AT5G08780

Domain in histone families 1 and 5

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0000827
Physical Location & Seq
Forward (+)
2856740 .. 2859006
2267 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G08780.1

Sequence Viewer

Length: 1374 bp
ATGGCGGCTTCTGCTACATTAATGTCTATGGCACATGAAAGAAAAGTTGAGAATCTGAGAGGTTTTATGGTGAATTTGGCGAATTCAAGAGACTTTTCCCTTCCTGAGACTAAACTCTTCCAACAGAAATTCTTGGATCTGTGTTTATCCCGTACTCCTGATCATCCCACTTATTCCGCTATGATATTTATTGCTATCATGGATTTGAATAAAGAAGGTGGCGCAAGTGAAGATGCTATATCTGAGTTTATAAAGTCGAAATACAAGAACTTGCCATTTGCTCACACGAATTTGCTTAGTCATCATTTAGCTAAGCTTGTGGAGAAAAGAGAGATACTTTGTGACTGCAACAACGACTGTTACTCTCTCCCGGGTGAGAAGAAGACTGTTGCTTCCACTGATGTTCAGAGAAAGAGCGATCTGATAACAGTGAGAACAAATGATCAGCGTGCGGCGGATGAGGTTATGACTTGCCAAAACAAGGAAGAAAGTGTTGAAATTTTGAAGTCTGGGGATCCTAAGGTTGTTTTGTTGGAAGAACAGAGTTTGACTAAATCCCGAACCGGCTCCAAACGTAAAGCATGTTGTGTCATTAACGTCATTGAAGTAATGGACACAGAAGATAATGGATTCAAAGCAGGTTTAAGGGATTCGACTGTTCAAATTCCTAGGAAAGAGGGAGTTGTTGAAGTAGTAGATGTAGAAAATAGTGAGAATGAAGCTAGGATTGAAGCAAACAGTAGAGGAGGTGAATTATATGAAGTGGCTGTTCTATATAAGCAGAATGATGTGTTGATGGAAGAGTCGGGTAAAGAAGCAATGGAAACAAGCTCAATAGTGAGAAAAGCAAAACTGCGCAGAACATCTAACACAACGAAAGAAAATGTGGAAGTCACGAGTGAAGCATATAAAAAACTTTGGGAGTGCCAAACCGAAGCATGCAGCAATATCATTGCTCTAGAGAAAATGCTAAAACAGTGCAAAGAGAAAGACCAGCAGAACAAAGCTGTTTCAGAAATTGATGATGTTTCTCGTTTGCCTTTATCAATGGAAAGCTGCAGAGAACTGTGGAAGGCTGCCCAAAAGTTACAAAGCCAGCTCTCTGAGATCATCGATTCATGTGATGAAACCGTGGTTCCATATTCTGTATCTCCAGGATGTGAACTCGAAGGTATAAGCAAAGGATTATGCAAAGAGGATCCCAAAATGAAGACTCCTCGTGGGAATAATGGATCTGAAAAACCCTCCACACAGCTTGAACAGAAGGAAAGAGAGAAGTCTTCCAAAAAGAAACCTCAGGTCAAGAAAACGAGAATCAAAAGTCTCAGAGACATAGGAATAACAGCTGTGAGGAAATCGCCTCGATTCAGCTGA
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
Linker_histone

Protein Analysis

457

Amino Acids

51.32

Weight (kDa)

7.42

Isoelectric Point (pI)

44.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Linker_histone PF00538 55 - 112 6.5e-10 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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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 251
Acc16I TGCGCA 1 cut(s) 857
Acc36I ACCTGC 1 cut(s) 629
AciI CCGC 4 cut(s) 5, 177, 452, 455
AclWI GGATC 6 cut(s) 144, 509, 522, 1193, 1206, 1240
AcsI RAATTY 6 cut(s) 73, 82, 128, 289, 498, 663
AfaI GTAC 1 cut(s) 154
AfiI CCNNNNNNNGG 1 cut(s) 481
AjnI CCWGG 1 cut(s) 1153
Alw26I GTCTC 4 cut(s) 84, 101, 1323, 1328
AlwI GGATC 6 cut(s) 144, 509, 522, 1193, 1206, 1240
Ama87I CYCGRG 1 cut(s) 370
ApeKI GCWGC 3 cut(s) 942, 1056, 1076
ApoI RAATTY 6 cut(s) 73, 82, 128, 289, 498, 663
AseI ATTAAT 1 cut(s) 20
AspA2I CCTAGG 1 cut(s) 668
AspLEI GCGC 2 cut(s) 224, 858
AsuC2I CCSGG 2 cut(s) 371, 372
AsuHPI GGTGA 3 cut(s) 82, 386, 761
AvaI CYCGRG 1 cut(s) 370
AvrII CCTAGG 1 cut(s) 668
AxyI CCTNAGG 2 cut(s) 519, 1296
BamHI GGATCC 2 cut(s) 514, 1198
BauI CACGAG 2 cut(s) 895, 1218
BbsI GAAGAC 3 cut(s) 389, 1217, 1272
BbvI GCAGC 3 cut(s) 954, 1043, 1063
BccI CCATC 1 cut(s) 790
BciT130I CCWGG 1 cut(s) 1155
BclI TGATCA 2 cut(s) 160, 442
BcnI CCSGG 2 cut(s) 371, 372
BcoDI GTCTC 4 cut(s) 84, 101, 1323, 1328
BfaI CTAG 3 cut(s) 669, 723, 959
BfmI CTRYAG 1 cut(s) 1057
BfuAI ACCTGC 1 cut(s) 629
BisI GCNGC 5 cut(s) 6, 453, 943, 1057, 1077
BlnI CCTAGG 1 cut(s) 668
BlpI GCTNAGC 1 cut(s) 312
BlsI GCNGC 5 cut(s) 7, 454, 944, 1058, 1078
Bme1390I CCNGG 3 cut(s) 371, 372, 1155
BmeT110I CYCGRG 1 cut(s) 370
BmiI GGNNCC 4 cut(s) 516, 568, 1137, 1200
BmrFI CCNGG 3 cut(s) 371, 372, 1155
BmsI GCATC 1 cut(s) 223
BpiI GAAGAC 3 cut(s) 389, 1217, 1272
BpmI CTGGAG 1 cut(s) 1137
Bpu1102I GCTNAGC 1 cut(s) 312
BpuMI CCSGG 2 cut(s) 371, 372
Bsa29I ATCGAT 1 cut(s) 1113
BsaJI CCNNGG 3 cut(s) 370, 668, 1131
Bsc4I CCNNNNNNNGG 1 cut(s) 481
Bse118I RCCGGY 1 cut(s) 563
Bse21I CCTNAGG 2 cut(s) 519, 1296
Bse3DI GCAATG 2 cut(s) 825, 951
BseBI CCWGG 1 cut(s) 1155
BseCI ATCGAT 1 cut(s) 1113
BseDI CCNNGG 3 cut(s) 370, 668, 1131
BseGI GGATG 3 cut(s) 163, 463, 1163
BseLI CCNNNNNNNGG 1 cut(s) 481
BseMI GCAATG 2 cut(s) 825, 951
BseMII CTCAG 6 cut(s) 47, 96, 234, 1095, 1310, 1339
BseRI GAGGAG 2 cut(s) 759, 1206
BseXI GCAGC 3 cut(s) 954, 1043, 1063
BshVI ATCGAT 1 cut(s) 1113
BsiHKCI CYCGRG 1 cut(s) 370
BsiSI CCGG 2 cut(s) 371, 564
BslI CCNNNNNNNGG 1 cut(s) 481
BsmAI GTCTC 4 cut(s) 84, 101, 1323, 1328
BsoBI CYCGRG 1 cut(s) 370
Bsp143I GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
Bsp1720I GCTNAGC 1 cut(s) 312
BspACI CCGC 4 cut(s) 5, 177, 452, 455
BspCNI CTCAG 6 cut(s) 48, 97, 235, 1096, 1309, 1338
BspDI ATCGAT 1 cut(s) 1113
BspLI GGNNCC 4 cut(s) 516, 568, 1137, 1200
BspMAI CTGCAG 1 cut(s) 1061
BspMI ACCTGC 1 cut(s) 629
BspPI GGATC 6 cut(s) 144, 509, 522, 1193, 1206, 1240
BsrDI GCAATG 2 cut(s) 825, 951
BsrFI RCCGGY 1 cut(s) 563
BssAI RCCGGY 1 cut(s) 563
BssECI CCNNGG 3 cut(s) 370, 668, 1131
BssMI GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
BssSI CACGAG 2 cut(s) 895, 1218
BssT1I CCWWGG 1 cut(s) 668
Bst2BI CACGAG 2 cut(s) 895, 1218
Bst2UI CCWGG 1 cut(s) 1155
Bst4CI ACNGT 8 cut(s) 359, 388, 430, 658, 740, 978, 1068, 1132
Bst6I CTCTTC 2 cut(s) 122, 795
BstC8I GCNNGC 3 cut(s) 450, 940, 1097
BstDEI CTNAG 9 cut(s) 56, 105, 243, 296, 312, 519, 1104, 1296, 1325
BstDSI CCRYGG 1 cut(s) 1131
BstF5I GGATG 3 cut(s) 163, 463, 1163
BstHHI GCGC 2 cut(s) 224, 858
BstKTI GATC 8 cut(s) 139, 163, 421, 445, 517, 1110, 1201, 1235
BstMAI GTCTC 4 cut(s) 84, 101, 1323, 1328
BstMBI GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
BstMWI GCNNNNNNNGC 1 cut(s) 11
BstNI CCWGG 1 cut(s) 1155
BstNSI RCATGY 2 cut(s) 585, 942
BstSCI CCNGG 3 cut(s) 369, 370, 1153
BstSFI CTRYAG 1 cut(s) 1057
BstV1I GCAGC 3 cut(s) 954, 1043, 1063
BstV2I GAAGAC 3 cut(s) 389, 1217, 1272
BstX2I RGATCY 4 cut(s) 136, 514, 1198, 1232
BstYI RGATCY 4 cut(s) 136, 514, 1198, 1232
Bsu15I ATCGAT 1 cut(s) 1113
Bsu36I CCTNAGG 2 cut(s) 519, 1296
BsuTUI ATCGAT 1 cut(s) 1113
BtgI CCRYGG 1 cut(s) 1131
BtsCI GGATG 3 cut(s) 163, 463, 1163
BtsIMutI CAGTG 3 cut(s) 396, 435, 983
BveI ACCTGC 1 cut(s) 629
Cac8I GCNNGC 3 cut(s) 450, 940, 1097
CfoI GCGC 2 cut(s) 224, 858
Cfr10I RCCGGY 1 cut(s) 563
Cfr9I CCCGGG 1 cut(s) 370
ClaI ATCGAT 1 cut(s) 1113
Csp6I GTAC 1 cut(s) 153
CspCI CAANNNNNGTGG 2 cut(s) 1237, 1272
CviAII CATG 5 cut(s) 35, 199, 582, 939, 1119
CviQI GTAC 1 cut(s) 153
DdeI CTNAG 9 cut(s) 56, 105, 243, 296, 312, 519, 1104, 1296, 1325
DpnI GATC 8 cut(s) 138, 162, 420, 444, 516, 1109, 1200, 1234
DpnII GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
Eam1104I CTCTTC 2 cut(s) 122, 795
EarI CTCTTC 2 cut(s) 122, 795
EciI GGCGGA 1 cut(s) 470
Eco130I CCWWGG 1 cut(s) 668
Eco81I CCTNAGG 2 cut(s) 519, 1296
Eco88I CYCGRG 1 cut(s) 370
EcoRI GAATTC 1 cut(s) 82
EcoRII CCWGG 1 cut(s) 1153
EcoT14I CCWWGG 1 cut(s) 668
ErhI CCWWGG 1 cut(s) 668
FaeI CATG 5 cut(s) 38, 202, 585, 942, 1122
FatI CATG 5 cut(s) 34, 198, 581, 938, 1118
FbaI TGATCA 2 cut(s) 160, 442
Fnu4HI GCNGC 5 cut(s) 6, 453, 943, 1057, 1077
FokI GGATG 3 cut(s) 150, 470, 1170
Fsp4HI GCNGC 5 cut(s) 6, 453, 943, 1057, 1077
FspBI CTAG 3 cut(s) 669, 723, 959
FspI TGCGCA 1 cut(s) 857
GlaI GCGC 2 cut(s) 223, 857
GluI GCNGC 5 cut(s) 6, 453, 943, 1057, 1077
GsuI CTGGAG 1 cut(s) 1137
HapII CCGG 2 cut(s) 371, 564
HhaI GCGC 2 cut(s) 224, 858
Hin1II CATG 5 cut(s) 38, 202, 585, 942, 1122
Hin6I GCGC 2 cut(s) 222, 856
HinP1I GCGC 2 cut(s) 222, 856
HindIII AAGCTT 1 cut(s) 314
HinfI GANTC 8 cut(s) 52, 630, 650, 803, 1115, 1213, 1314, 1365
HpaII CCGG 2 cut(s) 371, 564
HphI GGTGA 3 cut(s) 82, 386, 761
Hpy166II GTNNAC 1 cut(s) 1163
Hpy188I TCNGA 8 cut(s) 57, 244, 408, 423, 1015, 1105, 1237, 1328
Hpy188III TCNNGA 7 cut(s) 87, 104, 158, 558, 895, 959, 1303
Hpy8I GTNNAC 1 cut(s) 1163
HpyAV CCTTC 5 cut(s) 110, 209, 1066, 1163, 1258
HpyCH4III ACNGT 8 cut(s) 359, 388, 430, 658, 740, 978, 1068, 1132
HpyCH4IV ACGT 2 cut(s) 574, 597
HpyCH4V TGCA 5 cut(s) 348, 942, 981, 1059, 1191
HpyF10VI GCNNNNNNNGC 1 cut(s) 11
HpyF3I CTNAG 9 cut(s) 56, 105, 243, 296, 312, 519, 1104, 1296, 1325
HpySE526I ACGT 2 cut(s) 574, 597
Hsp92II CATG 5 cut(s) 38, 202, 585, 942, 1122
HspAI GCGC 2 cut(s) 222, 856
Ksp22I TGATCA 2 cut(s) 160, 442
Kzo9I GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
LmnI GCTCC 1 cut(s) 572
Lsp1109I GCAGC 3 cut(s) 954, 1043, 1063
LweI GCATC 1 cut(s) 223
MaeI CTAG 3 cut(s) 669, 723, 959
MaeII ACGT 2 cut(s) 574, 597
MaeIII GTNAC 4 cut(s) 341, 359, 892, 1086
MalI GATC 8 cut(s) 138, 162, 420, 444, 516, 1109, 1200, 1234
MboI GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
MflI RGATCY 4 cut(s) 136, 514, 1198, 1232
MluCI AATT 8 cut(s) 73, 82, 128, 289, 498, 663, 752, 1017
MlyI GAGTC 2 cut(s) 812, 1207
MmeI TCCRAC 2 cut(s) 145, 513
MseI TTAA 3 cut(s) 20, 594, 644
MspA1I CMGCKG 2 cut(s) 1346, 1371
MspI CCGG 2 cut(s) 371, 564
MspR9I CCNGG 3 cut(s) 371, 372, 1155
MvaI CCWGG 1 cut(s) 1155
MwoI GCNNNNNNNGC 1 cut(s) 11
NciI CCSGG 2 cut(s) 371, 372
NdeII GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
NlaIII CATG 5 cut(s) 38, 202, 585, 942, 1122
NlaIV GGNNCC 4 cut(s) 516, 568, 1137, 1200
NmuCI GTSAC 2 cut(s) 341, 892
NsbI TGCGCA 1 cut(s) 857
NspI RCATGY 2 cut(s) 585, 942
PaeI GCATGC 1 cut(s) 942
PfeI GAWTC 6 cut(s) 52, 630, 650, 1115, 1314, 1365
PfoI TCCNGGA 1 cut(s) 1153
PkrI GCNGC 5 cut(s) 7, 454, 944, 1058, 1078
PleI GAGTC 2 cut(s) 811, 1207
PpsI GAGTC 2 cut(s) 811, 1207
PshBI ATTAAT 1 cut(s) 20
PsiI TTATAA 1 cut(s) 251
Psp6I CCWGG 1 cut(s) 1153
PspGI CCWGG 1 cut(s) 1153
PspN4I GGNNCC 4 cut(s) 516, 568, 1137, 1200
PstI CTGCAG 1 cut(s) 1061
PsuI RGATCY 4 cut(s) 136, 514, 1198, 1232
PvuII CAGCTG 2 cut(s) 1346, 1371
RsaI GTAC 1 cut(s) 154
RsaNI GTAC 1 cut(s) 153
SaqAI TTAA 3 cut(s) 20, 594, 644
SatI GCNGC 5 cut(s) 6, 453, 943, 1057, 1077
Sau3AI GATC 8 cut(s) 136, 160, 418, 442, 514, 1107, 1198, 1232
SchI GAGTC 2 cut(s) 812, 1207
ScrFI CCNGG 3 cut(s) 371, 372, 1155
SfaNI GCATC 1 cut(s) 223
SfcI CTRYAG 1 cut(s) 1057
SmaI CCCGGG 1 cut(s) 372
SphI GCATGC 1 cut(s) 942
Sse9I AATT 8 cut(s) 73, 82, 128, 289, 498, 663, 752, 1017
SsiI CCGC 4 cut(s) 5, 177, 452, 455
SspMI CTAG 3 cut(s) 669, 723, 959
StyD4I CCNGG 3 cut(s) 369, 370, 1153
StyI CCWWGG 1 cut(s) 668
TaaI ACNGT 8 cut(s) 359, 388, 430, 658, 740, 978, 1068, 1132
TaiI ACGT 2 cut(s) 577, 600
TaqI TCGA 5 cut(s) 257, 653, 1113, 1167, 1363
TasI AATT 8 cut(s) 73, 82, 128, 289, 498, 663, 752, 1017
TauI GCSGC 2 cut(s) 8, 455
TfiI GAWTC 6 cut(s) 52, 630, 650, 1115, 1314, 1365
Tru1I TTAA 3 cut(s) 20, 594, 644
Tru9I TTAA 3 cut(s) 20, 594, 644
TscAI CASTG 3 cut(s) 403, 435, 983
TseFI GTSAC 2 cut(s) 341, 892
TseI GCWGC 3 cut(s) 942, 1056, 1076
Tsp45I GTSAC 2 cut(s) 341, 892
TspDTI ATGAA 6 cut(s) 51, 732, 774, 1107, 1140, 1223
TspMI CCCGGG 1 cut(s) 370
TspRI CASTG 3 cut(s) 403, 435, 983
VspI ATTAAT 1 cut(s) 20
XapI RAATTY 6 cut(s) 73, 82, 128, 289, 498, 663
XbaI TCTAGA 1 cut(s) 958
XceI RCATGY 2 cut(s) 585, 942
XmaI CCCGGG 1 cut(s) 370
XmaJI CCTAGG 1 cut(s) 668
XspI CTAG 3 cut(s) 669, 723, 959
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.