Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0009654

Physical Location & Seq

Genomic Coordinates Reverse (-)

23460162 .. 23464580

Gene Structure 4419 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012884

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1452 bp

ATGAGAGCTACTCAGACCACTAAATTTCTGGTTTTCAATAAAATGGATTTGGAGGAGGAGGAGGAGGAGGGGGAAGTTGGGGCAGTTGATGGGTCTGTTAAAGTAAACATGGGCGATTCAGAAGGAGGTTCCATTATAGAACCTTATGTTGGTATGGAATTTCCGTCCGAAGAAGATGCCAAGAAATTCTATACTGAGTATGCCAGGCGAGTTGGTTTTTTTGTCCGTGTTATGCAGCGTCGTCGAGGTATTGATGGGAGAACTCTTGCCCGTCGGCTTGGATGTAACAAACAAGGTTTTTCTCCCAACCATAAGGGAAATCTTGGACGTGAAAAAAAGCCCAGAGTTAGTGCACGAGAAGGTTGCAACGCGACAATCTTGGTGAAGGTGGATAAATCTGGAAAATGGGTGGTTACAAGATTTGTAAAGGATCATAATCATCCTCTCATTGTCACTGCCAATGAGTTTAGCACAGCGGGCGACAAGGATAAGAAAATAGAGGAACTTATGATGGAATTGGATCATCAGGATCAACAATGTGCAGCTTATCGAGAAAAACTACTCAGTTTCATAAATAACGTTGAGGCAGAAACAGAAGAACTTTCCGCAAAGATAAAAGCGATTGTTGACAATACTGAAGCTTGGTATTTCTCCCCTGCCGATTTCCAGAGTTGTGATGGGTGTAGAGCTTGTGTGAATTTGGTTCTAGAAGTAATAATGGAAAGCGAGAGTAACAACAACAACAACAACCCATTTGATTCAGATGAGAGCCAAAGTTGTGAGCTTCCAAATGACATTGATTTGTGCTCAGGTGAAGTAGATAAGATTATAGAACTGTCTAGTGGACGCTCACATTTGATGGGTAATCCCATTGAGCCTTACATAGGAATGGAGTTCAAGTCTAGAGACAGTGCTCGAGAGTTTTACATTGCTTATGGCAGGCACACTGGGTTTACAGTTAGGATTCATCACAACCGTCGTTCGAGGATGAATAACATGGTGATTGGCCAGGACTTCGTTTGCTCGAAAGAGGGTTATCGTGACAAGAAGTATGTGTACAGGGACAATAGAGTTCTTCCTCCACCGCCTGTGACAAGAGAAGGTTGTGCTGCAATGCTGAGGGTAGCTTTAAGAGATGGGGAAAAGTGGGTTGTTACCAAGTTTGTGAAGGAGCACAATCACACATTGATGTCTCCGAGTAAAGTTCCGTGGCGAGGATCTGGGAAAACCTTGATCAATGAGGATGAGAAGGATCGGAAAATTAGGGAGCTGACCATCGAACTGAGCAATGAGAGACAGCGATGTAAACGTAAGTGTGCAGCATATCAAGATCAATTGAATAGGCTTTTGAAAGATGTCCAAGACCACAGTGATCACTTGTCAGAAAGAGTTCAAGACATAGTGAAGAACATAAGAGAACTAGAGAGTGAGCAATCTGAGGACTCAGAATAA

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

FAR1

Protein Analysis

484

Amino Acids

55.35

Weight (kDa)

5.96

Isoelectric Point (pI)

52.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
FAR1	PF03101	62 - 150	2.4e-26	FAR1 DNA-binding domain
FAR1	PF03101	307 - 397	3.1e-24	FAR1 DNA-binding domain

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

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Orthologous Genes (Group: OG0009654)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g17603 FvH4_2g17603 FvH4_2g17603
malus_domestica	MD04G1041900.v1.1
prunus_persica	Prupe.1G195700_v2.0.a1 Prupe.1G195700_v2.0.a1 Prupe.8G188600_v2.0.a1
pyrus_communis	pycom04g03690 pycom13g28370 pycom275g00050
rosa_chinensis	RchiOBHm_Chr6g0282581
rosa_laevigata	RLG00000012884
rosa_multiflora	Rmu_co8454661.1_g000001 Rmu_sc0000283.1_g000004 Rmu_sc0005697.1_g000005
rosa_roxburghii	Rroxscaffold_7G00186250
rosa_rugosa	Rorug06G0147800
rosa_samantha	Rh6AG261000 Rh6BG264100 Rh6CG263300 Rh6DG255200
rosa_wichuraiana	Rw6G022570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	371
AciI	CCGC	3 cut(s)	476, 606, 1085
AclI	AACGTT	1 cut(s)	579
AclWI	GGATC	5 cut(s)	438, 528, 537, 1225, 1260
AcoI	YGGCCR	1 cut(s)	1006
AcsI	RAATTY	4 cut(s)	23, 158, 185, 697
AcuI	CTGAAG	1 cut(s)	657
AfaI	GTAC	1 cut(s)	1058
AfiI	CCNNNNNNNGG	3 cut(s)	149, 884, 1214
AgsI	TTSAA	5 cut(s)	37, 898, 1339, 1351, 1394
AjiI	CACGTC	1 cut(s)	329
AjnI	CCWGG	2 cut(s)	203, 1008
AjuI	GAANNNNNNNTTGG	2 cut(s)	132, 164
AluBI	AGCT	7 cut(s)	8, 545, 641, 689, 784, 1127, 1270
AluI	AGCT	7 cut(s)	8, 545, 641, 689, 784, 1127, 1270
Alw21I	GWGCWC	4 cut(s)	355, 809, 916, 1176
Alw26I	GTCTC	3 cut(s)	900, 1197, 1288
Alw44I	GTGCAC	1 cut(s)	351
AlwI	GGATC	5 cut(s)	438, 528, 537, 1225, 1260
Ama87I	CYCGRG	1 cut(s)	915
AoxI	GGCC	1 cut(s)	1006
ApaLI	GTGCAC	1 cut(s)	351
ApeKI	GCWGC	4 cut(s)	235, 542, 1109, 1319
ApoI	RAATTY	4 cut(s)	23, 158, 185, 697
Asp700I	GAANNNNTTC	1 cut(s)	1389
AsuHPI	GGTGA	3 cut(s)	394, 824, 1012
AvaI	CYCGRG	1 cut(s)	915
BaeGI	GKGCMC	1 cut(s)	355
BalI	TGGCCA	1 cut(s)	1008
BarI	GAAGNNNNNNTAC	2 cut(s)	1040, 1072
BauI	CACGAG	1 cut(s)	354
Bbv12I	GWGCWC	4 cut(s)	355, 809, 916, 1176
BbvCI	CCTCAGC	1 cut(s)	1118
BbvI	GCAGC	4 cut(s)	247, 554, 1096, 1331
BccI	CCATC	7 cut(s)	83, 248, 505, 671, 853, 1130, 1283
BcgI	CGANNNNNNTGC	6 cut(s)	158, 192, 224, 258, 345, 379
BciT130I	CCWGG	2 cut(s)	205, 1010
BclI	TGATCA	2 cut(s)	1233, 1372
BcoDI	GTCTC	3 cut(s)	900, 1197, 1288
BfaI	CTAG	4 cut(s)	707, 840, 903, 1421
BisI	GCNGC	4 cut(s)	236, 543, 1110, 1320
BlsI	GCNGC	4 cut(s)	237, 544, 1111, 1321
Bme1390I	CCNGG	2 cut(s)	205, 1010
BmeT110I	CYCGRG	1 cut(s)	915
BmgBI	CACGTC	1 cut(s)	329
BmiI	GGNNCC	1 cut(s)	130
BmrFI	CCNGG	2 cut(s)	205, 1010
BmrI	ACTGGG	1 cut(s)	957
BmsI	GCATC	1 cut(s)	166
BmuI	ACTGGG	1 cut(s)	957
BplI	GAGNNNNNCTC	1 cut(s)	27
Bpu10I	CCTNAGC	2 cut(s)	808, 1118
BsaBI	GATNNNNATC	1 cut(s)	435
BsaJI	CCNNGG	1 cut(s)	1208
BsaXI	ACNNNNNCTCC	2 cut(s)	884, 914
Bsc4I	CCNNNNNNNGG	3 cut(s)	149, 884, 1214
Bse1I	ACTGG	1 cut(s)	952
Bse3DI	GCAATG	3 cut(s)	927, 1119, 1294
Bse8I	GATNNNNATC	1 cut(s)	435
BseBI	CCWGG	2 cut(s)	205, 1010
BseDI	CCNNGG	1 cut(s)	1208
BseGI	GGATG	4 cut(s)	287, 439, 993, 1249
BseJI	GATNNNNATC	1 cut(s)	435
BseLI	CCNNNNNNNGG	3 cut(s)	149, 884, 1214
BseMI	GCAATG	3 cut(s)	927, 1119, 1294
BseMII	CTCAG	7 cut(s)	26, 186, 577, 822, 1109, 1274, 1428
BseNI	ACTGG	1 cut(s)	952
BseRI	GAGGAG	5 cut(s)	68, 71, 74, 77, 80
BseSI	GKGCMC	1 cut(s)	355
BseXI	GCAGC	4 cut(s)	247, 554, 1096, 1331
BsgI	GTGCAG	2 cut(s)	561, 1338
Bsh1236I	CGCG	1 cut(s)	371
BshFI	GGCC	1 cut(s)	1008
BsiHKAI	GWGCWC	4 cut(s)	355, 809, 916, 1176
BsiHKCI	CYCGRG	1 cut(s)	915
BslFI	GGGAC	1 cut(s)	1076
BslI	CCNNNNNNNGG	3 cut(s)	149, 884, 1214
BsmAI	GTCTC	3 cut(s)	900, 1197, 1288
BsmFI	GGGAC	1 cut(s)	1076
BsnI	GGCC	1 cut(s)	1008
BsoBI	CYCGRG	1 cut(s)	915
Bsp1286I	GDGCHC	4 cut(s)	355, 809, 916, 1176
Bsp1407I	TGTACA	1 cut(s)	1056
Bsp143I	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
BspACI	CCGC	3 cut(s)	476, 606, 1085
BspANI	GGCC	1 cut(s)	1008
BspCNI	CTCAG	7 cut(s)	25, 187, 576, 821, 1110, 1275, 1429
BspFNI	CGCG	1 cut(s)	371
BspLI	GGNNCC	1 cut(s)	130
BspPI	GGATC	5 cut(s)	438, 528, 537, 1225, 1260
BsrDI	GCAATG	3 cut(s)	927, 1119, 1294
BsrGI	TGTACA	1 cut(s)	1056
BsrI	ACTGG	1 cut(s)	952
BssECI	CCNNGG	1 cut(s)	1208
BssMI	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
BssSI	CACGAG	1 cut(s)	354
Bst2BI	CACGAG	1 cut(s)	354
Bst2UI	CCWGG	2 cut(s)	205, 1010
Bst4CI	ACNGT	5 cut(s)	837, 911, 958, 977, 1370
BstAUI	TGTACA	1 cut(s)	1056
BstC8I	GCNNGC	2 cut(s)	478, 941
BstDEI	CTNAG	8 cut(s)	12, 195, 563, 808, 1118, 1283, 1437, 1444
BstDSI	CCRYGG	1 cut(s)	1208
BstENI	CCTNNNNNAGG	1 cut(s)	882
BstF5I	GGATG	4 cut(s)	287, 439, 993, 1249
BstFNI	CGCG	1 cut(s)	371
BstKTI	GATC	8 cut(s)	433, 523, 532, 1220, 1236, 1255, 1333, 1375
BstMAI	GTCTC	3 cut(s)	900, 1197, 1288
BstMBI	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
BstMWI	GCNNNNNNNGC	1 cut(s)	477
BstNI	CCWGG	2 cut(s)	205, 1010
BstSCI	CCNGG	2 cut(s)	203, 1008
BstSLI	GKGCMC	1 cut(s)	355
BstUI	CGCG	1 cut(s)	371
BstV1I	GCAGC	4 cut(s)	247, 554, 1096, 1331
BstX2I	RGATCY	1 cut(s)	1217
BstYI	RGATCY	1 cut(s)	1217
BsuRI	GGCC	1 cut(s)	1008
BtgI	CCRYGG	1 cut(s)	1208
BtgZI	GCGATG	1 cut(s)	1315
BtrI	CACGTC	1 cut(s)	329
BtsCI	GGATG	4 cut(s)	287, 439, 993, 1249
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	4 cut(s)	453, 916, 945, 1375
Cac8I	GCNNGC	2 cut(s)	478, 941
CseI	GACGC	2 cut(s)	227, 855
Csp6I	GTAC	1 cut(s)	1057
CviAII	CATG	2 cut(s)	109, 997
CviQI	GTAC	1 cut(s)	1057
DdeI	CTNAG	8 cut(s)	12, 195, 563, 808, 1118, 1283, 1437, 1444
DpnI	GATC	8 cut(s)	432, 522, 531, 1219, 1235, 1254, 1332, 1374
DpnII	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
EaeI	YGGCCR	1 cut(s)	1006
Eco57I	CTGAAG	1 cut(s)	657
Eco88I	CYCGRG	1 cut(s)	915
EcoNI	CCTNNNNNAGG	1 cut(s)	882
EcoRII	CCWGG	2 cut(s)	203, 1008
FaeI	CATG	2 cut(s)	112, 1000
FaqI	GGGAC	1 cut(s)	1076
FatI	CATG	2 cut(s)	108, 996
FauI	CCCGC	1 cut(s)	469
FbaI	TGATCA	2 cut(s)	1233, 1372
Fnu4HI	GCNGC	4 cut(s)	236, 543, 1110, 1320
FokI	GGATG	4 cut(s)	294, 426, 1000, 1256
Fsp4HI	GCNGC	4 cut(s)	236, 543, 1110, 1320
FspBI	CTAG	4 cut(s)	707, 840, 903, 1421
GluI	GCNGC	4 cut(s)	236, 543, 1110, 1320
HaeIII	GGCC	1 cut(s)	1008
HgaI	GACGC	2 cut(s)	227, 855
Hin1II	CATG	2 cut(s)	112, 1000
HincII	GTYRAC	1 cut(s)	628
HindII	GTYRAC	1 cut(s)	628
HindIII	AAGCTT	1 cut(s)	639
HinfI	GANTC	4 cut(s)	116, 758, 964, 1442
HphI	GGTGA	3 cut(s)	394, 824, 1012
Hpy166II	GTNNAC	7 cut(s)	106, 353, 628, 845, 954, 1057, 1307
Hpy188I	TCNGA	9 cut(s)	15, 121, 169, 763, 1197, 1257, 1384, 1438, 1447
Hpy8I	GTNNAC	7 cut(s)	106, 353, 628, 845, 954, 1057, 1307
Hpy99I	CGWCG	4 cut(s)	243, 246, 276, 981
HpyAV	CCTTC	6 cut(s)	116, 353, 379, 1094, 1162, 1243
HpyCH4III	ACNGT	5 cut(s)	837, 911, 958, 977, 1370
HpyCH4IV	ACGT	3 cut(s)	328, 579, 1309
HpyCH4V	TGCA	6 cut(s)	235, 353, 366, 542, 1112, 1319
HpyF10VI	GCNNNNNNNGC	1 cut(s)	477
HpyF3I	CTNAG	8 cut(s)	12, 195, 563, 808, 1118, 1283, 1437, 1444
HpySE526I	ACGT	3 cut(s)	328, 579, 1309
Hsp92II	CATG	2 cut(s)	112, 1000
Ksp22I	TGATCA	2 cut(s)	1233, 1372
Kzo9I	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
LmnI	GCTCC	2 cut(s)	1171, 1267
Lsp1109I	GCAGC	4 cut(s)	247, 554, 1096, 1331
LweI	GCATC	1 cut(s)	166
MaeI	CTAG	4 cut(s)	707, 840, 903, 1421
MaeII	ACGT	3 cut(s)	328, 579, 1309
MaeIII	GTNAC	7 cut(s)	284, 412, 451, 731, 1040, 1090, 1153
MalI	GATC	8 cut(s)	432, 522, 531, 1219, 1235, 1254, 1332, 1374
MboI	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
MboII	GAAGA	5 cut(s)	182, 185, 608, 1067, 1417
MfeI	CAATTG	1 cut(s)	1334
MflI	RGATCY	1 cut(s)	1217
MhlI	GDGCHC	4 cut(s)	355, 809, 916, 1176
MlsI	TGGCCA	1 cut(s)	1008
MluCI	AATT	7 cut(s)	23, 158, 185, 515, 697, 1260, 1334
MluNI	TGGCCA	1 cut(s)	1008
MlyI	GAGTC	1 cut(s)	1436
Mox20I	TGGCCA	1 cut(s)	1008
MroXI	GAANNNNTTC	1 cut(s)	1389
MscI	TGGCCA	1 cut(s)	1008
MseI	TTAA	2 cut(s)	99, 1130
MslI	CAYNNNNRTG	2 cut(s)	887, 1187
Msp20I	TGGCCA	1 cut(s)	1008
MspA1I	CMGCKG	1 cut(s)	476
MspR9I	CCNGG	2 cut(s)	205, 1010
MunI	CAATTG	1 cut(s)	1334
MvaI	CCWGG	2 cut(s)	205, 1010
MvnI	CGCG	1 cut(s)	371
MwoI	GCNNNNNNNGC	1 cut(s)	477
NdeII	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
NlaIII	CATG	2 cut(s)	112, 1000
NlaIV	GGNNCC	1 cut(s)	130
NmuCI	GTSAC	3 cut(s)	451, 1040, 1090
PaeR7I	CTCGAG	1 cut(s)	915
PdmI	GAANNNNTTC	1 cut(s)	1389
PfeI	GAWTC	3 cut(s)	116, 758, 964
PkrI	GCNGC	4 cut(s)	237, 544, 1111, 1321
PleI	GAGTC	1 cut(s)	1436
PpsI	GAGTC	1 cut(s)	1436
Psp1406I	AACGTT	1 cut(s)	579
Psp6I	CCWGG	2 cut(s)	203, 1008
PspGI	CCWGG	2 cut(s)	203, 1008
PspN4I	GGNNCC	1 cut(s)	130
PsuI	RGATCY	1 cut(s)	1217
RsaI	GTAC	1 cut(s)	1058
RsaNI	GTAC	1 cut(s)	1057
RseI	CAYNNNNRTG	2 cut(s)	887, 1187
SaqAI	TTAA	2 cut(s)	99, 1130
SatI	GCNGC	4 cut(s)	236, 543, 1110, 1320
Sau3AI	GATC	8 cut(s)	430, 520, 529, 1217, 1233, 1252, 1330, 1372
SchI	GAGTC	1 cut(s)	1436
ScrFI	CCNGG	2 cut(s)	205, 1010
SduI	GDGCHC	4 cut(s)	355, 809, 916, 1176
SfaNI	GCATC	1 cut(s)	166
Sfr274I	CTCGAG	1 cut(s)	915
SlaI	CTCGAG	1 cut(s)	915
SmiMI	CAYNNNNRTG	2 cut(s)	887, 1187
SmlI	CTYRAG	1 cut(s)	915
SmoI	CTYRAG	1 cut(s)	915
Sse9I	AATT	7 cut(s)	23, 158, 185, 515, 697, 1260, 1334
SsiI	CCGC	3 cut(s)	476, 606, 1085
SspMI	CTAG	4 cut(s)	707, 840, 903, 1421
StyD4I	CCNGG	2 cut(s)	203, 1008
TaaI	ACNGT	5 cut(s)	837, 911, 958, 977, 1370
TaiI	ACGT	3 cut(s)	331, 582, 1312
TaqI	TCGA	6 cut(s)	244, 550, 916, 983, 1025, 1278
TasI	AATT	7 cut(s)	23, 158, 185, 515, 697, 1260, 1334
TatI	WGTACW	1 cut(s)	1056
TfiI	GAWTC	3 cut(s)	116, 758, 964
Tru1I	TTAA	2 cut(s)	99, 1130
Tru9I	TTAA	2 cut(s)	99, 1130
TscAI	CASTG	4 cut(s)	460, 916, 952, 1375
TseFI	GTSAC	3 cut(s)	451, 1040, 1090
TseI	GCWGC	4 cut(s)	235, 542, 1109, 1319
Tsp45I	GTSAC	3 cut(s)	451, 1040, 1090
TspDTI	ATGAA	3 cut(s)	559, 956, 1004
TspGWI	ACGGA	3 cut(s)	153, 215, 1197
TspRI	CASTG	4 cut(s)	460, 916, 952, 1375
VneI	GTGCAC	1 cut(s)	351
XagI	CCTNNNNNAGG	1 cut(s)	882
XapI	RAATTY	4 cut(s)	23, 158, 185, 697
XbaI	TCTAGA	2 cut(s)	706, 902
XcmI	CCANNNNNNNNNTGG	2 cut(s)	25, 674
XhoI	CTCGAG	1 cut(s)	915
XmnI	GAANNNNTTC	1 cut(s)	1389
XspI	CTAG	4 cut(s)	707, 840, 903, 1421

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