Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0004598

Physical Location & Seq

Genomic Coordinates Forward (+)

52298544 .. 52299892

Gene Structure 1349 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG323400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGGCATTCAAAGGAATTGAGATGGGTCTAGCCCTGATCCTAGTGACCATGCTACTGGGTCGAGCCACAGCTCAATCAAGTTGCAGTAGTACACTCACAAGCCTGTCTCCATGCCTAAATTACATTACAGGAAACTCATCAAATCCATCGTCTTCTTGCTGCTCACAGCTCTCAAATGTTGTTCAGTCATCGCCGCAGTGCCTATGCTCAGTGCTTAATAGCGCCGGTTCCACATTGGGCATCACAATAAACCAAACACTTGCTCTTTCTCTTCCTGGTGCTTGCAATGTGAAAACTCCACCCATTAACCAGTGTCAATCTGCCAATGGACCTACAACTTCTTCATCAAGTACTCCACCAGCAATTTCCCCAGCTGGTTCCTCAAATGAAACCCCTGCAGATGCAGATACCCCTGAAGCTGCAATTACGCCTTCAGCTTCGGATGTTCCTTCAACAGGTATACGTTTAAAAGTTCAAAACTTCAAATAG

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

162

Amino Acids

16.28

Weight (kDa)

6.04

Isoelectric Point (pI)

52.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	19 - 105	3.1e-19	Probable lipid transfer
Tryp_alpha_amyl	PF00234	28 - 105	7.1e-13	Protease inhibitor/seed storage/LTP family

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

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)
AccI	GTMKAC	1 cut(s)	460
AciI	CCGC	1 cut(s)	194
AclWI	GGATC	1 cut(s)	31
AcuI	CTGAAG	2 cut(s)	417, 435
AfaI	GTAC	2 cut(s)	91, 352
AfiI	CCNNNNNNNGG	1 cut(s)	455
AgsI	TTSAA	4 cut(s)	10, 453, 476, 484
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
Alw26I	GTCTC	1 cut(s)	111
AlwI	GGATC	1 cut(s)	31
ApeKI	GCWGC	2 cut(s)	159, 419
ArsI	GACNNNNNNTTYG	2 cut(s)	134, 166
AspLEI	GCGC	1 cut(s)	224
AspS9I	GGNCC	1 cut(s)	329
AvaII	GGWCC	1 cut(s)	329
BbsI	GAAGAC	1 cut(s)	144
BbvI	GCAGC	2 cut(s)	146, 406
BccI	CCATC	2 cut(s)	16, 154
BciT130I	CCWGG	1 cut(s)	276
BcoDI	GTCTC	1 cut(s)	111
BfaI	CTAG	2 cut(s)	29, 41
BfmI	CTRYAG	1 cut(s)	396
BfoI	RGCGCY	1 cut(s)	225
BisI	GCNGC	3 cut(s)	160, 194, 420
BlsI	GCNGC	3 cut(s)	161, 195, 421
BmcAI	AGTACT	1 cut(s)	352
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	2 cut(s)	249, 391
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	1 cut(s)	292
BseBI	CCWGG	1 cut(s)	276
BseGI	GGATG	1 cut(s)	448
BseLI	CCNNNNNNNGG	1 cut(s)	455
BseMI	GCAATG	1 cut(s)	292
BseMII	CTCAG	1 cut(s)	222
BseNI	ACTGG	2 cut(s)	60, 310
BseXI	GCAGC	2 cut(s)	146, 406
BseYI	CCCAGC	1 cut(s)	370
BsiSI	CCGG	1 cut(s)	225
BslI	CCNNNNNNNGG	1 cut(s)	455
BsmAI	GTCTC	1 cut(s)	111
BsmI	GAATGC	1 cut(s)	5
Bsp143I	GATC	1 cut(s)	36
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	1 cut(s)	31
BsrDI	GCAATG	1 cut(s)	292
BsrFI	RCCGGY	1 cut(s)	224
BsrI	ACTGG	2 cut(s)	60, 310
BssAI	RCCGGY	1 cut(s)	224
BssMI	GATC	1 cut(s)	36
BssNAI	GTATAC	1 cut(s)	461
Bst1107I	GTATAC	1 cut(s)	461
Bst2UI	CCWGG	1 cut(s)	276
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
BstH2I	RGCGCY	1 cut(s)	225
BstHHI	GCGC	1 cut(s)	224
BstKTI	GATC	1 cut(s)	39
BstMAI	GTCTC	1 cut(s)	111
BstMBI	GATC	1 cut(s)	36
BstNI	CCWGG	1 cut(s)	276
BstSCI	CCNGG	1 cut(s)	274
BstSFI	CTRYAG	1 cut(s)	396
BstV1I	GCAGC	2 cut(s)	146, 406
BstV2I	GAAGAC	1 cut(s)	144
BstXI	CCANNNNNNTGG	1 cut(s)	55
BstZ17I	GTATAC	1 cut(s)	461
BtgZI	GCGATG	1 cut(s)	174
BtsCI	GGATG	1 cut(s)	448
BtsI	GCAGTG	1 cut(s)	203
BtsIMutI	CAGTG	3 cut(s)	203, 216, 317
Cac8I	GCNNGC	1 cut(s)	283
CfoI	GCGC	1 cut(s)	224
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	8 cut(s)	32, 65, 71, 102, 169, 374, 419, 437
CviKI_1	RGCY	8 cut(s)	32, 65, 71, 102, 169, 374, 419, 437
CviQI	GTAC	2 cut(s)	90, 351
DdeI	CTNAG	1 cut(s)	208
DpnI	GATC	1 cut(s)	38
DpnII	GATC	1 cut(s)	36
DraI	TTTAAA	1 cut(s)	468
Eam1104I	CTCTTC	1 cut(s)	276
EarI	CTCTTC	1 cut(s)	276
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
FaeI	CATG	2 cut(s)	52, 114
FaiI	YATR	4 cut(s)	50, 112, 205, 461
FatI	CATG	2 cut(s)	48, 110
FblI	GTMKAC	1 cut(s)	460
Fnu4HI	GCNGC	3 cut(s)	160, 194, 420
FokI	GGATG	1 cut(s)	455
Fsp4HI	GCNGC	3 cut(s)	160, 194, 420
FspBI	CTAG	2 cut(s)	29, 41
GlaI	GCGC	1 cut(s)	223
GluI	GCNGC	3 cut(s)	160, 194, 420
GsaI	CCCAGC	1 cut(s)	374
HaeII	RGCGCY	1 cut(s)	225
HapII	CCGG	1 cut(s)	225
HhaI	GCGC	1 cut(s)	224
Hin1II	CATG	2 cut(s)	52, 114
Hin6I	GCGC	1 cut(s)	222
HinP1I	GCGC	1 cut(s)	222
HpaII	CCGG	1 cut(s)	225
Hpy166II	GTNNAC	2 cut(s)	92, 461
Hpy188I	TCNGA	1 cut(s)	442
Hpy8I	GTNNAC	2 cut(s)	92, 461
HpyAV	CCTTC	2 cut(s)	441, 459
HpyCH4IV	ACGT	1 cut(s)	463
HpyCH4V	TGCA	5 cut(s)	84, 285, 398, 404, 422
HpyF3I	CTNAG	1 cut(s)	208
HpySE526I	ACGT	1 cut(s)	463
Hsp92II	CATG	2 cut(s)	52, 114
HspAI	GCGC	1 cut(s)	222
Kzo9I	GATC	1 cut(s)	36
Lsp1109I	GCAGC	2 cut(s)	146, 406
LweI	GCATC	2 cut(s)	249, 391
MaeI	CTAG	2 cut(s)	29, 41
MaeII	ACGT	1 cut(s)	463
MaeIII	GTNAC	1 cut(s)	43
MalI	GATC	1 cut(s)	38
MboI	GATC	1 cut(s)	36
MboII	GAAGA	3 cut(s)	144, 263, 333
MluCI	AATT	4 cut(s)	15, 118, 363, 423
MnlI	CCTC	1 cut(s)	391
MseI	TTAA	3 cut(s)	216, 306, 467
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	1 cut(s)	36
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	3 cut(s)	161, 195, 421
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
PvuII	CAGCTG	1 cut(s)	374
RsaI	GTAC	2 cut(s)	91, 352
RsaNI	GTAC	2 cut(s)	90, 351
SaqAI	TTAA	3 cut(s)	216, 306, 467
SatI	GCNGC	3 cut(s)	160, 194, 420
Sau3AI	GATC	1 cut(s)	36
Sau96I	GGNCC	1 cut(s)	329
ScaI	AGTACT	1 cut(s)	352
ScrFI	CCNGG	1 cut(s)	276
SetI	ASST	8 cut(s)	73, 171, 334, 376, 421, 439, 460, 466
SfaNI	GCATC	2 cut(s)	249, 391
SfcI	CTRYAG	1 cut(s)	396
SinI	GGWCC	1 cut(s)	329
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
TaiI	ACGT	1 cut(s)	466
TaqI	TCGA	1 cut(s)	61
TasI	AATT	4 cut(s)	15, 118, 363, 423
TatI	WGTACW	2 cut(s)	89, 350
TauI	GCSGC	1 cut(s)	196
Tru1I	TTAA	3 cut(s)	216, 306, 467
Tru9I	TTAA	3 cut(s)	216, 306, 467
TscAI	CASTG	3 cut(s)	203, 216, 317
TseFI	GTSAC	1 cut(s)	43
TseI	GCWGC	2 cut(s)	159, 419
Tsp45I	GTSAC	1 cut(s)	43
TspDTI	ATGAA	2 cut(s)	333, 402
TspRI	CASTG	3 cut(s)	203, 216, 317
VpaK11BI	GGWCC	1 cut(s)	329
XagI	CCTNNNNNAGG	1 cut(s)	453
XmiI	GTMKAC	1 cut(s)	460
XspI	CTAG	2 cut(s)	29, 41
ZrmI	AGTACT	1 cut(s)	352

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