Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0004203

Physical Location & Seq

Genomic Coordinates Forward (+)

12642503 .. 12644330

Gene Structure 1828 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT2G29540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGGAGCACGGTTCGTTCACGAATGTTAGTCATGCTTCGTTTACTTTATCGGAAGAAGATCACACACTTGCTAATGCTGTTAGATTCGTCTTAAACCAAGATCCCAGAGTAACCGTGGCTGCATACACCATCCCACATCCTTCCCTTGAACAGGTCAATATCCGGGTCCAGACAACAGGTGATCCAGCAAGAGAGGTTTTTAAAGATGCATGTCAAGAGCTCATGCAAATGAACAGACATGTGAGAAGCGTTTTTGATAAGGCTGTTGCTGAGTATAAGGATGAACAAAAGCGTAAGGAGGAGGCTGAAGAAGAAGAGCTTAAGAGGCAGAGGGATCTATTTGGGTCCATGGACATTGAAAACAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_L_2

Protein Analysis

122

Amino Acids

14.08

Weight (kDa)

5.08

Isoelectric Point (pI)

48.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L_2	PF13656	12 - 82	4.6e-25	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_L	PF01193	14 - 76	6.5e-10	RNA polymerase Rpb3/Rpb11 dimerisation domain

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

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Publication-ready

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Orthologous Genes (Group: OG0004203)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29540 AT2G29540 AT2G29540
fragaria_vesca	FvH4_6g26980 FvH4_7g06540
malus_domestica	MD10G1078400.v1.1
prunus_persica	Prupe.2G047700_v2.0.a1 Prupe.2G047700_v2.0.a1 Prupe.3G125300_v2.0.a1 Prupe.3G125300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0334971 RchiOBHm_Chr2g0128821
rosa_laevigata	RLG00000019027
rosa_multiflora	Rmu_sc0007061.1_g000007 Rmu_sc0009556.1_g000001
rosa_roxburghii	Rroxscaffold_2G00115240 Rroxscaffold_4G00316330
rosa_rugosa	Rorug01G0118200 Rorug02G0281300 Rorug02G0281400 Rorug02G0281500 Rorug02G0281600 Rorug02G0281600
rosa_samantha	Rh1AG141500 Rh1BG110000 Rh1CG133400 Rh1DG146100 Rh2AG334100 Rh2BG342100 Rh2CG321000 Rh2DG358800
rosa_wichuraiana	Rw1G011740 Rw2G027000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	95, 176, 342
AcuI	CTGAAG	1 cut(s)	327
AfiI	CCNNNNNNNGG	1 cut(s)	151
AflII	CTTAAG	1 cut(s)	320
AflIII	ACRYGT	1 cut(s)	238
AgsI	TTSAA	2 cut(s)	149, 359
AluBI	AGCT	2 cut(s)	220, 319
AluI	AGCT	2 cut(s)	220, 319
Alw21I	GWGCWC	2 cut(s)	9, 222
AlwI	GGATC	3 cut(s)	95, 176, 342
ApeKI	GCWGC	1 cut(s)	119
AspS9I	GGNCC	2 cut(s)	166, 345
AsuC2I	CCSGG	1 cut(s)	164
AsuHPI	GGTGA	1 cut(s)	191
AvaII	GGWCC	2 cut(s)	166, 345
BanII	GRGCYC	1 cut(s)	222
Bbv12I	GWGCWC	2 cut(s)	9, 222
BbvI	GCAGC	1 cut(s)	106
BccI	CCATC	1 cut(s)	137
BcnI	CCSGG	1 cut(s)	164
BfrI	CTTAAG	1 cut(s)	320
BisI	GCNGC	1 cut(s)	120
BlsI	GCNGC	1 cut(s)	121
Bme1390I	CCNGG	1 cut(s)	164
Bme18I	GGWCC	2 cut(s)	166, 345
BmgT120I	GGNCC	2 cut(s)	166, 345
BmiI	GGNNCC	2 cut(s)	167, 346
BmrFI	CCNGG	1 cut(s)	164
BmsI	GCATC	1 cut(s)	196
BpuMI	CCSGG	1 cut(s)	164
BsaJI	CCNNGG	2 cut(s)	114, 348
Bsc4I	CCNNNNNNNGG	1 cut(s)	151
BseDI	CCNNGG	2 cut(s)	114, 348
BseGI	GGATG	3 cut(s)	129, 136, 286
BseLI	CCNNNNNNNGG	1 cut(s)	151
BseMII	CTCAG	1 cut(s)	261
BseRI	GAGGAG	1 cut(s)	314
BseXI	GCAGC	1 cut(s)	106
BsiHKAI	GWGCWC	2 cut(s)	9, 222
BsiSI	CCGG	1 cut(s)	163
BslI	CCNNNNNNNGG	1 cut(s)	151
Bsp1286I	GDGCHC	2 cut(s)	9, 222
Bsp143I	GATC	4 cut(s)	58, 100, 181, 334
Bsp19I	CCATGG	1 cut(s)	348
BspCNI	CTCAG	1 cut(s)	262
BspLI	GGNNCC	2 cut(s)	167, 346
BspPI	GGATC	3 cut(s)	95, 176, 342
BspQI	GCTCTTC	1 cut(s)	309
BspTI	CTTAAG	1 cut(s)	320
BssECI	CCNNGG	2 cut(s)	114, 348
BssMI	GATC	4 cut(s)	58, 100, 181, 334
BssT1I	CCWWGG	1 cut(s)	348
Bst4CI	ACNGT	2 cut(s)	11, 115
Bst6I	CTCTTC	1 cut(s)	309
BstAFI	CTTAAG	1 cut(s)	320
BstDEI	CTNAG	1 cut(s)	270
BstDSI	CCRYGG	2 cut(s)	114, 348
BstENI	CCTNNNNNAGG	1 cut(s)	149
BstF5I	GGATG	3 cut(s)	129, 136, 286
BstKTI	GATC	4 cut(s)	61, 103, 184, 337
BstMBI	GATC	4 cut(s)	58, 100, 181, 334
BstMWI	GCNNNNNNNGC	1 cut(s)	325
BstNSI	RCATGY	2 cut(s)	213, 242
BstSCI	CCNGG	1 cut(s)	162
BstV1I	GCAGC	1 cut(s)	106
BstX2I	RGATCY	2 cut(s)	100, 334
BstYI	RGATCY	2 cut(s)	100, 334
BtgI	CCRYGG	2 cut(s)	114, 348
BtsCI	GGATG	3 cut(s)	129, 136, 286
Cfr13I	GGNCC	2 cut(s)	166, 345
CviAII	CATG	5 cut(s)	32, 210, 223, 239, 349
CviJI	RGCY	5 cut(s)	119, 220, 263, 305, 319
CviKI_1	RGCY	5 cut(s)	119, 220, 263, 305, 319
DdeI	CTNAG	1 cut(s)	270
DpnI	GATC	4 cut(s)	60, 102, 183, 336
DpnII	GATC	4 cut(s)	58, 100, 181, 334
DraI	TTTAAA	1 cut(s)	202
Eam1104I	CTCTTC	1 cut(s)	309
EarI	CTCTTC	1 cut(s)	309
Ecl136II	GAGCTC	1 cut(s)	220
Eco130I	CCWWGG	1 cut(s)	348
Eco24I	GRGCYC	1 cut(s)	222
Eco47I	GGWCC	2 cut(s)	166, 345
Eco53kI	GAGCTC	1 cut(s)	220
Eco57I	CTGAAG	1 cut(s)	327
EcoICRI	GAGCTC	1 cut(s)	220
EcoNI	CCTNNNNNAGG	1 cut(s)	149
EcoT14I	CCWWGG	1 cut(s)	348
EcoT22I	ATGCAT	1 cut(s)	211
EcoT38I	GRGCYC	1 cut(s)	222
ErhI	CCWWGG	1 cut(s)	348
FaeI	CATG	5 cut(s)	35, 213, 226, 242, 352
FaiI	YATR	7 cut(s)	33, 124, 211, 224, 240, 276, 350
FalI	AAGNNNNNCTT	2 cut(s)	303, 335
FatI	CATG	5 cut(s)	31, 209, 222, 238, 348
Fnu4HI	GCNGC	1 cut(s)	120
FokI	GGATG	3 cut(s)	116, 123, 293
FriOI	GRGCYC	1 cut(s)	222
Fsp4HI	GCNGC	1 cut(s)	120
GluI	GCNGC	1 cut(s)	120
HapII	CCGG	1 cut(s)	163
Hin1II	CATG	5 cut(s)	35, 213, 226, 242, 352
HinfI	GANTC	1 cut(s)	84
HpaII	CCGG	1 cut(s)	163
HphI	GGTGA	1 cut(s)	191
Hpy166II	GTNNAC	2 cut(s)	18, 42
Hpy188I	TCNGA	1 cut(s)	52
Hpy188III	TCNNGA	3 cut(s)	19, 169, 215
Hpy8I	GTNNAC	2 cut(s)	18, 42
HpyAV	CCTTC	1 cut(s)	150
HpyCH4III	ACNGT	2 cut(s)	11, 115
HpyCH4V	TGCA	3 cut(s)	122, 209, 226
HpyF10VI	GCNNNNNNNGC	1 cut(s)	325
HpyF3I	CTNAG	1 cut(s)	270
Hsp92II	CATG	5 cut(s)	35, 213, 226, 242, 352
Kzo9I	GATC	4 cut(s)	58, 100, 181, 334
LguI	GCTCTTC	1 cut(s)	309
LmnI	GCTCC	1 cut(s)	4
LpnPI	CCDG	6 cut(s)	118, 137, 162, 176, 182, 198
Lsp1109I	GCAGC	1 cut(s)	106
LweI	GCATC	1 cut(s)	196
MaeIII	GTNAC	1 cut(s)	109
MalI	GATC	4 cut(s)	60, 102, 183, 336
MboI	GATC	4 cut(s)	58, 100, 181, 334
MboII	GAAGA	5 cut(s)	65, 68, 320, 323, 326
MflI	RGATCY	2 cut(s)	100, 334
MhlI	GDGCHC	2 cut(s)	9, 222
MnlI	CCTC	5 cut(s)	187, 292, 295, 318, 324
Mph1103I	ATGCAT	1 cut(s)	211
MseI	TTAA	3 cut(s)	92, 201, 321
MslI	CAYNNNNRTG	1 cut(s)	227
MspCI	CTTAAG	1 cut(s)	320
MspI	CCGG	1 cut(s)	163
MspR9I	CCNGG	1 cut(s)	164
MwoI	GCNNNNNNNGC	1 cut(s)	325
NciI	CCSGG	1 cut(s)	164
NcoI	CCATGG	1 cut(s)	348
NdeII	GATC	4 cut(s)	58, 100, 181, 334
NlaIII	CATG	5 cut(s)	35, 213, 226, 242, 352
NlaIV	GGNNCC	2 cut(s)	167, 346
NsiI	ATGCAT	1 cut(s)	211
NspI	RCATGY	2 cut(s)	213, 242
PciI	ACATGT	1 cut(s)	238
PciSI	GCTCTTC	1 cut(s)	309
PfeI	GAWTC	1 cut(s)	84
PkrI	GCNGC	1 cut(s)	121
PscI	ACATGT	1 cut(s)	238
Psp124BI	GAGCTC	1 cut(s)	222
PspN4I	GGNNCC	2 cut(s)	167, 346
PspPI	GGNCC	2 cut(s)	166, 345
PsuI	RGATCY	2 cut(s)	100, 334
RseI	CAYNNNNRTG	1 cut(s)	227
SacI	GAGCTC	1 cut(s)	222
SapI	GCTCTTC	1 cut(s)	309
SaqAI	TTAA	3 cut(s)	92, 201, 321
SatI	GCNGC	1 cut(s)	120
Sau3AI	GATC	4 cut(s)	58, 100, 181, 334
Sau96I	GGNCC	2 cut(s)	166, 345
ScrFI	CCNGG	1 cut(s)	164
SduI	GDGCHC	2 cut(s)	9, 222
SetI	ASST	5 cut(s)	156, 181, 198, 222, 321
SfaNI	GCATC	1 cut(s)	196
SinI	GGWCC	2 cut(s)	166, 345
SmiMI	CAYNNNNRTG	1 cut(s)	227
SmlI	CTYRAG	1 cut(s)	320
SmoI	CTYRAG	1 cut(s)	320
SstI	GAGCTC	1 cut(s)	222
StyD4I	CCNGG	1 cut(s)	162
StyI	CCWWGG	1 cut(s)	348
TaaI	ACNGT	2 cut(s)	11, 115
TfiI	GAWTC	1 cut(s)	84
Tru1I	TTAA	3 cut(s)	92, 201, 321
Tru9I	TTAA	3 cut(s)	92, 201, 321
TseI	GCWGC	1 cut(s)	119
TspDTI	ATGAA	2 cut(s)	245, 297
Vha464I	CTTAAG	1 cut(s)	320
VpaK11BI	GGWCC	2 cut(s)	166, 345
XagI	CCTNNNNNAGG	1 cut(s)	149
XceI	RCATGY	2 cut(s)	213, 242
XcmI	CCANNNNNNNNNTGG	1 cut(s)	112
Zsp2I	ATGCAT	1 cut(s)	211

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