Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

N/A

Physical Location & Seq

Genomic Coordinates Forward (+)

20256936 .. 20259417

Gene Structure 2482 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G54260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGAGCAATGATGCTAGGTATGATGCGATGGTTTTTGAGGCTGTATCAACAATTAATGATGAAAATGGTTCCAATCTCAAAGAGATTCTCAGATTTATCGAGGGACAACATGAGGTTCCACAAAACTTTAAGAAACTGTTGAGTTATAGCCTGGGAATCCTTGTTTCTCAAGACAAACTCAAAAAGGTACGAAATCGTTACAAAATCTCAGTTACGAAAGCAATTAAGCCAACACTCACCCTGCGTCCAAAAGATTCCACGAAGCCACCAGAGTTACCAAACTGGTACGAGGAGCAACAAGACTTTAGGATGTTTTTGAGTGAGTGCCTGATAATTCTCGTTTCTCAAGGCAAACTGGAAAAGGTATTGGATCGCTACAAGATATCAGAATTAGAAAACAAAGTGTTGGAAGTAGCACCAGAAGTTGTAGCAATGAAACTAGCAGAGTCAGATAACAAAAGGTTGATAGCAGCAGAGGCAGTCGAAGAAGAAGAACGAATGCACAAGTTAGTAGAAGAAAGCCACACGATGCTTCAATTATGCTTAGAGATCCACCAACAATGTGCTCTTGGCCAAGAGGTTGTTCTACTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000723 GO:0000781 GO:0000784 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003691 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0006996 GO:0008150 GO:0008152 GO:0009628 GO:0009651 GO:0009719 GO:0009723 GO:0009725 GO:0009733 GO:0009751 GO:0009753 GO:0009889 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010468 GO:0010556 GO:0014070 GO:0016043 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0031627 GO:0031974 GO:0031981 GO:0032200 GO:0034641 GO:0042162 GO:0042221 GO:0042493 GO:0042592 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0046677 GO:0046686 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051276 GO:0060249 GO:0060255 GO:0065007 GO:0065008 GO:0070013 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0098687 GO:0140110 GO:1901360 GO:1901363 GO:1901700 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Linker_histone Myb_DNA-bind_6 Myb_DNA-binding

Protein Analysis

197

Amino Acids

22.7

Weight (kDa)

5.53

Isoelectric Point (pI)

52.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	6 - 64	4.5e-07	linker histone H1 and H5 family

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

No orthologs found for this gene in the current database.

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	378, 544
AcoI	YGGCCR	1 cut(s)	571
AfaI	GTAC	2 cut(s)	189, 287
AgsI	TTSAA	1 cut(s)	536
AjnI	CCWGG	1 cut(s)	150
AjuI	GAANNNNNNNTTGG	1 cut(s)	567
Alw21I	GWGCWC	1 cut(s)	568
AlwI	GGATC	2 cut(s)	378, 544
AoxI	GGCC	1 cut(s)	571
ApeKI	GCWGC	1 cut(s)	470
AseI	ATTAAT	1 cut(s)	54
AsuHPI	GGTGA	1 cut(s)	229
BalI	TGGCCA	1 cut(s)	573
Bbv12I	GWGCWC	1 cut(s)	568
BbvI	GCAGC	1 cut(s)	482
BccI	CCATC	1 cut(s)	22
BciT130I	CCWGG	1 cut(s)	152
BfaI	CTAG	2 cut(s)	15, 440
BisI	GCNGC	1 cut(s)	471
BlsI	GCNGC	1 cut(s)	472
Bme1390I	CCNGG	1 cut(s)	152
BmiI	GGNNCC	2 cut(s)	70, 117
BmrFI	CCNGG	1 cut(s)	152
BmsI	GCATC	2 cut(s)	13, 519
BpuEI	CTTGAG	2 cut(s)	153, 330
BsaJI	CCNNGG	1 cut(s)	151
Bse1I	ACTGG	2 cut(s)	287, 360
Bse3DI	GCAATG	2 cut(s)	13, 438
BseBI	CCWGG	1 cut(s)	152
BseDI	CCNNGG	1 cut(s)	151
BseGI	GGATG	1 cut(s)	315
BseMI	GCAATG	2 cut(s)	13, 438
BseMII	CTCAG	2 cut(s)	103, 222
BseNI	ACTGG	2 cut(s)	287, 360
BseRI	GAGGAG	1 cut(s)	305
BseXI	GCAGC	1 cut(s)	482
BshFI	GGCC	1 cut(s)	573
BsiHKAI	GWGCWC	1 cut(s)	568
BslFI	GGGAC	1 cut(s)	117
BsmFI	GGGAC	1 cut(s)	117
BsmI	GAATGC	1 cut(s)	504
BsnI	GGCC	1 cut(s)	573
Bsp1286I	GDGCHC	1 cut(s)	568
Bsp143I	GATC	2 cut(s)	370, 549
BspANI	GGCC	1 cut(s)	573
BspCNI	CTCAG	2 cut(s)	102, 221
BspLI	GGNNCC	2 cut(s)	70, 117
BspPI	GGATC	2 cut(s)	378, 544
BsrDI	GCAATG	2 cut(s)	13, 438
BsrI	ACTGG	2 cut(s)	287, 360
BssECI	CCNNGG	1 cut(s)	151
BssMI	GATC	2 cut(s)	370, 549
Bst2UI	CCWGG	1 cut(s)	152
Bst4CI	ACNGT	2 cut(s)	138, 591
BstDEI	CTNAG	3 cut(s)	89, 208, 544
BstF5I	GGATG	1 cut(s)	315
BstKTI	GATC	2 cut(s)	373, 552
BstMBI	GATC	2 cut(s)	370, 549
BstMWI	GCNNNNNNNGC	1 cut(s)	476
BstNI	CCWGG	1 cut(s)	152
BstSCI	CCNGG	1 cut(s)	150
BstV1I	GCAGC	1 cut(s)	482
BstX2I	RGATCY	1 cut(s)	549
BstYI	RGATCY	1 cut(s)	549
BsuRI	GGCC	1 cut(s)	573
BtgZI	GCGATG	1 cut(s)	41
BtsCI	GGATG	1 cut(s)	315
CseI	GACGC	1 cut(s)	233
Csp6I	GTAC	2 cut(s)	188, 286
CviAII	CATG	1 cut(s)	110
CviJI	RGCY	6 cut(s)	41, 150, 229, 265, 522, 573
CviKI_1	RGCY	6 cut(s)	41, 150, 229, 265, 522, 573
CviQI	GTAC	2 cut(s)	188, 286
DdeI	CTNAG	3 cut(s)	89, 208, 544
DpnI	GATC	2 cut(s)	372, 551
DpnII	GATC	2 cut(s)	370, 549
EaeI	YGGCCR	1 cut(s)	571
Eco32I	GATATC	1 cut(s)	384
EcoRII	CCWGG	1 cut(s)	150
EcoRV	GATATC	1 cut(s)	384
FaeI	CATG	1 cut(s)	113
FaiI	YATR	4 cut(s)	21, 111, 147, 541
FaqI	GGGAC	1 cut(s)	117
FatI	CATG	1 cut(s)	109
Fnu4HI	GCNGC	1 cut(s)	471
FokI	GGATG	1 cut(s)	322
Fsp4HI	GCNGC	1 cut(s)	471
FspBI	CTAG	2 cut(s)	15, 440
GluI	GCNGC	1 cut(s)	471
HaeIII	GGCC	1 cut(s)	573
HgaI	GACGC	1 cut(s)	233
Hin1II	CATG	1 cut(s)	113
HinfI	GANTC	4 cut(s)	85, 156, 254, 446
HphI	GGTGA	1 cut(s)	229
Hpy188I	TCNGA	3 cut(s)	92, 388, 451
Hpy188III	TCNNGA	1 cut(s)	170
HpyCH4III	ACNGT	2 cut(s)	138, 591
HpyCH4V	TGCA	1 cut(s)	502
HpyF10VI	GCNNNNNNNGC	1 cut(s)	476
HpyF3I	CTNAG	3 cut(s)	89, 208, 544
Hsp92II	CATG	1 cut(s)	113
Kzo9I	GATC	2 cut(s)	370, 549
LmnI	GCTCC	1 cut(s)	292
LpnPI	CCDG	8 cut(s)	137, 164, 254, 268, 282, 341, 341, 432
Lsp1109I	GCAGC	1 cut(s)	482
LweI	GCATC	2 cut(s)	13, 519
MaeI	CTAG	2 cut(s)	15, 440
MaeIII	GTNAC	3 cut(s)	197, 211, 273
MalI	GATC	2 cut(s)	372, 551
MboI	GATC	2 cut(s)	370, 549
MboII	GAAGA	4 cut(s)	497, 500, 503, 527
MflI	RGATCY	1 cut(s)	549
MhlI	GDGCHC	1 cut(s)	568
MlsI	TGGCCA	1 cut(s)	573
MluCI	AATT	5 cut(s)	51, 222, 333, 389, 536
MluNI	TGGCCA	1 cut(s)	573
MlyI	GAGTC	1 cut(s)	455
MmeI	TCCRAC	1 cut(s)	387
MnlI	CCTC	6 cut(s)	31, 94, 106, 283, 469, 571
Mox20I	TGGCCA	1 cut(s)	573
MscI	TGGCCA	1 cut(s)	573
MseI	TTAA	3 cut(s)	54, 129, 225
Msp20I	TGGCCA	1 cut(s)	573
MspR9I	CCNGG	1 cut(s)	152
Mva1269I	GAATGC	1 cut(s)	504
MvaI	CCWGG	1 cut(s)	152
MwoI	GCNNNNNNNGC	1 cut(s)	476
NdeII	GATC	2 cut(s)	370, 549
NlaIII	CATG	1 cut(s)	113
NlaIV	GGNNCC	2 cut(s)	70, 117
PctI	GAATGC	1 cut(s)	504
PfeI	GAWTC	3 cut(s)	85, 156, 254
PkrI	GCNGC	1 cut(s)	472
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
PshBI	ATTAAT	1 cut(s)	54
Psp6I	CCWGG	1 cut(s)	150
PspGI	CCWGG	1 cut(s)	150
PspN4I	GGNNCC	2 cut(s)	70, 117
PsuI	RGATCY	1 cut(s)	549
RsaI	GTAC	2 cut(s)	189, 287
RsaNI	GTAC	2 cut(s)	188, 286
SaqAI	TTAA	3 cut(s)	54, 129, 225
SatI	GCNGC	1 cut(s)	471
Sau3AI	GATC	2 cut(s)	370, 549
SchI	GAGTC	1 cut(s)	455
ScrFI	CCNGG	1 cut(s)	152
SduI	GDGCHC	1 cut(s)	568
SetI	ASST	6 cut(s)	20, 117, 189, 366, 464, 582
SfaNI	GCATC	2 cut(s)	13, 519
SmlI	CTYRAG	2 cut(s)	168, 345
SmoI	CTYRAG	2 cut(s)	168, 345
Sse9I	AATT	5 cut(s)	51, 222, 333, 389, 536
SspMI	CTAG	2 cut(s)	15, 440
StyD4I	CCNGG	1 cut(s)	150
TaaI	ACNGT	2 cut(s)	138, 591
TaqI	TCGA	2 cut(s)	99, 483
TasI	AATT	5 cut(s)	51, 222, 333, 389, 536
TfiI	GAWTC	3 cut(s)	85, 156, 254
Tru1I	TTAA	3 cut(s)	54, 129, 225
Tru9I	TTAA	3 cut(s)	54, 129, 225
TseI	GCWGC	1 cut(s)	470
TspDTI	ATGAA	2 cut(s)	75, 449
VspI	ATTAAT	1 cut(s)	54
XspI	CTAG	2 cut(s)	15, 440

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