Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0010349

Physical Location & Seq

Genomic Coordinates Forward (+)

86798807 .. 86800381

Gene Structure 1575 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG563600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 567 bp

ATGAGTAACTCAGAGAAGTTCAGTGCGGGGATCTCATGTATATTTGTGGTGGTGATGATGCTAGCTGGTTTTGGAAGCTCAGACATAGACCAAGACAGGGCACAATGTGCAGACCAGCTAATAGGGCTTGCTCCATGTCTTCCTTATGTTGGTGGTGAAAAAGACGCCAAAACTCCCACAATAGACTGCTGCACTGGCCTGAAACAGGTGGATGCAAAGAGCCACAGATGCCTCTGTGTTCTGATTAAGGACCACAACGATCCTAAACTCGGGCTCACCATCAACGCTACGCTTGCTTTGAAGCTCCCTGGTGCCTGCCATGTACCAGTTAACGTAACTAGCTGTGTTGATCTCTTGCATTTGGATCCAAAATCGGCAGACGGTAAGATGTTCTTGGGATATGCAGAGAAGACTAAAGCTGTTAACAGTACTAGTGCTCCTATTTCCAGTGGTAACAAATCTAATCACTTCCTCTCCATAATCTATATACAGTTTGTGTTCATCAGTATGCATCTGTTTTGTATAGCTAGCTGTCTAATTATTCTGGTAATTGGTTTTCTATTATAG

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

Protein Analysis

188

Amino Acids

20.09

Weight (kDa)

6.96

Isoelectric Point (pI)

35.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	19 - 115	1.3e-15	Probable lipid transfer
Tryp_alpha_amyl	PF00234	36 - 115	7.7e-11	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

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Orthologous Genes (Group: OG0010349)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55260 AT1G55260
fragaria_vesca	FvH4_3g44850
malus_domestica	MD03G1007900.v1.1 MD11G1011100.v1.1
prunus_persica	Prupe.6G009900_v2.0.a1
pyrus_communis	pycom03g00810 pycom03g00830 pycom11g00700
rosa_chinensis	RchiOBHm_Chr5g0081561
rosa_laevigata	RLG00000036948
rosa_multiflora	Rmu_co8404245.1_g000001 Rmu_sc0002706.1_g000005
rosa_roxburghii	Rroxscaffold_1G00001990
rosa_rugosa	Rorug05G0477300 Rorug05G0477300
rosa_samantha	Rh5AG528700 Rh5BG553400 Rh5CG576300 Rh5DG563600
rosa_wichuraiana	Rw5G049190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	311
AciI	CCGC	1 cut(s)	26
AclWI	GGATC	4 cut(s)	38, 254, 359, 372
AcyI	GRCGYC	1 cut(s)	165
AdeI	CACNNNGTG	1 cut(s)	107
AfaI	GTAC	2 cut(s)	324, 430
AfiI	CCNNNNNNNGG	4 cut(s)	97, 149, 205, 269
AgsI	TTSAA	1 cut(s)	301
AhlI	ACTAGT	1 cut(s)	431
AjnI	CCWGG	1 cut(s)	307
AluBI	AGCT	8 cut(s)	65, 78, 118, 304, 342, 419, 527, 531
AluI	AGCT	8 cut(s)	65, 78, 118, 304, 342, 419, 527, 531
Alw21I	GWGCWC	1 cut(s)	439
AlwI	GGATC	4 cut(s)	38, 254, 359, 372
Ama87I	CYCGRG	1 cut(s)	269
AoxI	GGCC	1 cut(s)	196
ApeKI	GCWGC	1 cut(s)	189
AspS9I	GGNCC	1 cut(s)	250
AsuHPI	GGTGA	3 cut(s)	64, 167, 268
AsuNHI	GCTAGC	2 cut(s)	61, 527
AvaI	CYCGRG	1 cut(s)	269
AvaII	GGWCC	1 cut(s)	250
BaeGI	GKGCMC	1 cut(s)	103
BamHI	GGATCC	1 cut(s)	364
BanI	GGYRCC	1 cut(s)	311
BanII	GRGCYC	1 cut(s)	276
BbsI	GAAGAC	2 cut(s)	131, 416
Bbv12I	GWGCWC	1 cut(s)	439
BbvI	GCAGC	1 cut(s)	176
BccI	CCATC	1 cut(s)	287
BciT130I	CCWGG	1 cut(s)	309
BcuI	ACTAGT	1 cut(s)	431
BfaI	CTAG	4 cut(s)	62, 339, 432, 528
BisI	GCNGC	1 cut(s)	190
BlsI	GCNGC	1 cut(s)	191
BmcAI	AGTACT	1 cut(s)	430
Bme1390I	CCNGG	1 cut(s)	309
Bme18I	GGWCC	1 cut(s)	250
BmeT110I	CYCGRG	1 cut(s)	269
BmgT120I	GGNCC	1 cut(s)	250
BmiI	GGNNCC	2 cut(s)	313, 366
BmrFI	CCNGG	1 cut(s)	309
BmsI	GCATC	4 cut(s)	48, 202, 218, 520
BmtI	GCTAGC	2 cut(s)	65, 531
BpiI	GAAGAC	2 cut(s)	131, 416
BsaHI	GRCGYC	1 cut(s)	165
BsaJI	CCNNGG	1 cut(s)	307
BsaXI	ACNNNNNCTCC	4 cut(s)	421, 451, 458, 488
Bsc4I	CCNNNNNNNGG	4 cut(s)	97, 149, 205, 269
Bse1I	ACTGG	3 cut(s)	199, 326, 447
BseBI	CCWGG	1 cut(s)	309
BseDI	CCNNGG	1 cut(s)	307
BseGI	GGATG	1 cut(s)	217
BseLI	CCNNNNNNNGG	4 cut(s)	97, 149, 205, 269
BseMII	CTCAG	2 cut(s)	24, 93
BseNI	ACTGG	3 cut(s)	199, 326, 447
BseSI	GKGCMC	1 cut(s)	103
BseXI	GCAGC	1 cut(s)	176
BsgI	GTGCAG	2 cut(s)	129, 175
BshFI	GGCC	1 cut(s)	198
BshNI	GGYRCC	1 cut(s)	311
BsiHKAI	GWGCWC	1 cut(s)	439
BsiHKCI	CYCGRG	1 cut(s)	269
BslI	CCNNNNNNNGG	4 cut(s)	97, 149, 205, 269
BsnI	GGCC	1 cut(s)	198
BsoBI	CYCGRG	1 cut(s)	269
Bsp1286I	GDGCHC	3 cut(s)	103, 276, 439
Bsp143I	GATC	4 cut(s)	30, 259, 349, 364
BspACI	CCGC	1 cut(s)	26
BspANI	GGCC	1 cut(s)	198
BspCNI	CTCAG	2 cut(s)	23, 92
BspLI	GGNNCC	2 cut(s)	313, 366
BspOI	GCTAGC	2 cut(s)	65, 531
BspPI	GGATC	4 cut(s)	38, 254, 359, 372
BspT107I	GGYRCC	1 cut(s)	311
BsrI	ACTGG	3 cut(s)	199, 326, 447
BssECI	CCNNGG	1 cut(s)	307
BssMI	GATC	4 cut(s)	30, 259, 349, 364
BssNI	GRCGYC	1 cut(s)	165
Bst2UI	CCWGG	1 cut(s)	309
Bst4CI	ACNGT	3 cut(s)	383, 428, 492
BstACI	GRCGYC	1 cut(s)	165
BstAPI	GCANNNNNTGC	1 cut(s)	107
BstC8I	GCNNGC	5 cut(s)	63, 129, 294, 316, 529
BstDEI	CTNAG	2 cut(s)	10, 79
BstENI	CCTNNNNNAGG	1 cut(s)	203
BstF5I	GGATG	1 cut(s)	217
BstKTI	GATC	4 cut(s)	33, 262, 352, 367
BstMBI	GATC	4 cut(s)	30, 259, 349, 364
BstMWI	GCNNNNNNNGC	5 cut(s)	107, 124, 195, 228, 293
BstNI	CCWGG	1 cut(s)	309
BstSCI	CCNGG	1 cut(s)	307
BstSLI	GKGCMC	1 cut(s)	103
BstV1I	GCAGC	1 cut(s)	176
BstV2I	GAAGAC	2 cut(s)	131, 416
BstX2I	RGATCY	2 cut(s)	30, 364
BstYI	RGATCY	2 cut(s)	30, 364
BsuRI	GGCC	1 cut(s)	198
BtsCI	GGATG	1 cut(s)	217
BtsIMutI	CAGTG	3 cut(s)	28, 192, 454
Cac8I	GCNNGC	5 cut(s)	63, 129, 294, 316, 529
Cfr13I	GGNCC	1 cut(s)	250
CseI	GACGC	1 cut(s)	173
Csp6I	GTAC	2 cut(s)	323, 429
CviAII	CATG	3 cut(s)	36, 135, 320
CviQI	GTAC	2 cut(s)	323, 429
DdeI	CTNAG	2 cut(s)	10, 79
DpnI	GATC	4 cut(s)	32, 261, 351, 366
DpnII	GATC	4 cut(s)	30, 259, 349, 364
DraIII	CACNNNGTG	1 cut(s)	107
Eco24I	GRGCYC	1 cut(s)	276
Eco47I	GGWCC	1 cut(s)	250
Eco88I	CYCGRG	1 cut(s)	269
EcoNI	CCTNNNNNAGG	1 cut(s)	203
EcoRII	CCWGG	1 cut(s)	307
EcoT22I	ATGCAT	1 cut(s)	513
EcoT38I	GRGCYC	1 cut(s)	276
FaeI	CATG	3 cut(s)	39, 138, 323
FalI	AAGNNNNNCTT	2 cut(s)	377, 409
FatI	CATG	3 cut(s)	35, 134, 319
FauI	CCCGC	1 cut(s)	19
Fnu4HI	GCNGC	1 cut(s)	190
FokI	GGATG	1 cut(s)	224
FriOI	GRGCYC	1 cut(s)	276
Fsp4HI	GCNGC	1 cut(s)	190
FspBI	CTAG	4 cut(s)	62, 339, 432, 528
GluI	GCNGC	1 cut(s)	190
HaeIII	GGCC	1 cut(s)	198
HgaI	GACGC	1 cut(s)	173
Hin1I	GRCGYC	1 cut(s)	165
Hin1II	CATG	3 cut(s)	39, 138, 323
HincII	GTYRAC	2 cut(s)	331, 424
HindII	GTYRAC	2 cut(s)	331, 424
HpaI	GTTAAC	2 cut(s)	331, 424
HphI	GGTGA	3 cut(s)	64, 167, 268
Hpy166II	GTNNAC	2 cut(s)	331, 424
Hpy188I	TCNGA	3 cut(s)	13, 82, 243
Hpy8I	GTNNAC	2 cut(s)	331, 424
HpyCH4III	ACNGT	3 cut(s)	383, 428, 492
HpyCH4IV	ACGT	1 cut(s)	333
HpyCH4V	TGCA	6 cut(s)	110, 192, 215, 358, 404, 511
HpyF10VI	GCNNNNNNNGC	5 cut(s)	107, 124, 195, 228, 293
HpyF3I	CTNAG	2 cut(s)	10, 79
HpySE526I	ACGT	1 cut(s)	333
Hsp92I	GRCGYC	1 cut(s)	165
Hsp92II	CATG	3 cut(s)	39, 138, 323
KspAI	GTTAAC	2 cut(s)	331, 424
Kzo9I	GATC	4 cut(s)	30, 259, 349, 364
LmnI	GCTCC	3 cut(s)	136, 309, 442
Lsp1109I	GCAGC	1 cut(s)	176
LweI	GCATC	4 cut(s)	48, 202, 218, 520
MaeI	CTAG	4 cut(s)	62, 339, 432, 528
MaeII	ACGT	1 cut(s)	333
MaeIII	GTNAC	3 cut(s)	5, 334, 452
MalI	GATC	4 cut(s)	32, 261, 351, 366
MboI	GATC	4 cut(s)	30, 259, 349, 364
MboII	GAAGA	2 cut(s)	131, 421
MflI	RGATCY	2 cut(s)	30, 364
MhlI	GDGCHC	3 cut(s)	103, 276, 439
MluCI	AATT	2 cut(s)	537, 549
MnlI	CCTC	2 cut(s)	242, 482
Mph1103I	ATGCAT	1 cut(s)	513
MseI	TTAA	3 cut(s)	246, 330, 423
MslI	CAYNNNNRTG	1 cut(s)	506
MspR9I	CCNGG	1 cut(s)	309
MvaI	CCWGG	1 cut(s)	309
MwoI	GCNNNNNNNGC	5 cut(s)	107, 124, 195, 228, 293
NdeII	GATC	4 cut(s)	30, 259, 349, 364
NheI	GCTAGC	2 cut(s)	61, 527
NlaIII	CATG	3 cut(s)	39, 138, 323
NlaIV	GGNNCC	2 cut(s)	313, 366
NsiI	ATGCAT	1 cut(s)	513
PkrI	GCNGC	1 cut(s)	191
Psp6I	CCWGG	1 cut(s)	307
PspGI	CCWGG	1 cut(s)	307
PspN4I	GGNNCC	2 cut(s)	313, 366
PspPI	GGNCC	1 cut(s)	250
PsuI	RGATCY	2 cut(s)	30, 364
RsaI	GTAC	2 cut(s)	324, 430
RsaNI	GTAC	2 cut(s)	323, 429
RseI	CAYNNNNRTG	1 cut(s)	506
SaqAI	TTAA	3 cut(s)	246, 330, 423
SatI	GCNGC	1 cut(s)	190
Sau3AI	GATC	4 cut(s)	30, 259, 349, 364
Sau96I	GGNCC	1 cut(s)	250
ScaI	AGTACT	1 cut(s)	430
ScrFI	CCNGG	1 cut(s)	309
SduI	GDGCHC	3 cut(s)	103, 276, 439
SfaNI	GCATC	4 cut(s)	48, 202, 218, 520
SinI	GGWCC	1 cut(s)	250
SmiMI	CAYNNNNRTG	1 cut(s)	506
SpeI	ACTAGT	1 cut(s)	431
Sse9I	AATT	2 cut(s)	537, 549
SsiI	CCGC	1 cut(s)	26
SspMI	CTAG	4 cut(s)	62, 339, 432, 528
StyD4I	CCNGG	1 cut(s)	307
TaaI	ACNGT	3 cut(s)	383, 428, 492
TaiI	ACGT	1 cut(s)	336
TasI	AATT	2 cut(s)	537, 549
TatI	WGTACW	1 cut(s)	428
Tru1I	TTAA	3 cut(s)	246, 330, 423
Tru9I	TTAA	3 cut(s)	246, 330, 423
TscAI	CASTG	3 cut(s)	28, 199, 454
TseI	GCWGC	1 cut(s)	189
TspDTI	ATGAA	1 cut(s)	490
TspRI	CASTG	3 cut(s)	28, 199, 454
VpaK11BI	GGWCC	1 cut(s)	250
XagI	CCTNNNNNAGG	1 cut(s)	203
XspI	CTAG	4 cut(s)	62, 339, 432, 528
ZrmI	AGTACT	1 cut(s)	430
Zsp2I	ATGCAT	1 cut(s)	513

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