Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0004839

Physical Location & Seq

Genomic Coordinates Reverse (-)

6146491 .. 6162144

Gene Structure 15654 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG041900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 609 bp

ATGACTAGTTGCTGGTCTCTCTTGGCTTTTGGTATTGTGATCAAGGTGTTGATGATCAATCCATATCCTGCAAATGGCCTCACATGCGATGAGACCGCAGGCATTTTGAATCCATGTCAAGATTTTTTGGTTGGAAATGGCCCTCCAACTCCTAGCGCTTCTTGCTGTGGAGCTGTGAAAGAATTGGTTTCTAAAGTTACATCCAGACAAGTACGTAGAGATCTGTGTGAATGTATGAAGCAGATTATTCTTGCCTTTCATATTGACGTTGGAAAACTTCAATACATCATTCCTCAGTATTGCAAGGTCAGAATTCCTGTACCTCTTGATCCCAACGCAGACTGCAGCAAGCGCGATAGCAAACGATTACGCAAGATATTGGAACTGCAAGTTAAGATTAAGAAGCACGACCAGTGCGGGAGGCATAGAGACGAGGCCTTGTGTGAGAAGGAACAAATTTCCAGAGCCAATGATCGAGATGGTCGCGGCGAAATTGGCCGAATTGCAAATAGATTAGAAGACGAGGCTTTGCAGCAGAAGGATGAGATGAAGAATCAATTGGACGACTTCGTTCTGGAGAAGGATAGGGGATTGCCAGAGGTCGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2 Tryp_alpha_amyl

Protein Analysis

202

Amino Acids

22.79

Weight (kDa)

7.47

Isoelectric Point (pI)

39.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	16 - 106	2e-07	Probable lipid transfer
Tryp_alpha_amyl	PF00234	29 - 115	3.5e-06	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

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: OG0004839)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g02840 FvH4_3g01190
malus_domestica	MD10G1328900.v1.1
prunus_persica	Prupe.4G013200_v2.0.a1 Prupe.4G217000_v2.0.a1
pyrus_communis	pycom10g27860
rosa_chinensis	RchiOBHm_Chr5g0047311 RchiOBHm_Chr5g0075671 RchiOBHm_Chr6g0247621
rosa_laevigata	RLG00000015189 RLG00000034489
rosa_multiflora	Rmu_sc0000580.1_g000125 Rmu_sc0003092.1_g000052 Rmu_sc0003441.1_g000086
rosa_roxburghii	Rroxscaffold_1G00034040 Rroxscaffold_7G00213830
rosa_rugosa	Rorug05G0235600 Rorug05G0527600
rosa_samantha	Rh5AG314700 Rh5DG334200 Rh6AG040900 Rh6AG041200 Rh6AG041900 Rh6BG036300 Rh6BG036500 Rh6BG036800 Rh6CG036200
rosa_wichuraiana	Rw5G029420 Rw5G046240 Rw6G003590 Rw6G003610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	354, 486
AciI	CCGC	3 cut(s)	96, 417, 486
AclWI	GGATC	1 cut(s)	323
AcoI	YGGCCR	1 cut(s)	496
AcsI	RAATTY	2 cut(s)	312, 456
AfaI	GTAC	2 cut(s)	213, 321
AfeI	AGCGCT	1 cut(s)	157
AfiI	CCNNNNNNNGG	1 cut(s)	74
AgsI	TTSAA	2 cut(s)	109, 281
AhlI	ACTAGT	1 cut(s)	5
AjuI	GAANNNNNNNTTGG	2 cut(s)	542, 574
AluBI	AGCT	1 cut(s)	173
AluI	AGCT	1 cut(s)	173
Alw26I	GTCTC	3 cut(s)	21, 86, 423
AlwI	GGATC	1 cut(s)	323
Aor51HI	AGCGCT	1 cut(s)	157
AoxI	GGCC	4 cut(s)	76, 139, 435, 496
ApeKI	GCWGC	2 cut(s)	345, 532
ApoI	RAATTY	2 cut(s)	312, 456
AspLEI	GCGC	2 cut(s)	158, 354
AspS9I	GGNCC	1 cut(s)	140
BbsI	GAAGAC	1 cut(s)	525
BbvI	GCAGC	2 cut(s)	357, 544
BccI	CCATC	1 cut(s)	473
BclI	TGATCA	2 cut(s)	39, 54
BcoDI	GTCTC	3 cut(s)	21, 86, 423
BcuI	ACTAGT	1 cut(s)	5
BfaI	CTAG	2 cut(s)	6, 153
BfmI	CTRYAG	1 cut(s)	343
BfoI	RGCGCY	1 cut(s)	159
BglII	AGATCT	1 cut(s)	220
BisI	GCNGC	3 cut(s)	346, 487, 533
BlsI	GCNGC	3 cut(s)	347, 488, 534
BmgT120I	GGNCC	1 cut(s)	140
BpiI	GAAGAC	1 cut(s)	525
BpmI	CTGGAG	1 cut(s)	596
BsaAI	YACGTR	1 cut(s)	215
BsaI	GGTCTC	2 cut(s)	21, 86
Bsc4I	CCNNNNNNNGG	1 cut(s)	74
Bse1I	ACTGG	1 cut(s)	412
BseGI	GGATG	2 cut(s)	200, 547
BseLI	CCNNNNNNNGG	1 cut(s)	74
BseMII	CTCAG	1 cut(s)	308
BseNI	ACTGG	1 cut(s)	412
BseXI	GCAGC	2 cut(s)	357, 544
Bsh1236I	CGCG	2 cut(s)	354, 486
BshFI	GGCC	4 cut(s)	78, 141, 437, 498
BslI	CCNNNNNNNGG	1 cut(s)	74
BsmAI	GTCTC	3 cut(s)	21, 86, 423
BsmBI	CGTCTC	1 cut(s)	423
BsnI	GGCC	4 cut(s)	78, 141, 437, 498
Bso31I	GGTCTC	2 cut(s)	21, 86
Bsp143I	GATC	5 cut(s)	39, 54, 220, 328, 472
BspACI	CCGC	3 cut(s)	96, 417, 486
BspANI	GGCC	4 cut(s)	78, 141, 437, 498
BspCNI	CTCAG	1 cut(s)	307
BspFNI	CGCG	2 cut(s)	354, 486
BspMAI	CTGCAG	1 cut(s)	347
BspPI	GGATC	1 cut(s)	323
BspTNI	GGTCTC	2 cut(s)	21, 86
BsrI	ACTGG	1 cut(s)	412
BssMI	GATC	5 cut(s)	39, 54, 220, 328, 472
BstBAI	YACGTR	1 cut(s)	215
BstC8I	GCNNGC	2 cut(s)	100, 350
BstDEI	CTNAG	1 cut(s)	294
BstF5I	GGATG	2 cut(s)	200, 547
BstFNI	CGCG	2 cut(s)	354, 486
BstH2I	RGCGCY	1 cut(s)	159
BstHHI	GCGC	2 cut(s)	158, 354
BstKTI	GATC	5 cut(s)	42, 57, 223, 331, 475
BstMAI	GTCTC	3 cut(s)	21, 86, 423
BstMBI	GATC	5 cut(s)	39, 54, 220, 328, 472
BstMWI	GCNNNNNNNGC	4 cut(s)	84, 162, 351, 495
BstNSI	RCATGY	1 cut(s)	87
BstSFI	CTRYAG	1 cut(s)	343
BstSNI	TACGTA	1 cut(s)	215
BstUI	CGCG	2 cut(s)	354, 486
BstV1I	GCAGC	2 cut(s)	357, 544
BstV2I	GAAGAC	1 cut(s)	525
BstX2I	RGATCY	1 cut(s)	220
BstYI	RGATCY	1 cut(s)	220
BsuRI	GGCC	4 cut(s)	78, 141, 437, 498
BtgZI	GCGATG	1 cut(s)	102
BtsCI	GGATG	2 cut(s)	200, 547
BtsIMutI	CAGTG	1 cut(s)	419
Cac8I	GCNNGC	2 cut(s)	100, 350
CfoI	GCGC	2 cut(s)	158, 354
Cfr13I	GGNCC	1 cut(s)	140
Csp6I	GTAC	2 cut(s)	212, 320
CviAII	CATG	2 cut(s)	84, 114
CviJI	RGCY	8 cut(s)	26, 78, 141, 173, 437, 467, 498, 527
CviKI_1	RGCY	8 cut(s)	26, 78, 141, 173, 437, 467, 498, 527
CviQI	GTAC	2 cut(s)	212, 320
DdeI	CTNAG	1 cut(s)	294
DpnI	GATC	5 cut(s)	41, 56, 222, 330, 474
DpnII	GATC	5 cut(s)	39, 54, 220, 328, 472
EaeI	YGGCCR	1 cut(s)	496
Eco105I	TACGTA	1 cut(s)	215
Eco147I	AGGCCT	1 cut(s)	437
Eco31I	GGTCTC	2 cut(s)	21, 86
Eco47III	AGCGCT	1 cut(s)	157
EcoRI	GAATTC	1 cut(s)	312
Esp3I	CGTCTC	1 cut(s)	423
FaeI	CATG	2 cut(s)	87, 117
FaiI	YATR	6 cut(s)	64, 85, 115, 236, 261, 426
FatI	CATG	2 cut(s)	83, 113
FauI	CCCGC	1 cut(s)	410
FbaI	TGATCA	2 cut(s)	39, 54
Fnu4HI	GCNGC	3 cut(s)	346, 487, 533
FokI	GGATG	2 cut(s)	187, 554
Fsp4HI	GCNGC	3 cut(s)	346, 487, 533
FspBI	CTAG	2 cut(s)	6, 153
GlaI	GCGC	2 cut(s)	157, 353
GluI	GCNGC	3 cut(s)	346, 487, 533
GsuI	CTGGAG	1 cut(s)	596
HaeII	RGCGCY	1 cut(s)	159
HaeIII	GGCC	4 cut(s)	78, 141, 437, 498
HhaI	GCGC	2 cut(s)	158, 354
Hin1II	CATG	2 cut(s)	87, 117
Hin6I	GCGC	2 cut(s)	156, 352
HinP1I	GCGC	2 cut(s)	156, 352
HinfI	GANTC	2 cut(s)	109, 553
Hpy188I	TCNGA	1 cut(s)	311
Hpy188III	TCNNGA	6 cut(s)	119, 204, 326, 462, 476, 575
HpyAV	CCTTC	3 cut(s)	442, 532, 574
HpyCH4IV	ACGT	2 cut(s)	214, 267
HpyCH4V	TGCA	6 cut(s)	71, 303, 345, 388, 506, 532
HpyF10VI	GCNNNNNNNGC	4 cut(s)	84, 162, 351, 495
HpyF3I	CTNAG	1 cut(s)	294
HpySE526I	ACGT	2 cut(s)	214, 267
Hsp92II	CATG	2 cut(s)	87, 117
HspAI	GCGC	2 cut(s)	156, 352
Ksp22I	TGATCA	2 cut(s)	39, 54
Kzo9I	GATC	5 cut(s)	39, 54, 220, 328, 472
LmnI	GCTCC	1 cut(s)	170
LpnPI	CCDG	7 cut(s)	81, 84, 217, 330, 425, 475, 560
Lsp1109I	GCAGC	2 cut(s)	357, 544
MaeI	CTAG	2 cut(s)	6, 153
MaeII	ACGT	2 cut(s)	214, 267
MaeIII	GTNAC	1 cut(s)	196
MalI	GATC	5 cut(s)	41, 56, 222, 330, 474
MboI	GATC	5 cut(s)	39, 54, 220, 328, 472
MboII	GAAGA	2 cut(s)	530, 562
MfeI	CAATTG	1 cut(s)	557
MflI	RGATCY	1 cut(s)	220
MluCI	AATT	6 cut(s)	182, 312, 456, 492, 501, 557
MmeI	TCCRAC	3 cut(s)	112, 170, 250
MnlI	CCTC	8 cut(s)	89, 153, 303, 333, 414, 427, 517, 592
MseI	TTAA	2 cut(s)	393, 399
MunI	CAATTG	1 cut(s)	557
MvnI	CGCG	2 cut(s)	354, 486
MwoI	GCNNNNNNNGC	4 cut(s)	84, 162, 351, 495
NdeII	GATC	5 cut(s)	39, 54, 220, 328, 472
NlaIII	CATG	2 cut(s)	87, 117
NspI	RCATGY	1 cut(s)	87
PceI	AGGCCT	1 cut(s)	437
PfeI	GAWTC	2 cut(s)	109, 553
PkrI	GCNGC	3 cut(s)	347, 488, 534
Ppu21I	YACGTR	1 cut(s)	215
PspPI	GGNCC	1 cut(s)	140
PstI	CTGCAG	1 cut(s)	347
PsuI	RGATCY	1 cut(s)	220
RsaI	GTAC	2 cut(s)	213, 321
RsaNI	GTAC	2 cut(s)	212, 320
SaqAI	TTAA	2 cut(s)	393, 399
SatI	GCNGC	3 cut(s)	346, 487, 533
Sau3AI	GATC	5 cut(s)	39, 54, 220, 328, 472
Sau96I	GGNCC	1 cut(s)	140
SetI	ASST	7 cut(s)	48, 175, 217, 270, 309, 325, 603
SfcI	CTRYAG	1 cut(s)	343
SnaBI	TACGTA	1 cut(s)	215
SpeI	ACTAGT	1 cut(s)	5
Sse9I	AATT	6 cut(s)	182, 312, 456, 492, 501, 557
SseBI	AGGCCT	1 cut(s)	437
SsiI	CCGC	3 cut(s)	96, 417, 486
SspMI	CTAG	2 cut(s)	6, 153
StuI	AGGCCT	1 cut(s)	437
TaiI	ACGT	2 cut(s)	217, 270
TaqI	TCGA	2 cut(s)	475, 603
TasI	AATT	6 cut(s)	182, 312, 456, 492, 501, 557
TauI	GCSGC	1 cut(s)	489
TfiI	GAWTC	2 cut(s)	109, 553
Tru1I	TTAA	2 cut(s)	393, 399
Tru9I	TTAA	2 cut(s)	393, 399
TscAI	CASTG	1 cut(s)	419
TseI	GCWGC	2 cut(s)	345, 532
TspDTI	ATGAA	3 cut(s)	248, 251, 563
TspRI	CASTG	1 cut(s)	419
XapI	RAATTY	2 cut(s)	312, 456
XceI	RCATGY	1 cut(s)	87
XspI	CTAG	2 cut(s)	6, 153

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