Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0001504

Physical Location & Seq

Genomic Coordinates Forward (+)

22196287 .. 22197492

Gene Structure 1206 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G54640.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGGCTGGTCGTGGAAAAACTCTTGGATCCGGTGGGGCGAAGAAAGCTACATCTCGGAGTAGCAAAGCCGGTCTTCAATTCCCGGTGGGTCGTATCGCTCGTTTCTTAAAAGCCGGTAAATACGCCGAACGTGTTGGTGCCGGTGCTCCGGTTTATCTCGCCGCCGTTCTCGAATATTTGGCCGCCGAGGTTCTTGAATTAGCTGGAAACGCAGCAAGAGACAACAAGAAGACACGTATTGTTCCTCGTCACATTCAGCTTGCGGTCAGAAACGATGAGGAGCTAAGCAAGCTTCTTGGAGATGTGACGATTGCTAATGGAGGAGTGATGCCTAACATCCACAATCTCCTTCTCCCTAAGAAGGCTGGTGCTTCAAAGCCTCAGGAAGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000785 GO:0000790 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005730 GO:0006325 GO:0006342 GO:0006355 GO:0006950 GO:0006996 GO:0008150 GO:0009292 GO:0009294 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016043 GO:0016458 GO:0019219 GO:0019222 GO:0030312 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0040029 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:0044764 GO:0045814 GO:0045892 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051276 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0070013 GO:0071840 GO:0071944 GO:0080090 GO:0097159 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

130

Amino Acids

13.66

Weight (kDa)

10.16

Isoelectric Point (pI)

43.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	13 - 90	2.9e-14	Core histone H2A/H2B/H3/H4 domain
Histone_H2A_C	PF16211	93 - 126	2.1e-18	C-terminus of histone H2A

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001504)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G51060 AT3G20670 AT4G27230 AT4G27230 AT5G54640
fragaria_vesca	FvH4_3g02940 FvH4_3g21650
malus_domestica	MD03G1213800.v1.1 MD03G1238000.v1.1 MD05G1335800.v1.1 MD10G1311400.v1.1
prunus_persica	Prupe.4G029500_v2.0.a1 Prupe.4G200700_v2.0.a1
pyrus_communis	pycom03g16220 pycom05g30720 pycom10g26260 pycom11g20100
rosa_chinensis	RchiOBHm_Chr1g0369691 RchiOBHm_Chr5g0004551 RchiOBHm_Chr5g0031581 RchiOBHm_Chr5g0037131 RchiOBHm_Chr5g0054271 RchiOBHm_Chr6g0246221 RchiOBHm_Chr6g0272401
rosa_laevigata	RLG00000031239 RLG00000033752
rosa_multiflora	Rmu_co8073734.1_g000001 Rmu_sc0002354.1_g000017 Rmu_sc0003758.1_g000011 Rmu_sc0004802.1_g000002 Rmu_sc0018628.1_g000004 Rmu_sc0042798.1_g000001
rosa_roxburghii	Rroxscaffold_1G00043850 Rroxscaffold_1G00070980
rosa_rugosa	Rorug04G0412200 Rorug05G0160900 Rorug05G0310600 Rorug05G0519700
rosa_samantha	Rh4BG384100 Rh4CG398800 Rh5BG039700 Rh5BG254500 Rh5CG043400 Rh5CG287000 Rh5DG039200 Rh5DG262900 Rh6AG354100 Rh6CG397000
rosa_wichuraiana	Rw4G018680 Rw5G003870 Rw5G023310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	137
AciI	CCGC	3 cut(s)	162, 183, 263
AclWI	GGATC	2 cut(s)	21, 34
AcoI	YGGCCR	1 cut(s)	180
AfiI	CCNNNNNNNGG	1 cut(s)	361
AflIII	ACRYGT	2 cut(s)	130, 233
AgsI	TTSAA	3 cut(s)	77, 197, 375
AluBI	AGCT	5 cut(s)	47, 203, 259, 283, 292
AluI	AGCT	5 cut(s)	47, 203, 259, 283, 292
Alw21I	GWGCWC	1 cut(s)	148
Alw26I	GTCTC	1 cut(s)	213
AlwI	GGATC	2 cut(s)	21, 34
AoxI	GGCC	1 cut(s)	180
ApeKI	GCWGC	1 cut(s)	212
AsuC2I	CCSGG	1 cut(s)	83
AxyI	CCTNAGG	1 cut(s)	381
BamHI	GGATCC	1 cut(s)	26
BanI	GGYRCC	1 cut(s)	137
BbsI	GAAGAC	2 cut(s)	65, 236
Bbv12I	GWGCWC	1 cut(s)	148
BbvI	GCAGC	1 cut(s)	224
BceAI	ACGGC	1 cut(s)	149
BcnI	CCSGG	1 cut(s)	83
BcoDI	GTCTC	1 cut(s)	213
BisI	GCNGC	3 cut(s)	162, 183, 213
BlpI	GCTNAGC	1 cut(s)	284
BlsI	GCNGC	3 cut(s)	163, 184, 214
Bme1390I	CCNGG	1 cut(s)	83
BmiI	GGNNCC	2 cut(s)	28, 139
BmrFI	CCNGG	1 cut(s)	83
BmsI	GCATC	1 cut(s)	318
BpiI	GAAGAC	2 cut(s)	65, 236
Bpu1102I	GCTNAGC	1 cut(s)	284
BpuMI	CCSGG	1 cut(s)	83
BsaAI	YACGTR	1 cut(s)	236
BsaJI	CCNNGG	1 cut(s)	186
BsaWI	WCCGGW	2 cut(s)	29, 148
Bsc4I	CCNNNNNNNGG	1 cut(s)	361
Bse118I	RCCGGY	3 cut(s)	68, 113, 140
Bse21I	CCTNAGG	1 cut(s)	381
BseDI	CCNNGG	1 cut(s)	186
BseGI	GGATG	1 cut(s)	336
BseLI	CCNNNNNNNGG	1 cut(s)	361
BseRI	GAGGAG	2 cut(s)	293, 336
BseXI	GCAGC	1 cut(s)	224
BshFI	GGCC	1 cut(s)	182
BshNI	GGYRCC	1 cut(s)	137
BsiHKAI	GWGCWC	1 cut(s)	148
BsiSI	CCGG	6 cut(s)	30, 69, 83, 114, 141, 149
BslI	CCNNNNNNNGG	1 cut(s)	361
BsmAI	GTCTC	1 cut(s)	213
BsnI	GGCC	1 cut(s)	182
Bsp1286I	GDGCHC	1 cut(s)	148
Bsp143I	GATC	1 cut(s)	26
Bsp1720I	GCTNAGC	1 cut(s)	284
BspACI	CCGC	3 cut(s)	162, 183, 263
BspANI	GGCC	1 cut(s)	182
BspLI	GGNNCC	2 cut(s)	28, 139
BspPI	GGATC	2 cut(s)	21, 34
BspT107I	GGYRCC	1 cut(s)	137
BsrFI	RCCGGY	3 cut(s)	68, 113, 140
BssAI	RCCGGY	3 cut(s)	68, 113, 140
BssECI	CCNNGG	1 cut(s)	186
BssMI	GATC	1 cut(s)	26
BstBAI	YACGTR	1 cut(s)	236
BstC8I	GCNNGC	2 cut(s)	261, 290
BstDEI	CTNAG	3 cut(s)	284, 357, 381
BstF5I	GGATG	1 cut(s)	336
BstKTI	GATC	1 cut(s)	29
BstMAI	GTCTC	1 cut(s)	213
BstMBI	GATC	1 cut(s)	26
BstMWI	GCNNNNNNNGC	3 cut(s)	44, 209, 289
BstSCI	CCNGG	1 cut(s)	81
BstV1I	GCAGC	1 cut(s)	224
BstV2I	GAAGAC	2 cut(s)	65, 236
BstX2I	RGATCY	1 cut(s)	26
BstYI	RGATCY	1 cut(s)	26
Bsu36I	CCTNAGG	1 cut(s)	381
BsuRI	GGCC	1 cut(s)	182
BtsCI	GGATG	1 cut(s)	336
Cac8I	GCNNGC	2 cut(s)	261, 290
Cfr10I	RCCGGY	3 cut(s)	68, 113, 140
DdeI	CTNAG	3 cut(s)	284, 357, 381
DpnI	GATC	1 cut(s)	28
DpnII	GATC	1 cut(s)	26
EaeI	YGGCCR	1 cut(s)	180
Eco81I	CCTNAGG	1 cut(s)	381
FalI	AAGNNNNNCTT	2 cut(s)	57, 89
Fnu4HI	GCNGC	3 cut(s)	162, 183, 213
FokI	GGATG	1 cut(s)	323
Fsp4HI	GCNGC	3 cut(s)	162, 183, 213
GluI	GCNGC	3 cut(s)	162, 183, 213
HaeIII	GGCC	1 cut(s)	182
HapII	CCGG	6 cut(s)	30, 69, 83, 114, 141, 149
HindIII	AAGCTT	1 cut(s)	290
HpaII	CCGG	6 cut(s)	30, 69, 83, 114, 141, 149
Hpy188I	TCNGA	2 cut(s)	57, 269
Hpy188III	TCNNGA	3 cut(s)	170, 194, 383
HpyAV	CCTTC	2 cut(s)	355, 359
HpyCH4IV	ACGT	2 cut(s)	130, 235
HpyF10VI	GCNNNNNNNGC	3 cut(s)	44, 209, 289
HpyF3I	CTNAG	3 cut(s)	284, 357, 381
HpySE526I	ACGT	2 cut(s)	130, 235
Kzo9I	GATC	1 cut(s)	26
LmnI	GCTCC	2 cut(s)	151, 280
LpnPI	CCDG	9 cut(s)	43, 82, 96, 127, 154, 162, 189, 351, 368
Lsp1109I	GCAGC	1 cut(s)	224
LweI	GCATC	1 cut(s)	318
MaeII	ACGT	2 cut(s)	130, 235
MaeIII	GTNAC	2 cut(s)	248, 304
MalI	GATC	1 cut(s)	28
MboI	GATC	1 cut(s)	26
MboII	GAAGA	3 cut(s)	52, 65, 241
MflI	RGATCY	1 cut(s)	26
MhlI	GDGCHC	1 cut(s)	148
MluCI	AATT	2 cut(s)	77, 197
MnlI	CCTC	5 cut(s)	181, 255, 271, 314, 390
MseI	TTAA	1 cut(s)	107
MspI	CCGG	6 cut(s)	30, 69, 83, 114, 141, 149
MspR9I	CCNGG	1 cut(s)	83
MwoI	GCNNNNNNNGC	3 cut(s)	44, 209, 289
NciI	CCSGG	1 cut(s)	83
NdeII	GATC	1 cut(s)	26
NlaIV	GGNNCC	2 cut(s)	28, 139
NmeAIII	GCCGAG	1 cut(s)	211
NmuCI	GTSAC	2 cut(s)	248, 304
PcsI	WCGNNNNNNNCGW	1 cut(s)	97
PkrI	GCNGC	3 cut(s)	163, 184, 214
Ppu21I	YACGTR	1 cut(s)	236
PspN4I	GGNNCC	2 cut(s)	28, 139
PsuI	RGATCY	1 cut(s)	26
SaqAI	TTAA	1 cut(s)	107
SatI	GCNGC	3 cut(s)	162, 183, 213
Sau3AI	GATC	1 cut(s)	26
ScrFI	CCNGG	1 cut(s)	83
SduI	GDGCHC	1 cut(s)	148
SetI	ASST	8 cut(s)	49, 133, 192, 205, 238, 261, 285, 294
SfaNI	GCATC	1 cut(s)	318
Sse9I	AATT	2 cut(s)	77, 197
SsiI	CCGC	3 cut(s)	162, 183, 263
SspI	AATATT	1 cut(s)	176
StyD4I	CCNGG	1 cut(s)	81
TaiI	ACGT	2 cut(s)	133, 238
TaqI	TCGA	1 cut(s)	171
TasI	AATT	2 cut(s)	77, 197
TauI	GCSGC	2 cut(s)	164, 185
Tru1I	TTAA	1 cut(s)	107
Tru9I	TTAA	1 cut(s)	107
TseFI	GTSAC	2 cut(s)	248, 304
TseI	GCWGC	1 cut(s)	212
Tsp45I	GTSAC	2 cut(s)	248, 304

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