Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

2911177 .. 2913324

Gene Structure 2148 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G09380.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGTATCATACAGTTCCTGCTTCTCAAGTTGCTTGGTTGGGGGGAGTGGTGAATTCAACCAGATCAAATAAGTACCTCAATAGATCAAATGGTGCTTATGGATCAACCTCTACTCAGGAGATAGAGTATAAAGAACCATGGGATTACTACAGCTATTACCCTATCACACTTCCAATGAGGAGACCGTATGCAGGAGATCCAGAGGTTCTTGACGTGGAGGAGTTTATGCAGGCTGGAGGACATCATGAAGATTCACTTAACACAGCCGCTAATCTCGGTCTAATGGAGGATAGTGGAGAACAGAAAATGTTTTTTATGAGGCTACCTTCTGTTCCTTTGGCATCAACACCAACAGAAAACCTTGAAACAAGGCCAAATATCAAAGGCCCCGTTGAGAAGAAGACTGTTGATTTAAAAGCCTTGCCAGAAGGTTACATGGGCAAACTGTTAGTCTACAAAAGTGGTGCTGTCAAGATGAAACTTGGGGAAGTGCTTTATGATGTAAGCCCAGGGTTGAAGAGCGAGTTTGCACAAGATGTGATGGTGGTTAACACAGAGCAGAAGAACTGTTGTCTGGTTGGAGATGTGTACAAGCATGCAGTTTTGACTCCTGATATTGATTCAATCTTGAAAGATATCGAAAATATATGA

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

216

Amino Acids

24.08

Weight (kDa)

5.06

Isoelectric Point (pI)

55.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	183 - 262	6.9e-22	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)

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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)
AccI	GTMKAC	1 cut(s)	453
AciI	CCGC	1 cut(s)	267
AclWI	GGATC	2 cut(s)	109, 191
AcsI	RAATTY	1 cut(s)	52
AfaI	GTAC	2 cut(s)	74, 590
AfiI	CCNNNNNNNGG	1 cut(s)	191
AgsI	TTSAA	5 cut(s)	57, 365, 517, 624, 631
AjiI	CACGTC	1 cut(s)	214
AjnI	CCWGG	1 cut(s)	508
AluBI	AGCT	1 cut(s)	153
AluI	AGCT	1 cut(s)	153
Alw26I	GTCTC	1 cut(s)	175
AlwI	GGATC	2 cut(s)	109, 191
AlwNI	CAGNNNCTG	1 cut(s)	17
AoxI	GGCC	2 cut(s)	371, 385
ApoI	RAATTY	1 cut(s)	52
ArsI	GACNNNNNNTTYG	2 cut(s)	435, 467
AspS9I	GGNCC	1 cut(s)	386
AsuHPI	GGTGA	1 cut(s)	61
BbsI	GAAGAC	1 cut(s)	407
BccI	CCATC	1 cut(s)	535
BciT130I	CCWGG	1 cut(s)	510
BcoDI	GTCTC	1 cut(s)	175
BfmI	CTRYAG	1 cut(s)	148
BisI	GCNGC	1 cut(s)	267
BlsI	GCNGC	1 cut(s)	268
Bme1390I	CCNGG	1 cut(s)	510
BmgBI	CACGTC	1 cut(s)	214
BmgT120I	GGNCC	1 cut(s)	386
BmiI	GGNNCC	1 cut(s)	388
BmrFI	CCNGG	1 cut(s)	510
BmsI	GCATC	1 cut(s)	350
BpiI	GAAGAC	1 cut(s)	407
BpmI	CTGGAG	1 cut(s)	255
BpuEI	CTTGAG	1 cut(s)	9
BsaI	GGTCTC	1 cut(s)	175
BsaJI	CCNNGG	3 cut(s)	137, 508, 509
BsaXI	ACNNNNNCTCC	2 cut(s)	110, 140
Bsc4I	CCNNNNNNNGG	1 cut(s)	191
BseBI	CCWGG	1 cut(s)	510
BseDI	CCNNGG	3 cut(s)	137, 508, 509
BseLI	CCNNNNNNNGG	1 cut(s)	191
BseMII	CTCAG	1 cut(s)	128
BseRI	GAGGAG	2 cut(s)	193, 233
BshFI	GGCC	2 cut(s)	373, 387
BslI	CCNNNNNNNGG	1 cut(s)	191
BsmAI	GTCTC	1 cut(s)	175
BsnI	GGCC	2 cut(s)	373, 387
Bso31I	GGTCTC	1 cut(s)	175
Bsp1407I	TGTACA	1 cut(s)	588
Bsp143I	GATC	4 cut(s)	62, 83, 101, 196
Bsp19I	CCATGG	1 cut(s)	137
BspACI	CCGC	1 cut(s)	267
BspANI	GGCC	2 cut(s)	373, 387
BspCNI	CTCAG	1 cut(s)	127
BspHI	TCATGA	1 cut(s)	244
BspLI	GGNNCC	1 cut(s)	388
BspPI	GGATC	2 cut(s)	109, 191
BspQI	GCTCTTC	1 cut(s)	512
BspTNI	GGTCTC	1 cut(s)	175
BsrGI	TGTACA	1 cut(s)	588
BssECI	CCNNGG	3 cut(s)	137, 508, 509
BssMI	GATC	4 cut(s)	62, 83, 101, 196
BssT1I	CCWWGG	1 cut(s)	137
Bst2UI	CCWGG	1 cut(s)	510
Bst4CI	ACNGT	5 cut(s)	13, 186, 406, 447, 569
Bst6I	CTCTTC	1 cut(s)	512
BstAUI	TGTACA	1 cut(s)	588
BstC8I	GCNNGC	2 cut(s)	231, 597
BstDEI	CTNAG	1 cut(s)	114
BstDSI	CCRYGG	1 cut(s)	137
BstKTI	GATC	4 cut(s)	65, 86, 104, 199
BstMAI	GTCTC	1 cut(s)	175
BstMBI	GATC	4 cut(s)	62, 83, 101, 196
BstNI	CCWGG	1 cut(s)	510
BstNSI	RCATGY	1 cut(s)	599
BstSCI	CCNGG	1 cut(s)	508
BstSFI	CTRYAG	1 cut(s)	148
BstV2I	GAAGAC	1 cut(s)	407
BstX2I	RGATCY	1 cut(s)	196
BstYI	RGATCY	1 cut(s)	196
BsuRI	GGCC	2 cut(s)	373, 387
BtgI	CCRYGG	1 cut(s)	137
BtrI	CACGTC	1 cut(s)	214
Cac8I	GCNNGC	2 cut(s)	231, 597
CaiI	CAGNNNCTG	1 cut(s)	17
CciI	TCATGA	1 cut(s)	244
Cfr13I	GGNCC	1 cut(s)	386
Csp6I	GTAC	2 cut(s)	73, 589
CviAII	CATG	4 cut(s)	138, 245, 436, 596
CviJI	RGCY	8 cut(s)	153, 233, 266, 322, 373, 387, 419, 507
CviKI_1	RGCY	8 cut(s)	153, 233, 266, 322, 373, 387, 419, 507
CviQI	GTAC	2 cut(s)	73, 589
DdeI	CTNAG	1 cut(s)	114
DpnI	GATC	4 cut(s)	64, 85, 103, 198
DpnII	GATC	4 cut(s)	62, 83, 101, 196
DraI	TTTAAA	1 cut(s)	414
Eam1104I	CTCTTC	1 cut(s)	512
EarI	CTCTTC	1 cut(s)	512
Eco130I	CCWWGG	1 cut(s)	137
Eco31I	GGTCTC	1 cut(s)	175
Eco32I	GATATC	1 cut(s)	637
EcoO109I	RGGNCCY	1 cut(s)	386
EcoRI	GAATTC	1 cut(s)	52
EcoRII	CCWGG	1 cut(s)	508
EcoRV	GATATC	1 cut(s)	637
EcoT14I	CCWWGG	1 cut(s)	137
ErhI	CCWWGG	1 cut(s)	137
FaeI	CATG	4 cut(s)	141, 248, 439, 599
FalI	AAGNNNNNCTT	2 cut(s)	240, 272
FatI	CATG	4 cut(s)	137, 244, 435, 595
FblI	GTMKAC	1 cut(s)	453
Fnu4HI	GCNGC	1 cut(s)	267
Fsp4HI	GCNGC	1 cut(s)	267
GluI	GCNGC	1 cut(s)	267
GsuI	CTGGAG	1 cut(s)	255
HaeIII	GGCC	2 cut(s)	373, 387
Hin1II	CATG	4 cut(s)	141, 248, 439, 599
HincII	GTYRAC	1 cut(s)	550
HindII	GTYRAC	1 cut(s)	550
HinfI	GANTC	3 cut(s)	251, 607, 620
HpaI	GTTAAC	1 cut(s)	550
HphI	GGTGA	1 cut(s)	61
Hpy166II	GTNNAC	3 cut(s)	454, 550, 589
Hpy188III	TCNNGA	7 cut(s)	116, 200, 209, 245, 472, 611, 628
Hpy8I	GTNNAC	3 cut(s)	454, 550, 589
HpyAV	CCTTC	2 cut(s)	336, 422
HpyCH4III	ACNGT	5 cut(s)	13, 186, 406, 447, 569
HpyCH4IV	ACGT	1 cut(s)	213
HpyCH4V	TGCA	4 cut(s)	191, 229, 530, 599
HpyF3I	CTNAG	1 cut(s)	114
HpySE526I	ACGT	1 cut(s)	213
Hsp92II	CATG	4 cut(s)	141, 248, 439, 599
KspAI	GTTAAC	1 cut(s)	550
Kzo9I	GATC	4 cut(s)	62, 83, 101, 196
LguI	GCTCTTC	1 cut(s)	512
LweI	GCATC	1 cut(s)	350
MaeII	ACGT	1 cut(s)	213
MaeIII	GTNAC	1 cut(s)	431
MalI	GATC	4 cut(s)	64, 85, 103, 198
MboI	GATC	4 cut(s)	62, 83, 101, 196
MboII	GAAGA	5 cut(s)	260, 409, 412, 529, 574
MflI	RGATCY	1 cut(s)	196
MluCI	AATT	1 cut(s)	52
MlyI	GAGTC	1 cut(s)	601
MmeI	TCCRAC	1 cut(s)	559
MnlI	CCTC	8 cut(s)	86, 118, 171, 196, 211, 230, 280, 312
MseI	TTAA	3 cut(s)	258, 413, 549
MspR9I	CCNGG	1 cut(s)	510
MvaI	CCWGG	1 cut(s)	510
NcoI	CCATGG	1 cut(s)	137
NdeII	GATC	4 cut(s)	62, 83, 101, 196
NlaIII	CATG	4 cut(s)	141, 248, 439, 599
NlaIV	GGNNCC	1 cut(s)	388
NspI	RCATGY	1 cut(s)	599
PaeI	GCATGC	1 cut(s)	599
PagI	TCATGA	1 cut(s)	244
PasI	CCCWGGG	1 cut(s)	509
PciSI	GCTCTTC	1 cut(s)	512
PfeI	GAWTC	2 cut(s)	251, 620
PkrI	GCNGC	1 cut(s)	268
PleI	GAGTC	1 cut(s)	601
PpsI	GAGTC	1 cut(s)	601
Psp6I	CCWGG	1 cut(s)	508
PspGI	CCWGG	1 cut(s)	508
PspN4I	GGNNCC	1 cut(s)	388
PspPI	GGNCC	1 cut(s)	386
PstNI	CAGNNNCTG	1 cut(s)	17
PsuI	RGATCY	1 cut(s)	196
RsaI	GTAC	2 cut(s)	74, 590
RsaNI	GTAC	2 cut(s)	73, 589
SapI	GCTCTTC	1 cut(s)	512
SaqAI	TTAA	3 cut(s)	258, 413, 549
SatI	GCNGC	1 cut(s)	267
Sau3AI	GATC	4 cut(s)	62, 83, 101, 196
Sau96I	GGNCC	1 cut(s)	386
SchI	GAGTC	1 cut(s)	601
ScrFI	CCNGG	1 cut(s)	510
SetI	ASST	8 cut(s)	78, 110, 155, 207, 216, 328, 363, 433
SfaNI	GCATC	1 cut(s)	350
SfcI	CTRYAG	1 cut(s)	148
SmlI	CTYRAG	1 cut(s)	24
SmoI	CTYRAG	1 cut(s)	24
SphI	GCATGC	1 cut(s)	599
Sse9I	AATT	1 cut(s)	52
SsiI	CCGC	1 cut(s)	267
StyD4I	CCNGG	1 cut(s)	508
StyI	CCWWGG	1 cut(s)	137
TaaI	ACNGT	5 cut(s)	13, 186, 406, 447, 569
TaiI	ACGT	1 cut(s)	216
TaqI	TCGA	1 cut(s)	639
TaqII	GACCGA	1 cut(s)	266
TasI	AATT	1 cut(s)	52
TatI	WGTACW	1 cut(s)	588
TauI	GCSGC	1 cut(s)	269
TfiI	GAWTC	2 cut(s)	251, 620
Tru1I	TTAA	3 cut(s)	258, 413, 549
Tru9I	TTAA	3 cut(s)	258, 413, 549
TspDTI	ATGAA	2 cut(s)	261, 491
XapI	RAATTY	1 cut(s)	52
XceI	RCATGY	1 cut(s)	599
XmiI	GTMKAC	1 cut(s)	453

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