Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0013855

Physical Location & Seq

Genomic Coordinates Forward (+)

20196140 .. 20197726

Gene Structure 1587 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G54560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGGCAGGCAAAGGTGGAAAAGGACTCGTAGCTGCGAAGACGATGGCTGCTAACAAGGACAAAGACAAGGACAAGAAGAAACCCATCTCTCGCTCTGCTCGTGCTGGTATTCAGTTTCCAGTTGGACGAATTCACAGGCAACTGAAGACCCGAGTCTCGGCACATGGCAGAGTTGGTGCCACTGCAGCCGTCTACACAGCTTCAATCCTGGAGTATCTGACAGCAGAGGTTCTTGAGTTGGCTGGGAATGCGAGCAAGGATCTCAAAGTGAAGAGGATAACGCCAAGGCATCTGCAGTTGGCGATTAGAGGAGATGAGGAGCTGGACACACTCATCAAGGGAACGATTGCTGGAGGTGGTGTGATCCCTCACATCCACAAGTCTCTCATCAACAAAACCACCAAGGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000785 GO:0000790 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006325 GO:0006342 GO:0006355 GO:0006950 GO:0006952 GO:0006970 GO:0006996 GO:0007275 GO:0008150 GO:0009266 GO:0009581 GO:0009582 GO:0009605 GO:0009607 GO:0009617 GO:0009628 GO:0009791 GO:0009889 GO:0009890 GO:0009892 GO:0009908 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016043 GO:0016048 GO:0016458 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0040029 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0045814 GO:0045892 GO:0045934 GO:0048367 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051276 GO:0051606 GO:0051704 GO:0051707 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071840 GO:0080090 GO:0090567 GO:0097159 GO:0098542 GO:1901363 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04217 ko05034 ko05322 map04217 map05034 map05322

Pfam Domains

Protein Families

Histone Histone_H2A_C

Protein Analysis

136

Amino Acids

14.54

Weight (kDa)

10.32

Isoelectric Point (pI)

26.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	19 - 104	2.5e-20	Core histone H2A/H2B/H3/H4 domain
Histone_H2A_C	PF16211	106 - 135	7.9e-11	C-terminus of histone H2A

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0013855)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G54560 AT3G54560
prunus_persica	Prupe.1G472200_v2.0.a1 Prupe.1G472200_v2.0.a1
pyrus_communis	pycom15g10710
rosa_chinensis	RchiOBHm_Chr6g0298761
rosa_laevigata	RLG00000011488
rosa_multiflora	Rmu_ssc0000397.1_g000012
rosa_roxburghii	Rroxscaffold_7G00169360
rosa_rugosa	Rorug06G0282800 Rorug06G0282800 Rorug06G0282800
rosa_samantha	Rh6AG394200 Rh6BG402000 Rh6CG407900 Rh6DG394500
rosa_wichuraiana	Rw6G034480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	176
AccI	GTMKAC	1 cut(s)	192
AclWI	GGATC	2 cut(s)	267, 358
AcsI	RAATTY	1 cut(s)	129
AcuI	CTGAAG	1 cut(s)	164
AfiI	CCNNNNNNNGG	1 cut(s)	157
AgsI	TTSAA	1 cut(s)	204
AjnI	CCWGG	1 cut(s)	207
AluBI	AGCT	3 cut(s)	32, 200, 322
AluI	AGCT	3 cut(s)	32, 200, 322
Alw26I	GTCTC	2 cut(s)	160, 387
AlwI	GGATC	2 cut(s)	267, 358
Ama87I	CYCGRG	1 cut(s)	150
ApeKI	GCWGC	3 cut(s)	32, 47, 185
ApoI	RAATTY	1 cut(s)	129
AvaI	CYCGRG	1 cut(s)	150
BanI	GGYRCC	1 cut(s)	176
BauI	CACGAG	1 cut(s)	99
BbsI	GAAGAC	2 cut(s)	44, 152
BbvI	GCAGC	3 cut(s)	19, 34, 197
BccI	CCATC	2 cut(s)	37, 92
BceAI	ACGGC	1 cut(s)	173
BciT130I	CCWGG	1 cut(s)	209
BcoDI	GTCTC	2 cut(s)	160, 387
BfmI	CTRYAG	2 cut(s)	183, 293
BisI	GCNGC	3 cut(s)	33, 48, 186
BlsI	GCNGC	3 cut(s)	34, 49, 187
Bme1390I	CCNGG	1 cut(s)	209
BmeT110I	CYCGRG	1 cut(s)	150
BmiI	GGNNCC	1 cut(s)	178
BmrFI	CCNGG	1 cut(s)	209
BmsI	GCATC	1 cut(s)	298
BoxI	GACNNNNGTC	1 cut(s)	152
BpiI	GAAGAC	2 cut(s)	44, 152
BpmI	CTGGAG	2 cut(s)	230, 372
BpuEI	CTTGAG	1 cut(s)	254
BsaJI	CCNNGG	2 cut(s)	284, 402
BsaXI	ACNNNNNCTCC	2 cut(s)	345, 375
Bsc4I	CCNNNNNNNGG	1 cut(s)	157
Bse1I	ACTGG	1 cut(s)	119
BseBI	CCWGG	1 cut(s)	209
BseDI	CCNNGG	2 cut(s)	284, 402
BseGI	GGATG	1 cut(s)	372
BseLI	CCNNNNNNNGG	1 cut(s)	157
BseNI	ACTGG	1 cut(s)	119
BseRI	GAGGAG	2 cut(s)	324, 332
BseXI	GCAGC	3 cut(s)	19, 34, 197
BseYI	CCCAGC	1 cut(s)	242
BshNI	GGYRCC	1 cut(s)	176
BsiHKCI	CYCGRG	1 cut(s)	150
BslI	CCNNNNNNNGG	1 cut(s)	157
BsmAI	GTCTC	2 cut(s)	160, 387
BsmI	GAATGC	1 cut(s)	253
BsoBI	CYCGRG	1 cut(s)	150
Bsp143I	GATC	2 cut(s)	259, 363
BspLI	GGNNCC	1 cut(s)	178
BspMAI	CTGCAG	2 cut(s)	187, 297
BspPI	GGATC	2 cut(s)	267, 358
BspT107I	GGYRCC	1 cut(s)	176
BsrI	ACTGG	1 cut(s)	119
BssECI	CCNNGG	2 cut(s)	284, 402
BssMI	GATC	2 cut(s)	259, 363
BssSI	CACGAG	1 cut(s)	99
BssT1I	CCWWGG	2 cut(s)	284, 402
Bst2BI	CACGAG	1 cut(s)	99
Bst2UI	CCWGG	1 cut(s)	209
Bst6I	CTCTTC	1 cut(s)	266
BstC8I	GCNNGC	2 cut(s)	7, 253
BstF5I	GGATG	1 cut(s)	372
BstKTI	GATC	2 cut(s)	262, 366
BstMAI	GTCTC	2 cut(s)	160, 387
BstMBI	GATC	2 cut(s)	259, 363
BstMWI	GCNNNNNNNGC	2 cut(s)	185, 248
BstNI	CCWGG	1 cut(s)	209
BstPAI	GACNNNNGTC	1 cut(s)	152
BstSCI	CCNGG	1 cut(s)	207
BstSFI	CTRYAG	2 cut(s)	183, 293
BstV1I	GCAGC	3 cut(s)	19, 34, 197
BstV2I	GAAGAC	2 cut(s)	44, 152
BstX2I	RGATCY	1 cut(s)	259
BstYI	RGATCY	1 cut(s)	259
BtsCI	GGATG	1 cut(s)	372
BtsI	GCAGTG	1 cut(s)	180
BtsIMutI	CAGTG	1 cut(s)	180
Cac8I	GCNNGC	2 cut(s)	7, 253
CviAII	CATG	1 cut(s)	164
CviJI	RGCY	6 cut(s)	32, 47, 188, 200, 242, 322
CviKI_1	RGCY	6 cut(s)	32, 47, 188, 200, 242, 322
DpnI	GATC	2 cut(s)	261, 365
DpnII	GATC	2 cut(s)	259, 363
Eam1104I	CTCTTC	1 cut(s)	266
EarI	CTCTTC	1 cut(s)	266
Eco130I	CCWWGG	2 cut(s)	284, 402
Eco57I	CTGAAG	1 cut(s)	164
Eco88I	CYCGRG	1 cut(s)	150
EcoRI	GAATTC	1 cut(s)	129
EcoRII	CCWGG	1 cut(s)	207
EcoT14I	CCWWGG	2 cut(s)	284, 402
ErhI	CCWWGG	2 cut(s)	284, 402
FaeI	CATG	1 cut(s)	167
FaiI	YATR	1 cut(s)	165
FatI	CATG	1 cut(s)	163
FblI	GTMKAC	1 cut(s)	192
Fnu4HI	GCNGC	3 cut(s)	33, 48, 186
FokI	GGATG	1 cut(s)	359
Fsp4HI	GCNGC	3 cut(s)	33, 48, 186
GluI	GCNGC	3 cut(s)	33, 48, 186
GsaI	CCCAGC	1 cut(s)	246
GsuI	CTGGAG	2 cut(s)	230, 372
Hin1II	CATG	1 cut(s)	167
HinfI	GANTC	2 cut(s)	24, 153
Hpy166II	GTNNAC	1 cut(s)	193
Hpy188I	TCNGA	1 cut(s)	219
Hpy188III	TCNNGA	1 cut(s)	233
Hpy8I	GTNNAC	1 cut(s)	193
HpyCH4V	TGCA	2 cut(s)	185, 295
HpyF10VI	GCNNNNNNNGC	2 cut(s)	185, 248
Hsp92II	CATG	1 cut(s)	167
Kzo9I	GATC	2 cut(s)	259, 363
LmnI	GCTCC	1 cut(s)	319
LpnPI	CCDG	8 cut(s)	90, 121, 132, 194, 221, 228, 308, 336
Lsp1109I	GCAGC	3 cut(s)	19, 34, 197
LweI	GCATC	1 cut(s)	298
MalI	GATC	2 cut(s)	261, 365
MboI	GATC	2 cut(s)	259, 363
MboII	GAAGA	4 cut(s)	49, 88, 157, 283
MflI	RGATCY	1 cut(s)	259
MluCI	AATT	1 cut(s)	129
MlyI	GAGTC	2 cut(s)	18, 162
MmeI	TCCRAC	1 cut(s)	103
MnlI	CCTC	6 cut(s)	220, 267, 302, 310, 347, 378
MspR9I	CCNGG	1 cut(s)	209
Mva1269I	GAATGC	1 cut(s)	253
MvaI	CCWGG	1 cut(s)	209
MwoI	GCNNNNNNNGC	2 cut(s)	185, 248
NdeII	GATC	2 cut(s)	259, 363
NlaIII	CATG	1 cut(s)	167
NlaIV	GGNNCC	1 cut(s)	178
NmeAIII	GCCGAG	1 cut(s)	137
PcsI	WCGNNNNNNNCGW	1 cut(s)	97
PctI	GAATGC	1 cut(s)	253
PfoI	TCCNGGA	1 cut(s)	207
PkrI	GCNGC	3 cut(s)	34, 49, 187
PleI	GAGTC	2 cut(s)	18, 161
PpsI	GAGTC	2 cut(s)	18, 161
PshAI	GACNNNNGTC	1 cut(s)	152
Psp6I	CCWGG	1 cut(s)	207
PspFI	CCCAGC	1 cut(s)	242
PspGI	CCWGG	1 cut(s)	207
PspN4I	GGNNCC	1 cut(s)	178
PstI	CTGCAG	2 cut(s)	187, 297
PsuI	RGATCY	1 cut(s)	259
SatI	GCNGC	3 cut(s)	33, 48, 186
Sau3AI	GATC	2 cut(s)	259, 363
SchI	GAGTC	2 cut(s)	18, 162
ScrFI	CCNGG	1 cut(s)	209
SetI	ASST	6 cut(s)	16, 34, 202, 231, 324, 358
SfaNI	GCATC	1 cut(s)	298
SfcI	CTRYAG	2 cut(s)	183, 293
SmlI	CTYRAG	1 cut(s)	233
SmoI	CTYRAG	1 cut(s)	233
Sse9I	AATT	1 cut(s)	129
StyD4I	CCNGG	1 cut(s)	207
StyI	CCWWGG	2 cut(s)	284, 402
TasI	AATT	1 cut(s)	129
TscAI	CASTG	1 cut(s)	187
TseI	GCWGC	3 cut(s)	32, 47, 185
TspRI	CASTG	1 cut(s)	187
XapI	RAATTY	1 cut(s)	129
XmiI	GTMKAC	1 cut(s)	192

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