AT1G54400

Belongs to the small heat shock protein (HSP20) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0012033
Physical Location & Seq
Forward (+)
20307572 .. 20308846
1275 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G54400.1

Sequence Viewer

Length: 552 bp
ATGGCAGTAAATATGGAAGGTTCACAGACACACTTTTACGATGAAATCGAACCCTTTTGTCGATGGAGAAGAACGGAAGACATCGACATTCTTGAGCTACATCTTCCTTCAGGTTTGAAGAAAGAGCATCTTAAAATACAGATCAACAACAGTGGTGTACTAACAATAACAGGAGGCTGTCCAGTGGACCAAACCAAAACAATCAGGTTCATGAAAGAAACAAAAGTTGCAAAAGATTGTAAAAGAAATGAGATTCGTGCAAAGTTCTCTAAGGGAGTTTTGTATGTGACGATGCCAAAGACAATCCCTATAGCAGCTGGTCTCTCAGTTTCTTTGAAGGGAGCCACGCCACAACATCAAACCCCTAAAACAGATGAGGGTATGAGAAATGTTGCAAACTGTTCAAGCGAATTTTATAGTAAGTTTGGCTCATTGAAGCAAAGACTATGGAGGAAGACAGTAGTTGAGGGTGTGGCCGCTGTGGTGGTTGTGGCTGCTGCAGTTTTAGGAGTTGTTAAAGCGTACCAATATTTTATGGCATCACCTGTGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04141 map04141
Pfam Domains
Protein Families
HSP20

Protein Analysis

183

Amino Acids

20.36

Weight (kDa)

9.47

Isoelectric Point (pI)

44.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HSP20 PF00011 37 - 104 2.3e-07 Hsp20/alpha crystallin family
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: OG0012033)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G54400
fragaria_vesca FvH4_7g04830
malus_domestica MD12G1007500.v1.1 MD12G1007600.v1.1 MD14G1004900.v1.1
prunus_persica Prupe.7G008300_v2.0.a1
pyrus_communis pycom12g00550 pycom12g00560 pycom14g00330
rosa_chinensis RchiOBHm_Chr3g0496561
rosa_laevigata RLG00000022518
rosa_multiflora Rmu_sc0004122.1_g000006
rosa_roxburghii Rroxscaffold_6G00388910
rosa_rugosa Rorug03G0284600
rosa_samantha Rh3AG329800 Rh3BG365500 Rh3CG362800 Rh3DG365800
rosa_wichuraiana Rw3G028890

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 477
AcoI YGGCCR 1 cut(s) 474
AcsI RAATTY 1 cut(s) 410
AcuI CTGAAG 1 cut(s) 93
AfaI GTAC 2 cut(s) 159, 524
AgsI TTSAA 4 cut(s) 118, 337, 405, 436
AleI CACNNNNGTG 1 cut(s) 547
AluBI AGCT 2 cut(s) 97, 317
AluI AGCT 2 cut(s) 97, 317
Alw26I GTCTC 1 cut(s) 326
AoxI GGCC 1 cut(s) 474
ApeKI GCWGC 3 cut(s) 314, 494, 497
ApoI RAATTY 1 cut(s) 410
AspS9I GGNCC 1 cut(s) 187
AsuHPI GGTGA 1 cut(s) 534
AvaII GGWCC 1 cut(s) 187
BbsI GAAGAC 2 cut(s) 84, 461
BbvI GCAGC 3 cut(s) 326, 481, 484
BccI CCATC 1 cut(s) 57
BcoDI GTCTC 1 cut(s) 326
BfmI CTRYAG 2 cut(s) 309, 498
BisI GCNGC 4 cut(s) 315, 477, 495, 498
BlsI GCNGC 4 cut(s) 316, 478, 496, 499
Bme18I GGWCC 1 cut(s) 187
BmgT120I GGNCC 1 cut(s) 187
BmiI GGNNCC 1 cut(s) 343
BmsI GCATC 3 cut(s) 136, 282, 548
BpiI GAAGAC 2 cut(s) 84, 461
BpuEI CTTGAG 1 cut(s) 113
BsaI GGTCTC 1 cut(s) 326
Bse1I ACTGG 1 cut(s) 182
BseMII CTCAG 1 cut(s) 339
BseNI ACTGG 1 cut(s) 182
BseXI GCAGC 3 cut(s) 326, 481, 484
BshFI GGCC 1 cut(s) 476
BsmAI GTCTC 1 cut(s) 326
BsnI GGCC 1 cut(s) 476
Bso31I GGTCTC 1 cut(s) 326
Bsp143I GATC 1 cut(s) 141
BspACI CCGC 1 cut(s) 477
BspANI GGCC 1 cut(s) 476
BspCNI CTCAG 1 cut(s) 338
BspHI TCATGA 1 cut(s) 210
BspLI GGNNCC 1 cut(s) 343
BspMAI CTGCAG 1 cut(s) 502
BspTNI GGTCTC 1 cut(s) 326
BsrI ACTGG 1 cut(s) 182
BssMI GATC 1 cut(s) 141
Bst4CI ACNGT 3 cut(s) 152, 401, 460
BstDEI CTNAG 2 cut(s) 270, 325
BstKTI GATC 1 cut(s) 144
BstMAI GTCTC 1 cut(s) 326
BstMBI GATC 1 cut(s) 141
BstSFI CTRYAG 2 cut(s) 309, 498
BstV1I GCAGC 3 cut(s) 326, 481, 484
BstV2I GAAGAC 2 cut(s) 84, 461
BsuRI GGCC 1 cut(s) 476
BtsIMutI CAGTG 2 cut(s) 157, 189
CciI TCATGA 1 cut(s) 210
Cfr13I GGNCC 1 cut(s) 187
Csp6I GTAC 2 cut(s) 158, 523
CspCI CAANNNNNGTGG 2 cut(s) 133, 168
CviAII CATG 1 cut(s) 211
CviJI RGCY 7 cut(s) 97, 177, 317, 344, 429, 476, 494
CviKI_1 RGCY 7 cut(s) 97, 177, 317, 344, 429, 476, 494
CviQI GTAC 2 cut(s) 158, 523
DdeI CTNAG 2 cut(s) 270, 325
DpnI GATC 1 cut(s) 143
DpnII GATC 1 cut(s) 141
EaeI YGGCCR 1 cut(s) 474
Eco31I GGTCTC 1 cut(s) 326
Eco47I GGWCC 1 cut(s) 187
Eco57I CTGAAG 1 cut(s) 93
FaeI CATG 1 cut(s) 214
FaiI YATR 8 cut(s) 14, 212, 285, 311, 383, 417, 448, 536
FalI AAGNNNNNCTT 2 cut(s) 114, 146
FatI CATG 1 cut(s) 210
Fnu4HI GCNGC 4 cut(s) 315, 477, 495, 498
Fsp4HI GCNGC 4 cut(s) 315, 477, 495, 498
GluI GCNGC 4 cut(s) 315, 477, 495, 498
HaeIII GGCC 1 cut(s) 476
Hin1II CATG 1 cut(s) 214
HinfI GANTC 1 cut(s) 253
HphI GGTGA 1 cut(s) 534
Hpy166II GTNNAC 3 cut(s) 23, 158, 187
Hpy188III TCNNGA 2 cut(s) 92, 211
Hpy8I GTNNAC 3 cut(s) 23, 158, 187
HpyAV CCTTC 3 cut(s) 11, 117, 331
HpyCH4III ACNGT 3 cut(s) 152, 401, 460
HpyCH4V TGCA 4 cut(s) 230, 260, 395, 500
HpyF3I CTNAG 2 cut(s) 270, 325
Hsp92II CATG 1 cut(s) 214
Kzo9I GATC 1 cut(s) 141
LmnI GCTCC 1 cut(s) 341
LpnPI CCDG 5 cut(s) 96, 156, 190, 195, 303
Lsp1109I GCAGC 3 cut(s) 326, 481, 484
LweI GCATC 3 cut(s) 136, 282, 548
MaeIII GTNAC 1 cut(s) 286
MalI GATC 1 cut(s) 143
MboI GATC 1 cut(s) 141
MboII GAAGA 5 cut(s) 81, 89, 95, 130, 466
MluCI AATT 1 cut(s) 410
MnlI CCTC 4 cut(s) 167, 370, 444, 460
MseI TTAA 2 cut(s) 132, 516
MslI CAYNNNNRTG 1 cut(s) 547
MspA1I CMGCKG 2 cut(s) 317, 479
NdeII GATC 1 cut(s) 141
NlaIII CATG 1 cut(s) 214
NlaIV GGNNCC 1 cut(s) 343
NmuCI GTSAC 1 cut(s) 286
OliI CACNNNNGTG 1 cut(s) 547
PagI TCATGA 1 cut(s) 210
PcsI WCGNNNNNNNCGW 1 cut(s) 45
PfeI GAWTC 1 cut(s) 253
PkrI GCNGC 4 cut(s) 316, 478, 496, 499
PspN4I GGNNCC 1 cut(s) 343
PspPI GGNCC 1 cut(s) 187
PstI CTGCAG 1 cut(s) 502
PvuII CAGCTG 1 cut(s) 317
RsaI GTAC 2 cut(s) 159, 524
RsaNI GTAC 2 cut(s) 158, 523
RseI CAYNNNNRTG 1 cut(s) 547
SaqAI TTAA 2 cut(s) 132, 516
SatI GCNGC 4 cut(s) 315, 477, 495, 498
Sau3AI GATC 1 cut(s) 141
Sau96I GGNCC 1 cut(s) 187
SetI ASST 6 cut(s) 22, 99, 115, 209, 319, 547
SfaNI GCATC 3 cut(s) 136, 282, 548
SfcI CTRYAG 2 cut(s) 309, 498
SinI GGWCC 1 cut(s) 187
SmiMI CAYNNNNRTG 1 cut(s) 547
SmlI CTYRAG 1 cut(s) 92
SmoI CTYRAG 1 cut(s) 92
Sse9I AATT 1 cut(s) 410
SsiI CCGC 1 cut(s) 477
SspI AATATT 1 cut(s) 530
TaaI ACNGT 3 cut(s) 152, 401, 460
TaqI TCGA 3 cut(s) 48, 61, 84
TasI AATT 1 cut(s) 410
TatI WGTACW 1 cut(s) 157
TauI GCSGC 1 cut(s) 479
TfiI GAWTC 1 cut(s) 253
Tru1I TTAA 2 cut(s) 132, 516
Tru9I TTAA 2 cut(s) 132, 516
TscAI CASTG 2 cut(s) 157, 189
TseFI GTSAC 1 cut(s) 286
TseI GCWGC 3 cut(s) 314, 494, 497
Tsp45I GTSAC 1 cut(s) 286
TspDTI ATGAA 3 cut(s) 57, 199, 227
TspGWI ACGGA 1 cut(s) 89
TspRI CASTG 2 cut(s) 157, 189
VpaK11BI GGWCC 1 cut(s) 187
XapI RAATTY 1 cut(s) 410
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.