Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004528

Physical Location & Seq

Genomic Coordinates Forward (+)

1283361 .. 1283828

Gene Structure 468 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG017500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGACAAGCCTATATAAGAAGCACACAGTACCTCAGGTTTTTTGCATCCTAAATCAAAACCAATATCAACTTACCATTCCATTGACTCCTCTGTTCCGATTCCAAAAAAGTGCTAGTATGGAGAAGAAAATGATGACTTTCGCTGGGTTGGTGATTATGATCGTCGTCCTCAATGCATGTCCTGCAATTGGAGGGTGCGACGAAGCCTTAGTCGAGTTGTTGCCCTGTGCCACGTTCGTGTTGGGCCCTGGCATAGGGGAGCCCCCTTCTCCGTGCTGTGCAGGTTTAAAGCATGTGGTTGCTGGAGCTGATACCAGTGAGAAGCGCCGGAGTCTTTGCCAATGTTTGAAAGACAAAGCTGTTGGTGCTGGCGTTAAAGTCGACCCTGAAAAACTTAAGCACGTTACTGACGCTTGTGGCGTCAAAATTCCTATTCCTATTGATCCCAATGTCGACTGCAGCACGTAA

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

155

Amino Acids

16.58

Weight (kDa)

8.33

Isoelectric Point (pI)

30.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	57 - 144	5.2e-08	Probable lipid transfer
Tryp_alpha_amyl	PF00234	66 - 153	3.8e-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: OG0004528)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g01200 FvH4_3g01230 FvH4_3g09850
rosa_chinensis	RchiOBHm_Chr5g0001761 RchiOBHm_Chr5g0015561
rosa_laevigata	RLG00000030969 RLG00000030970 RLG00000032208
rosa_multiflora	Rmu_sc0002886.1_g000025 Rmu_sc0008119.1_g000005 Rmu_sc0008119.1_g000007 Rmu_ssc0000237.1_g000015 Rmu_ssc0000237.1_g000017
rosa_roxburghii	Rroxscaffold_1G00071220 Rroxscaffold_1G00074560
rosa_rugosa	Rorug04G0392800 Rorug04G0392900 Rorug05G0028400
rosa_samantha	Rh5AG013900 Rh5AG014100 Rh5AG121700 Rh5BG017400 Rh5BG017500 Rh5BG120600 Rh5CG015000 Rh5CG015200 Rh5CG130900 Rh5DG015500 Rh5DG015600 Rh5DG119500
rosa_wichuraiana	Rw5G001360 Rw5G010510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	272
AccI	GTMKAC	2 cut(s)	381, 453
AclWI	GGATC	1 cut(s)	437
AcsI	RAATTY	1 cut(s)	426
AcyI	GRCGYC	1 cut(s)	420
AfaI	GTAC	1 cut(s)	30
AfiI	CCNNNNNNNGG	2 cut(s)	188, 254
AflII	CTTAAG	1 cut(s)	395
AgsI	TTSAA	1 cut(s)	349
AjnI	CCWGG	1 cut(s)	247
AleI	CACNNNNGTG	1 cut(s)	236
AluBI	AGCT	2 cut(s)	308, 359
AluI	AGCT	2 cut(s)	308, 359
AlwI	GGATC	1 cut(s)	437
AoxI	GGCC	1 cut(s)	244
ApaI	GGGCCC	1 cut(s)	248
ApeKI	GCWGC	1 cut(s)	459
ApoI	RAATTY	1 cut(s)	426
ArsI	GACNNNNNNTTYG	2 cut(s)	195, 227
AspLEI	GCGC	1 cut(s)	327
AspS9I	GGNCC	2 cut(s)	244, 245
AsuHPI	GGTGA	1 cut(s)	163
AxyI	CCTNAGG	1 cut(s)	33
BaeGI	GKGCMC	1 cut(s)	248
BanII	GRGCYC	2 cut(s)	248, 264
BciT130I	CCWGG	1 cut(s)	249
BfaI	CTAG	1 cut(s)	114
BfmI	CTRYAG	1 cut(s)	457
BfoI	RGCGCY	1 cut(s)	328
BfrI	CTTAAG	1 cut(s)	395
BfuAI	ACCTGC	1 cut(s)	272
BisI	GCNGC	1 cut(s)	460
BlsI	GCNGC	1 cut(s)	461
Bme1390I	CCNGG	1 cut(s)	249
BmgT120I	GGNCC	2 cut(s)	244, 245
BmiI	GGNNCC	2 cut(s)	246, 261
BmrFI	CCNGG	1 cut(s)	249
BmsI	GCATC	1 cut(s)	54
BpmI	CTGGAG	1 cut(s)	324
BsaAI	YACGTR	1 cut(s)	465
BsaBI	GATNNNNATC	1 cut(s)	158
BsaHI	GRCGYC	1 cut(s)	420
BsaJI	CCNNGG	1 cut(s)	247
Bsc4I	CCNNNNNNNGG	2 cut(s)	188, 254
Bse1I	ACTGG	1 cut(s)	315
Bse21I	CCTNAGG	1 cut(s)	33
Bse8I	GATNNNNATC	1 cut(s)	158
BseBI	CCWGG	1 cut(s)	249
BseDI	CCNNGG	1 cut(s)	247
BseGI	GGATG	1 cut(s)	45
BseJI	GATNNNNATC	1 cut(s)	158
BseLI	CCNNNNNNNGG	2 cut(s)	188, 254
BseMII	CTCAG	1 cut(s)	47
BseNI	ACTGG	1 cut(s)	315
BseRI	GAGGAG	1 cut(s)	78
BseSI	GKGCMC	1 cut(s)	248
BseYI	CCCAGC	1 cut(s)	143
BsgI	GTGCAG	1 cut(s)	300
BshFI	GGCC	1 cut(s)	246
BsiSI	CCGG	1 cut(s)	328
BslI	CCNNNNNNNGG	2 cut(s)	188, 254
BsnI	GGCC	1 cut(s)	246
Bsp120I	GGGCCC	1 cut(s)	244
Bsp1286I	GDGCHC	2 cut(s)	248, 264
Bsp143I	GATC	2 cut(s)	159, 442
BspANI	GGCC	1 cut(s)	246
BspCNI	CTCAG	1 cut(s)	46
BspLI	GGNNCC	2 cut(s)	246, 261
BspMAI	CTGCAG	1 cut(s)	461
BspMI	ACCTGC	1 cut(s)	272
BspPI	GGATC	1 cut(s)	437
BspTI	CTTAAG	1 cut(s)	395
BsrI	ACTGG	1 cut(s)	315
BssECI	CCNNGG	1 cut(s)	247
BssMI	GATC	2 cut(s)	159, 442
BssNI	GRCGYC	1 cut(s)	420
Bst2UI	CCWGG	1 cut(s)	249
Bst4CI	ACNGT	1 cut(s)	28
BstACI	GRCGYC	1 cut(s)	420
BstAFI	CTTAAG	1 cut(s)	395
BstAPI	GCANNNNNTGC	1 cut(s)	182
BstBAI	YACGTR	1 cut(s)	465
BstC8I	GCNNGC	1 cut(s)	370
BstDEI	CTNAG	2 cut(s)	33, 208
BstENI	CCTNNNNNAGG	1 cut(s)	252
BstF5I	GGATG	1 cut(s)	45
BstH2I	RGCGCY	1 cut(s)	328
BstHHI	GCGC	1 cut(s)	327
BstKTI	GATC	2 cut(s)	162, 445
BstMBI	GATC	2 cut(s)	159, 442
BstMWI	GCNNNNNNNGC	2 cut(s)	182, 365
BstNI	CCWGG	1 cut(s)	249
BstNSI	RCATGY	2 cut(s)	180, 296
BstSCI	CCNGG	1 cut(s)	247
BstSFI	CTRYAG	1 cut(s)	457
BstSLI	GKGCMC	1 cut(s)	248
Bsu36I	CCTNAGG	1 cut(s)	33
BsuRI	GGCC	1 cut(s)	246
BtsCI	GGATG	1 cut(s)	45
BtsIMutI	CAGTG	1 cut(s)	322
BveI	ACCTGC	1 cut(s)	272
Cac8I	GCNNGC	1 cut(s)	370
CfoI	GCGC	1 cut(s)	327
Cfr13I	GGNCC	2 cut(s)	244, 245
CseI	GACGC	2 cut(s)	409, 419
Csp6I	GTAC	1 cut(s)	29
CviAII	CATG	2 cut(s)	177, 293
CviJI	RGCY	6 cut(s)	9, 206, 246, 262, 308, 359
CviKI_1	RGCY	6 cut(s)	9, 206, 246, 262, 308, 359
CviQI	GTAC	1 cut(s)	29
DdeI	CTNAG	2 cut(s)	33, 208
DpnI	GATC	2 cut(s)	161, 444
DpnII	GATC	2 cut(s)	159, 442
DraI	TTTAAA	1 cut(s)	288
Eco24I	GRGCYC	2 cut(s)	248, 264
Eco81I	CCTNAGG	1 cut(s)	33
EcoNI	CCTNNNNNAGG	1 cut(s)	252
EcoO109I	RGGNCCY	1 cut(s)	245
EcoRII	CCWGG	1 cut(s)	247
EcoT22I	ATGCAT	1 cut(s)	178
EcoT38I	GRGCYC	2 cut(s)	248, 264
FaeI	CATG	2 cut(s)	180, 296
FaiI	YATR	7 cut(s)	13, 15, 119, 158, 178, 254, 294
FatI	CATG	2 cut(s)	176, 292
FblI	GTMKAC	2 cut(s)	381, 453
Fnu4HI	GCNGC	1 cut(s)	460
FokI	GGATG	1 cut(s)	32
FriOI	GRGCYC	2 cut(s)	248, 264
Fsp4HI	GCNGC	1 cut(s)	460
FspBI	CTAG	1 cut(s)	114
GlaI	GCGC	1 cut(s)	326
GluI	GCNGC	1 cut(s)	460
GsaI	CCCAGC	1 cut(s)	147
GsuI	CTGGAG	1 cut(s)	324
HaeII	RGCGCY	1 cut(s)	328
HaeIII	GGCC	1 cut(s)	246
HapII	CCGG	1 cut(s)	328
HgaI	GACGC	2 cut(s)	409, 419
HhaI	GCGC	1 cut(s)	327
Hin1I	GRCGYC	1 cut(s)	420
Hin1II	CATG	2 cut(s)	180, 296
Hin6I	GCGC	1 cut(s)	325
HinP1I	GCGC	1 cut(s)	325
HincII	GTYRAC	2 cut(s)	382, 454
HindII	GTYRAC	2 cut(s)	382, 454
HinfI	GANTC	3 cut(s)	85, 99, 331
HpaII	CCGG	1 cut(s)	328
HphI	GGTGA	1 cut(s)	163
Hpy166II	GTNNAC	2 cut(s)	382, 454
Hpy188I	TCNGA	1 cut(s)	98
Hpy8I	GTNNAC	2 cut(s)	382, 454
Hpy99I	CGWCG	2 cut(s)	167, 203
HpyAV	CCTTC	1 cut(s)	276
HpyCH4III	ACNGT	1 cut(s)	28
HpyCH4IV	ACGT	3 cut(s)	233, 402, 464
HpyCH4V	TGCA	5 cut(s)	45, 176, 185, 281, 459
HpyF10VI	GCNNNNNNNGC	2 cut(s)	182, 365
HpyF3I	CTNAG	2 cut(s)	33, 208
HpySE526I	ACGT	3 cut(s)	233, 402, 464
Hsp92I	GRCGYC	1 cut(s)	420
Hsp92II	CATG	2 cut(s)	180, 296
HspAI	GCGC	1 cut(s)	325
Kzo9I	GATC	2 cut(s)	159, 442
LmnI	GCTCC	2 cut(s)	259, 305
LweI	GCATC	1 cut(s)	54
MaeI	CTAG	1 cut(s)	114
MaeII	ACGT	3 cut(s)	233, 402, 464
MaeIII	GTNAC	1 cut(s)	403
MalI	GATC	2 cut(s)	161, 444
MboI	GATC	2 cut(s)	159, 442
MboII	GAAGA	1 cut(s)	136
MfeI	CAATTG	1 cut(s)	186
MhlI	GDGCHC	2 cut(s)	248, 264
MluCI	AATT	2 cut(s)	186, 426
MlyI	GAGTC	2 cut(s)	79, 340
MnlI	CCTC	4 cut(s)	42, 99, 179, 185
Mph1103I	ATGCAT	1 cut(s)	178
MseI	TTAA	3 cut(s)	287, 375, 396
MslI	CAYNNNNRTG	1 cut(s)	236
MspCI	CTTAAG	1 cut(s)	395
MspI	CCGG	1 cut(s)	328
MspR9I	CCNGG	1 cut(s)	249
MunI	CAATTG	1 cut(s)	186
MvaI	CCWGG	1 cut(s)	249
MwoI	GCNNNNNNNGC	2 cut(s)	182, 365
NdeII	GATC	2 cut(s)	159, 442
NlaIII	CATG	2 cut(s)	180, 296
NlaIV	GGNNCC	2 cut(s)	246, 261
NsiI	ATGCAT	1 cut(s)	178
NspI	RCATGY	2 cut(s)	180, 296
OliI	CACNNNNGTG	1 cut(s)	236
PcsI	WCGNNNNNNNCGW	1 cut(s)	417
PfeI	GAWTC	1 cut(s)	99
PkrI	GCNGC	1 cut(s)	461
PleI	GAGTC	2 cut(s)	79, 339
PpsI	GAGTC	2 cut(s)	79, 339
Ppu21I	YACGTR	1 cut(s)	465
Psp6I	CCWGG	1 cut(s)	247
PspFI	CCCAGC	1 cut(s)	143
PspGI	CCWGG	1 cut(s)	247
PspN4I	GGNNCC	2 cut(s)	246, 261
PspOMI	GGGCCC	1 cut(s)	244
PspPI	GGNCC	2 cut(s)	244, 245
PstI	CTGCAG	1 cut(s)	461
RsaI	GTAC	1 cut(s)	30
RsaNI	GTAC	1 cut(s)	29
RseI	CAYNNNNRTG	1 cut(s)	236
SalI	GTCGAC	2 cut(s)	380, 452
SaqAI	TTAA	3 cut(s)	287, 375, 396
SatI	GCNGC	1 cut(s)	460
Sau3AI	GATC	2 cut(s)	159, 442
Sau96I	GGNCC	2 cut(s)	244, 245
SchI	GAGTC	2 cut(s)	79, 340
ScrFI	CCNGG	1 cut(s)	249
SduI	GDGCHC	2 cut(s)	248, 264
SetI	ASST	8 cut(s)	34, 39, 236, 286, 310, 361, 405, 467
SfaNI	GCATC	1 cut(s)	54
SfcI	CTRYAG	1 cut(s)	457
SmiMI	CAYNNNNRTG	1 cut(s)	236
SmlI	CTYRAG	1 cut(s)	395
SmoI	CTYRAG	1 cut(s)	395
Sse9I	AATT	2 cut(s)	186, 426
SspMI	CTAG	1 cut(s)	114
StyD4I	CCNGG	1 cut(s)	247
TaaI	ACNGT	1 cut(s)	28
TaiI	ACGT	3 cut(s)	236, 405, 467
TaqI	TCGA	3 cut(s)	213, 381, 453
TasI	AATT	2 cut(s)	186, 426
TfiI	GAWTC	1 cut(s)	99
Tru1I	TTAA	3 cut(s)	287, 375, 396
Tru9I	TTAA	3 cut(s)	287, 375, 396
TscAI	CASTG	1 cut(s)	322
TseI	GCWGC	1 cut(s)	459
TspGWI	ACGGA	1 cut(s)	261
TspRI	CASTG	1 cut(s)	322
Vha464I	CTTAAG	1 cut(s)	395
XagI	CCTNNNNNAGG	1 cut(s)	252
XapI	RAATTY	1 cut(s)	426
XceI	RCATGY	2 cut(s)	180, 296
XcmI	CCANNNNNNNNNTGG	1 cut(s)	238
XmiI	GTMKAC	2 cut(s)	381, 453
XspI	CTAG	1 cut(s)	114
Zsp2I	ATGCAT	1 cut(s)	178

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