Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb1

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

4456590 .. 4461203

Gene Structure 4614 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_1g08400.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 861 bp

ATGAGCCAACCCCCACAATCTGGTGCTCCTGCACCCAGAAAGAGGAGGTTCATACCAAGAGCCCGACCAAAGCAAGAAGTTAAACCGGACCCGGAGGAGGAGGAGCAAGCTAGTTATGCTGAAAAAGAGAGGGAGTTACTCAGACGTTTCCATGAACAATCTTTGAGGGCAAGGCCGAAAAACGAAAAGAAAGAGAAGCCTGTGGAAGTTGCATTTGGTTCCGGGGGTCAATCATCATCGACCTTAAGATCATATGGGGCTCCCAGGGGTGTTAATGGTGGTGGCTTGAACCCGGTCATTCAAGAGGAGAAAGAATACAAATCACCATTTGATATCTACGGTCATTACCCCGTATCTCTTCCTCTGAGGCAGCCATCTTCTGAAGATCCTGCAATTCTTAACCAGCAAGAATTTGGGGATGGTTCAGAGGAATCAACTTATGATGAAAATGCAACACCAGCTGCAGATGATCTTGATTTAAGGGAGGAAAATAGAGCAACTAGTATGTTCTTTCTTCATTTACCGCCAACCTTGCCAATGTTAAAGCAACCAGCAGGCCAACAGGTAAACAATAGCTCAGGGGCACCGGGAGGTGCACGTAATACAGAGAAGCCTTGTTCTTTGGGTGACTTACCAGCGGGCTTCATGGGTAAGATGTTGGTGTACAGAAGTGGTGCTATCAAAATGAAGCTAGGAGATACTCTCTATGATGTCTCTACAGGAATGAACTGTGATTTTGCCCAGGATGTTGTGGCTATTAATACCACGGAGAAGAAGTGTTGCACTATTGGGGAGCTCAACAAGCGAGCTGTTGTGACCCCAGATATTGACTCCGTTTTGAACAGTTTAGAGGATTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0008150 GO:0016604 GO:0016607 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rpc4

Protein Analysis

287

Amino Acids

31.43

Weight (kDa)

5.36

Isoelectric Point (pI)

73.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	168 - 276	1e-25	RNA polymerase III RPC4

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

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Publication-ready

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Orthologous Genes (Group: OG0003037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09380 AT5G09380 AT5G09380
fragaria_vesca	FvH4_1g08400 FvH4_1g08400 FvH4_7g27240 FvH4_7g27240
malus_domestica	MD01G1181300.v1.1 MD02G1088300.v1.1 MD07G1251400.v1.1
prunus_persica	Prupe.2G275200_v2.0.a1 Prupe.7G201300_v2.0.a1
pyrus_communis	pycom02g07090 pycom07g22410
rosa_chinensis	RchiOBHm_Chr1g0374021 RchiOBHm_Chr2g0094511 RchiOBHm_Chr3g0487921
rosa_laevigata	RLG00000016497 RLG00000026785
rosa_multiflora	Rmu_sc0004359.1_g000044 Rmu_sc0006924.1_g000006 Rmu_sc0009793.1_g000002
rosa_roxburghii	Rroxscaffold_2G00147110 Rroxscaffold_4G00283820
rosa_rugosa	Rorug01G0380300 Rorug02G0044300.1
rosa_samantha	Rh1AG390800 Rh1BG354900 Rh1CG368000 Rh1DG385600 Rh2AG092600 Rh2BG092800 Rh2CG095300 Rh2DG091700 Rh3AG285100 Rh6AG149200
rosa_wichuraiana	Rw1G034440 Rw6G012910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	583
AccB7I	CCANNNNNTGG	1 cut(s)	20
AciI	CCGC	2 cut(s)	524, 638
AclWI	GGATC	1 cut(s)	380
AcsI	RAATTY	1 cut(s)	410
AcuI	CTGAAG	1 cut(s)	402
AfaI	GTAC	1 cut(s)	665
AfiI	CCNNNNNNNGG	3 cut(s)	20, 42, 97
AflII	CTTAAG	1 cut(s)	244
AgsI	TTSAA	3 cut(s)	289, 302, 841
AhlI	ACTAGT	1 cut(s)	500
AjnI	CCWGG	2 cut(s)	263, 741
AjuI	GAANNNNNNNTTGG	2 cut(s)	198, 230
AluBI	AGCT	6 cut(s)	110, 461, 576, 691, 796, 809
AluI	AGCT	6 cut(s)	110, 461, 576, 691, 796, 809
Alw21I	GWGCWC	3 cut(s)	28, 598, 798
Alw26I	GTCTC	1 cut(s)	718
Alw44I	GTGCAC	1 cut(s)	594
AlwI	GGATC	1 cut(s)	380
AoxI	GGCC	2 cut(s)	173, 556
ApaLI	GTGCAC	1 cut(s)	594
ApeKI	GCWGC	2 cut(s)	370, 461
ApoI	RAATTY	1 cut(s)	410
AseI	ATTAAT	1 cut(s)	759
AspS9I	GGNCC	1 cut(s)	88
AsuC2I	CCSGG	4 cut(s)	92, 223, 293, 588
AsuHPI	GGTGA	2 cut(s)	315, 638
AvaII	GGWCC	1 cut(s)	88
BaeGI	GKGCMC	2 cut(s)	586, 598
BanI	GGYRCC	1 cut(s)	583
BanII	GRGCYC	3 cut(s)	64, 262, 798
Bbv12I	GWGCWC	3 cut(s)	28, 598, 798
BbvI	GCAGC	2 cut(s)	382, 448
BccI	CCATC	2 cut(s)	382, 413
BciT130I	CCWGG	2 cut(s)	265, 743
BcnI	CCSGG	4 cut(s)	92, 223, 293, 588
BcoDI	GTCTC	1 cut(s)	718
BcuI	ACTAGT	1 cut(s)	500
BfaI	CTAG	3 cut(s)	111, 501, 692
BfmI	CTRYAG	2 cut(s)	462, 717
BfrI	CTTAAG	1 cut(s)	244
BisI	GCNGC	2 cut(s)	371, 462
BlsI	GCNGC	2 cut(s)	372, 463
Bme1390I	CCNGG	6 cut(s)	92, 223, 265, 293, 588, 743
Bme18I	GGWCC	1 cut(s)	88
BmgT120I	GGNCC	1 cut(s)	88
BmiI	GGNNCC	4 cut(s)	90, 220, 261, 585
BmrFI	CCNGG	6 cut(s)	92, 223, 265, 293, 588, 743
BplI	GAGNNNNNCTC	2 cut(s)	687, 719
Bpu10I	CCTNAGC	1 cut(s)	577
BpuMI	CCSGG	4 cut(s)	92, 223, 293, 588
BsaAI	YACGTR	1 cut(s)	599
BsaJI	CCNNGG	5 cut(s)	222, 263, 264, 741, 765
BsaWI	WCCGGW	1 cut(s)	85
BsaXI	ACNNNNNCTCC	2 cut(s)	761, 791
Bsc4I	CCNNNNNNNGG	3 cut(s)	20, 42, 97
BseBI	CCWGG	2 cut(s)	265, 743
BseDI	CCNNGG	5 cut(s)	222, 263, 264, 741, 765
BseGI	GGATG	2 cut(s)	424, 751
BseLI	CCNNNNNNNGG	3 cut(s)	20, 42, 97
BseMII	CTCAG	3 cut(s)	154, 356, 591
BseRI	GAGGAG	5 cut(s)	58, 110, 113, 116, 320
BseSI	GKGCMC	2 cut(s)	586, 598
BseXI	GCAGC	2 cut(s)	382, 448
BsgI	GTGCAG	1 cut(s)	15
BshFI	GGCC	2 cut(s)	175, 558
BshNI	GGYRCC	1 cut(s)	583
BsiHKAI	GWGCWC	3 cut(s)	28, 598, 798
BsiSI	CCGG	5 cut(s)	86, 92, 222, 293, 587
BslI	CCNNNNNNNGG	3 cut(s)	20, 42, 97
BsmAI	GTCTC	1 cut(s)	718
BsnI	GGCC	2 cut(s)	175, 558
Bsp1286I	GDGCHC	6 cut(s)	28, 64, 262, 586, 598, 798
Bsp1407I	TGTACA	1 cut(s)	663
Bsp143I	GATC	3 cut(s)	248, 385, 469
BspACI	CCGC	2 cut(s)	524, 638
BspANI	GGCC	2 cut(s)	175, 558
BspCNI	CTCAG	3 cut(s)	153, 357, 590
BspLI	GGNNCC	4 cut(s)	90, 220, 261, 585
BspMAI	CTGCAG	1 cut(s)	466
BspPI	GGATC	1 cut(s)	380
BspT107I	GGYRCC	1 cut(s)	583
BspTI	CTTAAG	1 cut(s)	244
BsrGI	TGTACA	1 cut(s)	663
BssECI	CCNNGG	5 cut(s)	222, 263, 264, 741, 765
BssMI	GATC	3 cut(s)	248, 385, 469
Bst2UI	CCWGG	2 cut(s)	265, 743
Bst4CI	ACNGT	3 cut(s)	341, 731, 845
Bst6I	CTCTTC	1 cut(s)	363
BstAFI	CTTAAG	1 cut(s)	244
BstAUI	TGTACA	1 cut(s)	663
BstBAI	YACGTR	1 cut(s)	599
BstC8I	GCNNGC	4 cut(s)	108, 556, 640, 807
BstDEI	CTNAG	3 cut(s)	140, 365, 577
BstDSI	CCRYGG	1 cut(s)	765
BstF5I	GGATG	2 cut(s)	424, 751
BstKTI	GATC	3 cut(s)	251, 388, 472
BstMAI	GTCTC	1 cut(s)	718
BstMBI	GATC	3 cut(s)	248, 385, 469
BstMWI	GCNNNNNNNGC	4 cut(s)	116, 458, 532, 802
BstNI	CCWGG	2 cut(s)	265, 743
BstSCI	CCNGG	6 cut(s)	90, 221, 263, 291, 586, 741
BstSFI	CTRYAG	2 cut(s)	462, 717
BstSLI	GKGCMC	2 cut(s)	586, 598
BstV1I	GCAGC	2 cut(s)	382, 448
BstX2I	RGATCY	1 cut(s)	385
BstYI	RGATCY	1 cut(s)	385
BsuRI	GGCC	2 cut(s)	175, 558
BtgI	CCRYGG	1 cut(s)	765
BtsCI	GGATG	2 cut(s)	424, 751
Cac8I	GCNNGC	4 cut(s)	108, 556, 640, 807
Cfr13I	GGNCC	1 cut(s)	88
Csp6I	GTAC	1 cut(s)	664
CviAII	CATG	2 cut(s)	152, 646
CviQI	GTAC	1 cut(s)	664
DdeI	CTNAG	3 cut(s)	140, 365, 577
DpnI	GATC	3 cut(s)	250, 387, 471
DpnII	GATC	3 cut(s)	248, 385, 469
Eam1104I	CTCTTC	1 cut(s)	363
EarI	CTCTTC	1 cut(s)	363
Ecl136II	GAGCTC	1 cut(s)	796
Eco24I	GRGCYC	3 cut(s)	64, 262, 798
Eco32I	GATATC	1 cut(s)	334
Eco47I	GGWCC	1 cut(s)	88
Eco53kI	GAGCTC	1 cut(s)	796
Eco57I	CTGAAG	1 cut(s)	402
EcoICRI	GAGCTC	1 cut(s)	796
EcoRII	CCWGG	2 cut(s)	263, 741
EcoRV	GATATC	1 cut(s)	334
EcoT38I	GRGCYC	3 cut(s)	64, 262, 798
FaeI	CATG	2 cut(s)	155, 649
FatI	CATG	2 cut(s)	151, 645
FauI	CCCGC	1 cut(s)	631
FauNDI	CATATG	1 cut(s)	253
Fnu4HI	GCNGC	2 cut(s)	371, 462
FokI	GGATG	2 cut(s)	431, 758
FriOI	GRGCYC	3 cut(s)	64, 262, 798
Fsp4HI	GCNGC	2 cut(s)	371, 462
FspBI	CTAG	3 cut(s)	111, 501, 692
GluI	GCNGC	2 cut(s)	371, 462
HaeIII	GGCC	2 cut(s)	175, 558
HapII	CCGG	5 cut(s)	86, 92, 222, 293, 587
Hin1II	CATG	2 cut(s)	155, 649
HinfI	GANTC	2 cut(s)	431, 830
HpaII	CCGG	5 cut(s)	86, 92, 222, 293, 587
HphI	GGTGA	2 cut(s)	315, 638
Hpy166II	GTNNAC	3 cut(s)	568, 596, 664
Hpy188I	TCNGA	4 cut(s)	143, 366, 382, 427
Hpy188III	TCNNGA	2 cut(s)	302, 473
Hpy8I	GTNNAC	3 cut(s)	568, 596, 664
HpyCH4III	ACNGT	3 cut(s)	341, 731, 845
HpyCH4IV	ACGT	2 cut(s)	145, 598
HpyCH4V	TGCA	7 cut(s)	32, 212, 392, 452, 464, 596, 783
HpyF10VI	GCNNNNNNNGC	4 cut(s)	116, 458, 532, 802
HpyF3I	CTNAG	3 cut(s)	140, 365, 577
HpySE526I	ACGT	2 cut(s)	145, 598
Hsp92II	CATG	2 cut(s)	155, 649
Kzo9I	GATC	3 cut(s)	248, 385, 469
LmnI	GCTCC	4 cut(s)	31, 103, 265, 793
Lsp1109I	GCAGC	2 cut(s)	382, 448
MaeI	CTAG	3 cut(s)	111, 501, 692
MaeII	ACGT	2 cut(s)	145, 598
MaeIII	GTNAC	3 cut(s)	135, 626, 814
MalI	GATC	3 cut(s)	250, 387, 471
MboI	GATC	3 cut(s)	248, 385, 469
MboII	GAAGA	5 cut(s)	350, 369, 395, 506, 784
MflI	RGATCY	1 cut(s)	385
MhlI	GDGCHC	6 cut(s)	28, 64, 262, 586, 598, 798
MluCI	AATT	2 cut(s)	393, 410
MlyI	GAGTC	1 cut(s)	824
MseI	TTAA	7 cut(s)	81, 245, 273, 399, 479, 542, 759
MspA1I	CMGCKG	2 cut(s)	461, 638
MspCI	CTTAAG	1 cut(s)	244
MspI	CCGG	5 cut(s)	86, 92, 222, 293, 587
MspR9I	CCNGG	6 cut(s)	92, 223, 265, 293, 588, 743
MvaI	CCWGG	2 cut(s)	265, 743
MwoI	GCNNNNNNNGC	4 cut(s)	116, 458, 532, 802
NciI	CCSGG	4 cut(s)	92, 223, 293, 588
NdeI	CATATG	1 cut(s)	253
NdeII	GATC	3 cut(s)	248, 385, 469
NlaIII	CATG	2 cut(s)	155, 649
NlaIV	GGNNCC	4 cut(s)	90, 220, 261, 585
NmuCI	GTSAC	2 cut(s)	626, 814
PasI	CCCWGGG	1 cut(s)	264
PfeI	GAWTC	1 cut(s)	431
PflMI	CCANNNNNTGG	1 cut(s)	20
PkrI	GCNGC	2 cut(s)	372, 463
PleI	GAGTC	1 cut(s)	824
PpsI	GAGTC	1 cut(s)	824
Ppu21I	YACGTR	1 cut(s)	599
PshBI	ATTAAT	1 cut(s)	759
Psp124BI	GAGCTC	1 cut(s)	798
Psp6I	CCWGG	2 cut(s)	263, 741
PspGI	CCWGG	2 cut(s)	263, 741
PspN4I	GGNNCC	4 cut(s)	90, 220, 261, 585
PspPI	GGNCC	1 cut(s)	88
PstI	CTGCAG	1 cut(s)	466
PsuI	RGATCY	1 cut(s)	385
PvuII	CAGCTG	1 cut(s)	461
RsaI	GTAC	1 cut(s)	665
RsaNI	GTAC	1 cut(s)	664
SacI	GAGCTC	1 cut(s)	798
SaqAI	TTAA	7 cut(s)	81, 245, 273, 399, 479, 542, 759
SatI	GCNGC	2 cut(s)	371, 462
Sau3AI	GATC	3 cut(s)	248, 385, 469
Sau96I	GGNCC	1 cut(s)	88
SchI	GAGTC	1 cut(s)	824
ScrFI	CCNGG	6 cut(s)	92, 223, 265, 293, 588, 743
SduI	GDGCHC	6 cut(s)	28, 64, 262, 586, 598, 798
SfcI	CTRYAG	2 cut(s)	462, 717
SinI	GGWCC	1 cut(s)	88
SmlI	CTYRAG	1 cut(s)	244
SmoI	CTYRAG	1 cut(s)	244
SpeI	ACTAGT	1 cut(s)	500
Sse9I	AATT	2 cut(s)	393, 410
SsiI	CCGC	2 cut(s)	524, 638
SspMI	CTAG	3 cut(s)	111, 501, 692
SstI	GAGCTC	1 cut(s)	798
StyD4I	CCNGG	6 cut(s)	90, 221, 263, 291, 586, 741
TaaI	ACNGT	3 cut(s)	341, 731, 845
TaiI	ACGT	2 cut(s)	148, 601
TaqI	TCGA	1 cut(s)	239
TasI	AATT	2 cut(s)	393, 410
TatI	WGTACW	1 cut(s)	663
TfiI	GAWTC	1 cut(s)	431
Tru1I	TTAA	7 cut(s)	81, 245, 273, 399, 479, 542, 759
Tru9I	TTAA	7 cut(s)	81, 245, 273, 399, 479, 542, 759
TseFI	GTSAC	2 cut(s)	626, 814
TseI	GCWGC	2 cut(s)	370, 461
Tsp45I	GTSAC	2 cut(s)	626, 814
TspDTI	ATGAA	7 cut(s)	40, 168, 459, 506, 634, 701, 740
TspGWI	ACGGA	2 cut(s)	782, 823
Van91I	CCANNNNNTGG	1 cut(s)	20
Vha464I	CTTAAG	1 cut(s)	244
VneI	GTGCAC	1 cut(s)	594
VpaK11BI	GGWCC	1 cut(s)	88
VspI	ATTAAT	1 cut(s)	759
XapI	RAATTY	1 cut(s)	410
XcmI	CCANNNNNNNNNTGG	1 cut(s)	410
XspI	CTAG	3 cut(s)	111, 501, 692

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