Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb6

Orthogroup ID

OG0003670

Physical Location & Seq

Genomic Coordinates Forward (+)

35890155 .. 35892960

Gene Structure 2806 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_6g47280.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1233 bp

ATGGAAGTCGCACCACAAAACTTGAGAAGCAAGACACATAAGCCCCAACCTGCAGTCATCAAAGTCATCCGAGGAAACGTAGAGAGAATGGCACCTTTGGTGGGATATTTCCCATCTGGTTTTGATCCAGACCTTAATTCAACCAAAGTTGGTGTCTTTAGGCATAAAGAGAGAGGTGGTACTAGGCTTCAGCTTGTGGTAACCCCAGAGAAGGAACCTAAGGTTGATTTCGTTGGAACAAGCTATGCTGGTGAAGCTCAAGCTGGGGAGCACTGCTCTTATGGACTTGGTGTTCTTGATAAGGCCACCAACACATTGAAGATTGTACCTATTTCTAGTAACAAGGTGTTTAGATTAGAACCAAACGTTCAAGGTGTTGCCTCCTCTAATAAGGAGCTTGCAAGTTCAGTGGTTGGGAAACTTGCTGCACATGAGAAGGCAGAAAAACTTACAGAACTTCATAATCGTTATGGAACAAAGAAGTCAATACGGCAGAACAAAAAAATGCAAATGTTGAAGCATGGAGATGATCCTGATGCTCAAAAGGATTTGGATGTAATCAAACAAGGTATGACAATCAGGGAGGATTTGATAGAAGCTTCCGAAGGCCCTAAGGATCGCAACACCCCACCATTTAATGCTTCTGCCACCACTCCCCAGGAGGCTTATCCACTGGACAAGATCATCTTCACAGGAGAGTGGAAATACCTCCAAGATATCCATGAGCTATTGGAAGGGGGATCAAGACTTCCCCAATTTGTTGGCAACCGAATCCATAAACTGCAGCAGATTGAGGTTGAAGACAAGAAGAACAAGCTTGCTAGTATTTTGTCATACATTGTGCATCTTATTAAGTTCAAAGATCTGCATTCGATTCCTATCAAAGCAGAACGTTCCATGGAGCCCGAGTGGCTTTCCTCTGCAAAGGCCCACAGATTCCCAAGCATTATAAGGGATAAATTTTCAACCATGTTTGATGCAGTGTCAAGAACGCTATCAACCGAAAAAAGTAATCTTCTCATTAGTTATGTCCTGGTGCTCACTCTATTTGCCGATGAATTCCAAACAAGTTTGACAGACATAGCAAAGGATCTCAGAGTGTGCCCCTCAGAGTTGAGGAAGCATTATCAGACCTTAGGTTGCAAGGTGTCTAAGAAGAACAACTTATCAATGGTTACCCTTCCTGTCCCCCTCCAATTTTCAACACTGAAGCGGAAGCGAAGTAATAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_I_A49

Protein Analysis

411

Amino Acids

46.07

Weight (kDa)

9.53

Isoelectric Point (pI)

38.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_I_A49	PF06870	47 - 400	5.1e-48	A49-like RNA polymerase I associated factor

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13940
fragaria_vesca	FvH4_2g14600 FvH4_2g14600 FvH4_2g14600 FvH4_6g34180 FvH4_6g47280
malus_domestica	MD09G1187900.v1.1 MD17G1172300.v1.1
prunus_persica	Prupe.3G044800_v2.0.a1
pyrus_communis	pycom09g10420 pycom09g10430 pycom17g16990 pycom17g17000
rosa_chinensis	RchiOBHm_Chr2g0144531 RchiOBHm_Chr2g0166351
rosa_laevigata	RLG00000020086 RLG00000021613
rosa_multiflora	Rmu_sc0005789.1_g000005 Rmu_sc0007974.1_g000004 Rmu_sc0029020.1_g000001 Rmu_sc0029020.1_g000002
rosa_roxburghii	Rroxscaffold_2G00084950 Rroxscaffold_2G00101230
rosa_rugosa	Rorug02G0387600 Rorug02G0522400
rosa_samantha	Rh2AG439600 Rh2AG588500 Rh2BG449700 Rh2BG600500 Rh2CG426600 Rh2CG571300 Rh2DG459600 Rh2DG610700
rosa_wichuraiana	Rw2G035960 Rw2G049040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	950
Acc36I	ACCTGC	1 cut(s)	58
AccB1I	GGYRCC	1 cut(s)	91
AciI	CCGC	1 cut(s)	1213
AclI	AACGTT	2 cut(s)	366, 892
AclWI	GGATC	5 cut(s)	119, 524, 624, 748, 1098
AcsI	RAATTY	2 cut(s)	959, 1058
AcuI	CTGAAG	2 cut(s)	173, 1229
AfaI	GTAC	2 cut(s)	181, 327
AfiI	CCNNNNNNNGG	2 cut(s)	101, 211
AgsI	TTSAA	8 cut(s)	141, 319, 371, 517, 800, 859, 966, 1203
AjnI	CCWGG	2 cut(s)	657, 1032
AloI	GAACNNNNNNTCC	2 cut(s)	276, 308
AluBI	AGCT	8 cut(s)	193, 243, 257, 263, 397, 599, 727, 817
AluI	AGCT	8 cut(s)	193, 243, 257, 263, 397, 599, 727, 817
Alw21I	GWGCWC	2 cut(s)	273, 1041
AlwI	GGATC	5 cut(s)	119, 524, 624, 748, 1098
Ama87I	CYCGRG	1 cut(s)	905
AoxI	GGCC	3 cut(s)	303, 607, 927
ApeKI	GCWGC	2 cut(s)	425, 784
ApoI	RAATTY	2 cut(s)	959, 1058
ArsI	GACNNNNNNTTYG	2 cut(s)	138, 170
AspS9I	GGNCC	2 cut(s)	608, 928
AsuHPI	GGTGA	1 cut(s)	263
AvaI	CYCGRG	1 cut(s)	905
AxyI	CCTNAGG	3 cut(s)	219, 612, 1135
BaeGI	GKGCMC	1 cut(s)	1106
BanI	GGYRCC	1 cut(s)	91
BanII	GRGCYC	1 cut(s)	906
BbsI	GAAGAC	1 cut(s)	807
Bbv12I	GWGCWC	2 cut(s)	273, 1041
BbvI	GCAGC	2 cut(s)	412, 796
BccI	CCATC	1 cut(s)	121
BceAI	ACGGC	1 cut(s)	506
BciT130I	CCWGG	2 cut(s)	659, 1034
BfaI	CTAG	3 cut(s)	183, 336, 822
BfmI	CTRYAG	2 cut(s)	51, 782
BfuAI	ACCTGC	1 cut(s)	58
BglI	GCCNNNNNGGC	1 cut(s)	910
BglII	AGATCT	1 cut(s)	862
BisI	GCNGC	2 cut(s)	426, 785
BlsI	GCNGC	2 cut(s)	427, 786
Bme1390I	CCNGG	2 cut(s)	659, 1034
BmeT110I	CYCGRG	1 cut(s)	905
BmgT120I	GGNCC	2 cut(s)	608, 928
BmiI	GGNNCC	3 cut(s)	93, 216, 903
BmrFI	CCNGG	2 cut(s)	659, 1034
BmsI	GCATC	3 cut(s)	526, 853, 967
BpiI	GAAGAC	1 cut(s)	807
BplI	GAGNNNNNCTC	2 cut(s)	260, 292
BpuEI	CTTGAG	2 cut(s)	43, 243
BsaBI	GATNNNNATC	1 cut(s)	878
BsaJI	CCNNGG	3 cut(s)	70, 657, 897
BsaXI	ACNNNNNCTCC	2 cut(s)	893, 923
Bsc4I	CCNNNNNNNGG	2 cut(s)	101, 211
Bse1I	ACTGG	1 cut(s)	678
Bse21I	CCTNAGG	3 cut(s)	219, 612, 1135
Bse8I	GATNNNNATC	1 cut(s)	878
BseBI	CCWGG	2 cut(s)	659, 1034
BseDI	CCNNGG	3 cut(s)	70, 657, 897
BseGI	GGATG	2 cut(s)	66, 559
BseJI	GATNNNNATC	1 cut(s)	878
BseLI	CCNNNNNNNGG	2 cut(s)	101, 211
BseMII	CTCAG	2 cut(s)	1108, 1122
BseNI	ACTGG	1 cut(s)	678
BseRI	GAGGAG	1 cut(s)	373
BseSI	GKGCMC	1 cut(s)	1106
BseXI	GCAGC	2 cut(s)	412, 796
BseYI	CCCAGC	1 cut(s)	263
BsgI	GTGCAG	1 cut(s)	411
BshFI	GGCC	3 cut(s)	305, 609, 929
BshNI	GGYRCC	1 cut(s)	91
BsiHKAI	GWGCWC	2 cut(s)	273, 1041
BsiHKCI	CYCGRG	1 cut(s)	905
BslFI	GGGAC	1 cut(s)	1172
BslI	CCNNNNNNNGG	2 cut(s)	101, 211
BsmFI	GGGAC	1 cut(s)	1172
BsmI	GAATGC	1 cut(s)	868
BsnI	GGCC	3 cut(s)	305, 609, 929
BsoBI	CYCGRG	1 cut(s)	905
Bsp1286I	GDGCHC	4 cut(s)	273, 906, 1041, 1106
Bsp143I	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
Bsp19I	CCATGG	1 cut(s)	897
BspACI	CCGC	1 cut(s)	1213
BspANI	GGCC	3 cut(s)	305, 609, 929
BspCNI	CTCAG	2 cut(s)	1107, 1121
BspLI	GGNNCC	3 cut(s)	93, 216, 903
BspMAI	CTGCAG	2 cut(s)	55, 786
BspMI	ACCTGC	1 cut(s)	58
BspPI	GGATC	5 cut(s)	119, 524, 624, 748, 1098
BspT107I	GGYRCC	1 cut(s)	91
BsrI	ACTGG	1 cut(s)	678
BssECI	CCNNGG	3 cut(s)	70, 657, 897
BssMI	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
BssT1I	CCWWGG	1 cut(s)	897
Bst2UI	CCWGG	2 cut(s)	659, 1034
BstC8I	GCNNGC	2 cut(s)	399, 819
BstDEI	CTNAG	6 cut(s)	219, 612, 1094, 1108, 1135, 1152
BstDSI	CCRYGG	1 cut(s)	897
BstEII	GGTNACC	2 cut(s)	199, 1174
BstF5I	GGATG	2 cut(s)	66, 559
BstKTI	GATC	7 cut(s)	127, 532, 619, 684, 743, 865, 1093
BstMBI	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
BstMWI	GCNNNNNNNGC	2 cut(s)	254, 910
BstNI	CCWGG	2 cut(s)	659, 1034
BstPI	GGTNACC	2 cut(s)	199, 1174
BstSCI	CCNGG	2 cut(s)	657, 1032
BstSFI	CTRYAG	2 cut(s)	51, 782
BstSLI	GKGCMC	1 cut(s)	1106
BstV1I	GCAGC	2 cut(s)	412, 796
BstV2I	GAAGAC	1 cut(s)	807
BstX2I	RGATCY	2 cut(s)	862, 1090
BstXI	CCANNNNNNTGG	1 cut(s)	761
BstYI	RGATCY	2 cut(s)	862, 1090
Bsu36I	CCTNAGG	3 cut(s)	219, 612, 1135
BsuRI	GGCC	3 cut(s)	305, 609, 929
BtgI	CCRYGG	1 cut(s)	897
BtsCI	GGATG	2 cut(s)	66, 559
BtsI	GCAGTG	2 cut(s)	271, 987
BtsIMutI	CAGTG	5 cut(s)	271, 414, 671, 987, 1205
BveI	ACCTGC	1 cut(s)	58
Cac8I	GCNNGC	2 cut(s)	399, 819
Cfr13I	GGNCC	2 cut(s)	608, 928
Csp6I	GTAC	2 cut(s)	180, 326
CspCI	CAANNNNNGTGG	3 cut(s)	38, 390, 425
CviAII	CATG	5 cut(s)	431, 521, 722, 898, 970
CviQI	GTAC	2 cut(s)	180, 326
DdeI	CTNAG	6 cut(s)	219, 612, 1094, 1108, 1135, 1152
DpnI	GATC	7 cut(s)	126, 531, 618, 683, 742, 864, 1092
DpnII	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
Eco130I	CCWWGG	1 cut(s)	897
Eco24I	GRGCYC	1 cut(s)	906
Eco32I	GATATC	1 cut(s)	718
Eco57I	CTGAAG	2 cut(s)	173, 1229
Eco81I	CCTNAGG	3 cut(s)	219, 612, 1135
Eco88I	CYCGRG	1 cut(s)	905
Eco91I	GGTNACC	2 cut(s)	199, 1174
EcoO109I	RGGNCCY	1 cut(s)	608
EcoO65I	GGTNACC	2 cut(s)	199, 1174
EcoRI	GAATTC	1 cut(s)	1058
EcoRII	CCWGG	2 cut(s)	657, 1032
EcoRV	GATATC	1 cut(s)	718
EcoT14I	CCWWGG	1 cut(s)	897
EcoT38I	GRGCYC	1 cut(s)	906
ErhI	CCWWGG	1 cut(s)	897
FaeI	CATG	5 cut(s)	434, 524, 725, 901, 973
FalI	AAGNNNNNCTT	4 cut(s)	671, 703, 1148, 1180
FaqI	GGGAC	1 cut(s)	1172
FatI	CATG	5 cut(s)	430, 520, 721, 897, 969
Fnu4HI	GCNGC	2 cut(s)	426, 785
FokI	GGATG	2 cut(s)	53, 566
FriOI	GRGCYC	1 cut(s)	906
Fsp4HI	GCNGC	2 cut(s)	426, 785
FspBI	CTAG	3 cut(s)	183, 336, 822
GluI	GCNGC	2 cut(s)	426, 785
GsaI	CCCAGC	1 cut(s)	267
HaeIII	GGCC	3 cut(s)	305, 609, 929
Hin1II	CATG	5 cut(s)	434, 524, 725, 901, 973
HindIII	AAGCTT	2 cut(s)	597, 815
HinfI	GANTC	3 cut(s)	771, 874, 936
HphI	GGTGA	1 cut(s)	263
Hpy188I	TCNGA	5 cut(s)	71, 604, 1097, 1111, 1131
Hpy188III	TCNNGA	5 cut(s)	128, 296, 533, 744, 987
HpyAV	CCTTC	5 cut(s)	205, 430, 599, 728, 1190
HpyCH4IV	ACGT	3 cut(s)	78, 366, 892
HpyF10VI	GCNNNNNNNGC	2 cut(s)	254, 910
HpyF3I	CTNAG	6 cut(s)	219, 612, 1094, 1108, 1135, 1152
HpySE526I	ACGT	3 cut(s)	78, 366, 892
Hsp92II	CATG	5 cut(s)	434, 524, 725, 901, 973
Kzo9I	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
LmnI	GCTCC	3 cut(s)	268, 394, 901
Lsp1109I	GCAGC	2 cut(s)	412, 796
LweI	GCATC	3 cut(s)	526, 853, 967
MaeI	CTAG	3 cut(s)	183, 336, 822
MaeII	ACGT	3 cut(s)	78, 366, 892
MaeIII	GTNAC	3 cut(s)	199, 338, 1174
MalI	GATC	7 cut(s)	126, 531, 618, 683, 742, 864, 1092
MboI	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
MboII	GAAGA	6 cut(s)	331, 679, 812, 820, 1007, 1168
MflI	RGATCY	2 cut(s)	862, 1090
MhlI	GDGCHC	4 cut(s)	273, 906, 1041, 1106
MluCI	AATT	5 cut(s)	136, 755, 959, 1058, 1196
MmeI	TCCRAC	1 cut(s)	214
MseI	TTAA	3 cut(s)	135, 636, 852
MslI	CAYNNNNRTG	1 cut(s)	525
MspR9I	CCNGG	2 cut(s)	659, 1034
Mva1269I	GAATGC	1 cut(s)	868
MvaI	CCWGG	2 cut(s)	659, 1034
MwoI	GCNNNNNNNGC	2 cut(s)	254, 910
NcoI	CCATGG	1 cut(s)	897
NdeII	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
NlaIII	CATG	5 cut(s)	434, 524, 725, 901, 973
NlaIV	GGNNCC	3 cut(s)	93, 216, 903
PctI	GAATGC	1 cut(s)	868
PfeI	GAWTC	3 cut(s)	771, 874, 936
PkrI	GCNGC	2 cut(s)	427, 786
PsiI	TTATAA	1 cut(s)	950
Psp1406I	AACGTT	2 cut(s)	366, 892
Psp6I	CCWGG	2 cut(s)	657, 1032
PspEI	GGTNACC	2 cut(s)	199, 1174
PspFI	CCCAGC	1 cut(s)	263
PspGI	CCWGG	2 cut(s)	657, 1032
PspN4I	GGNNCC	3 cut(s)	93, 216, 903
PspPI	GGNCC	2 cut(s)	608, 928
PstI	CTGCAG	2 cut(s)	55, 786
PsuI	RGATCY	2 cut(s)	862, 1090
RsaI	GTAC	2 cut(s)	181, 327
RsaNI	GTAC	2 cut(s)	180, 326
RseI	CAYNNNNRTG	1 cut(s)	525
SaqAI	TTAA	3 cut(s)	135, 636, 852
SatI	GCNGC	2 cut(s)	426, 785
Sau3AI	GATC	7 cut(s)	124, 529, 616, 681, 740, 862, 1090
Sau96I	GGNCC	2 cut(s)	608, 928
ScrFI	CCNGG	2 cut(s)	659, 1034
SduI	GDGCHC	4 cut(s)	273, 906, 1041, 1106
SfaNI	GCATC	3 cut(s)	526, 853, 967
SfcI	CTRYAG	2 cut(s)	51, 782
SmiMI	CAYNNNNRTG	1 cut(s)	525
SmlI	CTYRAG	2 cut(s)	22, 258
SmoI	CTYRAG	2 cut(s)	22, 258
Sse9I	AATT	5 cut(s)	136, 755, 959, 1058, 1196
SsiI	CCGC	1 cut(s)	1213
SspMI	CTAG	3 cut(s)	183, 336, 822
StyD4I	CCNGG	2 cut(s)	657, 1032
StyI	CCWWGG	1 cut(s)	897
TaiI	ACGT	3 cut(s)	81, 369, 895
TaqI	TCGA	1 cut(s)	872
TasI	AATT	5 cut(s)	136, 755, 959, 1058, 1196
TfiI	GAWTC	3 cut(s)	771, 874, 936
Tru1I	TTAA	3 cut(s)	135, 636, 852
Tru9I	TTAA	3 cut(s)	135, 636, 852
TscAI	CASTG	5 cut(s)	278, 414, 678, 987, 1212
TseI	GCWGC	2 cut(s)	425, 784
TspDTI	ATGAA	2 cut(s)	449, 1071
TspRI	CASTG	5 cut(s)	278, 414, 678, 987, 1212
XapI	RAATTY	2 cut(s)	959, 1058
XspI	CTAG	3 cut(s)	183, 336, 822

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