Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Reverse (-)

7890803 .. 7892349

Gene Structure 1547 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G22320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGTTGACGGAAGAGGAGCTCAAAAGATTGTACAGAATCCAGAAGACGTTGATGCAGATGTTAAGGGATCGTGGATATTTTATCGCGGATTCTGAACTTACGATGACTAAACAACAGTTTATTAGGAAACATGGTGATAACATGAAAAGAGAGGATCTTGTTACTCTTAAGGCTAAGCGAAATGATAATAGTGATCAGCTCTATATATTCTTCCCTGATGAGGCGAAAGTTGGTGTGAAGACGATGAAAATGTACACGAACAGGATGAAATCAGAGAATGTGTTCAGAGCTATTTTGGTTGTGCAACAGAACTTGACCCCGTTTGCTCGAACTTGCATTAGTGAGATCTCTTCTAAGTTTCATCTGGAAGTTTTCCAGGAGGCGGAAATGCTAGTGAACATTAAAGAACATGTTCTTGTTCCTGAGCATCAAGTTCTTACCACTGAAGAGAAGAAAACTTTACTGGAGAGATACACAGTGAAGGAGACACAGCTTCCAAGGATCCAAGTGACTGATCCAATCGCAAGATACTTTGGACTAAAACGTGGGCAAGTCGTGAAGATCATTCGTCCGAGTGAAACGGCTGGTCGTTATGTTACCTATCGTTATGTTGTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 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:0044428 GO:0044446 GO:0044451 GO:0044452 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 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

205

Amino Acids

24.3

Weight (kDa)

9.56

Isoelectric Point (pI)

32.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	4 - 89	8.7e-29	RNA polymerase Rpb5, N-terminal domain
RNA_pol_Rpb5_C	PF01191	132 - 204	1.2e-36	RNA polymerase Rpb5, C-terminal 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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000701)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22320
fragaria_vesca	FvH4_5g21560 FvH4_7g09301 FvH4_7g09301
malus_domestica	MD02G1080800.v1.1 MD02G1093900.v1.1 MD15G1208600.v1.1
prunus_persica	Prupe.2G121300_v2.0.a1 Prupe.2G121300_v2.0.a1 Prupe.2G121400_v2.0.a1 Prupe.2G121400_v2.0.a1
pyrus_communis	pycom02g06410 pycom02g07430 pycom15g18470
rosa_chinensis	RchiOBHm_Chr1g0332791 RchiOBHm_Chr1g0344101 RchiOBHm_Chr1g0344151 RchiOBHm_Chr1g0344171 RchiOBHm_Chr1g0345361 RchiOBHm_Chr1g0345421 RchiOBHm_Chr1g0345561 RchiOBHm_Chr1g0345591 RchiOBHm_Chr1g0345671 RchiOBHm_Chr1g0345701 RchiOBHm_Chr1g0345711 RchiOBHm_Chr1g0345721 RchiOBHm_Chr1g0345801 RchiOBHm_Chr1g0345851 RchiOBHm_Chr1g0345901 RchiOBHm_Chr1g0345921 RchiOBHm_Chr1g0345931 RchiOBHm_Chr1g0345951 RchiOBHm_Chr1g0345961 RchiOBHm_Chr7g0208981
rosa_laevigata	RLG00000003175 RLG00000029644
rosa_multiflora	Rmu_co8382943.1_g000001 Rmu_sc0000532.1_g000035 Rmu_sc0001292.1_g000003 Rmu_sc0001349.1_g000004 Rmu_sc0001692.1_g000006 Rmu_sc0001692.1_g000027 Rmu_sc0002329.1_g000024 Rmu_sc0002329.1_g000032 Rmu_sc0004239.1_g000023 Rmu_sc0008115.1_g000011
rosa_roxburghii	Rroxscaffold_3G00238160 Rroxscaffold_3G00249920 Rroxscaffold_4G00310020 Rroxscaffold_4G00317980 Rroxscaffold_5G00344600
rosa_rugosa	Rorug01G0103700 Rorug01G0103800 Rorug01G0103900 Rorug01G0171800 Rorug07G0107800
rosa_samantha	Rh1BG097500 Rh1BG161500 Rh1CG122000 Rh1CG173900 Rh1CG180700 Rh1CG181100 Rh1DG133900 Rh1DG191900 Rh7AG242600 Rh7BG237400 Rh7DG249500
rosa_wichuraiana	Rw1G010510 Rw1G016120 Rw1G016200 Rw1G016220 Rw1G016430 Rw1G016490 Rw7G020550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	86
AciI	CCGC	2 cut(s)	86, 383
AclWI	GGATC	5 cut(s)	75, 162, 496, 509, 509
AcuI	CTGAAG	1 cut(s)	465
AfaI	GTAC	2 cut(s)	32, 254
AfiI	CCNNNNNNNGG	2 cut(s)	220, 382
AflII	CTTAAG	1 cut(s)	167
AflIII	ACRYGT	1 cut(s)	409
AjnI	CCWGG	1 cut(s)	375
AluBI	AGCT	4 cut(s)	19, 199, 290, 493
AluI	AGCT	4 cut(s)	19, 199, 290, 493
Alw21I	GWGCWC	1 cut(s)	21
Alw26I	GTCTC	1 cut(s)	479
AlwI	GGATC	5 cut(s)	75, 162, 496, 509, 509
Asp700I	GAANNNNTTC	2 cut(s)	281, 411
AsuHPI	GGTGA	1 cut(s)	146
BamHI	GGATCC	1 cut(s)	501
BanII	GRGCYC	1 cut(s)	21
BbsI	GAAGAC	2 cut(s)	50, 245
Bbv12I	GWGCWC	1 cut(s)	21
BceAI	ACGGC	1 cut(s)	597
BciT130I	CCWGG	1 cut(s)	377
BclI	TGATCA	1 cut(s)	193
BcoDI	GTCTC	1 cut(s)	479
BfaI	CTAG	1 cut(s)	392
BfrI	CTTAAG	1 cut(s)	167
BglII	AGATCT	1 cut(s)	345
BlpI	GCTNAGC	1 cut(s)	174
Bme1390I	CCNGG	1 cut(s)	377
BmiI	GGNNCC	1 cut(s)	503
BmrFI	CCNGG	1 cut(s)	377
BmsI	GCATC	2 cut(s)	42, 436
BpiI	GAAGAC	2 cut(s)	50, 245
BpmI	CTGGAG	1 cut(s)	485
Bpu10I	CCTNAGC	1 cut(s)	423
Bpu1102I	GCTNAGC	1 cut(s)	174
BsaJI	CCNNGG	1 cut(s)	497
Bsc4I	CCNNNNNNNGG	2 cut(s)	220, 382
Bse1I	ACTGG	1 cut(s)	468
BseBI	CCWGG	1 cut(s)	377
BseDI	CCNNGG	1 cut(s)	497
BseGI	GGATG	1 cut(s)	270
BseLI	CCNNNNNNNGG	2 cut(s)	220, 382
BseMII	CTCAG	1 cut(s)	414
BseNI	ACTGG	1 cut(s)	468
BseRI	GAGGAG	1 cut(s)	29
Bsh1236I	CGCG	1 cut(s)	86
BsiHKAI	GWGCWC	1 cut(s)	21
BslI	CCNNNNNNNGG	2 cut(s)	220, 382
BsmAI	GTCTC	1 cut(s)	479
Bsp1286I	GDGCHC	1 cut(s)	21
Bsp1407I	TGTACA	2 cut(s)	30, 252
Bsp143I	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
Bsp1720I	GCTNAGC	1 cut(s)	174
BspACI	CCGC	2 cut(s)	86, 383
BspCNI	CTCAG	1 cut(s)	415
BspFNI	CGCG	1 cut(s)	86
BspLI	GGNNCC	1 cut(s)	503
BspPI	GGATC	5 cut(s)	75, 162, 496, 509, 509
BspTI	CTTAAG	1 cut(s)	167
BsrGI	TGTACA	2 cut(s)	30, 252
BsrI	ACTGG	1 cut(s)	468
BssECI	CCNNGG	1 cut(s)	497
BssMI	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
BssT1I	CCWWGG	1 cut(s)	497
Bst2UI	CCWGG	1 cut(s)	377
Bst4CI	ACNGT	2 cut(s)	117, 478
Bst6I	CTCTTC	3 cut(s)	6, 355, 441
BstAFI	CTTAAG	1 cut(s)	167
BstAUI	TGTACA	2 cut(s)	30, 252
BstDEI	CTNAG	3 cut(s)	174, 354, 423
BstF5I	GGATG	1 cut(s)	270
BstFNI	CGCG	1 cut(s)	86
BstKTI	GATC	7 cut(s)	70, 157, 196, 348, 504, 517, 564
BstMAI	GTCTC	1 cut(s)	479
BstMBI	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
BstNI	CCWGG	1 cut(s)	377
BstNSI	RCATGY	1 cut(s)	413
BstSCI	CCNGG	1 cut(s)	375
BstUI	CGCG	1 cut(s)	86
BstV2I	GAAGAC	2 cut(s)	50, 245
BstX2I	RGATCY	3 cut(s)	154, 345, 501
BstYI	RGATCY	3 cut(s)	154, 345, 501
BtsCI	GGATG	1 cut(s)	270
BtsIMutI	CAGTG	2 cut(s)	441, 483
Csp6I	GTAC	2 cut(s)	31, 253
CviAII	CATG	3 cut(s)	131, 142, 410
CviJI	RGCY	6 cut(s)	19, 173, 199, 290, 493, 584
CviKI_1	RGCY	6 cut(s)	19, 173, 199, 290, 493, 584
CviQI	GTAC	2 cut(s)	31, 253
DdeI	CTNAG	3 cut(s)	174, 354, 423
DpnI	GATC	7 cut(s)	69, 156, 195, 347, 503, 516, 563
DpnII	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
Eam1104I	CTCTTC	3 cut(s)	6, 355, 441
EarI	CTCTTC	3 cut(s)	6, 355, 441
EciI	GGCGGA	1 cut(s)	398
Ecl136II	GAGCTC	1 cut(s)	19
Eco130I	CCWWGG	1 cut(s)	497
Eco24I	GRGCYC	1 cut(s)	21
Eco53kI	GAGCTC	1 cut(s)	19
Eco57I	CTGAAG	1 cut(s)	465
EcoICRI	GAGCTC	1 cut(s)	19
EcoRII	CCWGG	1 cut(s)	375
EcoT14I	CCWWGG	1 cut(s)	497
EcoT38I	GRGCYC	1 cut(s)	21
ErhI	CCWWGG	1 cut(s)	497
FaeI	CATG	3 cut(s)	134, 145, 413
FaiI	YATR	8 cut(s)	132, 143, 204, 206, 411, 594, 609, 616
FatI	CATG	3 cut(s)	130, 141, 409
FbaI	TGATCA	1 cut(s)	193
FokI	GGATG	1 cut(s)	277
FriOI	GRGCYC	1 cut(s)	21
FspBI	CTAG	1 cut(s)	392
GsuI	CTGGAG	1 cut(s)	485
Hin1II	CATG	3 cut(s)	134, 145, 413
HincII	GTYRAC	1 cut(s)	6
HindII	GTYRAC	1 cut(s)	6
HinfI	GANTC	2 cut(s)	36, 89
HphI	GGTGA	1 cut(s)	146
Hpy166II	GTNNAC	3 cut(s)	6, 255, 397
Hpy188I	TCNGA	4 cut(s)	94, 274, 287, 573
Hpy188III	TCNNGA	4 cut(s)	40, 365, 422, 556
Hpy8I	GTNNAC	3 cut(s)	6, 255, 397
HpyAV	CCTTC	1 cut(s)	475
HpyCH4III	ACNGT	2 cut(s)	117, 478
HpyCH4IV	ACGT	2 cut(s)	47, 544
HpyCH4V	TGCA	3 cut(s)	55, 304, 336
HpyF3I	CTNAG	3 cut(s)	174, 354, 423
HpySE526I	ACGT	2 cut(s)	47, 544
Hsp92II	CATG	3 cut(s)	134, 145, 413
Ksp22I	TGATCA	1 cut(s)	193
Kzo9I	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
LmnI	GCTCC	1 cut(s)	16
LpnPI	CCDG	9 cut(s)	53, 228, 247, 350, 362, 389, 435, 449, 570
LweI	GCATC	2 cut(s)	42, 436
MaeI	CTAG	1 cut(s)	392
MaeII	ACGT	2 cut(s)	47, 544
MaeIII	GTNAC	3 cut(s)	160, 508, 595
MalI	GATC	7 cut(s)	69, 156, 195, 347, 503, 516, 563
MboI	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
MboII	GAAGA	8 cut(s)	23, 55, 202, 250, 342, 458, 463, 571
MflI	RGATCY	3 cut(s)	154, 345, 501
MhlI	GDGCHC	1 cut(s)	21
MnlI	CCTC	4 cut(s)	7, 145, 214, 373
MroXI	GAANNNNTTC	2 cut(s)	281, 411
MseI	TTAA	3 cut(s)	62, 168, 402
MspCI	CTTAAG	1 cut(s)	167
MspR9I	CCNGG	1 cut(s)	377
MvaI	CCWGG	1 cut(s)	377
MvnI	CGCG	1 cut(s)	86
NdeII	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
NlaIII	CATG	3 cut(s)	134, 145, 413
NlaIV	GGNNCC	1 cut(s)	503
NmuCI	GTSAC	1 cut(s)	508
NspI	RCATGY	1 cut(s)	413
PciI	ACATGT	1 cut(s)	409
PdmI	GAANNNNTTC	2 cut(s)	281, 411
PfeI	GAWTC	2 cut(s)	36, 89
PfoI	TCCNGGA	1 cut(s)	375
PscI	ACATGT	1 cut(s)	409
Psp124BI	GAGCTC	1 cut(s)	21
Psp6I	CCWGG	1 cut(s)	375
PspGI	CCWGG	1 cut(s)	375
PspN4I	GGNNCC	1 cut(s)	503
PsuI	RGATCY	3 cut(s)	154, 345, 501
RsaI	GTAC	2 cut(s)	32, 254
RsaNI	GTAC	2 cut(s)	31, 253
SacI	GAGCTC	1 cut(s)	21
SaqAI	TTAA	3 cut(s)	62, 168, 402
Sau3AI	GATC	7 cut(s)	67, 154, 193, 345, 501, 514, 561
ScrFI	CCNGG	1 cut(s)	377
SduI	GDGCHC	1 cut(s)	21
SetI	ASST	7 cut(s)	21, 50, 201, 292, 495, 547, 602
SfaNI	GCATC	2 cut(s)	42, 436
SmlI	CTYRAG	1 cut(s)	167
SmoI	CTYRAG	1 cut(s)	167
SsiI	CCGC	2 cut(s)	86, 383
SspMI	CTAG	1 cut(s)	392
SstI	GAGCTC	1 cut(s)	21
StyD4I	CCNGG	1 cut(s)	375
StyI	CCWWGG	1 cut(s)	497
TaaI	ACNGT	2 cut(s)	117, 478
TaiI	ACGT	2 cut(s)	50, 547
TaqI	TCGA	1 cut(s)	328
TatI	WGTACW	2 cut(s)	30, 252
TfiI	GAWTC	2 cut(s)	36, 89
Tru1I	TTAA	3 cut(s)	62, 168, 402
Tru9I	TTAA	3 cut(s)	62, 168, 402
TscAI	CASTG	2 cut(s)	448, 483
TseFI	GTSAC	1 cut(s)	508
Tsp45I	GTSAC	1 cut(s)	508
TspDTI	ATGAA	4 cut(s)	158, 260, 281, 350
TspGWI	ACGGA	1 cut(s)	23
TspRI	CASTG	2 cut(s)	448, 483
Vha464I	CTTAAG	1 cut(s)	167
XceI	RCATGY	1 cut(s)	413
XmnI	GAANNNNTTC	2 cut(s)	281, 411
XspI	CTAG	1 cut(s)	392

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