Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb3

Orthogroup ID

OG0007965

Physical Location & Seq

Genomic Coordinates Forward (+)

35656538 .. 35660504

Gene Structure 3967 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_3g42690.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1197 bp

ATGTCGTCTGGTAACGAAGACACGACTTCAAGCTCAGAGTCTGAGCAATCAGATTCCGCAAACGACACACTGGATTTCATAGAGAAGCTCTCAGATGTGCCCATGGGGAAGCTACCTCCACACATCGATTTCCAGAGGACACGTGTCGATTGCAAGGCTGACGCTCCCATTCACACTGATACATTTCAGTACTCCGGTGCTTATGCATCGATGGGAGTCGATAATAGCTTGTTGGATAGCTTCTCGAGCAAGTTTAGAGTTGAGGTTATTCGTCTCGAAAAGGATGAAATGGAGTTTGATATGATTGGGATTGATCCGGCTATTGCCAATGCGTTCAGGAGGATCCTCATAGCTGAGGTTCCCACGATGGCTATTGAAAGAGTTCTTATTGCAAACAATACATCAGTAATCCAAGATGAAGTCCTTTCCCACAGATTGGGTCTCATTCCAATCAAGGCTGACCCAAGATTGTTTGAATTTACAGAAAATAATACGGCAAATGAAAAGAACACCATTGTTTTTGGGCTCAAAGTGAGGTGTGAAAAGCAAGGCAAACGAAAGGGACCAAAACGGGAGGGGCAAGAACAAGATGGACAAACACGTATCACAGTCAAGTCAAAAGATTTGGTTTGGTTGCCAAATGGGAGTAACTTTACCTTGGAATCAGACGGTTCAACCTACACATCATTTAGTTGCAGCCAGGATTCCATGCCAGAATTTGCCACCAATCCAGTTGGTCCAACGGATGGAGATATTACAATTGCTCGACTGGGCCCAGGCCAGGAAATTGAACTGGAAGCACTTGCTGTTAAGGGAATTGGCAAAACACATGCAAAATGGTCCCCGGTTGCCCCTGCTTGGTACAGAATGCTTCCTGAGGTTATAGTTCTGAAAGATATTGAGGATGAGATGGCTGAGAAACTTGTGGCAACATGCCCAGTCAAGGTGTTTGATATCGAAGACATTGGCAATGGTAAAAAAAAGGCTACTGTAGCTAGAGCACGAAAATGCACACTGTGTAGGGAGTGCATCAGAGAAGGGAAGGGATGGGATGATTCTTTGTCATTACGACGTGTCAAAGATCATTTCATTTTTACCATTGAATCAACTGGGGTATTACCACCAGAAGTGCTATTTACCGAGGCTGTGAAGATACTTCAAGACAAGTGTGAACGTGCGATTAATGATATTTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005730 GO:0005736 GO:0030880 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0055029 GO:0061695 GO:0070013 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_A_bac RNA_pol_L

Protein Analysis

399

Amino Acids

44.21

Weight (kDa)

5.05

Isoelectric Point (pI)

45.15

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	98 - 390	4.2e-23	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_A_bac	PF01000	139 - 279	2.7e-11	RNA polymerase Rpb3/RpoA insert 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: OG0007965)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G60620 AT1G60620
fragaria_vesca	FvH4_3g42690 FvH4_3g42690
malus_domestica	MD03G1029700.v1.1 MD11G1033100.v1.1 MD11G1033500.v1.1
prunus_persica	Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1 Prupe.6G025800_v2.0.a1
pyrus_communis	pycom03g02470 pycom11g02880
rosa_chinensis	RchiOBHm_Chr5g0076331
rosa_laevigata	RLG00000036618
rosa_multiflora	Rmu_sc0002400.1_g000006
rosa_roxburghii	Rroxscaffold_1G00005480
rosa_rugosa	Rorug05G0447400
rosa_samantha	Rh5AG502300 Rh5BG524100 Rh5CG547700 Rh5DG536200
rosa_wichuraiana	Rw5G046610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	436, 746
AciI	CCGC	1 cut(s)	57
AclWI	GGATC	3 cut(s)	308, 337, 350
AcsI	RAATTY	2 cut(s)	476, 716
AcvI	CACGTG	1 cut(s)	143
AdeI	CACNNNGTG	1 cut(s)	1017
AfaI	GTAC	2 cut(s)	191, 863
AfiI	CCNNNNNNNGG	5 cut(s)	436, 746, 781, 858, 943
AflIII	ACRYGT	4 cut(s)	140, 142, 599, 1072
AgsI	TTSAA	7 cut(s)	30, 377, 476, 675, 791, 1103, 1160
AjiI	CACGTC	1 cut(s)	1073
AjnI	CCWGG	3 cut(s)	699, 775, 780
AluBI	AGCT	7 cut(s)	33, 88, 112, 228, 240, 353, 995
AluI	AGCT	7 cut(s)	33, 88, 112, 228, 240, 353, 995
Alw21I	GWGCWC	1 cut(s)	1003
Alw26I	GTCTC	2 cut(s)	278, 446
AlwI	GGATC	3 cut(s)	308, 337, 350
AlwNI	CAGNNNCTG	1 cut(s)	41
Ama87I	CYCGRG	1 cut(s)	244
AoxI	GGCC	2 cut(s)	772, 778
ApaI	GGGCCC	1 cut(s)	776
ApeKI	GCWGC	1 cut(s)	696
ApoI	RAATTY	2 cut(s)	476, 716
AseI	ATTAAT	1 cut(s)	1182
Asp700I	GAANNNNTTC	1 cut(s)	381
AspS9I	GGNCC	5 cut(s)	563, 737, 772, 773, 840
AsuC2I	CCSGG	1 cut(s)	845
AvaI	CYCGRG	1 cut(s)	244
AvaII	GGWCC	3 cut(s)	563, 737, 840
AxyI	CCTNAGG	1 cut(s)	876
BaeGI	GKGCMC	2 cut(s)	102, 776
BamHI	GGATCC	1 cut(s)	342
BanII	GRGCYC	2 cut(s)	528, 776
BbrPI	CACGTG	1 cut(s)	143
BbsI	GAAGAC	2 cut(s)	24, 966
Bbv12I	GWGCWC	1 cut(s)	1003
BbvCI	CCTCAGC	1 cut(s)	354
BbvI	GCAGC	1 cut(s)	708
BccI	CCATC	6 cut(s)	205, 361, 584, 740, 904, 1041
BceAI	ACGGC	1 cut(s)	510
BciT130I	CCWGG	3 cut(s)	701, 777, 782
BcnI	CCSGG	1 cut(s)	845
BcoDI	GTCTC	2 cut(s)	278, 446
BfaI	CTAG	1 cut(s)	996
BfmI	CTRYAG	1 cut(s)	990
BisI	GCNGC	1 cut(s)	697
BlsI	GCNGC	1 cut(s)	698
BmcAI	AGTACT	1 cut(s)	191
Bme1390I	CCNGG	4 cut(s)	701, 777, 782, 845
Bme18I	GGWCC	3 cut(s)	563, 737, 840
BmeT110I	CYCGRG	1 cut(s)	244
BmgBI	CACGTC	1 cut(s)	1073
BmgT120I	GGNCC	5 cut(s)	563, 737, 772, 773, 840
BmiI	GGNNCC	5 cut(s)	344, 360, 564, 774, 842
BmrFI	CCNGG	4 cut(s)	701, 777, 782, 845
BmrI	ACTGGG	3 cut(s)	779, 932, 1119
BmsI	GCATC	2 cut(s)	215, 1038
BmuI	ACTGGG	3 cut(s)	779, 932, 1119
BoxI	GACNNNNGTC	1 cut(s)	143
BpiI	GAAGAC	2 cut(s)	24, 966
BplI	GAGNNNNNCTC	2 cut(s)	74, 106
Bpu10I	CCTNAGC	1 cut(s)	354
BpuMI	CCSGG	1 cut(s)	845
Bsa29I	ATCGAT	2 cut(s)	126, 209
BsaAI	YACGTR	2 cut(s)	143, 602
BsaI	GGTCTC	1 cut(s)	446
BsaJI	CCNNGG	5 cut(s)	102, 657, 775, 843, 1140
BsaWI	WCCGGW	1 cut(s)	194
Bsc4I	CCNNNNNNNGG	5 cut(s)	436, 746, 781, 858, 943
Bse1I	ACTGG	6 cut(s)	75, 731, 774, 798, 938, 1114
Bse21I	CCTNAGG	1 cut(s)	876
Bse3DI	GCAATG	1 cut(s)	976
BseBI	CCWGG	3 cut(s)	701, 777, 782
BseCI	ATCGAT	2 cut(s)	126, 209
BseDI	CCNNGG	5 cut(s)	102, 657, 775, 843, 1140
BseGI	GGATG	5 cut(s)	289, 751, 910, 1052, 1057
BseLI	CCNNNNNNNGG	5 cut(s)	436, 746, 781, 858, 943
BseMI	GCAATG	1 cut(s)	976
BseMII	CTCAG	6 cut(s)	33, 48, 105, 345, 867, 906
BseNI	ACTGG	6 cut(s)	75, 731, 774, 798, 938, 1114
BseSI	GKGCMC	2 cut(s)	102, 776
BseXI	GCAGC	1 cut(s)	708
BshFI	GGCC	2 cut(s)	774, 780
BshVI	ATCGAT	2 cut(s)	126, 209
BsiHKAI	GWGCWC	1 cut(s)	1003
BsiHKCI	CYCGRG	1 cut(s)	244
BsiSI	CCGG	3 cut(s)	195, 317, 845
BslFI	GGGAC	2 cut(s)	576, 826
BslI	CCNNNNNNNGG	5 cut(s)	436, 746, 781, 858, 943
BsmAI	GTCTC	2 cut(s)	278, 446
BsmBI	CGTCTC	1 cut(s)	278
BsmFI	GGGAC	2 cut(s)	576, 826
BsmI	GAATGC	1 cut(s)	873
BsnI	GGCC	2 cut(s)	774, 780
Bso31I	GGTCTC	1 cut(s)	446
BsoBI	CYCGRG	1 cut(s)	244
Bsp120I	GGGCCC	1 cut(s)	772
Bsp1286I	GDGCHC	4 cut(s)	102, 528, 776, 1003
Bsp143I	GATC	3 cut(s)	313, 342, 1081
Bsp19I	CCATGG	1 cut(s)	102
BspACI	CCGC	1 cut(s)	57
BspANI	GGCC	2 cut(s)	774, 780
BspCNI	CTCAG	6 cut(s)	34, 47, 104, 346, 868, 907
BspDI	ATCGAT	2 cut(s)	126, 209
BspLI	GGNNCC	5 cut(s)	344, 360, 564, 774, 842
BspPI	GGATC	3 cut(s)	308, 337, 350
BspTNI	GGTCTC	1 cut(s)	446
BsrDI	GCAATG	1 cut(s)	976
BsrI	ACTGG	6 cut(s)	75, 731, 774, 798, 938, 1114
BssECI	CCNNGG	5 cut(s)	102, 657, 775, 843, 1140
BssMI	GATC	3 cut(s)	313, 342, 1081
BssT1I	CCWWGG	2 cut(s)	102, 657
Bst2UI	CCWGG	3 cut(s)	701, 777, 782
Bst4CI	ACNGT	4 cut(s)	610, 671, 991, 1017
BstBAI	YACGTR	2 cut(s)	143, 602
BstDEI	CTNAG	6 cut(s)	34, 42, 91, 354, 876, 915
BstDSI	CCRYGG	1 cut(s)	102
BstF5I	GGATG	5 cut(s)	289, 751, 910, 1052, 1057
BstKTI	GATC	3 cut(s)	316, 345, 1084
BstMAI	GTCTC	2 cut(s)	278, 446
BstMBI	GATC	3 cut(s)	313, 342, 1081
BstMWI	GCNNNNNNNGC	2 cut(s)	246, 992
BstNI	CCWGG	3 cut(s)	701, 777, 782
BstNSI	RCATGY	2 cut(s)	833, 936
BstPAI	GACNNNNGTC	1 cut(s)	143
BstSCI	CCNGG	4 cut(s)	699, 775, 780, 843
BstSFI	CTRYAG	1 cut(s)	990
BstSLI	GKGCMC	2 cut(s)	102, 776
BstV1I	GCAGC	1 cut(s)	708
BstV2I	GAAGAC	2 cut(s)	24, 966
BstX2I	RGATCY	1 cut(s)	342
BstYI	RGATCY	1 cut(s)	342
Bsu15I	ATCGAT	2 cut(s)	126, 209
Bsu36I	CCTNAGG	1 cut(s)	876
BsuRI	GGCC	2 cut(s)	774, 780
BsuTUI	ATCGAT	2 cut(s)	126, 209
BtgI	CCRYGG	1 cut(s)	102
BtrI	CACGTC	1 cut(s)	1073
BtsCI	GGATG	5 cut(s)	289, 751, 910, 1052, 1057
BtsIMutI	CAGTG	3 cut(s)	68, 174, 1013
CaiI	CAGNNNCTG	1 cut(s)	41
Cfr13I	GGNCC	5 cut(s)	563, 737, 772, 773, 840
ClaI	ATCGAT	2 cut(s)	126, 209
CseI	GACGC	1 cut(s)	170
Csp6I	GTAC	2 cut(s)	190, 862
CviAII	CATG	4 cut(s)	103, 709, 830, 933
CviQI	GTAC	2 cut(s)	190, 862
DdeI	CTNAG	6 cut(s)	34, 42, 91, 354, 876, 915
DpnI	GATC	3 cut(s)	315, 344, 1083
DpnII	GATC	3 cut(s)	313, 342, 1081
DraIII	CACNNNGTG	1 cut(s)	1017
Eco130I	CCWWGG	2 cut(s)	102, 657
Eco24I	GRGCYC	2 cut(s)	528, 776
Eco31I	GGTCTC	1 cut(s)	446
Eco32I	GATATC	1 cut(s)	955
Eco47I	GGWCC	3 cut(s)	563, 737, 840
Eco72I	CACGTG	1 cut(s)	143
Eco81I	CCTNAGG	1 cut(s)	876
Eco88I	CYCGRG	1 cut(s)	244
EcoRII	CCWGG	3 cut(s)	699, 775, 780
EcoRV	GATATC	1 cut(s)	955
EcoT14I	CCWWGG	2 cut(s)	102, 657
EcoT22I	ATGCAT	1 cut(s)	208
EcoT38I	GRGCYC	2 cut(s)	528, 776
ErhI	CCWWGG	2 cut(s)	102, 657
Esp3I	CGTCTC	1 cut(s)	278
FaeI	CATG	4 cut(s)	106, 712, 833, 936
FaiI	YATR	9 cut(s)	80, 104, 204, 302, 350, 710, 831, 884, 934
FaqI	GGGAC	2 cut(s)	576, 826
FatI	CATG	4 cut(s)	102, 708, 829, 932
Fnu4HI	GCNGC	1 cut(s)	697
FokI	GGATG	5 cut(s)	296, 758, 917, 1059, 1064
FriOI	GRGCYC	2 cut(s)	528, 776
Fsp4HI	GCNGC	1 cut(s)	697
FspBI	CTAG	1 cut(s)	996
GluI	GCNGC	1 cut(s)	697
HaeIII	GGCC	2 cut(s)	774, 780
HapII	CCGG	3 cut(s)	195, 317, 845
HgaI	GACGC	1 cut(s)	170
Hin1II	CATG	4 cut(s)	106, 712, 833, 936
HinfI	GANTC	7 cut(s)	38, 53, 216, 662, 704, 1055, 1103
HpaII	CCGG	3 cut(s)	195, 317, 845
Hpy166II	GTNNAC	1 cut(s)	1172
Hpy188I	TCNGA	7 cut(s)	37, 43, 52, 94, 667, 891, 1034
Hpy188III	TCNNGA	6 cut(s)	133, 244, 275, 337, 875, 1160
Hpy8I	GTNNAC	1 cut(s)	1172
Hpy99I	CGWCG	1 cut(s)	1074
HpyAV	CCTTC	2 cut(s)	1031, 1036
HpyCH4III	ACNGT	4 cut(s)	610, 671, 991, 1017
HpyCH4IV	ACGT	4 cut(s)	142, 601, 1072, 1174
HpyCH4V	TGCA	7 cut(s)	153, 206, 392, 696, 833, 1011, 1029
HpyF10VI	GCNNNNNNNGC	2 cut(s)	246, 992
HpyF3I	CTNAG	6 cut(s)	34, 42, 91, 354, 876, 915
HpySE526I	ACGT	4 cut(s)	142, 601, 1072, 1174
Hsp92II	CATG	4 cut(s)	106, 712, 833, 936
Kzo9I	GATC	3 cut(s)	313, 342, 1081
LmnI	GCTCC	1 cut(s)	169
Lsp1109I	GCAGC	1 cut(s)	708
LweI	GCATC	2 cut(s)	215, 1038
MaeI	CTAG	1 cut(s)	996
MaeII	ACGT	4 cut(s)	142, 601, 1072, 1174
MaeIII	GTNAC	2 cut(s)	11, 647
MalI	GATC	3 cut(s)	315, 344, 1083
MboI	GATC	3 cut(s)	313, 342, 1081
MboII	GAAGA	3 cut(s)	29, 971, 1162
MfeI	CAATTG	1 cut(s)	759
MflI	RGATCY	1 cut(s)	342
MhlI	GDGCHC	4 cut(s)	102, 528, 776, 1003
MluCI	AATT	5 cut(s)	476, 716, 759, 786, 816
MlyI	GAGTC	2 cut(s)	47, 225
MmeI	TCCRAC	2 cut(s)	213, 764
Mph1103I	ATGCAT	1 cut(s)	208
MroXI	GAANNNNTTC	1 cut(s)	381
MseI	TTAA	2 cut(s)	810, 1182
MslI	CAYNNNNRTG	1 cut(s)	1006
MspI	CCGG	3 cut(s)	195, 317, 845
MspR9I	CCNGG	4 cut(s)	701, 777, 782, 845
MunI	CAATTG	1 cut(s)	759
Mva1269I	GAATGC	1 cut(s)	873
MvaI	CCWGG	3 cut(s)	701, 777, 782
MwoI	GCNNNNNNNGC	2 cut(s)	246, 992
NciI	CCSGG	1 cut(s)	845
NcoI	CCATGG	1 cut(s)	102
NdeII	GATC	3 cut(s)	313, 342, 1081
NlaIII	CATG	4 cut(s)	106, 712, 833, 936
NlaIV	GGNNCC	5 cut(s)	344, 360, 564, 774, 842
NsiI	ATGCAT	1 cut(s)	208
NspI	RCATGY	2 cut(s)	833, 936
PaeR7I	CTCGAG	1 cut(s)	244
PctI	GAATGC	1 cut(s)	873
PdmI	GAANNNNTTC	1 cut(s)	381
PfeI	GAWTC	5 cut(s)	53, 662, 704, 1055, 1103
PflMI	CCANNNNNTGG	2 cut(s)	436, 746
PkrI	GCNGC	1 cut(s)	698
PleI	GAGTC	2 cut(s)	46, 224
PmaCI	CACGTG	1 cut(s)	143
PmlI	CACGTG	1 cut(s)	143
PpsI	GAGTC	2 cut(s)	46, 224
Ppu21I	YACGTR	2 cut(s)	143, 602
PshAI	GACNNNNGTC	1 cut(s)	143
PshBI	ATTAAT	1 cut(s)	1182
Psp6I	CCWGG	3 cut(s)	699, 775, 780
PspCI	CACGTG	1 cut(s)	143
PspGI	CCWGG	3 cut(s)	699, 775, 780
PspN4I	GGNNCC	5 cut(s)	344, 360, 564, 774, 842
PspOMI	GGGCCC	1 cut(s)	772
PspPI	GGNCC	5 cut(s)	563, 737, 772, 773, 840
PstNI	CAGNNNCTG	1 cut(s)	41
PsuI	RGATCY	1 cut(s)	342
RsaI	GTAC	2 cut(s)	191, 863
RsaNI	GTAC	2 cut(s)	190, 862
RseI	CAYNNNNRTG	1 cut(s)	1006
SaqAI	TTAA	2 cut(s)	810, 1182
SatI	GCNGC	1 cut(s)	697
Sau3AI	GATC	3 cut(s)	313, 342, 1081
Sau96I	GGNCC	5 cut(s)	563, 737, 772, 773, 840
ScaI	AGTACT	1 cut(s)	191
SchI	GAGTC	2 cut(s)	47, 225
ScrFI	CCNGG	4 cut(s)	701, 777, 782, 845
SduI	GDGCHC	4 cut(s)	102, 528, 776, 1003
SfaNI	GCATC	2 cut(s)	215, 1038
SfcI	CTRYAG	1 cut(s)	990
Sfr274I	CTCGAG	1 cut(s)	244
SinI	GGWCC	3 cut(s)	563, 737, 840
SlaI	CTCGAG	1 cut(s)	244
SmiMI	CAYNNNNRTG	1 cut(s)	1006
SmlI	CTYRAG	1 cut(s)	244
SmoI	CTYRAG	1 cut(s)	244
Sse9I	AATT	5 cut(s)	476, 716, 759, 786, 816
SsiI	CCGC	1 cut(s)	57
SspMI	CTAG	1 cut(s)	996
StyD4I	CCNGG	4 cut(s)	699, 775, 780, 843
StyI	CCWWGG	2 cut(s)	102, 657
TaaI	ACNGT	4 cut(s)	610, 671, 991, 1017
TaiI	ACGT	4 cut(s)	145, 604, 1075, 1177
TaqI	TCGA	8 cut(s)	126, 147, 209, 219, 245, 276, 766, 957
TasI	AATT	5 cut(s)	476, 716, 759, 786, 816
TatI	WGTACW	1 cut(s)	189
TfiI	GAWTC	5 cut(s)	53, 662, 704, 1055, 1103
Tru1I	TTAA	2 cut(s)	810, 1182
Tru9I	TTAA	2 cut(s)	810, 1182
TscAI	CASTG	3 cut(s)	75, 181, 1020
TseI	GCWGC	1 cut(s)	696
TspDTI	ATGAA	5 cut(s)	67, 300, 432, 516, 1078
TspGWI	ACGGA	1 cut(s)	758
TspRI	CASTG	3 cut(s)	75, 181, 1020
Van91I	CCANNNNNTGG	2 cut(s)	436, 746
VpaK11BI	GGWCC	3 cut(s)	563, 737, 840
VspI	ATTAAT	1 cut(s)	1182
XapI	RAATTY	2 cut(s)	476, 716
XceI	RCATGY	2 cut(s)	833, 936
XhoI	CTCGAG	1 cut(s)	244
XmnI	GAANNNNTTC	1 cut(s)	381
XspI	CTAG	1 cut(s)	996
ZrmI	AGTACT	1 cut(s)	191
Zsp2I	ATGCAT	1 cut(s)	208

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