AT2G23820

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0011001
Physical Location & Seq
Forward (+)
10140383 .. 10142938
2556 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G23820.1

Sequence Viewer

Length: 738 bp
ATGAAGAATGTGAATCGAGTCTTCTTCTGCAAATCACTATCTCTCGTCTTCCTCGTTCCTTCTTTCACTCGTTCTCATATCCGATTTACTTACTCCGCCGCCGGTGCTTCTTCTCCTAATCGAGCTATTCACTGCATGGCTTCCGATTCCCCTCAATCCGGAGATGGTTCCGTCTCTTCTCCTCCTAATGTCGCGGCTGTTCCCTCTTCTTCTTCTTCTTCGTCCGCTTCTTCCGCCATTGATTTCCTCTCTCTCTGTACTCGTCTCAAGACAACTCCAAGAGCTGGATGGATTAAGAGAGATGTGAAAGATCCAGAATCTATAGCGGATCACATGTATCGGATGGGTCTTATGGCTCTAATTTCTTCAGATATCCCCGGTGTTAACAGAGACAAATGCATGAAAATGGCGATTGTTCATGATATTGCAGAAGCCATTGTAGGAGACATTACACCTTCTTGTGGGATATCTAAAGAAGAGAAAAACCGAAGAGAAAGCGAAGCACTTGAGCACATGTGCAAACTCTTGGGTGGAGGCGAAAGAGCAAAAGAAATCGCTGAGCTTTGGAGAGAATACGAAGAGAACTCTTCACCTGAAGCCAAAGTTGTTAAAGATTTCGATAAAGTTGAGCTGATACTACAAGCTTTGGAATATGAACAAGATCAAGGGAAAGATCTAGAAGAGTTTTTCCAATCAACAGCAGGTAATTTTTGTTGTATGTCATTATACTCTAAATAG
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
HD_3

Protein Analysis

245

Amino Acids

26.94

Weight (kDa)

5.8

Isoelectric Point (pI)

61.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YfbR-like PF12917 82 - 229 2.2e-06 5'-deoxynucleotidase YfbR-like
HD_3 PF13023 87 - 232 6.9e-48 HD domain
HD PF01966 109 - 210 1.6e-11 HD domain
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: OG0011001)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G23820 AT2G23820
fragaria_vesca FvH4_4g08640 FvH4_4g08640
malus_domestica MD13G1274800.v1.1
prunus_persica Prupe.1G099200_v2.0.a1 Prupe.1G099200_v2.0.a1
pyrus_communis pycom13g28700
rosa_chinensis RchiOBHm_Chr4g0405131
rosa_laevigata RLG00000008870
rosa_multiflora Rmu_sc0002480.1_g000031 Rmu_ssc0000255.1_g000040
rosa_roxburghii Rroxscaffold_5G00349360
rosa_rugosa Rorug04G0053800 Rorug04G0053900
rosa_samantha Rh4AG129100 Rh4BG122400 Rh4CG136200 Rh4DG122600
rosa_wichuraiana Rw4G010420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 692
AccB7I CCANNNNNTGG 1 cut(s) 284
AccII CGCG 1 cut(s) 194
AccIII TCCGGA 1 cut(s) 158
AciI CCGC 6 cut(s) 96, 99, 194, 225, 234, 326
AclWI GGATC 2 cut(s) 305, 336
AcuI CTGAAG 2 cut(s) 351, 615
AfaI GTAC 1 cut(s) 259
AfiI CCNNNNNNNGG 3 cut(s) 158, 284, 461
AflIII ACRYGT 2 cut(s) 333, 513
AluBI AGCT 5 cut(s) 125, 284, 562, 631, 644
AluI AGCT 5 cut(s) 125, 284, 562, 631, 644
Alw21I GWGCWC 1 cut(s) 513
Alw26I GTCTC 4 cut(s) 178, 269, 384, 438
AlwI GGATC 2 cut(s) 305, 336
Aor13HI TCCGGA 1 cut(s) 158
AsuC2I CCSGG 1 cut(s) 378
AsuHPI GGTGA 1 cut(s) 582
BbsI GAAGAC 2 cut(s) 13, 40
Bbv12I GWGCWC 1 cut(s) 513
BccI CCATC 3 cut(s) 158, 282, 337
BcnI CCSGG 1 cut(s) 378
BcoDI GTCTC 4 cut(s) 178, 269, 384, 438
BfaI CTAG 1 cut(s) 677
BfmI CTRYAG 1 cut(s) 321
BfuAI ACCTGC 1 cut(s) 692
BglII AGATCT 1 cut(s) 673
BisI GCNGC 2 cut(s) 99, 195
BlpI GCTNAGC 1 cut(s) 558
BlsI GCNGC 2 cut(s) 100, 196
Bme1390I CCNGG 1 cut(s) 378
BmiI GGNNCC 1 cut(s) 169
BmrFI CCNGG 1 cut(s) 378
BpiI GAAGAC 2 cut(s) 13, 40
Bpu1102I GCTNAGC 1 cut(s) 558
BpuEI CTTGAG 2 cut(s) 251, 527
BpuMI CCSGG 1 cut(s) 378
BsaJI CCNNGG 1 cut(s) 376
BsaWI WCCGGW 1 cut(s) 158
Bsc4I CCNNNNNNNGG 3 cut(s) 158, 284, 461
Bse118I RCCGGY 1 cut(s) 101
BseAI TCCGGA 1 cut(s) 158
BseDI CCNNGG 1 cut(s) 376
BseGI GGATG 2 cut(s) 293, 348
BseLI CCNNNNNNNGG 3 cut(s) 158, 284, 461
BseMII CTCAG 1 cut(s) 549
BseRI GAGGAG 1 cut(s) 171
Bsh1236I CGCG 1 cut(s) 194
BsiHKAI GWGCWC 1 cut(s) 513
BsiSI CCGG 3 cut(s) 102, 159, 378
BslI CCNNNNNNNGG 3 cut(s) 158, 284, 461
BsmAI GTCTC 4 cut(s) 178, 269, 384, 438
BsmBI CGTCTC 2 cut(s) 178, 269
Bsp1286I GDGCHC 1 cut(s) 513
Bsp13I TCCGGA 1 cut(s) 158
Bsp143I GATC 4 cut(s) 310, 328, 661, 673
Bsp1720I GCTNAGC 1 cut(s) 558
BspACI CCGC 6 cut(s) 96, 99, 194, 225, 234, 326
BspCNI CTCAG 1 cut(s) 550
BspEI TCCGGA 1 cut(s) 158
BspFNI CGCG 1 cut(s) 194
BspHI TCATGA 1 cut(s) 418
BspLI GGNNCC 1 cut(s) 169
BspMI ACCTGC 1 cut(s) 692
BspPI GGATC 2 cut(s) 305, 336
BsrFI RCCGGY 1 cut(s) 101
BssAI RCCGGY 1 cut(s) 101
BssECI CCNNGG 1 cut(s) 376
BssMI GATC 4 cut(s) 310, 328, 661, 673
Bst6I CTCTTC 7 cut(s) 181, 211, 471, 484, 573, 592, 675
BstDEI CTNAG 1 cut(s) 558
BstF5I GGATG 2 cut(s) 293, 348
BstFNI CGCG 1 cut(s) 194
BstKTI GATC 4 cut(s) 313, 331, 664, 676
BstMAI GTCTC 4 cut(s) 178, 269, 384, 438
BstMBI GATC 4 cut(s) 310, 328, 661, 673
BstMWI GCNNNNNNNGC 2 cut(s) 104, 233
BstNSI RCATGY 2 cut(s) 337, 517
BstSCI CCNGG 1 cut(s) 376
BstSFI CTRYAG 1 cut(s) 321
BstUI CGCG 1 cut(s) 194
BstV2I GAAGAC 2 cut(s) 13, 40
BstX2I RGATCY 2 cut(s) 310, 673
BstYI RGATCY 2 cut(s) 310, 673
BtsCI GGATG 2 cut(s) 293, 348
BtsI GCAGTG 1 cut(s) 130
BtsIMutI CAGTG 1 cut(s) 130
BveI ACCTGC 1 cut(s) 692
CciI TCATGA 1 cut(s) 418
Cfr10I RCCGGY 1 cut(s) 101
Csp6I GTAC 1 cut(s) 258
CviAII CATG 5 cut(s) 136, 334, 400, 419, 514
CviQI GTAC 1 cut(s) 258
DdeI CTNAG 1 cut(s) 558
DpnI GATC 4 cut(s) 312, 330, 663, 675
DpnII GATC 4 cut(s) 310, 328, 661, 673
Eam1104I CTCTTC 7 cut(s) 181, 211, 471, 484, 573, 592, 675
EarI CTCTTC 7 cut(s) 181, 211, 471, 484, 573, 592, 675
EciI GGCGGA 2 cut(s) 85, 223
Eco32I GATATC 2 cut(s) 373, 468
Eco57I CTGAAG 2 cut(s) 351, 615
EcoRV GATATC 2 cut(s) 373, 468
EcoT22I ATGCAT 1 cut(s) 401
Esp3I CGTCTC 2 cut(s) 178, 269
FaeI CATG 5 cut(s) 139, 337, 403, 422, 517
FatI CATG 5 cut(s) 135, 333, 399, 418, 513
Fnu4HI GCNGC 2 cut(s) 99, 195
FokI GGATG 2 cut(s) 300, 355
Fsp4HI GCNGC 2 cut(s) 99, 195
FspBI CTAG 1 cut(s) 677
GluI GCNGC 2 cut(s) 99, 195
HapII CCGG 3 cut(s) 102, 159, 378
Hin1II CATG 5 cut(s) 139, 337, 403, 422, 517
HincII GTYRAC 1 cut(s) 385
HindII GTYRAC 1 cut(s) 385
HindIII AAGCTT 1 cut(s) 642
HinfI GANTC 4 cut(s) 13, 18, 146, 317
HpaI GTTAAC 1 cut(s) 385
HpaII CCGG 3 cut(s) 102, 159, 378
HphI GGTGA 1 cut(s) 582
Hpy166II GTNNAC 1 cut(s) 385
Hpy188I TCNGA 4 cut(s) 83, 145, 342, 370
Hpy188III TCNNGA 5 cut(s) 159, 268, 314, 419, 677
Hpy8I GTNNAC 1 cut(s) 385
HpyAV CCTTC 2 cut(s) 69, 465
HpyCH4V TGCA 5 cut(s) 30, 135, 399, 428, 519
HpyF10VI GCNNNNNNNGC 2 cut(s) 104, 233
HpyF3I CTNAG 1 cut(s) 558
Hsp92II CATG 5 cut(s) 139, 337, 403, 422, 517
Kpn2I TCCGGA 1 cut(s) 158
KspAI GTTAAC 1 cut(s) 385
Kzo9I GATC 4 cut(s) 310, 328, 661, 673
LpnPI CCDG 7 cut(s) 115, 172, 270, 327, 391, 606, 687
MaeI CTAG 1 cut(s) 677
MalI GATC 4 cut(s) 312, 330, 663, 675
MboI GATC 4 cut(s) 310, 328, 661, 673
MflI RGATCY 2 cut(s) 310, 673
MhlI GDGCHC 1 cut(s) 513
MluCI AATT 2 cut(s) 360, 706
MlyI GAGTC 1 cut(s) 27
MnlI CCTC 6 cut(s) 62, 162, 192, 214, 257, 527
Mph1103I ATGCAT 1 cut(s) 401
MroI TCCGGA 1 cut(s) 158
MseI TTAA 3 cut(s) 294, 384, 609
MslI CAYNNNNRTG 1 cut(s) 404
MspI CCGG 3 cut(s) 102, 159, 378
MspR9I CCNGG 1 cut(s) 378
MvnI CGCG 1 cut(s) 194
MwoI GCNNNNNNNGC 2 cut(s) 104, 233
NciI CCSGG 1 cut(s) 378
NdeII GATC 4 cut(s) 310, 328, 661, 673
NlaIII CATG 5 cut(s) 139, 337, 403, 422, 517
NlaIV GGNNCC 1 cut(s) 169
NsiI ATGCAT 1 cut(s) 401
NspI RCATGY 2 cut(s) 337, 517
PagI TCATGA 1 cut(s) 418
PciI ACATGT 2 cut(s) 333, 513
PcsI WCGNNNNNNNCGW 1 cut(s) 51
PfeI GAWTC 3 cut(s) 13, 146, 317
PflMI CCANNNNNTGG 1 cut(s) 284
PkrI GCNGC 2 cut(s) 100, 196
PleI GAGTC 1 cut(s) 26
PpsI GAGTC 1 cut(s) 26
PscI ACATGT 2 cut(s) 333, 513
PspN4I GGNNCC 1 cut(s) 169
PsuI RGATCY 2 cut(s) 310, 673
RsaI GTAC 1 cut(s) 259
RsaNI GTAC 1 cut(s) 258
RseI CAYNNNNRTG 1 cut(s) 404
SaqAI TTAA 3 cut(s) 294, 384, 609
SatI GCNGC 2 cut(s) 99, 195
Sau3AI GATC 4 cut(s) 310, 328, 661, 673
SchI GAGTC 1 cut(s) 27
ScrFI CCNGG 1 cut(s) 378
SduI GDGCHC 1 cut(s) 513
SetI ASST 8 cut(s) 127, 286, 457, 564, 595, 633, 646, 706
SfcI CTRYAG 1 cut(s) 321
SgrAI CRCCGGYG 1 cut(s) 101
SmiMI CAYNNNNRTG 1 cut(s) 404
SmlI CTYRAG 2 cut(s) 266, 506
SmoI CTYRAG 2 cut(s) 266, 506
Sse9I AATT 2 cut(s) 360, 706
SsiI CCGC 6 cut(s) 96, 99, 194, 225, 234, 326
SspMI CTAG 1 cut(s) 677
StyD4I CCNGG 1 cut(s) 376
TaqI TCGA 3 cut(s) 16, 121, 618
TasI AATT 2 cut(s) 360, 706
TatI WGTACW 1 cut(s) 257
TauI GCSGC 2 cut(s) 101, 197
TfiI GAWTC 3 cut(s) 13, 146, 317
Tru1I TTAA 3 cut(s) 294, 384, 609
Tru9I TTAA 3 cut(s) 294, 384, 609
TscAI CASTG 1 cut(s) 137
TspDTI ATGAA 4 cut(s) 17, 407, 416, 669
TspGWI ACGGA 1 cut(s) 160
TspRI CASTG 1 cut(s) 137
Van91I CCANNNNNTGG 1 cut(s) 284
XbaI TCTAGA 1 cut(s) 676
XceI RCATGY 2 cut(s) 337, 517
XcmI CCANNNNNNNNNTGG 1 cut(s) 285
XspI CTAG 1 cut(s) 677
Zsp2I ATGCAT 1 cut(s) 401
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.