bse3DI	GCAATG	2 cut(s)	203, 292
BseBI	CCWGG	1 cut(s)	276
BseGI	GGATG	1 cut(s)	448
BseLI	CCNNNNNNNGG	1 cut(s)	455
BseMI	GCAATG	2 cut(s)	203, 292
BseMII	CTCAG	1 cut(s)	222
BseNI	ACTGG	2 cut(s)	60, 310
BseSI	GKGCMC	1 cut(s)	537
BseXI	GCAGC	3 cut(s)	146, 406, 519
BseYI	CCCAGC	1 cut(s)	370
BsiHKAI	GWGCWC	1 cut(s)	209
BsiSI	CCGG	1 cut(s)	225
BslI	CCNNNNNNNGG	1 cut(s)	455
BsmAI	GTCTC	2 cut(s)	111, 273
BsmI	GAATGC	1 cut(s)	5
Bsp1286I	GDGCHC	2 cut(s)	209, 537
Bsp143I	GATC	2 cut(s)	36, 461
BspACI	CCGC	1 cut(s)	194
BspCNI	CTCAG	1 cut(s)	221
BspLI	GGNNCC	2 cut(s)	229, 379
BspMAI	CTGCAG	1 cut(s)	400
BspPI	GGATC	2 cut(s)	31, 469
BsrDI	GCAATG	2 cut(s)	203, 292
BsrFI	RCCGGY	1 cut(s)	224
BsrI	ACTGG	2 cut(s)	60, 310
BssAI	RCCGGY	1 cut(s)	224
BssMI	GATC	2 cut(s)	36, 461
Bst2UI	CCWGG	1 cut(s)	276
Bst4CI	ACNGT	2 cut(s)	472, 488
Bst6I	CTCTTC	1 cut(s)	276
BstC8I	GCNNGC	1 cut(s)	283
BstDEI	CTNAG	1 cut(s)	208
BstENI	CCTNNNNNAGG	1 cut(s)	453
BstF5I	GGATG	1 cut(s)	448
BstHHI	GCGC	1 cut(s)	563
BstKTI	GATC	2 cut(s)	39, 464
BstMAI	GTCTC	2 cut(s)	111, 273
BstMBI	GATC	2 cut(s)	36, 461
BstNI	CCWGG	1 cut(s)	276
BstSCI	CCNGG	1 cut(s)	274
BstSFI	CTRYAG	1 cut(s)	396
BstSLI	GKGCMC	1 cut(s)	537
BstV1I	GCAGC	3 cut(s)	146, 406, 519
BstV2I	GAAGAC	1 cut(s)	144
BstX2I	RGATCY	1 cut(s)	461
BstXI	CCANNNNNNTGG	1 cut(s)	55
BstYI	RGATCY	1 cut(s)	461
BtgZI	GCGATG	1 cut(s)	174
BtsCI	GGATG	1 cut(s)	448
BtsIMutI	CAGTG	3 cut(s)	216, 317, 477
Cac8I	GCNNGC	1 cut(s)	283
CfoI	GCGC	1 cut(s)	563
Cfr10I	RCCGGY	1 cut(s)	224
Cfr13I	GGNCC	1 cut(s)	329
Csp6I	GTAC	2 cut(s)	90, 351
CviAII	CATG	2 cut(s)	49, 111
CviJI	RGCY	9 cut(s)	32, 65, 71, 102, 169, 374, 419, 437, 518
CviKI_1	RGCY	9 cut(s)	32, 65, 71, 102, 169, 374, 419, 437, 518
CviQI	GTAC	2 cut(s)	90, 351
DdeI	CTNAG	1 cut(s)	208
DpnI	GATC	2 cut(s)	38, 463
DpnII	GATC	2 cut(s)	36, 461
Eam1104I	CTCTTC	1 cut(s)	276
EarI	CTCTTC	1 cut(s)	276
Eco32I	GATATC	1 cut(s)	555
Eco47I	GGWCC	1 cut(s)	329
Eco57I	CTGAAG	2 cut(s)	417, 435
EcoNI	CCTNNNNNAGG	1 cut(s)	453
EcoRII	CCWGG	1 cut(s)	274
EcoRV	GATATC	1 cut(s)	555
FaeI	CATG	2 cut(s)	52, 114
FaiI	YATR	2 cut(s)	50, 112
FalI	AAGNNNNNCTT	2 cut(s)	507, 539
FatI	CATG	2 cut(s)	48, 110
Fnu4HI	GCNGC	4 cut(s)	160, 194, 420, 508
FokI	GGATG	1 cut(s)	455
Fsp4HI	GCNGC	4 cut(s)	160, 194, 420, 508
FspBI	CTAG	2 cut(s)	29, 41
GlaI	GCGC	1 cut(s)	562
GluI	GCNGC	4 cut(s)	160, 194, 420, 508
GsaI	CCCAGC	1 cut(s)	374
HapII	CCGG	1 cut(s)	225
HhaI	GCGC	1 cut(s)	563
Hin1II	CATG	2 cut(s)	52, 114
Hin6I	GCGC	1 cut(s)	561
HinP1I	GCGC	1 cut(s)	561
HpaII	CCGG	1 cut(s)	225
HphI	GGTGA	2 cut(s)	291, 565
Hpy166II	GTNNAC	1 cut(s)	92
Hpy188I	TCNGA	2 cut(s)	442, 499
Hpy188III	TCNNGA	1 cut(s)	550
Hpy8I	GTNNAC	1 cut(s)	92
HpyAV	CCTTC	4 cut(s)	441, 459, 533, 547
HpyCH4III	ACNGT	2 cut(s)	472, 488
HpyCH4V	TGCA	5 cut(s)	84, 285, 398, 404, 422
HpyF3I	CTNAG	1 cut(s)	208
Hsp92II	CATG	2 cut(s)	52, 114
HspAI	GCGC	1 cut(s)	561
Kzo9I	GATC	2 cut(s)	36, 461
Lsp1109I	GCAGC	3 cut(s)	146, 406, 519
LweI	GCATC	3 cut(s)	249, 391, 519
MaeI	CTAG	2 cut(s)	29, 41
MaeIII	GTNAC	2 cut(s)	43, 488
MalI	GATC	2 cut(s)	38, 463
MboI	GATC	2 cut(s)	36, 461
MboII	GAAGA	4 cut(s)	144, 263, 333, 532
MflI	RGATCY	1 cut(s)	461
MhlI	GDGCHC	2 cut(s)	209, 537
MluCI	AATT	4 cut(s)	15, 118, 363, 423
MnlI	CCTC	2 cut(s)	391, 452
MseI	TTAA	3 cut(s)	216, 306, 583
MslI	CAYNNNNRTG	1 cut(s)	548
MspA1I	CMGCKG	1 cut(s)	374
MspI	CCGG	1 cut(s)	225
MspR9I	CCNGG	1 cut(s)	276
Mva1269I	GAATGC	1 cut(s)	5
MvaI	CCWGG	1 cut(s)	276
NdeII	GATC	2 cut(s)	36, 461
NlaIII	CATG	2 cut(s)	52, 114
NlaIV	GGNNCC	2 cut(s)	229, 379
NmuCI	GTSAC	1 cut(s)	43
PctI	GAATGC	1 cut(s)	5
PkrI	GCNGC	4 cut(s)	161, 195, 421, 509
Psp6I	CCWGG	1 cut(s)	274
PspFI	CCCAGC	1 cut(s)	370
PspGI	CCWGG	1 cut(s)	274
PspN4I	GGNNCC	2 cut(s)	229, 379
PspPI	GGNCC	1 cut(s)	329
PstI	CTGCAG	1 cut(s)	400
PsuI	RGATCY	1 cut(s)	461
PvuII	CAGCTG	1 cut(s)	374
RsaI	GTAC	2 cut(s)	91, 352
RsaNI	GTAC	2 cut(s)	90, 351
RseI	CAYNNNNRTG	1 cut(s)	548
SaqAI	TTAA	3 cut(s)	216, 306, 583
SatI	GCNGC	4 cut(s)	160, 194, 420, 508
Sau3AI	GATC	2 cut(s)	36, 461
Sau96I	GGNCC	1 cut(s)	329
ScrFI	CCNGG	1 cut(s)	276
SduI	GDGCHC	2 cut(s)	209, 537
SetI	ASST	7 cut(s)	73, 171, 334, 376, 415, 421, 439
SfaNI	GCATC	3 cut(s)	249, 391, 519
SfcI	CTRYAG	1 cut(s)	396
SinI	GGWCC	1 cut(s)	329
SmiMI	CAYNNNNRTG	1 cut(s)	548
Sse9I	AATT	4 cut(s)	15, 118, 363, 423
SsiI	CCGC	1 cut(s)	194
SspMI	CTAG	2 cut(s)	29, 41
StyD4I	CCNGG	1 cut(s)	274
TaaI	ACNGT	2 cut(s)	472, 488
TaqI	TCGA	1 cut(s)	61
TasI	AATT	4 cut(s)	15, 118, 363, 423
TatI	WGTACW	1 cut(s)	89
TauI	GCSGC	1 cut(s)	196
Tru1I	TTAA	3 cut(s)	216, 306, 583
Tru9I	TTAA	3 cut(s)	216, 306, 583
TscAI	CASTG	3 cut(s)	216, 317, 477
TseFI	GTSAC	1 cut(s)	43
TseI	GCWGC	3 cut(s)	159, 419, 507
Tsp45I	GTSAC	1 cut(s)	43
TspDTI	ATGAA	4 cut(s)	333, 402, 515, 532
TspRI	CASTG	3 cut(s)	216, 317, 477
VpaK11BI	GGWCC	1 cut(s)	329
XagI	CCTNNNNNAGG	1 cut(s)	453
XspI	CTAG	2 cut(s)	29, 41

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