Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0008865

Physical Location & Seq

Genomic Coordinates Reverse (-)

19307088 .. 19309500

Gene Structure 2413 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG213600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1419 bp

ATGGATCAGTTGGACAAATTAAGCAACCTACCAACTGGTGTTACACACCAGATTTTGTCATACTTACCTATCAAGCAGGCAGTGAGGACAAGTATTTTATCAAGTGACTGGAGGTACAAATGGGCTCAGCTTCCATGTCTTGTGTTTGATGATAGAACTCATAGAAGTGGATATCCAATTGCAAAGGTTGTGGATCATGTGCTGTTACTTCATAGTGGCCGCATTGACACTTTCAAGCTTTCTACTTTTAACTATCCAGCCGCTAGGGATATAGATAAATGGATTTCTCATCTATCAAGAAGCAATGTCAAAGTGTTCGTACTGAAAGTATGGGAGCTGCTGCCTCGATACAATGTGTTTTCCTGCTTCTTTTCTTTTAAAGATTTGACTCATTTAGAGTTATGCAATTGTTTGCTTAAACCTCCAACGACATTCAAAGGCTTCAGGATGTTGAAGAGCCTTCATCTTCAAGAAGTTATTGTGTCCGGACATGTGTTGGGAAAACTAATAGCTTGCTGTCCTCAGCTTGAGAGAATAATTCTATGTGACTTAAAGGGAATCACTGATGTCACTATTGATGCACCAAGTATCCGGTTCCTTAGAGTTCGAGGCAGTTTTGAGGATGTTCTACTAGCAAATACCTTAAATCTTGTTGATGTTTCAATTGACTGGAAACAAGTTTCTACAATCAGTTCTAGCAAATTGCTCAGGTATTTTTTTGAACTGCCTCGTATTGAAAGGCTCACACTTAAGGATGGCTTTTTAGAGTATGCTGTTGGTTCCTTGACCAAGAATCTGCTGCCTACACCATGTCTATGTCTGAAGTTTCTTTCTATAAGAATATGCTTGAATAATTTGGATGAGATTTCAACTGCTATCCACCTTATGAGAAGCGCACCTGCTCTACAAGAACTAGACATTTTGGTTCGAAAAGGAGAGGAGACTAATGATGGAAAAGCAACCTATTGTTTAATTGACAAACAGAATTGGGAATTCACCCAACTGCAACGAATGAAAGTAACCGGCTTCTCTGGTGTCAAAGCAGAAGTAGACTTCATTGAATTTCTGTTATTAACCTCACCTGGTCTTCAAGAACTAGAAATTTCATTTTGTCAAGATGTGAAAAAAGTGGACTTTTCTTGGTTAGATGACAACCAGAAGACTTGTGCATTCACACAACTGCTAGTTGTGAAAGTAACTGGCTTCTCTGGTGTCAGAGCCGAAGTAGATTTCATTAGATTTCTGCTTTCAAGCACTTCTAAAGTGATTCTTCAACCTGCTTCTGTCAAAGTTTATTGGGATGTATTTAAATTATTGCCGGTGTTCAGACGCGACTCATTACATGCAGATTTAAAGCTCTTGGGCCCATCAATTCATGTACAGGATTCTGATGACTCATCCTTCTGTCTCCGACTCTGA

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

F-box FBD LRR_2

Protein Analysis

472

Amino Acids

53.87

Weight (kDa)

8.55

Isoelectric Point (pI)

32.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LRR_At1g61320_AtMIF1	PF23622	70 - 190	5.3e-09	At1g61320/AtMIF1, LRR domain
LRR_At5g56370	PF24758	91 - 307	1.4e-15	FBD-associated F-box protein At5g56370, LRR repeats
LRR_At1g61320_AtMIF1	PF23622	188 - 377	7.5e-07	At1g61320/AtMIF1, LRR 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: OG0008865)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g09550 FvH4_5g09550 FvH4_5g09550 FvH4_5g09550 FvH4_5g10110 FvH4_5g10110 FvH4_5g10120 FvH4_5g10120 FvH4_6g18740
rosa_chinensis	RchiOBHm_Chr3g0473701
rosa_laevigata	RLG00000004674 RLG00000004675 RLG00000023990 RLG00000023992
rosa_multiflora	Rmu_co8411403.1_g000001 Rmu_sc0003069.1_g000001
rosa_roxburghii	Rroxscaffold_3G00266170 Rroxscaffold_6G00407920 Rroxscaffold_6G00407930
rosa_rugosa	Rorug03G0134800 Rorug06G0492000
rosa_samantha	Rh3BG213600 Rh7CG100200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	907
Acc36I	ACCTGC	2 cut(s)	907, 1285
AccI	GTMKAC	1 cut(s)	1050
AccII	CGCG	1 cut(s)	1332
AccIII	TCCGGA	1 cut(s)	485
AciI	CCGC	2 cut(s)	220, 261
AclWI	GGATC	2 cut(s)	12, 201
AcoI	YGGCCR	1 cut(s)	217
AcsI	RAATTY	3 cut(s)	992, 1061, 1101
AcuI	CTGAAG	2 cut(s)	427, 842
AfaI	GTAC	3 cut(s)	116, 321, 1380
AflII	CTTAAG	1 cut(s)	749
AflIII	ACRYGT	1 cut(s)	490
AjnI	CCWGG	1 cut(s)	1081
AluBI	AGCT	6 cut(s)	130, 238, 337, 512, 526, 1357
AluI	AGCT	6 cut(s)	130, 238, 337, 512, 526, 1357
Alw26I	GTCTC	2 cut(s)	935, 1412
AlwI	GGATC	2 cut(s)	12, 201
Aor13HI	TCCGGA	1 cut(s)	485
AoxI	GGCC	2 cut(s)	217, 1363
ApaI	GGGCCC	1 cut(s)	1367
ApeKI	GCWGC	3 cut(s)	337, 340, 799
ApoI	RAATTY	3 cut(s)	992, 1061, 1101
AspLEI	GCGC	1 cut(s)	896
AspS9I	GGNCC	2 cut(s)	1363, 1364
AsuHPI	GGTGA	2 cut(s)	988, 1071
AsuII	TTCGAA	1 cut(s)	928
BaeGI	GKGCMC	1 cut(s)	1367
BanII	GRGCYC	2 cut(s)	127, 1367
BbsI	GAAGAC	2 cut(s)	1079, 1166
BbvCI	CCTCAGC	1 cut(s)	522
BbvI	GCAGC	3 cut(s)	324, 327, 786
BccI	CCATC	3 cut(s)	749, 944, 1375
BciT130I	CCWGG	1 cut(s)	1083
BciVI	GTATCC	1 cut(s)	599
BcoDI	GTCTC	2 cut(s)	935, 1412
BfaI	CTAG	6 cut(s)	264, 632, 696, 914, 1097, 1184
BfrI	CTTAAG	1 cut(s)	749
BfuAI	ACCTGC	2 cut(s)	907, 1285
BfuI	GTATCC	1 cut(s)	599
BisI	GCNGC	5 cut(s)	220, 261, 338, 341, 800
BlpI	GCTNAGC	1 cut(s)	126
BlsI	GCNGC	5 cut(s)	221, 262, 339, 342, 801
Bme1390I	CCNGG	1 cut(s)	1083
BmgT120I	GGNCC	2 cut(s)	1363, 1364
BmiI	GGNNCC	3 cut(s)	596, 781, 1365
BmrFI	CCNGG	1 cut(s)	1083
BmsI	GCATC	1 cut(s)	568
BpiI	GAAGAC	2 cut(s)	1079, 1166
BpmI	CTGGAG	1 cut(s)	130
Bpu10I	CCTNAGC	2 cut(s)	522, 707
Bpu1102I	GCTNAGC	1 cut(s)	126
Bpu14I	TTCGAA	1 cut(s)	928
BpuEI	CTTGAG	1 cut(s)	548
BsaWI	WCCGGW	2 cut(s)	485, 591
Bse118I	RCCGGY	2 cut(s)	1022, 1318
Bse1I	ACTGG	4 cut(s)	40, 113, 674, 1204
Bse3DI	GCAATG	1 cut(s)	310
BseAI	TCCGGA	1 cut(s)	485
BseBI	CCWGG	1 cut(s)	1083
BseGI	GGATG	6 cut(s)	453, 628, 760, 865, 1306, 1397
BseMI	GCAATG	1 cut(s)	310
BseMII	CTCAG	3 cut(s)	140, 536, 721
BseNI	ACTGG	4 cut(s)	40, 113, 674, 1204
BseRI	GAGGAG	1 cut(s)	953
BseSI	GKGCMC	1 cut(s)	1367
BseXI	GCAGC	3 cut(s)	324, 327, 786
Bsh1236I	CGCG	1 cut(s)	1332
BshFI	GGCC	2 cut(s)	219, 1365
BsiSI	CCGG	4 cut(s)	486, 592, 1023, 1319
BsmAI	GTCTC	2 cut(s)	935, 1412
BsmI	GAATGC	1 cut(s)	1169
BsnI	GGCC	2 cut(s)	219, 1365
Bsp119I	TTCGAA	1 cut(s)	928
Bsp120I	GGGCCC	1 cut(s)	1363
Bsp1286I	GDGCHC	2 cut(s)	127, 1367
Bsp13I	TCCGGA	1 cut(s)	485
Bsp1407I	TGTACA	1 cut(s)	1378
Bsp143I	GATC	2 cut(s)	4, 193
Bsp1720I	GCTNAGC	1 cut(s)	126
BspACI	CCGC	2 cut(s)	220, 261
BspANI	GGCC	2 cut(s)	219, 1365
BspCNI	CTCAG	3 cut(s)	139, 535, 720
BspEI	TCCGGA	1 cut(s)	485
BspFNI	CGCG	1 cut(s)	1332
BspLI	GGNNCC	3 cut(s)	596, 781, 1365
BspMI	ACCTGC	2 cut(s)	907, 1285
BspPI	GGATC	2 cut(s)	12, 201
BspQI	GCTCTTC	1 cut(s)	449
BspT104I	TTCGAA	1 cut(s)	928
BspTI	CTTAAG	1 cut(s)	749
BsrDI	GCAATG	1 cut(s)	310
BsrFI	RCCGGY	2 cut(s)	1022, 1318
BsrGI	TGTACA	1 cut(s)	1378
BsrI	ACTGG	4 cut(s)	40, 113, 674, 1204
BssAI	RCCGGY	2 cut(s)	1022, 1318
BssMI	GATC	2 cut(s)	4, 193
Bst2UI	CCWGG	1 cut(s)	1083
Bst6I	CTCTTC	1 cut(s)	449
BstAFI	CTTAAG	1 cut(s)	749
BstAUI	TGTACA	1 cut(s)	1378
BstBI	TTCGAA	1 cut(s)	928
BstC8I	GCNNGC	2 cut(s)	78, 514
BstDEI	CTNAG	4 cut(s)	126, 522, 599, 707
BstF5I	GGATG	6 cut(s)	453, 628, 760, 865, 1306, 1397
BstFNI	CGCG	1 cut(s)	1332
BstHHI	GCGC	1 cut(s)	896
BstKTI	GATC	2 cut(s)	7, 196
BstMAI	GTCTC	2 cut(s)	935, 1412
BstMBI	GATC	2 cut(s)	4, 193
BstNI	CCWGG	1 cut(s)	1083
BstNSI	RCATGY	2 cut(s)	494, 1346
BstSCI	CCNGG	1 cut(s)	1081
BstSLI	GKGCMC	1 cut(s)	1367
BstUI	CGCG	1 cut(s)	1332
BstV1I	GCAGC	3 cut(s)	324, 327, 786
BstV2I	GAAGAC	2 cut(s)	1079, 1166
BsuI	GTATCC	1 cut(s)	599
BsuRI	GGCC	2 cut(s)	219, 1365
BtsCI	GGATG	6 cut(s)	453, 628, 760, 865, 1306, 1397
BtsI	GCAGTG	1 cut(s)	87
BtsIMutI	CAGTG	2 cut(s)	87, 561
BveI	ACCTGC	2 cut(s)	907, 1285
Cac8I	GCNNGC	2 cut(s)	78, 514
CfoI	GCGC	1 cut(s)	896
Cfr10I	RCCGGY	2 cut(s)	1022, 1318
Cfr13I	GGNCC	2 cut(s)	1363, 1364
CseI	GACGC	1 cut(s)	1338
CsiI	ACCWGGT	1 cut(s)	1081
Csp6I	GTAC	3 cut(s)	115, 320, 1379
CspCI	CAANNNNNGTGG	2 cut(s)	171, 206
CviAII	CATG	6 cut(s)	135, 197, 491, 810, 1343, 1376
CviQI	GTAC	3 cut(s)	115, 320, 1379
DdeI	CTNAG	4 cut(s)	126, 522, 599, 707
DpnI	GATC	2 cut(s)	6, 195
DpnII	GATC	2 cut(s)	4, 193
DraI	TTTAAA	3 cut(s)	379, 1309, 1353
EaeI	YGGCCR	1 cut(s)	217
Eam1104I	CTCTTC	1 cut(s)	449
EarI	CTCTTC	1 cut(s)	449
Eco24I	GRGCYC	2 cut(s)	127, 1367
Eco32I	GATATC	1 cut(s)	173
Eco57I	CTGAAG	2 cut(s)	427, 842
EcoRI	GAATTC	1 cut(s)	992
EcoRII	CCWGG	1 cut(s)	1081
EcoRV	GATATC	1 cut(s)	173
EcoT38I	GRGCYC	2 cut(s)	127, 1367
FaeI	CATG	6 cut(s)	138, 200, 494, 813, 1346, 1379
FalI	AAGNNNNNCTT	4 cut(s)	743, 775, 1254, 1286
FatI	CATG	6 cut(s)	134, 196, 490, 809, 1342, 1375
FblI	GTMKAC	1 cut(s)	1050
Fnu4HI	GCNGC	5 cut(s)	220, 261, 338, 341, 800
FokI	GGATG	6 cut(s)	460, 635, 767, 872, 1313, 1384
FriOI	GRGCYC	2 cut(s)	127, 1367
Fsp4HI	GCNGC	5 cut(s)	220, 261, 338, 341, 800
FspBI	CTAG	6 cut(s)	264, 632, 696, 914, 1097, 1184
GlaI	GCGC	1 cut(s)	895
GluI	GCNGC	5 cut(s)	220, 261, 338, 341, 800
GsuI	CTGGAG	1 cut(s)	130
HaeIII	GGCC	2 cut(s)	219, 1365
HapII	CCGG	4 cut(s)	486, 592, 1023, 1319
HgaI	GACGC	1 cut(s)	1338
HhaI	GCGC	1 cut(s)	896
Hin1II	CATG	6 cut(s)	138, 200, 494, 813, 1346, 1379
Hin6I	GCGC	1 cut(s)	894
HinP1I	GCGC	1 cut(s)	894
HindIII	AAGCTT	1 cut(s)	236
HinfI	GANTC	8 cut(s)	388, 558, 793, 1267, 1334, 1385, 1394, 1413
HpaII	CCGG	4 cut(s)	486, 592, 1023, 1319
HphI	GGTGA	2 cut(s)	988, 1071
Hpy166II	GTNNAC	2 cut(s)	1051, 1132
Hpy188I	TCNGA	6 cut(s)	822, 1217, 1328, 1390, 1412, 1418
Hpy188III	TCNNGA	6 cut(s)	297, 445, 470, 486, 1091, 1115
Hpy8I	GTNNAC	2 cut(s)	1051, 1132
HpyAV	CCTTC	2 cut(s)	470, 1411
HpyCH4V	TGCA	6 cut(s)	182, 405, 581, 1006, 1169, 1346
HpyF3I	CTNAG	4 cut(s)	126, 522, 599, 707
Hsp92II	CATG	6 cut(s)	138, 200, 494, 813, 1346, 1379
HspAI	GCGC	1 cut(s)	894
Kpn2I	TCCGGA	1 cut(s)	485
Kzo9I	GATC	2 cut(s)	4, 193
LguI	GCTCTTC	1 cut(s)	449
LmnI	GCTCC	1 cut(s)	334
Lsp1109I	GCAGC	3 cut(s)	324, 327, 786
LweI	GCATC	1 cut(s)	568
MabI	ACCWGGT	1 cut(s)	1081
MaeI	CTAG	6 cut(s)	264, 632, 696, 914, 1097, 1184
MaeIII	GTNAC	7 cut(s)	40, 104, 204, 545, 568, 1018, 1195
MalI	GATC	2 cut(s)	6, 195
MboI	GATC	2 cut(s)	4, 193
MboII	GAAGA	5 cut(s)	458, 466, 1079, 1171, 1262
MfeI	CAATTG	3 cut(s)	177, 406, 663
MhlI	GDGCHC	2 cut(s)	127, 1367
MlyI	GAGTC	4 cut(s)	382, 1328, 1388, 1407
MmeI	TCCRAC	1 cut(s)	449
MroI	TCCGGA	1 cut(s)	485
MslI	CAYNNNNRTG	2 cut(s)	165, 814
MspCI	CTTAAG	1 cut(s)	749
MspI	CCGG	4 cut(s)	486, 592, 1023, 1319
MspR9I	CCNGG	1 cut(s)	1083
MunI	CAATTG	3 cut(s)	177, 406, 663
Mva1269I	GAATGC	1 cut(s)	1169
MvaI	CCWGG	1 cut(s)	1083
MvnI	CGCG	1 cut(s)	1332
NdeII	GATC	2 cut(s)	4, 193
NlaIII	CATG	6 cut(s)	138, 200, 494, 813, 1346, 1379
NlaIV	GGNNCC	3 cut(s)	596, 781, 1365
NmuCI	GTSAC	3 cut(s)	104, 545, 568
NspI	RCATGY	2 cut(s)	494, 1346
NspV	TTCGAA	1 cut(s)	928
PaqCI	CACCTGC	1 cut(s)	907
PciI	ACATGT	1 cut(s)	490
PciSI	GCTCTTC	1 cut(s)	449
PctI	GAATGC	1 cut(s)	1169
PfeI	GAWTC	4 cut(s)	558, 793, 1267, 1385
PkrI	GCNGC	5 cut(s)	221, 262, 339, 342, 801
PleI	GAGTC	4 cut(s)	382, 1328, 1388, 1407
PpsI	GAGTC	4 cut(s)	382, 1328, 1388, 1407
PscI	ACATGT	1 cut(s)	490
Psp6I	CCWGG	1 cut(s)	1081
PspGI	CCWGG	1 cut(s)	1081
PspN4I	GGNNCC	3 cut(s)	596, 781, 1365
PspOMI	GGGCCC	1 cut(s)	1363
PspPI	GGNCC	2 cut(s)	1363, 1364
RsaI	GTAC	3 cut(s)	116, 321, 1380
RsaNI	GTAC	3 cut(s)	115, 320, 1379
RseI	CAYNNNNRTG	2 cut(s)	165, 814
SapI	GCTCTTC	1 cut(s)	449
SatI	GCNGC	5 cut(s)	220, 261, 338, 341, 800
Sau3AI	GATC	2 cut(s)	4, 193
Sau96I	GGNCC	2 cut(s)	1363, 1364
SchI	GAGTC	4 cut(s)	382, 1328, 1388, 1407
ScrFI	CCNGG	1 cut(s)	1083
SduI	GDGCHC	2 cut(s)	127, 1367
SexAI	ACCWGGT	1 cut(s)	1081
SfaNI	GCATC	1 cut(s)	568
SfuI	TTCGAA	1 cut(s)	928
SmiI	ATTTAAAT	1 cut(s)	1309
SmiMI	CAYNNNNRTG	2 cut(s)	165, 814
SmlI	CTYRAG	2 cut(s)	527, 749
SmoI	CTYRAG	2 cut(s)	527, 749
SsiI	CCGC	2 cut(s)	220, 261
SspMI	CTAG	6 cut(s)	264, 632, 696, 914, 1097, 1184
StyD4I	CCNGG	1 cut(s)	1081
SwaI	ATTTAAAT	1 cut(s)	1309
TaqI	TCGA	3 cut(s)	346, 607, 928
TatI	WGTACW	1 cut(s)	1378
TauI	GCSGC	2 cut(s)	222, 263
TfiI	GAWTC	4 cut(s)	558, 793, 1267, 1385
TscAI	CASTG	2 cut(s)	87, 568
TseFI	GTSAC	3 cut(s)	104, 545, 568
TseI	GCWGC	3 cut(s)	337, 340, 799
Tsp45I	GTSAC	3 cut(s)	104, 545, 568
TspDTI	ATGAA	7 cut(s)	200, 452, 1028, 1045, 1095, 1222, 1364
TspRI	CASTG	2 cut(s)	87, 568
Vha464I	CTTAAG	1 cut(s)	749
XapI	RAATTY	3 cut(s)	992, 1061, 1101
XceI	RCATGY	2 cut(s)	494, 1346
XmiI	GTMKAC	1 cut(s)	1050
XspI	CTAG	6 cut(s)	264, 632, 696, 914, 1097, 1184

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