Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004598

Physical Location & Seq

Genomic Coordinates Forward (+)

52862837 .. 52863914

Gene Structure 1078 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG324000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGGCGTTCAAAGGAATTGAGTTGGGTCTTGCCCTGGTCTTAGTGATCATGCTACTGGGTCGAGCCACAGCTCAATCAAGTTGCACCAGTACACTCGCAAGCCTGGCTCCATGCCTCAACTACGTTACCGGAAACTCATCAACCCCGTCGTCTTCTTGCTGCTCGCAGCTCTCAATAGTTGTACAGTCATCGCCGCAGTGCCTTTGCTCATTGCTCAATGGCGGAGGTTCCACATTGGGCATCACCATAAACCAAACACTTGCTCTATCTCTTCCTGGTGCTTGTAATGTGAAAACTCCACCCGTTAGCCAGTGTAAATCTGCCAATGGACCTACAACTTCTTCAGCAAGTACTCCTACAGCGAGTTCCCCAGCAGATTCCAACAATCAAACACCCGCAGATGCAAATACACCTGAAGCTGCAATTACACCTTCAGCCTCAGATGTTCCAGCAGGAGGGTCTAAAACAGTTCCATCAACAGACGGCGACACATCCGATGGAAGCAGGAGCATCAATGCACCCCTTCACTTCGTGCTCTTCCTTATTTTCGTTGTATCCTGTGCTTCAAGCATCACCAAATTTTGA

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

19.32

Weight (kDa)

5.58

Isoelectric Point (pI)

53.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	19 - 105	1.3e-18	Probable lipid transfer
Tryp_alpha_amyl	PF00234	28 - 105	7.2e-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

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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	3 cut(s)	194, 222, 396
AcsI	RAATTY	1 cut(s)	578
AcuI	CTGAAG	3 cut(s)	327, 417, 435
AdeI	CACNNNGTG	1 cut(s)	532
AfaI	GTAC	3 cut(s)	91, 183, 352
AfiI	CCNNNNNNNGG	1 cut(s)	455
AgsI	TTSAA	2 cut(s)	10, 567
AjnI	CCWGG	3 cut(s)	33, 102, 274
AluBI	AGCT	3 cut(s)	71, 169, 419
AluI	AGCT	3 cut(s)	71, 169, 419
Alw21I	GWGCWC	1 cut(s)	537
ApeKI	GCWGC	3 cut(s)	159, 166, 419
ApoI	RAATTY	1 cut(s)	578
AspS9I	GGNCC	1 cut(s)	329
AsuHPI	GGTGA	2 cut(s)	235, 565
AvaII	GGWCC	1 cut(s)	329
BbsI	GAAGAC	1 cut(s)	144
Bbv12I	GWGCWC	1 cut(s)	537
BbvI	GCAGC	3 cut(s)	146, 178, 406
BccI	CCATC	2 cut(s)	481, 491
BceAI	ACGGC	1 cut(s)	499
BciT130I	CCWGG	3 cut(s)	35, 104, 276
BciVI	GTATCC	1 cut(s)	565
BclI	TGATCA	1 cut(s)	45
BfmI	CTRYAG	1 cut(s)	357
BfuI	GTATCC	1 cut(s)	565
BisI	GCNGC	4 cut(s)	160, 167, 194, 420
BlsI	GCNGC	4 cut(s)	161, 168, 195, 421
BmcAI	AGTACT	1 cut(s)	352
Bme1390I	CCNGG	3 cut(s)	35, 104, 276
Bme18I	GGWCC	1 cut(s)	329
BmgT120I	GGNCC	1 cut(s)	329
BmiI	GGNNCC	2 cut(s)	108, 229
BmrFI	CCNGG	3 cut(s)	35, 104, 276
BmrI	ACTGGG	1 cut(s)	65
BmsI	GCATC	4 cut(s)	249, 391, 519, 579
BmuI	ACTGGG	1 cut(s)	65
BpiI	GAAGAC	1 cut(s)	144
BsaJI	CCNNGG	1 cut(s)	33
BsaWI	WCCGGW	1 cut(s)	128
Bsc4I	CCNNNNNNNGG	1 cut(s)	455
Bse1I	ACTGG	3 cut(s)	60, 87, 310
Bse3DI	GCAATG	1 cut(s)	209
BseBI	CCWGG	3 cut(s)	35, 104, 276
BseDI	CCNNGG	1 cut(s)	33
BseGI	GGATG	1 cut(s)	491
BseLI	CCNNNNNNNGG	1 cut(s)	455
BseMI	GCAATG	1 cut(s)	209
BseMII	CTCAG	1 cut(s)	453
BseNI	ACTGG	3 cut(s)	60, 87, 310
BseXI	GCAGC	3 cut(s)	146, 178, 406
BseYI	CCCAGC	1 cut(s)	370
BsiHKAI	GWGCWC	1 cut(s)	537
BsiSI	CCGG	1 cut(s)	129
BslI	CCNNNNNNNGG	1 cut(s)	455
Bsp1286I	GDGCHC	1 cut(s)	537
Bsp1407I	TGTACA	1 cut(s)	181
Bsp143I	GATC	1 cut(s)	45
BspACI	CCGC	3 cut(s)	194, 222, 396
BspCNI	CTCAG	1 cut(s)	452
BspLI	GGNNCC	2 cut(s)	108, 229
BspQI	GCTCTTC	1 cut(s)	542
BsrDI	GCAATG	1 cut(s)	209
BsrGI	TGTACA	1 cut(s)	181
BsrI	ACTGG	3 cut(s)	60, 87, 310
BssECI	CCNNGG	1 cut(s)	33
BssMI	GATC	1 cut(s)	45
Bst2UI	CCWGG	3 cut(s)	35, 104, 276
Bst4CI	ACNGT	2 cut(s)	186, 469
Bst6I	CTCTTC	2 cut(s)	276, 542
BstAUI	TGTACA	1 cut(s)	181
BstC8I	GCNNGC	2 cut(s)	100, 164
BstDEI	CTNAG	2 cut(s)	40, 439
BstF5I	GGATG	1 cut(s)	491
BstKTI	GATC	1 cut(s)	48
BstMBI	GATC	1 cut(s)	45
BstMWI	GCNNNNNNNGC	1 cut(s)	104
BstNI	CCWGG	3 cut(s)	35, 104, 276
BstSCI	CCNGG	3 cut(s)	33, 102, 274
BstSFI	CTRYAG	1 cut(s)	357
BstV1I	GCAGC	3 cut(s)	146, 178, 406
BstV2I	GAAGAC	1 cut(s)	144
BsuI	GTATCC	1 cut(s)	565
BtgZI	GCGATG	1 cut(s)	174
BtsCI	GGATG	1 cut(s)	491
BtsI	GCAGTG	1 cut(s)	203
BtsIMutI	CAGTG	2 cut(s)	203, 317
Cac8I	GCNNGC	2 cut(s)	100, 164
Cfr13I	GGNCC	1 cut(s)	329
Csp6I	GTAC	3 cut(s)	90, 182, 351
CviAII	CATG	2 cut(s)	49, 111
CviJI	RGCY	8 cut(s)	65, 71, 102, 107, 169, 309, 419, 437
CviKI_1	RGCY	8 cut(s)	65, 71, 102, 107, 169, 309, 419, 437
CviQI	GTAC	3 cut(s)	90, 182, 351
DdeI	CTNAG	2 cut(s)	40, 439
DpnI	GATC	1 cut(s)	47
DpnII	GATC	1 cut(s)	45
DraIII	CACNNNGTG	1 cut(s)	532
Eam1104I	CTCTTC	2 cut(s)	276, 542
EarI	CTCTTC	2 cut(s)	276, 542
EciI	GGCGGA	1 cut(s)	237
Eco47I	GGWCC	1 cut(s)	329
Eco57I	CTGAAG	3 cut(s)	327, 417, 435
EcoRII	CCWGG	3 cut(s)	33, 102, 274
FaeI	CATG	2 cut(s)	52, 114
FaiI	YATR	3 cut(s)	50, 112, 248
FatI	CATG	2 cut(s)	48, 110
FauI	CCCGC	1 cut(s)	403
FbaI	TGATCA	1 cut(s)	45
Fnu4HI	GCNGC	4 cut(s)	160, 167, 194, 420
FokI	GGATG	1 cut(s)	478
Fsp4HI	GCNGC	4 cut(s)	160, 167, 194, 420
GluI	GCNGC	4 cut(s)	160, 167, 194, 420
GsaI	CCCAGC	1 cut(s)	374
HapII	CCGG	1 cut(s)	129
Hin1II	CATG	2 cut(s)	52, 114
HinfI	GANTC	1 cut(s)	377
HpaII	CCGG	1 cut(s)	129
HphI	GGTGA	2 cut(s)	235, 565
Hpy166II	GTNNAC	1 cut(s)	92
Hpy188I	TCNGA	2 cut(s)	442, 496
Hpy8I	GTNNAC	1 cut(s)	92
Hpy99I	CGWCG	1 cut(s)	151
HpyAV	CCTTC	2 cut(s)	441, 533
HpyCH4III	ACNGT	2 cut(s)	186, 469
HpyCH4IV	ACGT	1 cut(s)	123
HpyCH4V	TGCA	4 cut(s)	84, 404, 422, 518
HpyF10VI	GCNNNNNNNGC	1 cut(s)	104
HpyF3I	CTNAG	2 cut(s)	40, 439
HpySE526I	ACGT	1 cut(s)	123
Hsp92II	CATG	2 cut(s)	52, 114
Ksp22I	TGATCA	1 cut(s)	45
Kzo9I	GATC	1 cut(s)	45
LguI	GCTCTTC	1 cut(s)	542
LmnI	GCTCC	2 cut(s)	112, 507
Lsp1109I	GCAGC	3 cut(s)	146, 178, 406
LweI	GCATC	4 cut(s)	249, 391, 519, 579
MaeII	ACGT	1 cut(s)	123
MaeIII	GTNAC	1 cut(s)	124
MalI	GATC	1 cut(s)	47
MboI	GATC	1 cut(s)	45
MboII	GAAGA	4 cut(s)	144, 263, 333, 529
MhlI	GDGCHC	1 cut(s)	537
MluCI	AATT	3 cut(s)	15, 423, 578
MmeI	TCCRAC	1 cut(s)	405
MnlI	CCTC	4 cut(s)	125, 218, 448, 449
MspI	CCGG	1 cut(s)	129
MspR9I	CCNGG	3 cut(s)	35, 104, 276
MvaI	CCWGG	3 cut(s)	35, 104, 276
MwoI	GCNNNNNNNGC	1 cut(s)	104
NdeII	GATC	1 cut(s)	45
NlaIII	CATG	2 cut(s)	52, 114
NlaIV	GGNNCC	2 cut(s)	108, 229
PciSI	GCTCTTC	1 cut(s)	542
PfeI	GAWTC	1 cut(s)	377
PkrI	GCNGC	4 cut(s)	161, 168, 195, 421
Psp6I	CCWGG	3 cut(s)	33, 102, 274
PspFI	CCCAGC	1 cut(s)	370
PspGI	CCWGG	3 cut(s)	33, 102, 274
PspN4I	GGNNCC	2 cut(s)	108, 229
PspPI	GGNCC	1 cut(s)	329
RsaI	GTAC	3 cut(s)	91, 183, 352
RsaNI	GTAC	3 cut(s)	90, 182, 351
SapI	GCTCTTC	1 cut(s)	542
SatI	GCNGC	4 cut(s)	160, 167, 194, 420
Sau3AI	GATC	1 cut(s)	45
Sau96I	GGNCC	1 cut(s)	329
ScaI	AGTACT	1 cut(s)	352
ScrFI	CCNGG	3 cut(s)	35, 104, 276
SduI	GDGCHC	1 cut(s)	537
SetI	ASST	8 cut(s)	73, 126, 171, 229, 334, 415, 421, 433
SfaNI	GCATC	4 cut(s)	249, 391, 519, 579
SfcI	CTRYAG	1 cut(s)	357
SinI	GGWCC	1 cut(s)	329
Sse9I	AATT	3 cut(s)	15, 423, 578
SsiI	CCGC	3 cut(s)	194, 222, 396
StyD4I	CCNGG	3 cut(s)	33, 102, 274
TaaI	ACNGT	2 cut(s)	186, 469
TaiI	ACGT	1 cut(s)	126
TaqI	TCGA	1 cut(s)	61
TasI	AATT	3 cut(s)	15, 423, 578
TatI	WGTACW	3 cut(s)	89, 181, 350
TauI	GCSGC	1 cut(s)	196
TfiI	GAWTC	1 cut(s)	377
TscAI	CASTG	2 cut(s)	203, 317
TseI	GCWGC	3 cut(s)	159, 166, 419
TspRI	CASTG	2 cut(s)	203, 317
VpaK11BI	GGWCC	1 cut(s)	329
XapI	RAATTY	1 cut(s)	578
ZrmI	AGTACT	1 cut(s)	352

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