Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0004793

Physical Location & Seq

Genomic Coordinates Reverse (-)

3176883 .. 3180734

Gene Structure 3852 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G09800.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1119 bp

ATGTCCGATAATCTGAAGCATCCTCTCGATTGTACAGCTAGTGAGGAATCACTCGAGAGACTCTCAAAGGTTGCGAGAATCGAGGGATTTAGTGACGAAGAATCAGAGGAACAGCAGGGATTGGCCGACTTGGAGTCCATGAACCCAGTAAACCCTAGAGTGCAGCGTTACTTGGTTGCCATTGAGTACATCGGAACTCGTTTCTCCGGTTCACAACAGCAAGCTAAGGACCGCACCGTCGTCGGTGTATTGCAGGAGGCTTTTCATAAGTTTATAGGCCAACCAGTAAAGATCTTTTGCTCAAGTCGAACGGATGCCGGAGTGCATGCACTGTCAAATGTTTGTCATGTTGATGTGGAACGCATCAGTAAAAGGAAGCCTGGTGAAGTGTTACCACCTCATGAGCCTGGTGTGGTCCAGAGAGCGGTGAACCATTTTTTACAGAGAAAAGATGGTGATGTTATGGTGATTGATGTTCGGTGTGTCCCAAGTAATTATCATGCCAGATATAAGGCCCAGGAGCGCACATACTTCTACCGCTTGCTATCCGGGTCAGATCCATTATCAATCCTTGAAAAAGACCGTTGCTGGCATGTTCCTGAGGAGTTAAATCTTCGCTTTATGCAGGAAGCATGCAGAGTTCTTGTTGGATCTCATGATTTTAGCTCCTTCAGGGCAGCTGGTTGCCAGGCAAAGTCACCTATGAGATCTTTAGATGAACTAAATATCACTGAAGTACCATCAACTCCATATTTTCCATCTATCACGGAAAGGACGTTGAGTAACCTAAACAATGGAGATCCTCTCGCATGTTCCAATCAACCCAAGTCTGAGACTGCTGGTGTTACTACTAATGTTGGAGAAGTGGAGGGCTCTACAGAGGGTGATTCTTTTGGTAGAAGGAGACGCCACCGCTGCTATGTAGTTACAGCACGTTCCCGGGGTTTTCTGTACCACCAGGTTCGACTGATTGTAGGAGCACTGAAATGCGTAGGCACTGGAGAATTGACGGTCTCAGACGTTGAACGAATCCTGGAGGCGAAGACAGTGAGTGCAGCAAAACCCATGGCTCCTGCATCTGGTCTGTATCTTGCCCGTGTCAGATATGAGTTTCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_1

Protein Analysis

372

Amino Acids

41.54

Weight (kDa)

7.15

Isoelectric Point (pI)

48.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	60 - 170	7.7e-08	tRNA pseudouridine synthase
PseudoU_synth_1	PF01416	211 - 370	4.9e-23	tRNA pseudouridine synthase

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: OG0004793)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09800 AT1G09800
fragaria_vesca	FvH4_3g33250
malus_domestica	MD08G1241400.v1.1 MD15G1435400.v1.1
prunus_persica	Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1
pyrus_communis	pycom08g20930 pycom15g38410
rosa_chinensis	RchiOBHm_Chr3g0481081 RchiOBHm_Chr5g0060601
rosa_laevigata	RLG00000035374
rosa_multiflora	Rmu_sc0001650.1_g000001 Rmu_sc0020761.1_g000005
rosa_roxburghii	Rroxscaffold_1G00020210 Rroxscaffold_7G00212020
rosa_rugosa	Rorug05G0331000
rosa_samantha	Rh3AG240400 Rh5AG395500 Rh5BG407800 Rh5CG432300 Rh5DG422700
rosa_wichuraiana	Rw5G037210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	236
AccBSI	CCGCTC	1 cut(s)	425
AciI	CCGC	4 cut(s)	232, 425, 538, 913
AclWI	GGATC	3 cut(s)	551, 658, 794
AcoI	YGGCCR	1 cut(s)	123
AcuI	CTGAAG	3 cut(s)	35, 655, 753
AcyI	GRCGYC	1 cut(s)	907
AfaI	GTAC	4 cut(s)	34, 188, 738, 953
AfiI	CCNNNNNNNGG	2 cut(s)	424, 1079
AgsI	TTSAA	2 cut(s)	575, 1025
AhdI	GACNNNNNGTC	1 cut(s)	133
AjnI	CCWGG	6 cut(s)	379, 406, 516, 687, 957, 1032
AluBI	AGCT	4 cut(s)	38, 224, 666, 680
AluI	AGCT	4 cut(s)	38, 224, 666, 680
Alw21I	GWGCWC	1 cut(s)	982
Alw26I	GTCTC	4 cut(s)	52, 827, 898, 1018
AlwI	GGATC	3 cut(s)	551, 658, 794
Ama87I	CYCGRG	2 cut(s)	53, 939
AoxI	GGCC	3 cut(s)	123, 277, 513
ApeKI	GCWGC	4 cut(s)	163, 677, 915, 1055
AspLEI	GCGC	1 cut(s)	525
AspS9I	GGNCC	3 cut(s)	229, 415, 514
AsuC2I	CCSGG	3 cut(s)	550, 940, 941
AsuHPI	GGTGA	6 cut(s)	395, 439, 467, 478, 690, 896
AvaI	CYCGRG	2 cut(s)	53, 939
AvaII	GGWCC	2 cut(s)	229, 415
AxyI	CCTNAGG	1 cut(s)	600
BaeI	ACNNNNGTAYC	2 cut(s)	720, 753
BanII	GRGCYC	1 cut(s)	875
BbsI	GAAGAC	1 cut(s)	1049
Bbv12I	GWGCWC	1 cut(s)	982
BbvI	GCAGC	4 cut(s)	175, 689, 902, 1067
BccI	CCATC	3 cut(s)	446, 748, 766
BcgI	CGANNNNNNTGC	2 cut(s)	223, 257
BciT130I	CCWGG	6 cut(s)	381, 408, 518, 689, 959, 1034
BcnI	CCSGG	3 cut(s)	550, 940, 941
BcoDI	GTCTC	4 cut(s)	52, 827, 898, 1018
BfaI	CTAG	2 cut(s)	39, 156
BfmI	CTRYAG	1 cut(s)	876
BglII	AGATCT	2 cut(s)	291, 707
BisI	GCNGC	4 cut(s)	164, 678, 916, 1056
BlsI	GCNGC	4 cut(s)	165, 679, 917, 1057
Bme1390I	CCNGG	9 cut(s)	381, 408, 518, 550, 689, 940, 941, 959, 1034
Bme18I	GGWCC	2 cut(s)	229, 415
BmeRI	GACNNNNNGTC	1 cut(s)	133
BmeT110I	CYCGRG	2 cut(s)	53, 939
BmgT120I	GGNCC	3 cut(s)	229, 415, 514
BmiI	GGNNCC	1 cut(s)	1071
BmrFI	CCNGG	9 cut(s)	381, 408, 518, 550, 689, 940, 941, 959, 1034
BmrI	ACTGGG	1 cut(s)	140
BmsI	GCATC	4 cut(s)	28, 304, 372, 1085
BmuI	ACTGGG	1 cut(s)	140
BpiI	GAAGAC	1 cut(s)	1049
BplI	GAGNNNNNCTC	4 cut(s)	47, 79, 789, 821
BpmI	CTGGAG	2 cut(s)	1020, 1055
Bpu10I	CCTNAGC	1 cut(s)	225
BpuEI	CTTGAG	1 cut(s)	286
BpuMI	CCSGG	3 cut(s)	550, 940, 941
BsaHI	GRCGYC	1 cut(s)	907
BsaI	GGTCTC	1 cut(s)	1018
BsaJI	CCNNGG	4 cut(s)	516, 939, 940, 1065
BsaWI	WCCGGW	1 cut(s)	206
Bsc4I	CCNNNNNNNGG	2 cut(s)	424, 1079
Bse1I	ACTGG	3 cut(s)	146, 284, 1003
Bse21I	CCTNAGG	1 cut(s)	600
BseBI	CCWGG	6 cut(s)	381, 408, 518, 689, 959, 1034
BseDI	CCNNGG	4 cut(s)	516, 939, 940, 1065
BseGI	GGATG	2 cut(s)	19, 319
BseLI	CCNNNNNNNGG	2 cut(s)	424, 1079
BseMII	CTCAG	3 cut(s)	591, 822, 1029
BseNI	ACTGG	3 cut(s)	146, 284, 1003
BseRI	GAGGAG	1 cut(s)	617
BseXI	GCAGC	4 cut(s)	175, 689, 902, 1067
BsgI	GTGCAG	2 cut(s)	182, 1074
BshFI	GGCC	3 cut(s)	125, 279, 515
BsiHKAI	GWGCWC	1 cut(s)	982
BsiHKCI	CYCGRG	2 cut(s)	53, 939
BsiSI	CCGG	4 cut(s)	207, 318, 549, 940
BslFI	GGGAC	1 cut(s)	470
BslI	CCNNNNNNNGG	2 cut(s)	424, 1079
BsmAI	GTCTC	4 cut(s)	52, 827, 898, 1018
BsmBI	CGTCTC	1 cut(s)	898
BsmFI	GGGAC	1 cut(s)	470
BsnI	GGCC	3 cut(s)	125, 279, 515
Bso31I	GGTCTC	1 cut(s)	1018
BsoBI	CYCGRG	2 cut(s)	53, 939
Bsp1286I	GDGCHC	2 cut(s)	875, 982
Bsp1407I	TGTACA	1 cut(s)	32
Bsp143I	GATC	5 cut(s)	291, 556, 650, 707, 799
Bsp19I	CCATGG	1 cut(s)	1065
BspACI	CCGC	4 cut(s)	232, 425, 538, 913
BspANI	GGCC	3 cut(s)	125, 279, 515
BspCNI	CTCAG	3 cut(s)	592, 823, 1028
BspHI	TCATGA	2 cut(s)	400, 655
BspLI	GGNNCC	1 cut(s)	1071
BspPI	GGATC	3 cut(s)	551, 658, 794
BspTNI	GGTCTC	1 cut(s)	1018
BsrBI	CCGCTC	1 cut(s)	425
BsrGI	TGTACA	1 cut(s)	32
BsrI	ACTGG	3 cut(s)	146, 284, 1003
BssECI	CCNNGG	4 cut(s)	516, 939, 940, 1065
BssMI	GATC	5 cut(s)	291, 556, 650, 707, 799
BssNI	GRCGYC	1 cut(s)	907
BssT1I	CCWWGG	1 cut(s)	1065
Bst2UI	CCWGG	6 cut(s)	381, 408, 518, 689, 959, 1034
Bst4CI	ACNGT	5 cut(s)	238, 333, 584, 1012, 1048
BstACI	GRCGYC	1 cut(s)	907
BstAUI	TGTACA	1 cut(s)	32
BstC8I	GCNNGC	5 cut(s)	222, 327, 542, 590, 634
BstDEI	CTNAG	4 cut(s)	225, 600, 831, 1015
BstDSI	CCRYGG	1 cut(s)	1065
BstF5I	GGATG	2 cut(s)	19, 319
BstHHI	GCGC	1 cut(s)	525
BstKTI	GATC	5 cut(s)	294, 559, 653, 710, 802
BstMAI	GTCTC	4 cut(s)	52, 827, 898, 1018
BstMBI	GATC	5 cut(s)	291, 556, 650, 707, 799
BstMWI	GCNNNNNNNGC	1 cut(s)	915
BstNI	CCWGG	6 cut(s)	381, 408, 518, 689, 959, 1034
BstNSI	RCATGY	4 cut(s)	329, 596, 636, 813
BstSCI	CCNGG	9 cut(s)	379, 406, 516, 548, 687, 938, 939, 957, 1032
BstSFI	CTRYAG	1 cut(s)	876
BstV1I	GCAGC	4 cut(s)	175, 689, 902, 1067
BstV2I	GAAGAC	1 cut(s)	1049
BstX2I	RGATCY	5 cut(s)	291, 556, 650, 707, 799
BstYI	RGATCY	5 cut(s)	291, 556, 650, 707, 799
Bsu36I	CCTNAGG	1 cut(s)	600
BsuRI	GGCC	3 cut(s)	125, 279, 515
BtgI	CCRYGG	1 cut(s)	1065
BtsCI	GGATG	2 cut(s)	19, 319
BtsIMutI	CAGTG	5 cut(s)	329, 729, 980, 996, 1053
Cac8I	GCNNGC	5 cut(s)	222, 327, 542, 590, 634
CciI	TCATGA	2 cut(s)	400, 655
CfoI	GCGC	1 cut(s)	525
Cfr13I	GGNCC	3 cut(s)	229, 415, 514
Cfr9I	CCCGGG	1 cut(s)	939
CseI	GACGC	1 cut(s)	915
CsiI	ACCWGGT	1 cut(s)	957
Csp6I	GTAC	4 cut(s)	33, 187, 737, 952
CviQI	GTAC	4 cut(s)	33, 187, 737, 952
DdeI	CTNAG	4 cut(s)	225, 600, 831, 1015
DpnI	GATC	5 cut(s)	293, 558, 652, 709, 801
DpnII	GATC	5 cut(s)	291, 556, 650, 707, 799
DrdI	GACNNNNNNGTC	1 cut(s)	236
DriI	GACNNNNNGTC	1 cut(s)	133
DseDI	GACNNNNNNGTC	1 cut(s)	236
EaeI	YGGCCR	1 cut(s)	123
Eam1105I	GACNNNNNGTC	1 cut(s)	133
Eco130I	CCWWGG	1 cut(s)	1065
Eco24I	GRGCYC	1 cut(s)	875
Eco31I	GGTCTC	1 cut(s)	1018
Eco47I	GGWCC	2 cut(s)	229, 415
Eco57I	CTGAAG	3 cut(s)	35, 655, 753
Eco81I	CCTNAGG	1 cut(s)	600
Eco88I	CYCGRG	2 cut(s)	53, 939
EcoRII	CCWGG	6 cut(s)	379, 406, 516, 687, 957, 1032
EcoT14I	CCWWGG	1 cut(s)	1065
EcoT38I	GRGCYC	1 cut(s)	875
ErhI	CCWWGG	1 cut(s)	1065
Esp3I	CGTCTC	1 cut(s)	898
FaqI	GGGAC	1 cut(s)	470
Fnu4HI	GCNGC	4 cut(s)	164, 678, 916, 1056
FokI	GGATG	2 cut(s)	6, 326
FriOI	GRGCYC	1 cut(s)	875
Fsp4HI	GCNGC	4 cut(s)	164, 678, 916, 1056
FspBI	CTAG	2 cut(s)	39, 156
GlaI	GCGC	1 cut(s)	524
GluI	GCNGC	4 cut(s)	164, 678, 916, 1056
GsuI	CTGGAG	2 cut(s)	1020, 1055
HaeIII	GGCC	3 cut(s)	125, 279, 515
HapII	CCGG	4 cut(s)	207, 318, 549, 940
HgaI	GACGC	1 cut(s)	915
HhaI	GCGC	1 cut(s)	525
Hin1I	GRCGYC	1 cut(s)	907
Hin6I	GCGC	1 cut(s)	523
HinP1I	GCGC	1 cut(s)	523
HinfI	GANTC	7 cut(s)	47, 60, 78, 101, 134, 887, 1029
HpaII	CCGG	4 cut(s)	207, 318, 549, 940
HphI	GGTGA	6 cut(s)	395, 439, 467, 478, 690, 896
Hpy166II	GTNNAC	3 cut(s)	151, 212, 430
Hpy188I	TCNGA	8 cut(s)	7, 15, 106, 194, 556, 832, 1018, 1103
Hpy188III	TCNNGA	6 cut(s)	26, 55, 401, 418, 599, 656
Hpy8I	GTNNAC	3 cut(s)	151, 212, 430
Hpy99I	CGWCG	2 cut(s)	242, 245
HpyAV	CCTTC	2 cut(s)	679, 894
HpyCH4III	ACNGT	5 cut(s)	238, 333, 584, 1012, 1048
HpyCH4IV	ACGT	3 cut(s)	776, 934, 1020
HpyCH4V	TGCA	8 cut(s)	163, 253, 325, 329, 625, 636, 1055, 1076
HpyF10VI	GCNNNNNNNGC	1 cut(s)	915
HpyF3I	CTNAG	4 cut(s)	225, 600, 831, 1015
HpySE526I	ACGT	3 cut(s)	776, 934, 1020
Hsp92I	GRCGYC	1 cut(s)	907
HspAI	GCGC	1 cut(s)	523
Kzo9I	GATC	5 cut(s)	291, 556, 650, 707, 799
LmnI	GCTCC	4 cut(s)	520, 671, 977, 1075
Lsp1109I	GCAGC	4 cut(s)	175, 689, 902, 1067
LweI	GCATC	4 cut(s)	28, 304, 372, 1085
MabI	ACCWGGT	1 cut(s)	957
MaeI	CTAG	2 cut(s)	39, 156
MaeII	ACGT	3 cut(s)	776, 934, 1020
MaeIII	GTNAC	7 cut(s)	92, 167, 390, 696, 782, 844, 925
MalI	GATC	5 cut(s)	293, 558, 652, 709, 801
MbiI	CCGCTC	1 cut(s)	425
MboI	GATC	5 cut(s)	291, 556, 650, 707, 799
MboII	GAAGA	3 cut(s)	110, 605, 1054
MflI	RGATCY	5 cut(s)	291, 556, 650, 707, 799
MhlI	GDGCHC	2 cut(s)	875, 982
MluCI	AATT	2 cut(s)	493, 1004
MlyI	GAGTC	2 cut(s)	54, 143
MmeI	TCCRAC	2 cut(s)	628, 838
MseI	TTAA	1 cut(s)	608
MslI	CAYNNNNRTG	2 cut(s)	351, 985
MspA1I	CMGCKG	2 cut(s)	680, 915
MspI	CCGG	4 cut(s)	207, 318, 549, 940
MspR9I	CCNGG	9 cut(s)	381, 408, 518, 550, 689, 940, 941, 959, 1034
MvaI	CCWGG	6 cut(s)	381, 408, 518, 689, 959, 1034
MwoI	GCNNNNNNNGC	1 cut(s)	915
NciI	CCSGG	3 cut(s)	550, 940, 941
NcoI	CCATGG	1 cut(s)	1065
NdeII	GATC	5 cut(s)	291, 556, 650, 707, 799
NlaIV	GGNNCC	1 cut(s)	1071
NmuCI	GTSAC	2 cut(s)	92, 696
NspI	RCATGY	4 cut(s)	329, 596, 636, 813
PaeI	GCATGC	2 cut(s)	329, 636
PaeR7I	CTCGAG	1 cut(s)	53
PagI	TCATGA	2 cut(s)	400, 655
PcsI	WCGNNNNNNNCGW	1 cut(s)	773
PfeI	GAWTC	5 cut(s)	47, 78, 101, 887, 1029
PfoI	TCCNGGA	1 cut(s)	1032
PkrI	GCNGC	4 cut(s)	165, 679, 917, 1057
PleI	GAGTC	2 cut(s)	54, 142
PpsI	GAGTC	2 cut(s)	54, 142
Psp6I	CCWGG	6 cut(s)	379, 406, 516, 687, 957, 1032
PspGI	CCWGG	6 cut(s)	379, 406, 516, 687, 957, 1032
PspN4I	GGNNCC	1 cut(s)	1071
PspPI	GGNCC	3 cut(s)	229, 415, 514
PsuI	RGATCY	5 cut(s)	291, 556, 650, 707, 799
PvuII	CAGCTG	1 cut(s)	680
RsaI	GTAC	4 cut(s)	34, 188, 738, 953
RsaNI	GTAC	4 cut(s)	33, 187, 737, 952
RseI	CAYNNNNRTG	2 cut(s)	351, 985
SaqAI	TTAA	1 cut(s)	608
SatI	GCNGC	4 cut(s)	164, 678, 916, 1056
Sau3AI	GATC	5 cut(s)	291, 556, 650, 707, 799
Sau96I	GGNCC	3 cut(s)	229, 415, 514
SchI	GAGTC	2 cut(s)	54, 143
ScrFI	CCNGG	9 cut(s)	381, 408, 518, 550, 689, 940, 941, 959, 1034
SduI	GDGCHC	2 cut(s)	875, 982
SexAI	ACCWGGT	1 cut(s)	957
SfaNI	GCATC	4 cut(s)	28, 304, 372, 1085
SfcI	CTRYAG	1 cut(s)	876
Sfr274I	CTCGAG	1 cut(s)	53
SinI	GGWCC	2 cut(s)	229, 415
SlaI	CTCGAG	1 cut(s)	53
SmaI	CCCGGG	1 cut(s)	941
SmiMI	CAYNNNNRTG	2 cut(s)	351, 985
SmlI	CTYRAG	2 cut(s)	53, 301
SmoI	CTYRAG	2 cut(s)	53, 301
SphI	GCATGC	2 cut(s)	329, 636
Sse9I	AATT	2 cut(s)	493, 1004
SsiI	CCGC	4 cut(s)	232, 425, 538, 913
SspMI	CTAG	2 cut(s)	39, 156
StyD4I	CCNGG	9 cut(s)	379, 406, 516, 548, 687, 938, 939, 957, 1032
StyI	CCWWGG	1 cut(s)	1065
TaaI	ACNGT	5 cut(s)	238, 333, 584, 1012, 1048
TaiI	ACGT	3 cut(s)	779, 937, 1023
TaqI	TCGA	5 cut(s)	27, 54, 81, 307, 964
TasI	AATT	2 cut(s)	493, 1004
TatI	WGTACW	2 cut(s)	32, 186
TfiI	GAWTC	5 cut(s)	47, 78, 101, 887, 1029
Tru1I	TTAA	1 cut(s)	608
Tru9I	TTAA	1 cut(s)	608
TscAI	CASTG	5 cut(s)	336, 736, 987, 1003, 1053
TseFI	GTSAC	2 cut(s)	92, 696
TseI	GCWGC	4 cut(s)	163, 677, 915, 1055
Tsp45I	GTSAC	2 cut(s)	92, 696
TspDTI	ATGAA	3 cut(s)	155, 254, 732
TspGWI	ACGGA	2 cut(s)	326, 782
TspMI	CCCGGG	1 cut(s)	939
TspRI	CASTG	5 cut(s)	336, 736, 987, 1003, 1053
VpaK11BI	GGWCC	2 cut(s)	229, 415
XceI	RCATGY	4 cut(s)	329, 596, 636, 813
XhoI	CTCGAG	1 cut(s)	53
XmaI	CCCGGG	1 cut(s)	939
XspI	CTAG	2 cut(s)	39, 156

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