AT2G13840

DNA polymerase alpha chain like domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0008292
Physical Location & Seq
Reverse (-)
5788445 .. 5791128
2684 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G13840.1

Sequence Viewer

Length: 1305 bp
ATGGCTGACGATAAGAAGAAGCGGAACAAGAAGAAGAAGCGTAGTACTGGTAACAAGAGGAAGATGACCACTGAGCAATCAGAAGCCTTTAAGTCAATCACCGATTGGCTCATCTTAGGTTCTTCTCCATCTCTCTCCTCTTCCTCTGATGACTTTGCCGTCAACATCAATTCTGGTTCTCTAAGATGTGGAGAGAAAGTTGTGTTTGAGCTTCATTCTCATTCAAATCGCAGCGATGGGTTTCTATCACCTTCAAAGGTCGTGGAGAGGGCTTATAACAATGGGGTGAAAGTTCTTTCTTTAACGGATCATGATACTATGGCTGGTGTCCCGGAAGCAGTGGAAGCAGGACGTAGATTCGGTATCAAGATCATTCCGGGTATTGAGATCAGCACATTATTCGGTTTAAGAGACTCCGGGTCTGAGGAGCCAGTGCATATACTTGCGTATTATGGCACTTCCGGTCCAGCATTATATGATGAGTTGGAAGATTTCTTGGTGAAGATAAGAGATGGGCGTTTCGTTCGTGGGAGAGAAATGGTATTGAAATTGAATAAGCTAAAGATACCTTTAAAATGGGAGCATGTTACCAGGATTGCAGGCAAGGATGTTGCCCCGGGTAGGATGCATGTAGCCCGAGCGCTTCTTGAAGCAGGCTACGTGGAGAATTTGAGACAAGCTTTCACTAAATATTTACATGATGGTGGACCTGCTTATGCTACAGGGACTGAGCCTATGGCCGAGGAAGCAGTAAAACTTATATGCAAAACCGGTGGTGTAGCTGTGCTTGCACATCCGTGGGCGTTGAAGAATCATGTCGGTATTATTAGGAGATTGAAGGATGCTGGACTTCATGGGGTCGAGGTTTATAGGAGCGACGGCAAGTTAGAAGTGTTTAGCGAGTTGGCTGATACATACAATCTGCTAAAGCTAGGAGGATCAGATTATCATGGAAAAGGCGGACGCAATGAATCAGAATTGGGGAGTGTAAACCTTCCCGTGACGGCATTGCAGGACTTCTTGAACGTTGGACGTCCTATATGGTGTGAGGCCATTAAAGCAACCATGAGAGCATTCCTTGACCAACCATCAGATTCAAACCTCTCCAATATCTTAAGGTTCGATAAGGCAAGGATTCTGAAAGGAAATTCAGCTTGGTCCTGTGGTAAGGAGTTGATGGACCGATGTTTAGCGATTTGGTTGACCAGTGATGAGAGAAACAGCAATGACTTTGAGGCTCTCAGATTGAAGCTCTCTTTTGTACCAATCATGTCAAACGGAACATGTGTCACAGTTGGTCCTTAA
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
PHP

Protein Analysis

434

Amino Acids

47.84

Weight (kDa)

9.01

Isoelectric Point (pI)

41.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHP PF02811 70 - 146 5.3e-12 PHP 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 276
AasI GACNNNNNNGTC 1 cut(s) 158
AatII GACGTC 1 cut(s) 1036
Acc36I ACCTGC 1 cut(s) 718
AciI CCGC 2 cut(s) 22, 960
AclI AACGTT 1 cut(s) 1026
AclWI GGATC 2 cut(s) 315, 946
AcoI YGGCCR 1 cut(s) 738
AcsI RAATTY 2 cut(s) 667, 1147
AcyI GRCGYC 1 cut(s) 1033
AfaI GTAC 2 cut(s) 46, 1263
AfeI AGCGCT 1 cut(s) 642
AfiI CCNNNNNNNGG 1 cut(s) 621
AflII CTTAAG 1 cut(s) 1114
AflIII ACRYGT 1 cut(s) 1283
AgeI ACCGGT 1 cut(s) 770
AhdI GACNNNNNGTC 1 cut(s) 418
AjnI CCWGG 1 cut(s) 590
AjuI GAANNNNNNNTTGG 2 cut(s) 1138, 1170
AleI CACNNNNGTG 1 cut(s) 796
AluBI AGCT 7 cut(s) 211, 559, 680, 782, 931, 1154, 1252
AluI AGCT 7 cut(s) 211, 559, 680, 782, 931, 1154, 1252
Alw26I GTCTC 2 cut(s) 405, 667
AlwI GGATC 2 cut(s) 315, 946
AlwNI CAGNNNCTG 1 cut(s) 728
Ama87I CYCGRG 2 cut(s) 616, 636
Aor51HI AGCGCT 1 cut(s) 642
AoxI GGCC 2 cut(s) 738, 1050
ApeKI GCWGC 1 cut(s) 231
ApoI RAATTY 2 cut(s) 667, 1147
AsiGI ACCGGT 1 cut(s) 770
AspLEI GCGC 1 cut(s) 643
AspS9I GGNCC 5 cut(s) 464, 707, 1158, 1180, 1298
AsuC2I CCSGG 5 cut(s) 332, 378, 418, 617, 618
AsuHPI GGTGA 4 cut(s) 91, 240, 298, 511
AvaI CYCGRG 2 cut(s) 616, 636
AvaII GGWCC 5 cut(s) 464, 707, 1158, 1180, 1298
BbvI GCAGC 1 cut(s) 243
BccI CCATC 6 cut(s) 136, 230, 506, 695, 1096, 1171
BceAI ACGGC 3 cut(s) 143, 895, 1020
BcgI CGANNNNNNTGC 2 cut(s) 382, 416
BciT130I CCWGG 1 cut(s) 592
BcnI CCSGG 5 cut(s) 332, 378, 418, 617, 618
BcoDI GTCTC 2 cut(s) 405, 667
BfaI CTAG 1 cut(s) 932
BfmI CTRYAG 1 cut(s) 720
BfoI RGCGCY 1 cut(s) 644
BfrI CTTAAG 1 cut(s) 1114
BfuAI ACCTGC 1 cut(s) 718
BisI GCNGC 1 cut(s) 232
BlsI GCNGC 1 cut(s) 233
BmcAI AGTACT 1 cut(s) 46
Bme1390I CCNGG 6 cut(s) 332, 378, 418, 592, 617, 618
Bme18I GGWCC 5 cut(s) 464, 707, 1158, 1180, 1298
BmeRI GACNNNNNGTC 1 cut(s) 418
BmeT110I CYCGRG 2 cut(s) 616, 636
BmgT120I GGNCC 5 cut(s) 464, 707, 1158, 1180, 1298
BmiI GGNNCC 1 cut(s) 429
BmrFI CCNGG 6 cut(s) 332, 378, 418, 592, 617, 618
BmsI GCATC 2 cut(s) 615, 832
BpuMI CCSGG 5 cut(s) 332, 378, 418, 617, 618
BsaAI YACGTR 1 cut(s) 661
BsaHI GRCGYC 1 cut(s) 1033
BsaJI CCNNGG 4 cut(s) 615, 616, 741, 797
BsaWI WCCGGW 2 cut(s) 461, 770
BsaXI ACNNNNNCTCC 2 cut(s) 183, 213
Bsc4I CCNNNNNNNGG 1 cut(s) 621
Bse118I RCCGGY 1 cut(s) 770
Bse1I ACTGG 3 cut(s) 52, 431, 1206
Bse3DI GCAATG 3 cut(s) 973, 1007, 1231
BseBI CCWGG 1 cut(s) 592
BseDI CCNNGG 4 cut(s) 615, 616, 741, 797
BseGI GGATG 4 cut(s) 613, 630, 793, 847
BseLI CCNNNNNNNGG 1 cut(s) 621
BseMI GCAATG 3 cut(s) 973, 1007, 1231
BseMII CTCAG 4 cut(s) 63, 414, 720, 1255
BseNI ACTGG 3 cut(s) 52, 431, 1206
BseRI GAGGAG 2 cut(s) 127, 440
BseXI GCAGC 1 cut(s) 243
BshFI GGCC 2 cut(s) 740, 1052
BshTI ACCGGT 1 cut(s) 770
BsiHKCI CYCGRG 2 cut(s) 616, 636
BsiSI CCGG 6 cut(s) 332, 377, 417, 462, 617, 771
BslFI GGGAC 2 cut(s) 314, 739
BslI CCNNNNNNNGG 1 cut(s) 621
BsmAI GTCTC 2 cut(s) 405, 667
BsmFI GGGAC 2 cut(s) 314, 739
BsmI GAATGC 1 cut(s) 1073
BsnI GGCC 2 cut(s) 740, 1052
BsoBI CYCGRG 2 cut(s) 616, 636
Bsp143I GATC 4 cut(s) 307, 369, 387, 938
BspACI CCGC 2 cut(s) 22, 960
BspANI GGCC 2 cut(s) 740, 1052
BspCNI CTCAG 4 cut(s) 64, 415, 721, 1254
BspHI TCATGA 1 cut(s) 310
BspLI GGNNCC 1 cut(s) 429
BspMI ACCTGC 1 cut(s) 718
BspPI GGATC 2 cut(s) 315, 946
BspTI CTTAAG 1 cut(s) 1114
BsrDI GCAATG 3 cut(s) 973, 1007, 1231
BsrFI RCCGGY 1 cut(s) 770
BsrI ACTGG 3 cut(s) 52, 431, 1206
BssAI RCCGGY 1 cut(s) 770
BssECI CCNNGG 4 cut(s) 615, 616, 741, 797
BssMI GATC 4 cut(s) 307, 369, 387, 938
BssNI GRCGYC 1 cut(s) 1033
Bst2UI CCWGG 1 cut(s) 592
Bst4CI ACNGT 1 cut(s) 1294
Bst6I CTCTTC 1 cut(s) 145
BstACI GRCGYC 1 cut(s) 1033
BstAFI CTTAAG 1 cut(s) 1114
BstBAI YACGTR 1 cut(s) 661
BstC8I GCNNGC 3 cut(s) 601, 655, 789
BstDEI CTNAG 6 cut(s) 72, 115, 182, 423, 729, 1241
BstDSI CCRYGG 1 cut(s) 797
BstF5I GGATG 4 cut(s) 613, 630, 793, 847
BstH2I RGCGCY 1 cut(s) 644
BstHHI GCGC 1 cut(s) 643
BstKTI GATC 4 cut(s) 310, 372, 390, 941
BstMAI GTCTC 2 cut(s) 405, 667
BstMBI GATC 4 cut(s) 307, 369, 387, 938
BstMWI GCNNNNNNNGC 4 cut(s) 344, 746, 788, 1058
BstNI CCWGG 1 cut(s) 592
BstNSI RCATGY 3 cut(s) 587, 632, 1287
BstSCI CCNGG 6 cut(s) 330, 376, 416, 590, 615, 616
BstSFI CTRYAG 1 cut(s) 720
BstV1I GCAGC 1 cut(s) 243
BsuRI GGCC 2 cut(s) 740, 1052
BtgI CCRYGG 1 cut(s) 797
BtgZI GCGATG 1 cut(s) 249
BtsCI GGATG 4 cut(s) 613, 630, 793, 847
BtsI GCAGTG 1 cut(s) 345
BtsIMutI CAGTG 4 cut(s) 69, 345, 438, 1213
BveI ACCTGC 1 cut(s) 718
Cac8I GCNNGC 3 cut(s) 601, 655, 789
CaiI CAGNNNCTG 1 cut(s) 728
CciI TCATGA 1 cut(s) 310
CfoI GCGC 1 cut(s) 643
Cfr10I RCCGGY 1 cut(s) 770
Cfr13I GGNCC 5 cut(s) 464, 707, 1158, 1180, 1298
Cfr9I CCCGGG 1 cut(s) 616
CseI GACGC 1 cut(s) 972
Csp6I GTAC 2 cut(s) 45, 1262
CspAI ACCGGT 1 cut(s) 770
CspCI CAANNNNNGTGG 4 cut(s) 243, 278, 754, 789
CviQI GTAC 2 cut(s) 45, 1262
DdeI CTNAG 6 cut(s) 72, 115, 182, 423, 729, 1241
DpnI GATC 4 cut(s) 309, 371, 389, 940
DpnII GATC 4 cut(s) 307, 369, 387, 938
DraI TTTAAA 1 cut(s) 573
DrdI GACNNNNNNGTC 1 cut(s) 158
DriI GACNNNNNGTC 1 cut(s) 418
DseDI GACNNNNNNGTC 1 cut(s) 158
EaeI YGGCCR 1 cut(s) 738
Eam1104I CTCTTC 1 cut(s) 145
Eam1105I GACNNNNNGTC 1 cut(s) 418
EarI CTCTTC 1 cut(s) 145
EciI GGCGGA 1 cut(s) 975
Eco47I GGWCC 5 cut(s) 464, 707, 1158, 1180, 1298
Eco47III AGCGCT 1 cut(s) 642
Eco88I CYCGRG 2 cut(s) 616, 636
EcoRII CCWGG 1 cut(s) 590
EcoT22I ATGCAT 1 cut(s) 630
FaqI GGGAC 2 cut(s) 314, 739
Fnu4HI GCNGC 1 cut(s) 232
FokI GGATG 4 cut(s) 620, 637, 780, 854
Fsp4HI GCNGC 1 cut(s) 232
FspBI CTAG 1 cut(s) 932
GlaI GCGC 1 cut(s) 642
GluI GCNGC 1 cut(s) 232
HaeII RGCGCY 1 cut(s) 644
HaeIII GGCC 2 cut(s) 740, 1052
HapII CCGG 6 cut(s) 332, 377, 417, 462, 617, 771
HgaI GACGC 1 cut(s) 972
HhaI GCGC 1 cut(s) 643
Hin1I GRCGYC 1 cut(s) 1033
Hin6I GCGC 1 cut(s) 641
HinP1I GCGC 1 cut(s) 641
HincII GTYRAC 2 cut(s) 163, 1203
HindII GTYRAC 2 cut(s) 163, 1203
HindIII AAGCTT 1 cut(s) 678
HinfI GANTC 6 cut(s) 357, 413, 811, 971, 1094, 1135
HpaII CCGG 6 cut(s) 332, 377, 417, 462, 617, 771
HphI GGTGA 4 cut(s) 91, 240, 298, 511
Hpy166II GTNNAC 4 cut(s) 163, 707, 991, 1203
Hpy188I TCNGA 8 cut(s) 82, 148, 424, 943, 976, 1093, 1140, 1244
Hpy188III TCNNGA 4 cut(s) 311, 367, 647, 1021
Hpy8I GTNNAC 4 cut(s) 163, 707, 991, 1203
Hpy99I CGWCG 1 cut(s) 881
HpyAV CCTTC 3 cut(s) 261, 832, 1004
HpyCH4III ACNGT 1 cut(s) 1294
HpyCH4IV ACGT 4 cut(s) 352, 660, 1026, 1033
HpyCH4V TGCA 6 cut(s) 436, 599, 628, 765, 791, 1012
HpyF10VI GCNNNNNNNGC 4 cut(s) 344, 746, 788, 1058
HpyF3I CTNAG 6 cut(s) 72, 115, 182, 423, 729, 1241
HpySE526I ACGT 4 cut(s) 352, 660, 1026, 1033
Hsp92I GRCGYC 1 cut(s) 1033
HspAI GCGC 1 cut(s) 641
Kzo9I GATC 4 cut(s) 307, 369, 387, 938
LmnI GCTCC 3 cut(s) 427, 580, 873
Lsp1109I GCAGC 1 cut(s) 243
LweI GCATC 2 cut(s) 615, 832
MaeI CTAG 1 cut(s) 932
MaeII ACGT 4 cut(s) 352, 660, 1026, 1033
MaeIII GTNAC 4 cut(s) 50, 586, 1000, 1288
MalI GATC 4 cut(s) 309, 371, 389, 940
MboI GATC 4 cut(s) 307, 369, 387, 938
MboII GAAGA 9 cut(s) 28, 43, 46, 73, 114, 132, 500, 514, 820
MluCI AATT 5 cut(s) 169, 548, 667, 977, 1147
MlyI GAGTC 1 cut(s) 407
MmeI TCCRAC 2 cut(s) 465, 1009
Mph1103I ATGCAT 1 cut(s) 630
MseI TTAA 7 cut(s) 90, 302, 407, 572, 1056, 1115, 1303
MslI CAYNNNNRTG 2 cut(s) 702, 796
MspCI CTTAAG 1 cut(s) 1114
MspI CCGG 6 cut(s) 332, 377, 417, 462, 617, 771
MspR9I CCNGG 6 cut(s) 332, 378, 418, 592, 617, 618
Mva1269I GAATGC 1 cut(s) 1073
MvaI CCWGG 1 cut(s) 592
MwoI GCNNNNNNNGC 4 cut(s) 344, 746, 788, 1058
NciI CCSGG 5 cut(s) 332, 378, 418, 617, 618
NdeII GATC 4 cut(s) 307, 369, 387, 938
NlaIV GGNNCC 1 cut(s) 429
NmeAIII GCCGAG 1 cut(s) 766
NmuCI GTSAC 2 cut(s) 1000, 1288
NsiI ATGCAT 1 cut(s) 630
NspI RCATGY 3 cut(s) 587, 632, 1287
OliI CACNNNNGTG 1 cut(s) 796
PagI TCATGA 1 cut(s) 310
PciI ACATGT 1 cut(s) 1283
PctI GAATGC 1 cut(s) 1073
PfeI GAWTC 5 cut(s) 357, 811, 971, 1094, 1135
PfoI TCCNGGA 1 cut(s) 330
PinAI ACCGGT 1 cut(s) 770
PkrI GCNGC 1 cut(s) 233
PleI GAGTC 1 cut(s) 407
PpsI GAGTC 1 cut(s) 407
Ppu21I YACGTR 1 cut(s) 661
PscI ACATGT 1 cut(s) 1283
PsiI TTATAA 1 cut(s) 276
Psp1406I AACGTT 1 cut(s) 1026
Psp6I CCWGG 1 cut(s) 590
PspGI CCWGG 1 cut(s) 590
PspN4I GGNNCC 1 cut(s) 429
PspPI GGNCC 5 cut(s) 464, 707, 1158, 1180, 1298
PstNI CAGNNNCTG 1 cut(s) 728
RsaI GTAC 2 cut(s) 46, 1263
RsaNI GTAC 2 cut(s) 45, 1262
RseI CAYNNNNRTG 2 cut(s) 702, 796
SaqAI TTAA 7 cut(s) 90, 302, 407, 572, 1056, 1115, 1303
SatI GCNGC 1 cut(s) 232
Sau3AI GATC 4 cut(s) 307, 369, 387, 938
Sau96I GGNCC 5 cut(s) 464, 707, 1158, 1180, 1298
ScaI AGTACT 1 cut(s) 46
SchI GAGTC 1 cut(s) 407
ScrFI CCNGG 6 cut(s) 332, 378, 418, 592, 617, 618
SfaNI GCATC 2 cut(s) 615, 832
SfcI CTRYAG 1 cut(s) 720
SinI GGWCC 5 cut(s) 464, 707, 1158, 1180, 1298
SmaI CCCGGG 1 cut(s) 618
SmiMI CAYNNNNRTG 2 cut(s) 702, 796
SmlI CTYRAG 1 cut(s) 1114
SmoI CTYRAG 1 cut(s) 1114
Sse9I AATT 5 cut(s) 169, 548, 667, 977, 1147
SsiI CCGC 2 cut(s) 22, 960
SspI AATATT 1 cut(s) 692
SspMI CTAG 1 cut(s) 932
StyD4I CCNGG 6 cut(s) 330, 376, 416, 590, 615, 616
TaaI ACNGT 1 cut(s) 1294
TaiI ACGT 4 cut(s) 355, 663, 1029, 1036
TaqI TCGA 2 cut(s) 861, 1122
TaqII GACCGA 1 cut(s) 1197
TasI AATT 5 cut(s) 169, 548, 667, 977, 1147
TatI WGTACW 1 cut(s) 44
TfiI GAWTC 5 cut(s) 357, 811, 971, 1094, 1135
Tru1I TTAA 7 cut(s) 90, 302, 407, 572, 1056, 1115, 1303
Tru9I TTAA 7 cut(s) 90, 302, 407, 572, 1056, 1115, 1303
TscAI CASTG 4 cut(s) 76, 345, 438, 1213
TseFI GTSAC 2 cut(s) 1000, 1288
TseI GCWGC 1 cut(s) 231
Tsp45I GTSAC 2 cut(s) 1000, 1288
TspDTI ATGAA 3 cut(s) 203, 842, 984
TspGWI ACGGA 3 cut(s) 320, 786, 1293
TspMI CCCGGG 1 cut(s) 616
TspRI CASTG 4 cut(s) 76, 345, 438, 1213
Vha464I CTTAAG 1 cut(s) 1114
VpaK11BI GGWCC 5 cut(s) 464, 707, 1158, 1180, 1298
XapI RAATTY 2 cut(s) 667, 1147
XceI RCATGY 3 cut(s) 587, 632, 1287
XmaI CCCGGG 1 cut(s) 616
XspI CTAG 1 cut(s) 932
ZraI GACGTC 1 cut(s) 1034
ZrmI AGTACT 1 cut(s) 46
Zsp2I ATGCAT 1 cut(s) 630
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.