Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb1

Orthogroup ID

OG0010170

Physical Location & Seq

Genomic Coordinates Reverse (-)

14810476 .. 14814632

Gene Structure 4157 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_1g22880.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 597 bp

ATGTTCTACCTTAGCCGAATTGAGCACTCTTTGCGTCTGCCTCCTTCTCTGCTTAGCCATCGTCTAAAAGATGCTGTCAAGGGAGAGCTTGAAAATCTTTTCTTAGATAAGGTGATCTCGAATTTGGGACTTTGCATTTCTGTCTATGATATCGAATCCATTAAGGATCACTTCATCTTACCAAACGATGGGCACCCAACGCTAACGGTGGTGTTCACAATGATTATGTTTCGTCCATTTGAGGGAGAGATAATTACTGCAAAAGTCATAGAGTCTACTGCCGATGGTTTACGTTTGTCACTGGGATTTTTTGATGATATTTACATACCAAATCATCGTTTTCCTATTCCGTGCCACAAGAAGGGCGACTCAAAAAAGAATGTTGTCTTATGGTACTGGAAGCCTTTTGACGATGAGCTTCCAATTTATTTGAAGGACCAGATACGGTTCCAGGTTGAAAGTGTGAACTATCCTAAAATTCCAATTGAGCAGCCAGAAAACTCAAAACCATTTGCCCCAATGGAGGTTAAAGGGTCAATTGATTTTGATGGTTTAGGTCCTGTTCAGTGGTGGCAAGATGTCGATGAAGAAGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0000785 GO:0000790 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005694 GO:0006139 GO:0006351 GO:0006352 GO:0006383 GO:0006384 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 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:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044454 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 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_Rbc25 SHS2_Rpb7-N

Protein Analysis

199

Amino Acids

22.89

Weight (kDa)

5.12

Isoelectric Point (pI)

42.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHS2_Rpb7-N	PF03876	8 - 64	1.3e-12	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397
RNA_pol_Rbc25	PF08292	83 - 167	1.8e-14	RNA polymerase III subunit Rpc25

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010170)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06790 AT1G06790
fragaria_vesca	FvH4_1g22880
malus_domestica	MD08G1227600.v1.1
prunus_persica	Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.7G016800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0063451
rosa_laevigata	RLG00000022776 RLG00000035635
rosa_multiflora	Rmu_sc0016394.1_g000005
rosa_roxburghii	Rroxscaffold_1G00017270
rosa_rugosa	Rorug05G0357400
rosa_samantha	Rh5AG416500 Rh5BG431600 Rh5CG454900 Rh5DG445100
rosa_wichuraiana	Rw5G039120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	192
AccB7I	CCANNNNNTGG	1 cut(s)	188
AccI	GTMKAC	1 cut(s)	275
AclWI	GGATC	1 cut(s)	174
AcsI	RAATTY	2 cut(s)	121, 477
AfaI	GTAC	1 cut(s)	395
AfiI	CCNNNNNNNGG	4 cut(s)	188, 242, 361, 523
AgsI	TTSAA	3 cut(s)	92, 433, 458
AjnI	CCWGG	1 cut(s)	450
AluBI	AGCT	3 cut(s)	88, 418, 593
AluI	AGCT	3 cut(s)	88, 418, 593
Alw21I	GWGCWC	1 cut(s)	27
AlwI	GGATC	1 cut(s)	174
ApeKI	GCWGC	1 cut(s)	490
ApoI	RAATTY	2 cut(s)	121, 477
AspS9I	GGNCC	2 cut(s)	436, 557
AsuHPI	GGTGA	1 cut(s)	124
AvaII	GGWCC	2 cut(s)	436, 557
BaeGI	GKGCMC	1 cut(s)	195
BanI	GGYRCC	1 cut(s)	192
Bbv12I	GWGCWC	1 cut(s)	27
BbvI	GCAGC	1 cut(s)	502
BccI	CCATC	4 cut(s)	66, 182, 278, 542
BciT130I	CCWGG	1 cut(s)	452
BisI	GCNGC	1 cut(s)	491
BlpI	GCTNAGC	1 cut(s)	53
BlsI	GCNGC	1 cut(s)	492
Bme1390I	CCNGG	1 cut(s)	452
Bme18I	GGWCC	2 cut(s)	436, 557
BmgT120I	GGNCC	2 cut(s)	436, 557
BmiI	GGNNCC	2 cut(s)	194, 449
BmrFI	CCNGG	1 cut(s)	452
BmrI	ACTGGG	1 cut(s)	311
BmsI	GCATC	1 cut(s)	61
BmuI	ACTGGG	1 cut(s)	311
Bpu10I	CCTNAGC	1 cut(s)	11
Bpu1102I	GCTNAGC	1 cut(s)	53
Bsc4I	CCNNNNNNNGG	4 cut(s)	188, 242, 361, 523
Bse1I	ACTGG	2 cut(s)	306, 401
BseBI	CCWGG	1 cut(s)	452
BseLI	CCNNNNNNNGG	4 cut(s)	188, 242, 361, 523
BseNI	ACTGG	2 cut(s)	306, 401
BseSI	GKGCMC	1 cut(s)	195
BseXI	GCAGC	1 cut(s)	502
BshNI	GGYRCC	1 cut(s)	192
BsiHKAI	GWGCWC	1 cut(s)	27
BslFI	GGGAC	1 cut(s)	141
BslI	CCNNNNNNNGG	4 cut(s)	188, 242, 361, 523
BsmFI	GGGAC	1 cut(s)	141
Bsp1286I	GDGCHC	2 cut(s)	27, 195
Bsp143I	GATC	2 cut(s)	114, 166
Bsp1720I	GCTNAGC	1 cut(s)	53
BspLI	GGNNCC	2 cut(s)	194, 449
BspPI	GGATC	1 cut(s)	174
BspT107I	GGYRCC	1 cut(s)	192
BsrI	ACTGG	2 cut(s)	306, 401
BssMI	GATC	2 cut(s)	114, 166
Bst2UI	CCWGG	1 cut(s)	452
Bst4CI	ACNGT	2 cut(s)	208, 447
BstAPI	GCANNNNNTGC	1 cut(s)	31
BstDEI	CTNAG	4 cut(s)	11, 53, 103, 594
BstKTI	GATC	2 cut(s)	117, 169
BstMBI	GATC	2 cut(s)	114, 166
BstMWI	GCNNNNNNNGC	2 cut(s)	31, 199
BstNI	CCWGG	1 cut(s)	452
BstSCI	CCNGG	1 cut(s)	450
BstSLI	GKGCMC	1 cut(s)	195
BstV1I	GCAGC	1 cut(s)	502
BtsIMutI	CAGTG	2 cut(s)	299, 572
Cfr13I	GGNCC	2 cut(s)	436, 557
CseI	GACGC	1 cut(s)	23
Csp6I	GTAC	1 cut(s)	394
CviJI	RGCY	7 cut(s)	15, 57, 88, 403, 418, 493, 593
CviKI_1	RGCY	7 cut(s)	15, 57, 88, 403, 418, 493, 593
CviQI	GTAC	1 cut(s)	394
DdeI	CTNAG	4 cut(s)	11, 53, 103, 594
DpnI	GATC	2 cut(s)	116, 168
DpnII	GATC	2 cut(s)	114, 166
Eco32I	GATATC	1 cut(s)	151
Eco47I	GGWCC	2 cut(s)	436, 557
EcoO109I	RGGNCCY	1 cut(s)	557
EcoRII	CCWGG	1 cut(s)	450
EcoRV	GATATC	1 cut(s)	151
FaiI	YATR	5 cut(s)	147, 227, 269, 326, 391
FalI	AAGNNNNNCTT	2 cut(s)	155, 187
FaqI	GGGAC	1 cut(s)	141
FblI	GTMKAC	1 cut(s)	275
Fnu4HI	GCNGC	1 cut(s)	491
Fsp4HI	GCNGC	1 cut(s)	491
GluI	GCNGC	1 cut(s)	491
HgaI	GACGC	1 cut(s)	23
HindIII	AAGCTT	1 cut(s)	591
HinfI	GANTC	3 cut(s)	155, 272, 368
HphI	GGTGA	1 cut(s)	124
Hpy166II	GTNNAC	4 cut(s)	216, 276, 290, 466
Hpy188III	TCNNGA	1 cut(s)	118
Hpy8I	GTNNAC	4 cut(s)	216, 276, 290, 466
HpyAV	CCTTC	3 cut(s)	54, 355, 427
HpyCH4III	ACNGT	2 cut(s)	208, 447
HpyCH4IV	ACGT	1 cut(s)	292
HpyCH4V	TGCA	2 cut(s)	135, 260
HpyF10VI	GCNNNNNNNGC	2 cut(s)	31, 199
HpyF3I	CTNAG	4 cut(s)	11, 53, 103, 594
HpySE526I	ACGT	1 cut(s)	292
Kzo9I	GATC	2 cut(s)	114, 166
LpnPI	CCDG	7 cut(s)	287, 382, 437, 452, 464, 507, 573
Lsp1109I	GCAGC	1 cut(s)	502
LweI	GCATC	1 cut(s)	61
MaeII	ACGT	1 cut(s)	292
MaeIII	GTNAC	1 cut(s)	297
MalI	GATC	2 cut(s)	116, 168
MboI	GATC	2 cut(s)	114, 166
MfeI	CAATTG	2 cut(s)	483, 537
MhlI	GDGCHC	2 cut(s)	27, 195
MluCI	AATT	7 cut(s)	18, 121, 252, 423, 477, 483, 537
MlyI	GAGTC	2 cut(s)	281, 362
MnlI	CCTC	3 cut(s)	51, 235, 517
MseI	TTAA	2 cut(s)	162, 528
MspR9I	CCNGG	1 cut(s)	452
MunI	CAATTG	2 cut(s)	483, 537
MvaI	CCWGG	1 cut(s)	452
MwoI	GCNNNNNNNGC	2 cut(s)	31, 199
NdeII	GATC	2 cut(s)	114, 166
NlaIV	GGNNCC	2 cut(s)	194, 449
NmuCI	GTSAC	1 cut(s)	297
PfeI	GAWTC	1 cut(s)	155
PflMI	CCANNNNNTGG	1 cut(s)	188
PkrI	GCNGC	1 cut(s)	492
PleI	GAGTC	2 cut(s)	280, 362
PpsI	GAGTC	2 cut(s)	280, 362
PpuMI	RGGWCCY	1 cut(s)	557
Psp5II	RGGWCCY	1 cut(s)	557
Psp6I	CCWGG	1 cut(s)	450
PspGI	CCWGG	1 cut(s)	450
PspN4I	GGNNCC	2 cut(s)	194, 449
PspPI	GGNCC	2 cut(s)	436, 557
PspPPI	RGGWCCY	1 cut(s)	557
RsaI	GTAC	1 cut(s)	395
RsaNI	GTAC	1 cut(s)	394
SaqAI	TTAA	2 cut(s)	162, 528
SatI	GCNGC	1 cut(s)	491
Sau3AI	GATC	2 cut(s)	114, 166
Sau96I	GGNCC	2 cut(s)	436, 557
SchI	GAGTC	2 cut(s)	281, 362
ScrFI	CCNGG	1 cut(s)	452
SduI	GDGCHC	2 cut(s)	27, 195
SetI	ASST	9 cut(s)	12, 90, 114, 295, 420, 456, 528, 559, 595
SfaNI	GCATC	1 cut(s)	61
SinI	GGWCC	2 cut(s)	436, 557
Sse9I	AATT	7 cut(s)	18, 121, 252, 423, 477, 483, 537
StyD4I	CCNGG	1 cut(s)	450
TaaI	ACNGT	2 cut(s)	208, 447
TaiI	ACGT	1 cut(s)	295
TaqI	TCGA	3 cut(s)	119, 153, 582
TasI	AATT	7 cut(s)	18, 121, 252, 423, 477, 483, 537
TfiI	GAWTC	1 cut(s)	155
Tru1I	TTAA	2 cut(s)	162, 528
Tru9I	TTAA	2 cut(s)	162, 528
TscAI	CASTG	2 cut(s)	306, 572
TseFI	GTSAC	1 cut(s)	297
TseI	GCWGC	1 cut(s)	490
Tsp45I	GTSAC	1 cut(s)	297
TspDTI	ATGAA	1 cut(s)	163
TspGWI	ACGGA	1 cut(s)	339
TspRI	CASTG	2 cut(s)	306, 572
Van91I	CCANNNNNTGG	1 cut(s)	188
VpaK11BI	GGWCC	2 cut(s)	436, 557
XapI	RAATTY	2 cut(s)	121, 477
XmiI	GTMKAC	1 cut(s)	275

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